ALBERT

Description: Diversity, Vol. 10, Pages 73: Weevils as Targets for Biological Control, and the Importance of Taxonomy and Phylogeny for Efficacy and Biosafety Diversity doi: 10.3390/d10030073 Authors: Barbara I. P. Barratt Matthew J. W. Cock Rolf G. Oberprieler Curculionidae are a large mainly herbivorous family of beetles, some of which have become crop pests. Classical biological control has been attempted for about 38 species in 19 genera, and at least moderate success has been achieved in 31 % of cases. Only two weevil species have been considered to be completely controlled by a biological control agent. Success depends upon accurately matching natural enemies with their hosts, and hence taxonomy and phylogeny play a critical role. These factors are discussed and illustrated with two case studies: the introduction of the braconid parasitoid Mictroctonus aethiopoides into New Zealand for biological control of the lucerne pest Sitona discoideus, a case of complex phylogenetic relationships that challenged the prediction of potential non-target hosts, and the use of a mymarid egg parasitoid, Anaphes nitens, to control species of the eucalypt weevil genus Gonipterus, which involves failure to match up parasitoids with the right target amongst a complex of very closely related species. We discuss the increasing importance of molecular methods to support biological control programmes and the essential role of these emerging technologies for improving our understanding of this very large and complex family.

Description: Diversity, Vol. 10, Pages 74: The Problematic Genus Sclerocardius (Coleoptera: Curculionidae: Molytinae: Ithyporini) Diversity doi: 10.3390/d10030074 Authors: Christopher H. C. Lyal The genus Sclerocardius is revised, using morphological characters. Four species are recognized, including S. africanus (Boheman), S. bohemani Schoenherr stat.rev., S. indicus Hartmann and S. kuscheli sp.nov. The species Sclerocardius madecassus Ferragu is synonymized with S. bohemani syn.nov., and Charactocnemus hintzi Hartmann is treated as a junior synonym of S. bohemani, not S. africanus. A key to species is given. Lectotypes are designated for Heteramphus africanus Boheman and Sclerocardius africanus Schoenherr. A female elytro-tergal stridulatory system involving the modification of the wing-binding patch of the seventh tergite is reported for the Sclerocardiina for the first time and supports the inclusion of the subtribe within the Ithyporini.

Description: Diversity, Vol. 10, Pages 75: Kuschelysius, a New Alpine Genus of Eugnomine Weevil (Coleoptera: Curculionidae: Curculioninae) from New Zealand Diversity doi: 10.3390/d10030075 Authors: Samuel D. J. Brown Richard A. B. Leschen Kuschelysiusnew genus is described for four species, K. hollowayaenew species, K. durusnew species, K. verbalisnew species and K. nitensnew species, which are found in alpine regions along the length of the South Island of New Zealand. The genus most closely resembles members of the genus Eugnomus but is distinguished from them by the presence of a small pair of post-ocular tubercles and by having appressed scales on the dorsal surfaces. Some members of Kuschelysius appear to be flight-capable with well-developed hindwings, while others have reduced hindwings and are presumably flightless. Many specimens have been collected from the flowers of Dracophyllum traversii, Celmisia and other alpine plants, and the guts of examined specimens contained pollen. We hypothesise that the species of Kuschelysius are pollinators of the New Zealand alpine flora.

Description: Diversity, Vol. 10, Pages 77: Review of the Hygrophilous Weevils in Israel (Coleoptera: Curculionoidea) Diversity doi: 10.3390/d10030077 Authors: Ariel-Leib-Leonid Friedman Forty-one species in 20 genera of hygrophilous weevils belonging to Brentidae and Curculionidae, associated with inland aquatic habitats, have been recorded recently from Israel, eight of them for the first time. Thirty-four species are extant, while five species have probably become extinct recently, and two are fossil species, known from Late Cretaceous deposits. Sixteen species are either aquatic or semi-aquatic, while the rest occur only or predominantly on riparian vegetation. Distributional and biological data for most of the species are provided. A key to all hygrophilous weevil taxa and illustrations for most of the species are provided.

Description: Diversity, Vol. 10, Pages 79: Effect of Climatic Conditions and Land Cover on Genetic Structure and Diversity of Eunica tatila (Lepidoptera) in the Yucatan Peninsula, Mexico Diversity doi: 10.3390/d10030079 Authors: Laura Elena Cavanzón-Medrano Salima Machkour-M’Rabet Landy Rubí Chablé-Iuit Carmen Pozo Yann Hénaut Luc Legal Fragmentation is the third cause of the biodiversity declination. Population genetic studies using Lepidoptera as the model species in the context of loss of habitat are scarce, particularly for tropical areas. We chose a widespread butterfly from Mexico as the model species to explore how changes of habitat characteristics (undisturbed forest, anthropogenic disturbances, and coastal areas), and climatic conditions affect genetic diversity and population structure. The Nymphalidae Eunica tatila is a common species in the Yucatan Peninsula considered to be a bio-indicator of undisturbed tropical forest, with migratory potential and a possible sex-biased dispersal. We genotyped 323 individuals collected in eight undisturbed areas, using four Inter Simple Sequence Repeats primers. Results show a high genetic diversity and no population structure. Temperature and shrub density present a positive and significant relationship with polymorphism values. Furthermore, our results show the positive effect of surrounding forest habitat on genetic diversity, confirming that E. tatila is a bio-indicator of undisturbed tropical forest. We found evidence of sex-biased dispersal. This paper represents one of the few studies on population genetics of tropical butterfly in a fragmented landscape and is, therefore, an important step in understanding the impact of habitat fragmentation on the risk of a butterflies’ decline.

Description: Diversity, Vol. 10, Pages 84: A Review of Philenis Champion, 1906 (Coleoptera: Curculionidae: Conoderinae), with Descriptions of New Species from Central and South America Diversity doi: 10.3390/d10030084 Authors: Henry Hespenheide A brief review of the history of the taxonomic treatment of the genus Philenis Champion is presented and characters are discussed. Philenisflavipes Champion and P.fuscofemorata Champion, and 11 new species are described, including the first records from South America: P.anzaldoinewspecies (Costa Rica, Panamá), P.costaricensisnew species (Costa Rica), P.laselvaensisnew species (Costa Rica), P.auritibiaenew species (Costa Rica), P.brunneanew species (Costa Rica, Panamá), P.muscamimeticanewspecies (Panamá), P.chiriquiensisnew species (Panamá), P.guyanensisnew species (French Guiana), P.ferrugineanew species (Ecuador), P.howdeninew species (Ecuador), and P.kuschelinewspecies (Colombia, Ecuador). A key is provided to separate the species, and an unusual type of “multifurcate” scale is reported for some species. Two species have been associated with plants of the family Araceae. Most collections of this genus by the Arthropods of La Selva (ALAS) biodiversity project in Costa Rica were made by passive trapping methods during the dry season and at lower to middle elevations along an altitudinal transect on the slopes of Volcan Barva. The coloration of some species in the genus is hypothesized to mimic social Hymenoptera or flies.

Description: Diversity, Vol. 10, Pages 46: Microbial Diversity: The Gap between the Estimated and the Known Diversity doi: 10.3390/d10020046 Authors: Luciana Cristina Vitorino Layara Alexandre Bessa The ecological and biotechnological services that microorganisms provide to the planet and human society highlight the need to understand and preserve microbial diversity, which is widely distributed, challenging the severity of certain environments. Cataloging this diversity has also challenged the methods that are currently used to isolate and grow microorganisms, because most of the microbiota that are present in environmental samples have been described as unculturable. Factors such as geographic isolation and host preference also hinder the assessment of microbial diversity. However, prejudiced historical practices, including the prioritization of some species of microorganisms merely because they cause diseases, have long shifted research on fungi and bacteria towards medically relevant microorganisms. Thus, most microorganisms that inhabit the planet are still unknown, as is the potential of these species. Current estimates allow us to predict that the diversity of microorganisms that are present in the various terrestrial ecosystems is enormous. However, understanding this diversity is a challenge for the future of microbial ecology research.

Description: Diversity, Vol. 10, Pages 49: Distributional Patterns and Ecological Determinants of Bat Occurrence Inside Caves: A Broad Scale Meta-Analysis Diversity doi: 10.3390/d10030049 Authors: Hernani Fernandes Magalhães de Oliveira Monik Oprea Raphael Igor Dias Caves are important bat roosts worldwide that are used as shelters, maternity roosts, and to help in thermoregulation. Bat abundances, species richness, and association patterns inside caves can be affected by large-scale environmental variation. However, few studies have analyzed the effect of latitudinal and altitudinal variations on these patterns. Here, we conducted a large literature review about cave occupation by bats in Brazil. We investigated the effects of elevation and latitude on bat richness and abundance, the effect of Brazilian biomes on bats’ abundance and richness, the dependence between feeding guilds and biomes, and the effects of the number of studies conducted and the number of caves per region on bat species richness. A total of 72 studies with 9666 bats from 72 species were registered in 247 caves. We found that species richness increases toward the equator and reaches its limit at low and intermediate altitudes. Reported richness was influenced by the number of studies conducted in each region. Both latitude and elevation explained the variation in abundance and were significantly affected by biome type. The latitudinal and elevational gradient for species’ richness and abundance may be explained by the creation of stable thermal conditions in roosts at high elevations and low latitudes.

Description: Diversity, Vol. 10, Pages 51: Quantitative Trait Analysis of the Kelp Undaria pinnatifida Cultivated in Goheung, Republic of Korea Diversity doi: 10.3390/d10030051 Authors: Sung-Je Choi Young-Sung Yun Jong-Ahm Shin The kelp, Undaria pinnatifida, is a popular traditional food in the Republic of Korea. Here, we examine the quantitative traits in three cultivars of this kelp, namely ‘Kamaishi’, ‘Kijang’, and ‘Myeongecheon’. These cultivars are adapted for growth in the Goheung area, Jeollanamdo, Republic of Korea. Growth parameters are assessed monthly at the Myeongcheon and Gyedo aquafarms between January and May 2003. Five environmental conditions and two traits are analyzed in terms of growth patterns, relationships among traits, genotype (cultivar) × environment (aquafarm) interactions, and the principal components of these interactions. Descriptive (scatter plots) and inferential (correlation and regression) analyses reveal that the genotype × environment interaction is quantitative. Principal component analysis (PCA) reveals that the first principal component explains around 83% and 77% of total sample variance in the Myeongcheon and Gyedo aquafarms, respectively. When economically valuable traits are considered, cultivar growth rates are highest at the Gyedo aquafarm and the performance of ‘Kamaishi’ is superior to the other cultivars.

Description: Diversity, Vol. 10, Pages 52: Marine Invertebrates: Underexplored Sources of Bacteria Producing Biologically Active Molecules Diversity doi: 10.3390/d10030052 Authors: Carmen Rizzo Angelina Lo Giudice The marine bioprospecting could be considered as a new phenomenon, and already potentially more promising than terrestrial one in terms of possible discovery of new compounds. The secondary metabolites produced by associated-bacteria are actually studied for their remarkable role in several fields, including agricultural, industrial, medical, and bioremediation strategies against different contaminants. The use of such renewable sources could be helpful in the streamlining of the patenting process for natural compounds of good quality, produced with lower energy costs and less impact on the environment. Anyway, more improvements in the research and application of bioactive compounds as alternative to the synthetic counterparts have to be carried out for the costs reduction and the large-scale production upgrading. The use of marine invertebrates could help to overcome these difficulties, as hotspots of microbial diversity and favorable matrix for the development of conditions stimulating the production of substances with special activities. This review will deal with the current accepted definitions and recent advances concerning: (i) the marine symbiotic relationships in which microorganisms and invertebrates are involved; (ii) the principal taxa of marine invertebrates that establish interactions with microorganisms, the biodiversity of these latter, and their role in the symbiosis; (iii) we address the state of current literature and knowledge about the bacterial associated communities specialized in biosurfactants (BSs) and extracellular polymeric substances (EPSs) production; and, (iv) their potential biotechnological applications reported still now.

Description: Diversity, Vol. 10, Pages 80: Bacteria Associated with Marine Benthic Invertebrates from Polar Environments: Unexplored Frontiers for Biodiscovery? Diversity doi: 10.3390/d10030080 Authors: Angelina Lo Giudice Carmen Rizzo The ecological function of bacteria-invertebrate interactions in Polar areas remains poorly understood, despite increasing evidence that microbial metabolites may play pivotal roles in host-associated chemical defense and in shaping the symbiotic community structure. The metabolic and physiological changes that these organisms undergo in response to adapting to extreme conditions result in the production of structurally and functionally novel biologically active molecules. Deepening our knowledge on the interactions between bacteria and their invertebrate host would be highly helpful in providing the rationale for why (e.g., competition or cooperative purpose) and which (whether secondary metabolites, enzymes, or proteins) bioactive compounds are produced. To date, cold-adapted bacteria associated with marine invertebrates from the Arctic and Antarctica have not been given the attention they deserve and the versatility of their natural products remains virtually unexplored, even if they could represent a new attractive frontier in the search for novel natural compounds. This review is aimed at showcasing the diversity of cold-adapted bacteria associated with benthic invertebrates from Polar marine areas, highlighting the yet unexplored treasure they represent for biodiscovery.

Description: Diversity, Vol. 10, Pages 82: Anchonini in Africa: New Species and Genus Confirming a Transatlantic Distribution (Coleoptera: Curculionidae: Molytinae) Diversity doi: 10.3390/d10030082 Authors: Joana P. Cristóvão Christopher H. C. Lyal The Anchonini known from Africa are reviewed. The monotypic genus Aethiopacorep is redescribed. The new West African genus Titilayo gen. nov. is described, with seven new species: four from São Tomé, T. perrinae sp. nov., T. saotomense sp. nov., T. barclayi sp. nov., and T. turneri sp. nov.; two from Ivory Coast, T. geiseri sp. nov. and T. garnerae sp. nov.; and one from Sierra Leone, T. takanoi sp. nov. Neither of these genera is known outside West Africa. A neotype is designated for Anchonus africanus Hustache 1932. A key to the two African genera, Aethiopacorep and Titilayo, as well as their corresponding species, is provided. This work provides the first records of Anchonini for mainland Africa; this group is still understudied in the region but shows signs of being very diverse on both the mainland and in the western African islands.

Description: Diversity, Vol. 10, Pages 96: Assessment of Structural and Functional Diversity of Mollusc Assemblages within Vermetid Bioconstructions Diversity doi: 10.3390/d10030096 Authors: Luigia Donnarumma Roberto Sandulli Luca Appolloni José Luis Sánchez-Lizaso Giovanni Fulvio Russo Dendropoma lebeche is a prosobranch gastropod belonging to the family Vermetidae, which calcifies its shell on hard substrates in dense aggregates, forming biogenic constructions along the western Mediterranean intertidal habitat. It is an important ecosystem engineer and, due to its ecological value, is protected by international convention. The aim of this study is to investigate the mollusc composition and diversity occurring within Spanish vermetid bioconstructions. During the late summer 2013, three distant sites along the Mediterranean coast of Spain were sampled by scraping off the vermetid shells to study their associated assemblages. A total of 600 molluscs were identified within the classes of Polyplacophora (four species), Gastropoda (35 spp.) and Bivalvia (18 spp.). Multivariate analyses revealed significant differences in composition and trophic diversity of mollusc assemblages among the three sites, highlighting a clear geographical gradient. Overall, both herbivores (grazers and deposit feeders) and omnivores were the quantitatively dominant trophic groups, while carnivores (predators and ectoparasites) were very scarce. Our results point out that mollusc assemblages associated with vermetid bioconstructions are rich and diversified, both in populations structure and trophic diversity, confirming the important role of vermetid gastropods as ecosystem engineers and biodiversity enhancers in shallow coastal waters.

Description: Diversity, Vol. 10, Pages 99: Beyond Capricornia: Tropical Sea Slugs (Gastropoda, Heterobranchia) Extend Their Distributions into the Tasman Sea Diversity doi: 10.3390/d10030099 Authors: Matt J. Nimbs Stephen D. A. Smith There is increasing evidence of poleward migration of a broad range of taxa under the influence of a warming ocean. However, patchy research effort, the lack of pre-existing baseline data, and taxonomic uncertainty for some taxa means that unambiguous interpretation of observations is often difficult. Here, we propose that heterobranch sea slugs provide a useful target group for monitoring shifts in distribution. As many sea slugs are highly colourful, popular with underwater photographers and rock-pool ramblers, and found in accessible habitats, they provide an ideal target for citizen scientist programs, such as the Sea Slug Census. This maximises our ability to rapidly gain usable diversity and distributional data. Here, we review records of recent range extensions by tropical species into the subtropical and temperate waters of eastern Australia and document, for the first time in Australian waters, observations of three tropical species of sea slug as well as range extensions for a further six to various locations in the Tasman Sea.

Description: Diversity, Vol. 10, Pages 98: cpDNA Barcoding by Combined End-Point and Real-Time PCR Analyses to Identify and Quantify the Main Contaminants of Oregano (Origanum vulgare L.) in Commercial Batches Diversity doi: 10.3390/d10030098 Authors: Alessandro Vannozzi Margherita Lucchin Gianni Barcaccia Oregano (Origanum vulgare L.) is a flowering plant that belongs to the mint family (Lamiaceae). It is used as a culinary herb and is often commercialized as a fine powder or a mixture of small fragments of dried leaves, which makes morphological recognition difficult. Like other commercial preparations of drugs and spices, the contamination of oregano mixtures with vegetable matter of lower quality, or the use of generic misleading names, are frequent and stress the need to develop a molecular traceability system to easily, quickly, and cheaply unveil these scams. The DNA-based analytical approach known as cpDNA barcoding is particularly suited for fraud identification in crop plant species (fresh products and food derivatives), and it represents a promising traceability tool as an alternative or complement to traditional detection methods. In the present study, we used a combined approach based on both qualitative and quantitative cpDNA barcoding with end-point and real-time polymerase chain reaction (PCR) analyses to assess the type and degree of contamination in commercial batches of common oregano. In a preliminary qualitative screening, we amplified, cloned, and sequenced a number of universal trnH-psbA- and trnL-barcoded regions, to identify the main contaminants in the samples under investigation. On the basis of these findings, we then developed and validated a species-specific and sequence-targeted method of testing for the quantitative assessment of contaminants, using trnL gene intron assays. Surprisingly, the results obtained in our case study indicated an almost total absence of O. vulgare in the commercial batches analyzed, but a high presence of group I contaminants (Satureja pilosa Velen.), and a moderate presence of group II contaminants (Cistus lanidifer L./Cistus albidus).

Description: Diversity, Vol. 10, Pages 100: Divergence, Convergence and Phenotypic Diversity of Neotropical Frugivorous Bats Diversity doi: 10.3390/d10030100 Authors: Oscar E. Murillo-García Maria E. De la vega Knowing how adaptation shapes morphological evolution is fundamental to understanding the processes that promote biological diversity. However, there is a lack of empirical evidence on the effects of adaptive radiations on phenotypic diversity, which is related to processes that promote phenotypic divergence and convergence. We applied comparative methods to identify shifts in adaptive peaks and to detect divergence and convergence in skull morphology of frugivorous bats (Phyllostomidae: Stenodermatinae and Carollinae), an ecologically diverse group with strong association between skull morphology, feeding performance and diet that suggests adaptive diversification through morphological innovation. We found divergence and convergence for skull morphology. Fifteen peak shifts were found for jaws, which result in four convergent and four divergent regimes. For skull, nine peak shifts were detected that result in three convergent and three divergent regimes. Furthermore, convergence was significant and strong for skull morphology since distantly related organisms converged to the same adaptive optima. Results suggest that convergence indicates the effect of restriction on phenotypes to keep the advantages provided by the skull phenotype that played a central role in the evolution of strict frugivory in phyllostomids. We conclude that convergence has limited phenotypic diversity of functional traits related to feeding in phyllostomid frugivores.

Description: Diversity, Vol. 10, Pages 103: Sonar Surveys for Bat Species Richness and Activity in the Southern Kalahari Desert, Kgalagadi Transfrontier Park, South Africa Diversity doi: 10.3390/d10030103 Authors: Rick A. Adams Gary Kwiecinski Kgalagadi Transfrontier Park is located in northwestern South Africa and extends northeastward into Botswana. The park lies largely within the southern Kalahari Desert ecosystem where the Auob and Nassob rivers reach their confluence. Although these rivers run only about once every 100 years, or shortly after large thunderstorms, underground flows and seeps provide consistent surface water for the parks sparse vegetation and diverse wildlife. No formal studies on bats have previously occurred at Kgalagadi. We used SM2 + BAT ultrasonic detectors to survey 10 sites along the Auob and Nassob rivers from 5–16 April 2016. The units recorded 3960 call sequences that were analyzed using Kaleidoscope software for South African bats as well as visual determinations based on call structure attributes (low frequency, characteristic frequency, call duration, and bandwidth). We identified 12 species from four families: Rhinolophidae: Rhinolophus fumigatus. Molossidae: Chaerephon pumilus, and Sauromys petrophilus, Tadarida aegyptiaca; Miniopteridae: Miniopteris schreibersi (natalensis), Vespertilionidae: Laephotis botswanae, Myotis tricolor, Neoromicia capensis, N. nana, Pipistrellus hesperidus, Scotophilus dinganii, and S. viridus. The most abundant species during the survey period was N. capensis. We also used paired-site design to test for greater bat activity at water sources compared to dry sites, with dry sites being significantly more active. We conclude that species richness is much higher than previously known from this region and that more species may be present during the warmer months of the year. In addition, activity of bats during the dry season in Kgalagadi would likely be more concentrated around drinking opportunities, thus allowing for better detection of species richness in the area.

Description: Diversity, Vol. 10, Pages 86: Validation of the Names of Four Weevil Species Described by Caldara & Košťál, Description of Four New Species of the Afrotropical Weevil Genus Afroryzophilus (Coleoptera, Curculionidae); Diversity 2018, 10, 37 Diversity doi: 10.3390/d10030086 Authors: Roberto Caldara Michael Košťál Four new species of the erirhinine genus Afroryzophilus Lyal, 1990 from Africa are described, A. centrafricanus sp. n., A. congoanus sp. n., A. kuscheli sp. n. and A. somalicus sp. n., with bibliographic reference to fuller descriptions and illustrations in the recent paper by Caldara & Košťál (2018) published in the journal Diversity 10 (2), 37, in which the names were not made available under the rules of the International Code of Zoological Nomenclature dealing with electronic publication.

Description: Diversity, Vol. 10, Pages 85: High Duty Cycle Echolocation May Constrain the Evolution of Diversity within Horseshoe Bats (Family: Rhinolophidae) Diversity doi: 10.3390/d10030085 Authors: David S. Jacobs Anna Bastian The phenotype of organisms is the net result of various evolutionary forces acting upon their lineages over time. When an innovative trait arises that confers a substantial advantage in terms of survival and reproduction, the evolution of adaptive complexes between such an innovation and other traits may constrain diversification of that lineage. The specialized echolocation system of the Rhinolophidae may represent such an innovation which affects other parts of the phenotype. We investigated a potential constraint on the diversity of phenotypes of several species of horseshoe bats within a phylogenetic framework. If phenotypic convergence stems from stasis as a result of the specialized echolocation system, phenotypes should converge not only among members of the same species and between sexes but also among species. We analyzed the phenotypic diversity of >800 individuals of 13–16 species. The phenotypes in the horseshoe bats did indeed converge. There was no sexual size dimorphism in mass, forearm length and wingspan within species and there was marked interspecific similarity in both wing and echolocation variables but marked variability in body mass. Furthermore, correlations of wing and echolocation variables with mass suggest that variability within horseshoe bats was largely the result of selection on body size with allometric responses in wing and echolocation parameters, a potential consequence of constraints imposed by their specialized echolocation.

Description: Diversity, Vol. 10, Pages 94: Water Availability Coincides with Population Declines for an Endangered Butterfly Diversity doi: 10.3390/d10030094 Authors: Heather L. Cayton Nick M. Haddad As global climate change causes population declines across numerous taxa, it becomes critical to understand the specific pathway by which climatic and anthropogenic factors influence population size. Water availability is a key environmental condition that links climate and humans to species response, especially for rare or threatened butterflies that are highly sensitive to changes in climate and the surrounding landscape. We use the wetland-dependent endangered St. Francis’ satyr butterfly (Neonympha mitchellii francisci) to test how changes in water availability affect population size via changes in host plant growth. We show that long-term declines in water availability are directly linked to a decline in host plant growth and contributed to a population decrease of 95% for St. Francis’ satyrs in the past decade, threatening the persistence of the species. Recent restoration work, which includes efforts to increase water availability via hardwood removal, has been successful in increasing population numbers. Many butterflies are broadly dependent on water availability and flow, and only by understanding the specific pathway that directly links water availability to species response can we make effective conservation plans to prepare for the altered water conditions of the future.

Description: Diversity, Vol. 10, Pages 97: Changes in Species Composition of Birds and Declining Number of Breeding Territories over 40 Years in a Nature Conservation Area in Southwest Germany Diversity doi: 10.3390/d10030097 Authors: Fabian Etienne Schrauth Michael Wink Global loss of biodiversity is occurring at an alarming rate and is a major issue in current times. Long-term studies offer the possibility to analyse changes in biodiversity and allow assessments of anthropogenic interventions in ecosystems. At present, various studies in most countries show partially strong declines of insect populations. Due to their role as a food source for many organisms it is assumed that declines of insect abundance might have effects on higher trophic levels like insectivorous birds. For reliable statements on relationships between food availability and population trends, systematic and extensive records of breeding birds are necessary. In this study, we analysed the changes in the range of species, biodiversity, and abundance of a breeding bird community over 43 years in a large nature conservation area in southwest Germany (“Lampertheimer Altrhein” near Mannheim). Since 1974, considerable changes in the spectrum of breeding birds have been found, but the overall biodiversity index did not change. Furthermore, 70% of the investigated species showed decreasing numbers of breeding bird territories, and the overall number of territories across species declined by more than 65%. A classification based on the main diet during the breeding period and habitat use revealed strong declines for insectivorous birds in the study area, especially in wetland and open cultivated landscapes.

Description: Diversity, Vol. 10, Pages 102: Roost of Gray Flying Foxes (Pteropus griseus) in Indonesia and Records of a New Hunting Threat Diversity doi: 10.3390/d10030102 Authors: Sheherazade Susan M. Tsang Pteropus griseus (gray flying fox) is a species of Old World fruit bat that is listed by the International Union for Conservation of Nature (IUCN) as Data Deficient. The species is found on small islands in the Lesser Sundas and Sulawesi, and is endemic to Indonesia, but no contemporary roosts are known, and the last study of the species was in Timor in the Lesser Sundas. In this study, we describe the first known day roost in Sulawesi for Pteropus griseus and collected anecdotal evidence regarding conservation threats to the colony. We compared data from flying foxes collected from this roost to other P. griseus specimens and those of closely related co-occurring species to confirm its identity. We confirmed that this roost is likely of Pteropus griseus, though the subspecies identity remains to be determined. However, it is newly threatened by middlemen traders of bat meat from North Sulawesi arriving to encourage local villagers near the roost to hunt the bats. Elevated levels of hunting may deplete the entire colony in a single season should no conservation action be taken to safeguard the roost.

Description: Diversity, Vol. 10, Pages 26: Cumulative Human Impacts on Coral Reefs: Assessing Risk and Management Implications for Brazilian Coral Reefs Diversity doi: 10.3390/d10020026 Authors: Rafael A. Magris Alana Grech Robert L. Pressey Effective management of coral reefs requires strategies tailored to cope with cumulative disturbances from human activities. In Brazil, where coral reefs are a priority for conservation, intensifying threats from local and global stressors are of paramount concern to management agencies. Using a cumulative impact assessment approach, our goal was to inform management actions for coral reefs in Brazil by assessing their exposure to multiple stressors (fishing, land-based activities, coastal development, mining, aquaculture, shipping, and global warming). We calculated an index of the risk to cumulative impacts: (i) assuming uniform sensitivity of coral reefs to stressors; and (ii) using impact weights to reflect varying tolerance levels of coral reefs to each stressor. We also predicted the index in both the presence and absence of global warming. We found that 16% and 37% of coral reefs had high to very high risk of cumulative impacts, without and with information on sensitivity respectively, and 42% of reefs had low risk to cumulative impacts from both local and global stressors. Our outputs are the first comprehensive spatial dataset of cumulative impact on coral reefs in Brazil, and show that areas requiring attention mostly corresponded to those closer to population centres. We demonstrate how the relationships between risks from local and global stressors can be used to derive strategic management actions.

Description: Diversity, Vol. 10, Pages 28: Review of Cape Verde Aphanommata Wollaston, 1873 (Coleoptera: Curculionidae: Cossoninae) with Description of New Species, Larva and Notes on Biology and Distributional Patterns Diversity doi: 10.3390/d10020028 Authors: Jiří Skuhrovec Peter Hlaváč Jan Batelka The genus Aphanommata in the Old World is reviewed. Aphanommata kuscheli sp. nov. from São Nicolau and A. strakai sp. nov. from Fogo (both Cape Verde islands) are described. Aphanommata euphorbiarum (Wollaston, 1867) from Santo Antão in the Cape Verde islands is redescribed and its lectotype is designated. All three Aphanommata species from the Cape Verde islands as well as A. filum (Mulsant and Rey, 1859) from Old World are diagnosed, illustrated, and keyed. Mature larva of A. kuscheli sp. nov. is described, larval morphology is discussed and the current state of knowledge about immature stages of Cossoninae is summarized. Vertical and inter-insular distributional pattern of Cape Verde Aphanommata and Pselactus is reviewed and discussed.

Description: Diversity, Vol. 10, Pages 33: Unveiling the History of a Peculiar Weevil-Plant Interaction in South America: A Phylogeographic Approach to Hydnorobius hydnorae (Belidae) Associated with Prosopanche americana (Aristolochiaceae) Diversity doi: 10.3390/d10020033 Authors: Sequeira Rocamundi Ferrer Baranzelli Marvaldi Interspecific interactions take place over both long and short time-frames. However, it is not completely understood if the interacting-partners persisted, migrated, or expanded in concert with Quaternary climate and landscape changes. We aim to understand whether there is concordance between the specialist weevil Hydnorobius hydnorae and its parasitic host plant, Prosopanche americana in space and time. We aim to determine whether Prosopanche had already established its range, and Hydnorobius later actively colonized this rare resource; or, if both host plant and herbivore expanded their range concomitantly. We performed population genetic, phylogeographic and Bayesian diffusion analysis of Cytochrome B sequences from 18 weevil localities and used paleodistribution models to infer host plant dispersal patterns. We found strong but uneven population structure across the range for H. hydnorae with weak signals of population growth, and haplotype network structure and SAMOVA groupings closely following biogeographic region boundaries. The ancestral areas for both Hydnorobius and Prosopanche are reconstructed in San Luis province within the Chaco Biogeographic province. Our results indicate a long trajectory of host-tracking through space and time, where the weevil has expanded its geographic range following its host plant, without significant demographic growth. We explore the past environmental changes that could underlie the boundaries between locality groups. We suggest that geographic dispersal without population growth in Hydnorobius could be enabled by the scarcity of the host plant itself, allowing for slow expansion rates and stable populations, with no need for significant demographic growth pulses to support range expansion.

Description: Diversity, Vol. 10, Pages 35: Correlated Effects of Ocean Acidification and Warming on Behavioral and Metabolic Traits of a Large Pelagic Fish Diversity doi: 10.3390/d10020035 Authors: Taryn D. Laubenstein Jodie L. Rummer Simon Nicol Darren M. Parsons Stephen M. J. Pether Stephen Pope Neville Smith Philip L. Munday Ocean acidification and warming are co-occurring stressors, yet their effects on early life stages of large pelagic fishes are not well known. Here, we determined the effects of elevated CO2 and temperature at levels projected for the end of the century on activity levels, boldness, and metabolic traits (i.e., oxygen uptake rates) in larval kingfish (Seriola lalandi), a large pelagic fish with a circumglobal distribution. We also examined correlations between these behavioral and physiological traits measured under different treatments. Kingfish were reared from the egg stage to 25 days post-hatch in a full factorial design of ambient and elevated CO2 (~500 µatm and ~1000 µatm) and temperature (21 °C and 25 °C). Activity levels were higher in fish from the elevated temperature treatment compared with fish reared under ambient temperature. However, elevated CO2 did not affect activity, and boldness was not affected by either elevated CO2 or temperature. Both elevated CO2 and temperature resulted in increased resting oxygen uptake rates compared to fish reared under ambient conditions, but neither affected maximum oxygen uptake rates nor aerobic scope. Resting oxygen uptake rates and boldness were negatively correlated under ambient temperature, but positively correlated under elevated temperature. Maximum oxygen uptake rates and boldness were also negatively correlated under ambient temperature. These findings suggest that elevated temperature has a greater impact on behavioral and physiological traits of larval kingfish than elevated CO2. However, elevated CO2 exposure did increase resting oxygen uptake rates and interact with temperature in complex ways. Our results provide novel behavioral and physiological data on the responses of the larval stage of a large pelagic fish to ocean acidification and warming conditions, demonstrate correlations between these traits, and suggest that these correlations could influence the direction and pace of adaptation to global climate change.

Description: Diversity, Vol. 10, Pages 43: Diversity and Conservation of Cave-Dwelling Bats in the Brunca Region of Costa Rica Diversity doi: 10.3390/d10020043 Authors: Stanimira Deleva Gloriana Chaverri The Brunca region in Costa Rica contains the largest number of caves in the country, yet the diversity and distribution of bat species within those caves is currently unknown. Without this information, it is not possible to assess changes in populations and assemblages that may indicate severe damages to these critical roosting habitats, and to take evidence-based conservation actions. We present the first study to describe the diversity of cave-dwelling bat species in the Brunca region of Costa Rica in a large number of caves. We collected data of bat species diversity by direct observation and capturing bats inside roosts. Bats were observed in 38 of the 44 surveyed caves, representing 20 species from 4 families, with colony sizes ranging from a few individuals to >7500. In addition, we collected information about the human activities carried out in and around the roosts to assess potential threats that these sites face. Data indicate that caves suffer mostly from unregulated tourist visitation and that one of the most visited caves is also the one with the most species-rich bat assemblages. Our study determined the most important and vulnerable bat roosts in the region and shows the need for urgent conservation actions to protect them.

Description: Diversity, Vol. 10, Pages 44: Resource Availability May Not Be a Useful Predictor of Migratory Bat Fatalities or Activity at Wind Turbines Diversity doi: 10.3390/d10020044 Authors: Victoria J. Bennett Amanda M. Hale A better understanding of the ultimate mechanisms driving bat fatalities at wind turbines (i.e., the reason why bats are coming in close proximity to wind turbines) could inform more effective impact reduction strategies. One hypothesis is that bats come into close proximity to turbines due to existing resources (e.g., roosting sites) in the immediate area. Thus, if resource hotspots for bats could be identified in areas proposed for wind energy development, then fatalities could be reduced by siting turbines away from such hotspots. To explore this, we conducted a resource mapping exercise at a 48 km2 wind energy facility in north-central Texas. We mapped known resources (such as water sources, roosting sites, foraging sites, and commuting routes) for the 6 bat species present and compared resource availability with observed fatalities and acoustic activity. Although resource mapping identified concentrations of known resources for all species, it did not predict bat activity or fatalities. For example, Lasiurus cinereus and Lasiurus borealis comprised >90% of the fatalities, yet we found no positive relationship between resource availability and fatalities or acoustic activity for either species. Furthermore, up to 33% of these fatalities occurred at turbines without known resources within 200 m of the turbines, demonstrating that the fine-scale distribution of resources may not effectively inform turbine siting for these two migratory species. The challenge, therefore, remains to determine why bats during the migratory season are coming in close proximity with wind turbines.

Description: Diversity, Vol. 10, Pages 57: Correction: Wilson, N.G., et al. Tropical Range Extension for the Temperate, Endemic South-Eastern Australian Nudibranch Goniobranchus splendidus (Angas, 1864). Diversity 2016, 8, 16 Diversity doi: 10.3390/d10030057 Authors: Nerida Wilson Anne Winters Karen Cheney The authors wish to make the following corrections to this paper [...]

Description: Diversity, Vol. 10, Pages 56: Assessing the Use of Artificial Hibernacula by the Great Crested Newt (Triturus cristatus) and Smooth Newt (Lissotriton vulgaris) in Cold Climate in Southeast Norway Diversity doi: 10.3390/d10030056 Authors: Børre K. Dervo Jon Museth Jostein Skurdal Construction of artificial overwintering habitats, hibernacula, or newt hotels, is an important mitigation measure for newt populations in urban and agricultural areas. We have monitored the use of four artificial hotels built in September 2011 close to a 6000 m2 breeding pond in Norway. The four hotels ranged from 1.6 to 12.4 m3 and were located from 5 to 40 m from the breeding pond. In 2013–2015, 57 Great Crested Newts (Triturus cristatus) and 413 Smooth Newts (Lissotriton vulgaris) spent the winter in the hotels. The proportions of juveniles were 75% and 62%, respectively, and the hotels may be important to secure recruitment. Knowledge on emigration routes and habitat quality for summer use and winter hibernation is important to find good locations for newt hotels. The study documented that newts may survive a minimum temperature of −6.7 °C. We recommend that newt hotels in areas with harsh climate are dug into the ground in slopes to reduce low-temperature exposure during winter.

Description: Diversity, Vol. 10, Pages 58: Distribution of Plant Species and Dispersal Traits along Environmental Gradients in Central Mediterranean Summits Diversity doi: 10.3390/d10030058 Authors: Michele Di Musciano Maria Laura Carranza Ludovico Frate Valter Di Cecco Luciano Di Martino Anna Rita Frattaroli Angela Stanisci High-mountain ecosystems are spots of plant diversity in which species composition and traits depict a long evolutionary history of species adaptation to steep environmental gradients. We investigated the main trends in plant species composition and reproductive and dispersal traits (pollen vector, diaspore appendages, dispersal of diaspores and fruit type) in central Mediterranean summits in relation to environmental factors (altitude, aspect, debris cover and slope). Based on 114 plots, with floristic and environmental data collected in the year 2016 on alpine calcareous grasslands in the central Apennines, we explored how species composition varies in relation to environmental factors using CCA (canonical correspondence analysis). Then, we analyzed the relationships among species presence, the occurrence of reproductive and dispersal traits and environmental variables. We used for this analysis the fourth-corner model approach. Our results highlight a consistent response of floristic composition and of structural and ecological characteristics to environmental gradients, with elevation and debris cover being the most important ones. The environmental characteristics of the analyzed ecosystems (e.g., steep slopes and harsh environments) combined with the persistence of perennial plant species already present in each stand, the high precision of pollination and the prevalence of short-distance dissemination strategies should allow the calcareous endemic plant communities of the analyzed Mediterranean summits to be conserved at least for a mid-term period slowing down the expansion of the warm-adapted species, less adapted to the local environmental constrains.

Description: Diversity, Vol. 10, Pages 61: Challenges of Participatory Community Monitoring of Biodiversity in Protected Areas in Brazilian Amazon Diversity doi: 10.3390/d10030061 Authors: Daniel C. Costa Henrique S. Pereira Guillaume A. E. L. Marchand Suzy C. P. Silva Participatory community monitoring programs (PCM) have become an important methodological innovation for the management of biodiversity conservation in protected areas. Based on the participation of the local communities, they are presented as less costly programs than conventional ones. However, in practical terms, such programs pose serious implementation challenges. In this article, we identify the achievements, obstacles, and perspectives of four PCM implemented in the state of Amazonas, Brazil. Based on bibliographical and documentary research, direct observations and in-person interviews with program managers and specialists, we qualitatively evaluated these programs with respect to participation, data production and retrieval, and financing. We found that the performances of these programs were not yet adequate to their protected areas management priorities and that they had not yet generated perceptible benefits enough to enhance community trust and full appropriation of the programs’ outcomes by resource users and by conservation unit management teams.

Description: Diversity, Vol. 10, Pages 65: The Evolution and Population Diversity of Bison in Pleistocene and Holocene Eurasia: Sex Matters Diversity doi: 10.3390/d10030065 Authors: Thierry Grange Jean-Philip Brugal Laurence Flori Mathieu Gautier Antigone Uzunidis Eva-Maria Geigl Knowledge about the origin and evolutionary history of the bison has been improved recently owing to several genomic and paleogenomic studies published in the last two years, which elucidated large parts of the evolution of bison populations during the Upper Pleistocene and Holocene in Eurasia. The produced data, however, were interpreted in contradicting manners. Here, we have gathered, reanalyzed and compared previously published or unpublished morphometric and genetic data that have not yet been integrated and that we synthesize in a unified framework. In particular, we re-estimate dates of divergence of mitogenome lineages based on an extended dataset comprising 81 complete ancient bison mitogenomes and we revisit putative gene flow between the Bos and Bison genera based on comparative analyses of ancient and modern bison genomes, thereby questioning published conclusions. Morphometric analyses taking into account sexual dimorphism invalidate a previous claim that Bison schoetensacki was present in France during the Late Pleistocene. Both morphometric and genome analyses reveal that Eurasian bison belonging to different Bison priscus and Bison bonasus lineages maintained parallel evolutionary paths with gene flow during a long period of incomplete speciation that ceased only upon the migration of B. priscus to the American continent establishing the American bison lineage. Our nuclear genome analysis of the evolutionary history of B. bonasus allows us to reject the previous hypothesis that it is a hybrid of B. priscus and Bos primigenius. Based on present-day behavioral studies of European and American bison, we propose that apparently conflicting lines of evidence can be reconciled by positing that female bison drove the specialization of bison populations to different ecological niches while male bison drove regular homogenizing genetic exchanges between populations.

Description: Diversity, Vol. 10, Pages 66: Phylogeny of the Genus Dichotrachelus (Coleoptera: Curculionidae: Cyclominae) Diversity doi: 10.3390/d10030066 Authors: Massimo Meregalli Christoph Germann Marco V. Bernasconi Piero Cervella A phylogenetic analysis of the genus Dichotrachelus (Curculionidae: Cyclominae) was carried out, based on a morphological matrix and, for some species, on mitochondrial cytochrome oxidase I sequences. Bayesian Inference, Maximum Likelihood and Maximum Parsimony were implemented and the results were compared. The genus is found to be isolated in the subfamily, not related to the only other Palaearctic tribe (Hipporhinini) and possibly nearer to the south-American genera of Cyclominae of the tribe Listroderini. Among these, Macrostyphlus is also equally associated to mosses as the host plant. In Dichotrachelus, two main clades were recognized, one distributed in the western part of the Mediterranean region (Iberian Peninsula, northern Africa and southern France) and the second distributed in the Alps and Apennines. Within each clade, some differentiated monophyletic subgroups could be identified. An evaluation of the most important characters that led to the phylogenetic reconstruction indicated the male genital sclerite as the most useful structure to characterize the different clades.

Description: Diversity, Vol. 10, Pages 64: Morphological and Molecular Perspectives on the Phylogeny, Evolution, and Classification of Weevils (Coleoptera: Curculionoidea): Proceedings from the 2016 International Weevil Meeting Diversity doi: 10.3390/d10030064 Authors: Duane McKenna Dave Clarke Robert Anderson Jonas Astrin Samuel Brown Lourdes Chamorro Steven Davis Bruno de Medeiros M. del Rio Julien Haran Guillermo Kuschel Nico Franz Bjarte Jordal Analia Lanteri Richard Leschen Harald Letsch Chris Lyal Adriana Marvaldi Jose Mermudes Rolf Oberprieler André Schütte Andrea Sequeira Seunggwan Shin Matthew Van Dam Guanyang Zhang The 2016 International Weevil Meeting was held immediately after the International Congress of Entomology (ICE). It built on the topics and content of the 2016 ICE weevil symposium Phylogeny and Evolution of Weevils (Coleoptera: Curculionoidea): A Symposium in Honor of Dr. Guillermo "Willy” Kuschel. Beyond catalyzing research and collaboration, the meeting was intended to serve as a forum for identifying priorities and goals for those who study weevils. The meeting consisted of 46 invited and contributed lectures, discussion sessions and introductory remarks presented by 23 speakers along with eight contributed research posters. These were organized into three convened sessions, each lasting one day: (1) weevil morphology; (2) weevil fossils, biogeography and host/habitat associations; and (3) molecular phylogenetics and classification of weevils. Some of the topics covered included the 1K Weevils Project, major morphological character systems of adult and larval weevils, weevil morphological terminology, prospects for future morphological character discovery, phylogenetic analysis of morphological character data, the current status of weevil molecular phylogenetics and evolution, resources available for phylogenetic and comparative genomic studies of weevils, the weevil fossil record, weevil biogeography and evolution, weevil host plants, evolutionary development of the weevil rostrum, resources available for weevil identification and the current status of and challenges in weevil classification.

Description: Diversity, Vol. 10, Pages 69: You Better Repeat It: Complex CO2 × Temperature Effects in Atlantic Silverside Offspring Revealed by Serial Experimentation Diversity doi: 10.3390/d10030069 Authors: Christopher S. Murray Hannes Baumann Concurrent ocean warming and acidification demand experimental approaches that assess biological sensitivities to combined effects of these potential stressors. Here, we summarize five CO2 × temperature experiments on wild Atlantic silverside, Menidia menidia, offspring that were reared under factorial combinations of CO2 (nominal: 400, 2200, 4000, and 6000 µatm) and temperature (17, 20, 24, and 28 °C) to quantify the temperature-dependence of CO2 effects in early life growth and survival. Across experiments and temperature treatments, we found few significant CO2 effects on response traits. Survival effects were limited to a single experiment, where elevated CO2 exposure reduced embryo survival at 17 and 24 °C. Hatch length displayed CO2 × temperature interactions due largely to reduced hatch size at 24 °C in one experiment but increased length at 28 °C in another. We found no overall influence of CO2 on larval growth or survival to 9, 10, 15 and 13–22 days post-hatch, at 28, 24, 20, and 17 °C, respectively. Importantly, exposure to cooler (17 °C) and warmer (28 °C) than optimal rearing temperatures (24 °C) in this species did not appear to increase CO2 sensitivity. Repeated experimentation documented substantial inter- and intra-experiment variability, highlighting the need for experimental replication to more robustly constrain inherently variable responses. Taken together, these results demonstrate that the early life stages of this ecologically important forage fish appear largely tolerate to even extreme levels of CO2 across a broad thermal regime.

Description: Diversity, Vol. 10, Pages 72: The Relative Effects of Local and Landscape Characteristics of Hedgerows on Bats Diversity doi: 10.3390/d10030072 Authors: Aurélie Lacoeuilhe Nathalie Machon Jean-François Julien Christian Kerbiriou The role of hedgerows in maintaining biodiversity in areas of intensive agriculture is well known, particularly for bats. However, few studies have addressed the importance of the intrinsic characteristics of hedgerows for bats and disentangled the relative effects of local and landscape characteristics of hedgerows on bat activity. In an acoustic survey, we assessed bat activity by recording bat calls using detectors and manually verified all calls using spectrogram analysis. The parameters used to determine local hedgerow structures were the length of the line of trees, of shrub hedgerows, of wooded hedgerows without shrubs and of hedgerows including the three strata (tree, shrub and herb) at a local scale. We assessed the influence of hedgerow structure and on bat activity with an approach considering both species and community, comparing two different scales, the local and the landscape. We highlighted the importance of hedgerow characteristics for bats on both the local and landscape scales even though responses differ between species and spatial scales. We found that the presence of trees in hedgerows exerts a generally positive influence on bat activity and that hedgerows with the three strata had lower bat activity than hedgerows with trees. In our study, some bats seemed to prefer agricultural landscapes dominated by wooded hedgerows and, on the local scale, hedgerows that include trees with little diversified among strata, except for gleaning species. Our study shows that in terms of hedgerow management, conservation efforts must be designed and undertaken on both the local and landscape scales.

Description: Diversity, Vol. 10, Pages 71: A Review of the Tribe Cryptoplini (Coleoptera: Curculioninae), with Revision of the Genus Menechirus Hartmann, 1901 and Description of a New Genus Associated with Macadamia Diversity doi: 10.3390/d10030071 Authors: Debbie Jennings Rolf G. Oberprieler This paper presents the results of a study that was largely initiated to describe a genus and species of weevil damaging macadamia fruits in plantations in New South Wales and Queensland, Australia. This taxon is described as Kuschelorhynchus macadamiae gen. et sp. n., the genus named in honour of the late Guillermo (Willy) Kuschel (1918–2017). The related genus Menechirus Hartmann is also revised, resulting in the description of three new species, M. howdenae sp. n., M. parryi sp. n. and M. mundus sp. n. The other genera of the small Australian weevil tribe Cryptoplini, Cryptoplus Erichson, Haplonyx Schoenherr, Sigastus Pascoe and Zeopus Pascoe, are diagnosed and their host associations summarised, and a revised diagnosis of the tribe Cryptoplini is presented, together with a key to its six genera. The extraordinary aedeagus of Cryptoplini, featuring a tectal plate as is characteristic of more primitive weevils, is discussed and illustrated.

Description: Diversity, Vol. 10, Pages 45: Does Thinning Homogenous and Dense Regrowth Benefit Bats? Radio-Tracking, Ultrasonic Detection and Trapping Diversity doi: 10.3390/d10020045 Authors: Bradley Law Leroy Gonsalves Traecey Brassil David Hill Renewal ecology promotes the creation and enhancement of landscapes that support biodiversity and ecosystem services for humans. Silvicultural thinning of forest regrowth to reduce tree competition represents a form of active management that may also benefit biodiversity, especially where secondary regrowth dominates. However, ecological responses to thinning can be complex, particularly for insectivorous bats whose ecomorphology is often related to vegetation structure. Furthermore, thinning may affect multiple aspects of bat ecology (i.e., roosting and foraging). We assessed this in dense white cypress regrowth in the Pilliga forests of New South Wales, Australia, where recent experimental thinning created thinned stands (4 × 12 ha) surrounded by unthinned regrowth. We contrasted flight activity and roost selection of three narrow-space species with differing conservation statuses (Nyctophilus corbeni, N. gouldi and N. geoffroyi), plus one edge-space species (Vespadelus vulturnus). Radio-tracking over two maternity seasons revealed a preference by all species for roosting in dead trees that were slightly larger than the mean for available dead trees in the vicinity. Although all tagged bats were caught in thinned patches, only 6% of roosts were located there. In contrast, ultrasonic detectors recorded significantly greater activity for V. vulturnus (p = 0.05) in thinned than unthinned patches and no treatment difference for Nyctophilus spp. Systematic trapping using acoustic lures found a higher trap rate for N. gouldi in unthinned than thinned treatments, but no treatment effect for N. corbeni, N. geoffroyi and V. vulturnus. Our results reveal differential use of forest treatments by multiple species, emphasising the value of heterogeneous landscapes supporting thinned and unthinned patches of dense regrowth.

Description: Diversity, Vol. 10, Pages 50: DNA Barcoding Highlights Cryptic Diversity in the New Zealand Psylloidea (Hemiptera: Sternorrhyncha) Diversity doi: 10.3390/d10030050 Authors: Francesco Martoni Simon Bulman Andrew Pitman Gary Taylor Karen Armstrong The insect superfamily Psylloidea (Hemiptera) includes economically important biocontrol agents, pests and plant pathogen vectors, for which a rapid and accurate identification is fundamental for international biosecurity. Australasia is a hot spot for psyllid diversity, but previous species assessments in the region were largely based on morphology and host plant association. Morphological identification of psyllids remains challenging for a wide number of species and for juvenile insects, while a robust molecular framework for identification is not available. Consequently, knowledge of psyllid biology is compromised. Here, incorporating morphological evidence and host plant associations, insects collected from almost 600 primarily New Zealand locations were linked to 67 previously described species. By applying species delimitation methods including GYMC (General Mixed Yule–Coalescent method), PTP (Poisson Tree Processes), mPTP (multi–rate Poisson Tree Processes) and ABGD (Automatic Barcode Gap Discovery) to a dataset composed of 425 cytochrome oxidase I (COI) DNA barcode sequences, further cryptic diversity was revealed among the psyllid collection; more than 20 undescribed taxa are reported here for the first time, resulting in a total of 90 taxa across 21 genera and six families included in this study. Our improved understanding of psyllid diversity in New Zealand revealed new plant host-psyllid associations and geographical variation. The DNA barcode resource will enable future studies of psyllid ecology and more accurate, rapid identifications of psyllids that pose biosecurity threats to Australasia.

Description: Diversity, Vol. 10, Pages 24: Influence of a Large Lake on the Winter Range of a Small Mammal: Lake Michigan and the Silver-Haired Bat (Lasionycteris noctivagans) Diversity doi: 10.3390/d10020024 Authors: Allen Kurta Giorgia G. Auteri Joyce E. Hofmann Jean M. Mengelkoch J. Paul White John O. Whitaker Thomas Cooley Julie Melotti We examine factors affecting the winter range limit of a migrating mammal, the silver-haired bat (Lasionycteris noctivagans), in states surrounding Lake Michigan, the fourth largest freshwater lake in the world. Using 555 citizen-based captures gathered between 1977 and 2016, we show that silver-haired bats overwinter (December–February) as far north as the 45th parallel, in areas roughly demarcated by the −12.2 °C (10 °F) mean daily minimum isotherm for January. Although summering populations adjacent to the lake are dominated by males, wintering animals are predominantly female and presumably migrants from north of Lake Superior. Logistic regression suggests that silver-haired bats are more likely to overwinter in warm areas, in counties near the lake, in urbanized locales, and on the west side of the lake. We believe that these small-bodied, solitary bats are hibernating in buildings and that use of human-made structures has allowed the silver-haired bat to overwinter in regions that are devoid of mines, caves and rock crevices and that are too cold for successful hibernation in trees. Lake Michigan impacts where this animal overwinters, presumably through the moderating influence of the lake on multiple aspects of the surrounding climate and because the shoreline likely is a major migratory pathway.

Description: Diversity, Vol. 10, Pages 32: Anthropogenic Impacts on Coral Reef Harpacticoid Copepods Diversity doi: 10.3390/d10020032 Authors: Marina Siqueira Barroso Brenno J. da Silva Manuel J. Flores Montes Paulo J. P. Santos The number of studies demonstrating the susceptibility of benthic reef communities to anthropogenic impacts is growing. However, for some of the components of reef fauna, such as meiobenthic harpacticoid copepods, information is still lacking. Here, different diversity and taxonomic distinctness indexes and multivariate analyses were used to test whether the assemblage of harpacticoid copepods colonizing Artificial Substrate Units (ASUs) is an appropriate tool for the identification of reefs subjected to different levels of anthropogenic pressure. Furthermore, we also evaluate if diffused, persistent, anthropogenic impacts generate the homogenization and simplification of Harpacticoida assemblages. Six reefs were organized into two groups along the coast, depending on their proximity to very large urban centers. ASUs were used for meiofauna colonization and, for each reef, 320 Harpacticoida individuals were separated for identification at the species level. Abiotic parameters were analyzed, and significant differences were found between the two groups of reefs, with an increase in dissolved inorganic nutrients found in areas near large urban centers. Both the multivariate analyses and the indexes of diversity showed a clear separation between the reefs closer to the urban zones and those further away, as a response to the anthropogenic pressure. As hypothesized, in the impacted reef areas, there was a strong simplification and homogenization of the harpacticoid copepod assemblages. However, the results of the indexes, based on taxonomic distinctness, suggest that there was no phylogenetic signal of anthropogenic impact on coral reef harpacticoid copepods.

Description: Diversity, Vol. 10, Pages 36: Ants in Australia’s Monsoonal Tropics: CO1 Barcoding Reveals Extensive Unrecognised Diversity Diversity doi: 10.3390/d10020036 Authors: Stefanie Oberprieler Alan Andersen Craig Moritz The Australian monsoonal tropics (AMT) is a significant biodiversity hotspot, and recent genetic studies of several vertebrate groups have revealed its level of diversity is far higher than previously thought. However, the extent to which this applies to the AMT’s insect fauna, which represents most AMT faunal species, remains unknown. Here we examine the extent of unrecognised diversity in the AMT’s ecologically dominant insect group, ants. We used CO1 barcoding in combination with morphological variation and geographic distribution to explore diversity within seven taxa currently recognised as single species occurring throughout the AMT: one species of Papyrius Shattuck 1992, one of Iridomyrmex Mayr 1862, two from the Cardiocondyla nuda (Mayr 1866) group, and three from the Camponotus novaehollandiae (Mayr 1870) group. We found six of the seven target species each to represent several species, based on a combination of CO1 divergence (ranging up to 13%), morphological differentiation and geographic distribution. Our findings indicate that the levels of diversity and endemism of the AMT ant fauna are far higher than currently realised. We urge the need for further research in insect biodiversity in the AMT, both for a better understanding of the evolution of its remarkable biota, and as a basis for improved conservation planning.

Description: Diversity, Vol. 10, Pages 37: Description of Four New Species of the Afrotropical Weevil Genus Afroryzophilus (Coleoptera, Curculionidae) Diversity doi: 10.3390/d10020037 Authors: Roberto Caldara Michael Košťál Four new species belonging to the Afrotropical weevil genus Afroryzophilus Lyal, 1990 (Coleoptera, Curculionidae, Brachycerinae, Tanysphyrini) are described: A. centrafricanus n. sp. (Central African Republic), A. congoanus n. sp. (Democratic Republic of the Congo), A. kuscheli n. sp. (Senegal), and A. somalicus n. sp. (Somalia). Previously, this genus was monotypic, based only on A. djibai Lyal, 1990 from Senegal. The five species of this genus are very similar to each other in external morphology, varying only in the width of the forehead and that of the third tarsomere, the length of the fifth tarsomere and the pattern of dorsal seta-like scales. However, the male genitalia show clear interspecific differences.

Description: Diversity, Vol. 10, Pages 19: Special Issue: Plant Genetics and Biotechnology in Biodiversity Diversity doi: 10.3390/d10020019 Authors: Giandomenico Corrado Rosa Rao The rapid progress and increasing affordability of novel investigation tools in plant genetics and biotechnology offer previously inaccessible opportunities for the exploitation of plant genetic diversity in agriculture. The Special Issue was lunched to highlight how new technologies are improving both genotyping and phenotyping methods, thus allowing us to uncover crop diversity and use genetic variability for plant breeding with remarkable precision and speed. Three thematic reviews report on scientific, technological, and legal advances in plant diversity and agriculture. Three contributions provide specific examples of the exploitation of different kinds of genetic resources, ranging from landraces to mutant populations. Six research articles are illustrative examples of the study of molecular and/or phenotypic diversity to address basic or applied questions in different plant species. Finally, this SI was also launched to honor the memory of Prof. Gian Tommaso Scarascia Mugnozza and a dedicated Editorial acknowledges his work in plant breeding and biodiversity protection.

Description: Diversity, Vol. 10, Pages 25: Genetic, Bio-Agronomic, and Nutritional Characterization of Kale (Brassica Oleracea L. var. Acephala) Diversity in Apulia, Southern Italy Diversity doi: 10.3390/d10020025 Authors: Concetta Lotti Paolo Iovieno Isabella Centomani Angelo R. Marcotrigiano Valentina Fanelli Giancarlo Mimiola Carmine Summo Stefano Pavan Luigi Ricciardi Kale (Brassica oleracea L. var. acephala) is a widely appreciated vegetable with a century-old history of cultivation in Italy. The present study was addressed to the collection and characterization of kale germplasm traditionally cultivated in Apulia, Southern Italy, nowadays at risk of genetic erosion. In total, nineteen Apulian kale accessions were acquired. Genotyping by means of simple sequence repeat (SSR) DNA markers led to the identification of highly informative primer combinations and highlighted significant patterns of molecular variation among accessions. Consistently, significant differences were observed with respect to morpho-agronomic traits, including yield and harvesting time, and the content of bioactive compounds, namely total phenols, flavonoids, and anthocyanins, associated with antioxidant activity. Overall, this study led to the establishment of an ex situ collection of great importance to preserve endangered Apulian kale germplasm and to provide seed access to potential growers. Meanwhile, it offers a first characterization of Apulian kale, useful to promote its consumption and valorisation through breeding programmes.

Description: Diversity, Vol. 10, Pages 31: Patterns of Long-Term Population Trends of Three Lupine-Feeding Butterflies in Wisconsin Diversity doi: 10.3390/d10020031 Authors: Ann B. Swengel Scott R. Swengel We monitored consecutive generations of three lupine-feeding specialist butterflies in pine-oak barrens in central Wisconsin, USA: Frosted Elfin (Callophrys irus), Karner Blue (Lycaeides melissa samuelis), and Persius Duskywing (Erynnis persius) during 1991–2014. We also monitored the summer generation of Karner Blues in northwestern Wisconsin. We present results on 24 sites for Frosted Elfin and Persius Duskywing, and 39 sites for Karner Blue. Land uses in sites occupied by the federally endangered Karner Blue are regulated. Economically utilized lands classified as “Shifting Mosaic” (SM) (forestry land) or “Permanency of Habitat” (PH) (rights-of-way) are afforded a lower standard of conservation results than the more favorable management expected of Reserves (R). For all three species, reserve sites had more favorable trends than permanency of habitat and shifting mosaic sites. Frosted Elfin and Persius Duskywing had more strongly negative trends in permanency of habitat than shifting mosaic, but vice versa for Karner Blue. Shifting mosaic sites added more recently to the study had negative trends, but not as strongly as longer-monitored shifting mosaic sites. Another large shifting mosaic complex (Hunter Haven), monitored in 17 years during 1995–2014 for Frosted Elfin and Persius Duskywing, had non-negative trends. Individual reserve sites also had more favorable trends than collectively for all reserve sites, including significant positive trends for Persius Duskywing and Karner Blue, and a stable trend for Frosted Elfin. Thus, land use is implicated not only for declines but also for effective conservation of these species.

Description: Diversity, Vol. 10, Pages 34: On the Phylogenetic Position of the Weevil Tribe Acentrusini Alonso-Zarazaga, 2005 (Coleoptera: Curculionidae: Curculioninae) Diversity doi: 10.3390/d10020034 Authors: Michael Košťál Peter Vďačný Based on intrinsic morphological and extrinsic bionomic characters, the systematic position of the weevil tribe Acentrusini Alonso-Zarazaga, 2005 (Coleoptera: Curculionidae: Curculioninae) was determined. Maximum parsimony and Bayesian inference as well as nonmetric multi-dimensional scaling were used to analyze 34 morphological characters of adults, complemented by four host plant characters associated with particular weevil tribes. Sixteen species belonging to two subfamilies (Brachycerinae, Curculionidae) and seven tribes (Acentrusini, Anthonomini, Ellescini, Erirhinini, Smicronychini, Storeini, Styphlini) of the family Curculionidae and one outgroup species (Attelabidae) were studied. Phylogenetic and multi-dimensional analyses revealed the tribe Smicronychini as most closely related to Acentrusini. Of the tribes of Curculioninae studied, Styphlini, Anthonomini and Ellescini showed a certain degree of phylogenetic relation to Acentrusini, whereas Storeini were found to be least related.

Description: Diversity, Vol. 10, Pages 38: Molecular and Morphological Phylogenetic Analyses of New World Cycad Beetles: What They Reveal about Cycad Evolution in the New World Diversity doi: 10.3390/d10020038 Authors: William Tang Guang Xu Charles W. O’Brien Michael Calonje Nico M. Franz M. Andrew Johnston Alberto Taylor Andrew P. Vovides Miguel Angel Pérez-Farrera Silvia H. Salas-Morales Julio C. Lazcano-Lara Paul Skelley Cristina Lopez-Gallego Anders Lindström Stephen Rich Two major lineages of beetles inhabit cycad cones in the New World: weevils (Curculionoidea) in the subtribe Allocorynina, including the genera Notorhopalotria Tang and O’Brien, Parallocorynus Voss, Protocorynus O’Brien and Tang and Rhopalotria Chevrolat, and beetles in the family Erotylidae, including the genus Pharaxonotha Reitter. Analysis of the 16S ribosomal RNA (rRNA) mitochondrial gene as well as cladistic analysis of morphological characters of the weevils indicate four major radiations, with a probable origin on the cycad genus Dioon Lindl. and comparatively recent host shifts onto Zamia L. Analysis of the 16S rRNA gene for erotylid beetles indicates that an undescribed genus restricted to New World Ceratozamia Brongn. is the most early-diverging clade, and this lineage is sister to a large radiation of the genus Pharaxonotha onto Zamia, with apparent host shifts onto Dioon and Ceratozamia. Analysis of beetles are in accord with current models of continental drift in the Caribbean basin, support some proposed species groupings of cycads, but not others, and suggest that pollinator type may impact population genetic structure in their host cycads.

Description: Diversity, Vol. 10, Pages 40: Invasive Bark Beetles (Coleoptera, Curculionidae, Scolytinae) in Chile and Argentina, Including Two Species New for South America, and the Correct Identity of the Orthotomicus Species in Chile and Argentina Diversity doi: 10.3390/d10020040 Authors: Lawrence R. Kirkendall The rate of establishment of non-native bark beetle species is accelerating in many parts of the world and is considered a serious threat to forests and forest crops. Distributional data for exotic bark beetles are urgently needed, but they must be based on sound taxonomy. Using primary literature and original records, I review for the first time the invasive bark beetle (Scolytinae) species in Chile and Argentina, and I give a short risk assessment for each. I also provide the best sources for identifying these species. The invasive pine bark beetle commonly referred to in Chilean research as Orthotomicus erosus (Wollaston) is not that species: evidence suggests that the only Orthotomicus that is or has been in Chile is O. laricis (Fabricius), which is also the Orthotomicus species reported in the most recent research from Argentina. I add new information on the distributions of two other abundant pine-breeding invasive species, Hylurgus ligniperda (F.) and Hylastes ater (Paykull), and I report that populations of Hylastes linearis Erichson have been found in Chile. This is the first known occurrence of the species in South America. Phloeotribus willei Schedl, a tiny bark beetle collected from domestic fig trees in Chile and Peru, has been considered native heretofore. I argue that it must be an introduced Neotropical species, and I present new localities for Chile. I present the first Chilean records of the Myrtaceae specialist ambrosia beetle Amasa truncata (Erichson), an Australian species recently found in southern Brazil and northeastern Uruguay, and new Argentinian records that seem to be the earliest finds of Xylosandrus crassiusculus (Motschulsky) in South America. The Canary Island palm seed specialist Dactylotrypes longicollis (Wollaston) is reported for the first time from South America, from Chile. The presence in Chile of another spermatophage, Coccotrypes dactyliperda (F.), is confirmed. New Chilean regions and new host records are given for Pagiocerus frontalis (F.), a species that breeds in Lauraceae seeds but also in stored maize. Other exotic species treated briefly include Hylastinus obscurus (Marsham), Hylesinus taranio (Danthione), Scolytus multistriatus (Marsham), S. rugulosus (Müller), Coccotrypes cyperi (Beeson), and Xyleborinus saxeseni (Ratzeburg). Finally, reports of several species from Chile or Argentina are considered unsupported by evidence: Scolytus kirschii Skalitzky, Pityokteines curvidens (Germar), Coccotrypes robustus Eichhoff, and Hypothenemus hampei (Ferrari).La velocidad de establecimiento de especies de coleópteros descortezadores no nativos se está acelerando en muchas partes del mundo y se considera una amenaza seria a bosques y cultivos forestales. Se requiere datos distribucionales urgentemente, pero estos tienen que basarse en taxonomía sólida. Utilizando literatura primaria y registros originales, reviso por primera vez la fauna invasora de especies de descortezadores (Scolytinae) en Chile y Argentina, y ofrezco una evaluación breve del riesgo de cada una. También proporciono los mejores referencias para identificar estas especies. La especie descortezador invasora de pinos comunmente citado en investigaciones chilenas como Orthotomicus erosus (Wollaston) no es esa: la evidencia sugiere que la única especie de Orthotomicus actualmente o históricamente presente en Chile es O. laricis (Fabricius), la cual es la especie de Orthotomicus reportado en las investigaciones mas recientes de Argentina. Agrego información nueva sobre las distribuciones de otros dos especies abundantes invasoras que se reproducen en pinos, Hylurgus ligniperda (F.) y Hylastes ater (Paykull) y comunico que poblaciones de Hylastes linearis Erichson se han encontrado en Chile, siendo esta el primer hallazgo de la especie en Sudamérica. Phloeotribus willei Schedl, una especie minúscula colectado de higueras cultivadas en Chile y Peru, se ha considerado nativa hasta ahora: presento argumentos que debe de ser una especie neotropical introducida y presento nuevas localidades para Chile. Presento los primeros registros chilenos de Amasa truncata (Erichson) coleóptero ambrosial, especialista en Myrtaceae, especie australiana recientemente encontrada en el sur de Brasil y nordeste de Uruguay, y nuevos registros argentinos que parecen ser los primeros hallazgos de Xylosandrus crassiusculus (Motschulsky) en Sudamérica. Se registra la especialista en semillas de palma, Dactylotrypes longicollis (Wollaston), originario de las Islas Canárias pro primera vez de Sudamérica; se confirma la presencia en Chile de otra espermatófago, Coccotrypes dactyliperda (F.). Se presentan nuevos registros regionales de Chile y de hospederas por Pagiocerus frontalis (F.), especie que se reproduce en semillas de Lauraceae pero también en maíz almacenado. Otras especies exóticas tratadas brevemente incluyen Hylastinus obscurus (Marsham), Hylesinus taranio (Danthione), Scolytus multistriatus (Marsham), S. rugulosus (Müller), Coccotrypes cyperi (Beeson), y Xyleborinus saxeseni (Ratzeburg). Finalmente, registros de varias especies de Chile o de Argentina se consideran sin apoyo de evidencia: Scolytus kirschii Skalitzky, Pityokteines curvidens (Germar), Coccotrypes robustus Eichhoff, y Hypothenemus hampei (Ferrari).

Description: Diversity, Vol. 10, Pages 27: Assessing Genetic Diversity after Mangrove Restoration in Brazil: Why Is It So Important? Diversity doi: 10.3390/d10020027 Authors: Renan Granado Luiza C. Pinto Neta André F. Nunes-Freitas Carolina M. Voloch Catarina F. Lira Vital for many marine and terrestrial species, and several other environmental services, such as carbon sink areas, the mangrove ecosystem is highly threatened due to the proximity of large urban centers and climate change. The forced fragmentation of this ecosystem affects the genetic diversity distribution among natural populations. Moreover, while restoration efforts have increased, few studies have analyzed how recently-planted areas impact the original mangrove genetic diversity. We analyzed the genetic diversity of two mangroves species (Laguncularia racemosa and Avicennia schaueriana) in three areas in Brazil, using inter-simple sequence repeat (ISSR) markers. Using the local approach, we identified the genetic diversity pool of a restored area compared to nearby areas, including the remnant plants inside the restored area, one well-conserved population at the shore of Guanabara Bay, and one impacted population in Araçá Bay. The results for L. racemosa showed that the introduced population has lost genetic diversity by drift, but remnant plants with high genetic diversity or incoming propagules could help improve overall genetic diversity. Avicennia schaueriana showed similar genetic diversity, indicating an efficient gene flow. The principal component analysis showing different connections between both species indicate differences in gene flow and dispersal efficiencies, highlighting the needed for further studies. Our results emphasize that genetic diversity knowledge and monitoring associated with restoration actions can help avoid bottlenecks and other pitfalls, especially for the mangrove ecosystem.

Description: Diversity, Vol. 10, Pages 29: Restoration of Legacy Trees as Roosting Habitat for Myotis Bats in Eastern North American Forests Diversity doi: 10.3390/d10020029 Authors: Michael J. Lacki Most eastern North American Myotis roost in forests during summer, with species forming maternity populations, or colonies, in cavities or crevices or beneath the bark of trees. In winter, these bats hibernate in caves and are experiencing overwinter mortalities due to infection from the fungus Pseudogymnoascus destructans, which causes white-nose syndrome (WNS). Population recovery of WNS-affected species is constrained by the ability of survivors to locate habitats suitable for rearing pups in summer. Forests in eastern North America have been severely altered by deforestation, land-use change, fragmentation and inadvertent introduction of exotic insect pests, resulting in shifts in tree distributions and loss of large-diameter canopy-dominant trees. This paper explores patterns in use of tree roosts by species of Myotis across Canada and the United States using meta-data from published sources. Myotis in western Canada, the Northwest, and Southwest selected the largest diameter roost trees and also supported the largest maximum exit counts. Myotis lucifugus, M. septentrionalis and M. sodalis, three species that inhabit eastern forests and which are currently experiencing region-wide mortalities because of WNS, selected roosts with the smallest average diameters. Recovery efforts for bark- and cavity-roosting Myotis in eastern North American forests could benefit from management that provides for large-diameter trees that offer more temporally-stable structures for roosting during the summer maternity season.

Description: Diversity, Vol. 10, Pages 30: The Enigmatic Weevil Genus Philetaerobius from Southern Africa: Definition, Affinities and Description of Three New Species (Coleoptera: Curculionidae: Entiminae) Diversity doi: 10.3390/d10020030 Authors: Roman Borovec Rolf G. Oberprieler Massimo Meregalli The small entimine genus Philetaerobius Marshall, 1923 is revised, entailing a redescription of the genus and the only hitherto described species, P. nidicola Marshall, as well as the description of three new species, P. endroedyi sp. n., P. garibebi sp. n. and P. louwi sp. n. A lectotype is designated for P. nidicola Marshall. The habitus and taxonomically important structures of all species are illustrated, including the previously unrecorded male and female genitalia. A key to the four species is provided, as well as a map of their known distributions in southern Namibia and the Northern and Western Cape provinces of South Africa. The habits of the genus, as known, are summarized, and its taxonomic position and indicated relationship with the taxonomically equally isolated genus Spartecerus are discussed. The habitus and genitalia of some Spartecerus species are also illustrated, and the available information on the life-history of the genus is summarized.

Description: Diversity, Vol. 10, Pages 39: Land Manager Perspectives on Conflict Mitigation Strategies for Urban Flying-Fox Camps Diversity doi: 10.3390/d10020039 Authors: Kaye Currey Dave Kendal Rodney van der Ree Pia E. Lentini Over the last 20 years, there has been a notable increase in the presence of flying-foxes (Pteropodidae) in urban areas in Australia. Flying-foxes congregate during the day in camps which at times may contain many thousands of individuals. The associated noise, smell, mess and concerns about disease transmission can result in significant conflict with local communities. Managers of flying-fox camps use a range of management approaches to mitigate tensions, but the success or otherwise of these has been largely undocumented. Land managers were surveyed to determine the relative cost and perceived effectiveness of mitigation strategies using semi-structured interviews and an online questionnaire. We found that five actions were commonly used to manage flying-foxes: (1) stakeholder education, (2) the creation of buffers between camps and adjacent residents via vegetation removal or (3) the creation of buffers via deterrents, (4) dispersal of flying-foxes via disturbance, and (5) dispersal of flying-foxes via vegetation removal. Perceptions of effectiveness varied considerably among managers. Overall, the creation of buffers via vegetation removal was considered the most effective action, and stakeholder education was perceived to be the least effective. Dispersal via disturbance was also considered effective at reducing complaints and improving amenity, but not particularly effective overall likely due to the often short-term relief provided to residents before camps were recolonised. It was evident that the actions taken by managers and their perceived effectiveness were influenced by the attitudes of the community. This highlights the importance of considering the human dimensions of human-wildlife conflict in mitigation strategies.

Description: Diversity, Vol. 10, Pages 41: Effects of Habitat Structure, Plant Cover, and Successional Stage on the Bat Assemblage of a Tropical Dry Forest at Different Spatial Scales Diversity doi: 10.3390/d10020041 Authors: Luiz A. D. Falcão Mário M. Espírito-Santo G. W. Fernandes Adriano P. Paglia Bats play a fundamental role in ecosystem functioning since they are responsible for several ecological services such as seed dispersal and pollination. Therefore, assessing the effects of habitat structure at different scales on the bat assemblage is extremely important for supporting conservation strategies. The objective of the present study was to investigate the effects of habitat structure at multiple spatial scales on the bat assemblages and their variation along a gradient of secondary succession in a Brazilian tropical dry forest. Our results suggest that bat abundance is higher in areas close to mature forests, which shows the important role of those habitats as refuges for the regional bat fauna (in a fragmented landscape) and for the maintenance of ecosystem services provided by this group in tropical dry forests in a landscape context. In addition, bat abundance was lower in protected areas whose surroundings were better preserved (greater forest extension). This unexpected finding could result from an altered behavior in areas under a strong influence of a fruit crop matrix. Finally, we showed that the effects of the surroundings depend on the successional stage of the area under analysis. Late forests are more susceptible to variations in the forest cover in their surroundings, which show the higher fragility of these environments.

Description: Diversity, Vol. 10, Pages 42: Estimating Fish Species Richness across Multiple Watersheds Diversity doi: 10.3390/d10020042 Authors: Michael H. Paller Assessing fish species richness at the scale of an entire watershed or multiple watersheds is important when designing conservation areas and maintaining aquatic biodiversity. Estimating biodiversity at this scale requires considering the effects of habitat heterogeneity within and across drainages on the species-area relationship (SAR). I examined the SAR using unusually complete data to assess fish species richness in minimally disturbed watersheds on large public lands in the Sand Hills ecoregion, southeastern United States of America (USA). My objectives were to compare (1) true richness with estimates produced by different species richness estimators and sampling designs and (2) species richness among reservations. Accurate estimates were obtained for five contiguous watersheds (780 km2 total) by using Chao 2 or first-order jackknife estimators, coupled with (1) a stratified design that apportioned sampling effort over 25 sample sites based on major spatial correlates of assemblage composition, including stream size and drainage basin identity and (2) sufficient sampling effort to collect enough individuals to include rare species. The greatest species richness was in streams within a large land holding characterized by greater instream habitat diversity, less disturbed land coverage, more forested land, and closer proximity to source pools than other reservations. Species richness in these streams was within the range observed in high diversity Neotropical and Indomalayan realms.

Description: Diversity, Vol. 10, Pages 15: Micro-Food Web Structure Shapes Rhizosphere Microbial Communities and Growth in Oak Diversity doi: 10.3390/d10010015 Authors: Hazel Maboreke Veronika Bartel René Seiml-Buchinger Liliane Ruess The multitrophic interactions in the rhizosphere impose significant impacts on microbial community structure and function, affecting nutrient mineralisation and consequently plant performance. However, particularly for long-lived plants such as forest trees, the mechanisms by which trophic structure of the micro-food web governs rhizosphere microorganisms are still poorly understood. This study addresses the role of nematodes, as a major component of the soil micro-food web, in influencing the microbial abundance and community structure as well as tree growth. In a greenhouse experiment with Pedunculate Oak seedlings were grown in soil, where the nematode trophic structure was manipulated by altering the proportion of functional groups (i.e., bacterial, fungal, and plant feeders) in a full factorial design. The influence on the rhizosphere microbial community, the ectomycorrhizal symbiont Piloderma croceum, and oak growth, was assessed. Soil phospholipid fatty acids were employed to determine changes in the microbial communities. Increased density of singular nematode functional groups showed minor impact by increasing the biomass of single microbial groups (e.g., plant feeders that of Gram-negative bacteria), except fungal feeders, which resulted in a decline of all microorganisms in the soil. In contrast, inoculation of two or three nematode groups promoted microbial biomass and altered the community structure in favour of bacteria, thereby counteracting negative impact of single groups. These findings highlight that the collective action of trophic groups in the soil micro-food web can result in microbial community changes promoting the fitness of the tree, thereby alleviating the negative effects of individual functional groups.

Description: Diversity, Vol. 10, Pages 20: Significance of Mangrove Biodiversity Conservation in Fishery Production and Living Conditions of Coastal Communities in Sri Lanka Diversity doi: 10.3390/d10020020 Authors: Chaya Sarathchandra Stephan Kambach Sameera Ariyarathna Jianchu Xu Rhett Harrison Sriyani Wickramasinghe Sri Lanka is an island nation where ~59% of the population live in coastal regions. The main income source in these areas is fishing, which contributes to ~44% of the national GDP. Fishery resources depend on mangroves, especially in estuaries and lagoons, as mangroves provide the best nursery grounds for both brackish and marine species that are significant for the island’s fishing industry. However, growing pressures from an increasing population and development are causing substantial damage to mangroves resulting in loss of mangrove diversity. We analyzed whether variation in mangrove diversity within a lagoon system affects fishery production and livelihoods. Along the lagoon we selected three sites, which were 5 km apart from each other, for the survey. We used three 50 m long transects at each site for faunal and floral diversity assessments. The fishery catch was recorded from three crafts in each side. The socio-economic survey was conducted in 30 households per site using a standard questionnaire. In the site with the highest floral and faunal diversity, we also recorded the highest fish catch, but not the highest crab or shrimp catches. Our results confirm that higher mangrove diversity—and not just area—supports higher income generation. Thus, future development should prioritize biodiversity conservation in coastal regions.

Description: Diversity, Vol. 10, Pages 21: Statistical Evaluation of Monophyly in the ‘Broad-Nosed Weevils’ through Molecular Phylogenetic Analysis Combining Mitochondrial Genome and Single-Locus Sequences (Curculionidae: Entiminae, Cyclominae, and Hyperinae) Diversity doi: 10.3390/d10020021 Authors: Conrad Gillett Christopher Lyal Alfried Vogler Brent Emerson Establishing well-supported monophyletic groups is a key requirement for producing a natural classification that reflects evolutionary descent. In a phylogenetic framework this is best achieved through dense taxon sampling and the analysis of a robust character dataset, combined with statistical testing of topological hypotheses. This study assesses the monophyly of tribes and subfamilies within the diverse ‘broad-nosed weevils’ (Curculionidae: Entiminae, Cyclominae and Hyperinae) through analysis of single-locus sequence data for mitochondrial cox1 and rrnL genes, in combination with a ‘backbone’ of complete and near-complete mitochondrial genome sequences. Maximum likelihood phylogenetic analyses incorporating topological constraints for various higher-taxa were statistically tested using the AU, SH, and KH tests, which indicated that three tribes within Entiminae, as presently classified, are not monophyletic. Moderate and high bootstrap support was also consistent with two entimine tribes (Peritelini and Cylydrorhinini) being each recovered as monophyletic in an unconstrained analysis. Furthermore, one genus of cyclomine weevils (Aphela) is recovered outside the clade of ‘broad-nosed weevils’, although its taxonomic placement remains uncertain. It is apparent that the present approach may be hampered by limited taxon sampling in the ‘backbone’ dataset, rendering it difficult for divergent taxa to robustly match to their closest lineages. However, with improved taxon sampling of the mitogenome tree, the general approach can be a useful taxonomic tool for weevils.

Description: Diversity, Vol. 10, Pages 22: Molecular Diversity of Tidal Swamp Rice (Oryza sativa L.) in South Kalimantan, Indonesia Diversity doi: 10.3390/d10020022 Authors: Dindin Mursyidin Purnomo Purnomo Issirep Sumardi Budi Daryono Tidal swamp rice has long been cultivated by the local people of the South Kalimantan, Indonesia. This germplasm possess some important traits for adapted to a wide range of abiotic and biotic stresses. In this study, a total of 16 cultivars of the tidal swamp rice, consisting of 15 from the South Kalimantan Provinces and 1 from South Sumatera, Indonesia (an outgroup) were analyzed phylogenetically based on the chloroplast trnL-F and nuclear intergenic spacer region (IGS). The results showed that this germplasm has a relatively more extraordinary genetic diversity than other local rice. On a nucleotide level, the tidal swamp rice showed a genetic diversity of 0.61 for nuclear IGS and 0.58 for trnL-F. The phylogenetic reconstruction also exhibited that the tidal swamp rice has the unique phylogenetic trees, particularly for the combined sequence datasets. This information would be useful for the rice conservation and breeding programs in the future.

Description: Diversity, Vol. 10, Pages 23: Genetic Diversity of Northern Wheatgrass (Elymus lanceolatus ssp. lanceolatus) as Revealed by Genotyping-by-Sequencing Diversity doi: 10.3390/d10020023 Authors: Pingchuan Li Surendra Bhattarai Gregory Peterson Bruce Coulman Michael Schellenberg Bill Biligetu Yong-Bi Fu Recent advances in next generation sequencing technologies make genotyping-by-sequencing (GBS) more feasible for the molecular characterization of plant germplasm with complex and unsequenced genomes. This study represents the first preliminary effort using GBS to discover genome-wide genetic variants of northern wheatgrass (Elymus lanceolatus ssp. lanceolatus (Scribn. and J. G. Sm.) Gould) plants and to assess the genetic diversity present in four cultivated and six wild accessions. The effort generated the first novel set of genomic resources and 5659 single nucleotide polymorphism (SNP) markers for this tetraploid grass. The diversity analysis revealed 8.8% of SNP variation residing among the 10 accessions and 1.9% SNP variation present between cultivated and wild accessions. The Bayesian analysis identified three major clusters of the assayed samples, and the principal coordinates analysis revealed the genetic distinctness of the two accessions collected from Nevada and Wyoming. The flow cytometry analysis confirmed the tetraploid nature of some of the assayed samples and estimated the average genome size to be 9.3–9.4 Gb for this species. These findings are useful for the genetic improvement of this native grass species for forage production and rangeland reclamation. The findings are also encouraging for the broad application of genotyping-by-sequencing in the characterization of genome-wide genetic variability in non-model polyploid plants.

Description: Diversity, Vol. 10, Pages 55: Assemblage and Species Threshold Responses to Environmental and Disturbance Gradients Shape Bat Diversity in Disturbed Cave Landscapes Diversity doi: 10.3390/d10030055 Authors: Kendra Phelps Reizl Jose Marina Labonite Tigga Kingston Ecological thresholds represent a critical tipping point along an environmental gradient that, once breached, can have irreversible consequences for species persistence and assemblage structure. Thresholds can also be used to identify species with the greatest sensitivity to environmental changes. Bats are keystone species yet are under pressure from human disturbances, specifically landscape and cave disturbances (i.e., reduced forest cover, urbanization, hunting, tourism). We compared bat assemblages across environmental and disturbance gradients measured at 56 caves in the Philippines to identify species-specific thresholds and assess congruence among species responses. All species exhibited significant responses to one or more gradients, with 84% responding to more than one gradient. Yet mixed responses of sensitivity to some gradients but tolerance to others hindered identification of assemblage thresholds to all gradients except landscape disturbance. However, we identified credible indicator species that exhibit distinct thresholds to specific gradients and tested for differences in ecological and morphological traits between species groups with shared responses (i.e., negative or positive). Few traits were useful for discriminating the direction of a species response, with some exceptions. Species that responded positively to increased landscape disturbance and hunting had greater body mass, whereas species that responded negatively to mining emitted higher peak call frequencies.

Description: Diversity, Vol. 10, Pages 60: Divergence Time Estimation of Aloes and Allies (Xanthorrhoeaceae) Based on Three Marker Genes Diversity doi: 10.3390/d10030060 Authors: Zeinab Khodaei Ben-Erik Van Wyk Michael Wink Aloes and allies are prominent members of African succulent vegetation and especially of the highly diverse Cape Flora. The main goal of this study was to obtain age estimates for alooids by calibrating a Bayesian phylogenetic analysis based on two chloroplast markers (the trnL-trnF spacer region and rbcL gene) and one gene marker (ITS) using a relaxed molecular clock. Seventy four species from all succulent genera of alooids were analysed with MrBayes to infer species relationships. We discuss the age estimates to address the question whether vicariance or dispersal could account for the diversification of Madagascan alooids. In the combined maximum clade credibility tree obtained from BEAST the succulent alooids have split from asphodeloids around 51.8 Mya in Early Miocene. Divergence time age estimation for succulent drought resistant alooids (late Oligocene to early Miocene) correspond well with dates identified for several other plant lineages in southern Africa and does match with the start of dry period in Miocene which triggered speciation and evolutionary radiation of these genera and families. All climbing aloes and some tree aloes which were recently split into new genera are amongst the early diverged group in alooids and the crown node of this group diverged around 16.82 (15.5–22.4) Mya. The oldest node age estimation for aloes from Madagascar (5.1 Mya) is in early Pliocene and our findings support the hypothesis that the Africa-Madagascan divergence is best explained by oceanic long-distance dispersal rather than vicariance. This study is one of the first to give age estimates for clades of alooids in Xanthorrhoeaceae as a starting point for future studies on the historical biogeography of this family of succulent plants which are important for ethnomedicine, and as ornamental and horticultural plants.

Description: Diversity, Vol. 10, Pages 59: Molecular and Morphological Phylogenetic Analysis of Naupactus Dejean (Curculionidae: Entiminae) and Allied Genera: The Dilemma of Classification Diversity doi: 10.3390/d10030059 Authors: Maria G. del Río Marcela S. Rodriguero Viviana A. Confalonieri Analía A. Lanteri Naupactus (Curculionidae: Entiminae) is the most speciose weevil genus of the tribe Naupactini. The main objective of this work is to recognize species groups within Naupactus and to analyze the relationships between this and other Neotropical genera. For this purpose, we compiled a combined data matrix of 60 terminal units corresponding to 40 species for which we recorded 812 molecular and morphological characters (763 and 49 respectively), which were analyzed by Maximum Parsimony and Bayesian analyses. The single tree obtained from each analysis was rooted with Cyrtomon inhalatus. The species of Naupactus were recovered as different monophyletic groups, some of them closer to other genera of Naupactini (Lanterius, Teratopactus, Pantomorus and Parapantomorus) than to species of the same genus. We conclude that Naupactus is non-monophyletic, even though most species can be recognized based on a particular combination of morphological characters, which are probably symplesiomorphic. To be consistent with the cladistic principles, some genera diversified in marginal areas of the Pantomorus-Naupactus complex should be synonymized with Naupactus; however, these nomenclatural changes may not ensure a generic definition based on synapomorphies. We prefer to be conservative about the current classification until more evidence is available. The only nomenclatural amendments proposed herein are the transference of Naupactus inermis Hustache to Lanterius and of N. setarius to Symmathetes.

Description: Diversity, Vol. 10, Pages 67: Improving Standards for At-Risk Butterfly Translocations Diversity doi: 10.3390/d10030067 Authors: Jaret C. Daniels Cale Nordmeyer Erik Runquist The use of human mediated translocations has been an increasing component of many species recovery initiatives, including for numerous imperiled Lepidopteran species. Despite the identified need for this ex situ strategy, few such programs are conducted in a scientifically repeatable way, are executed with a structured decision-making process, are well documented throughout, or are documented only in gray literature. The International Union for Conservation of Nature’s Guidelines for Reintroductions and Other Conservation Translocations are an important tool for conservation practitioners to help implement comprehensive translocation planning. These generalized guidelines are intended to be applicable to all taxa. Though there is a growing body of literature and supplementary guidelines for many vertebrate classes, other proposed standards fail to capture the specific biology of many invertebrate groups, like Lepidoptera. Here, we present a targeted list of detailed recommendations that are appropriate for Lepidopteran translocation programs to expand on the broad and tested guidelines developed by the IUCN. We assert that the increased standardization and repeatability among Lepidopteran translocations will improve the conservation outcomes.

Description: Diversity, Vol. 10, Pages 70: Long-Term Changes in the Composition, Ecology, and Structure of Pinus mugo Scrubs in the Apennines (Italy) Diversity doi: 10.3390/d10030070 Authors: Valentina Calabrese Maria Laura Carranza Alberto Evangelista Marco Marchetti Adriano Stinca Angela Stanisci Mountain ecosystems are vulnerable because of land-use and climate change. In this study, we performed a re-visitation study using historical and newly collected vegetation plots to explore the primary trends in the floristic, ecological, and structural features of Mediterranean Pinus mugo krummholz over past decades. The plant community composition over time (1992 vs. 2016–17) was analyzed by a detrended correspondence analysis followed by a statistical comparison of time steps and an analysis of the contribution of each species to temporal differences. Ecological and structural changes were analyzed by a permutational multivariate analysis of variance followed by a post hoc comparison. We observed relevant changes in the floristic composition, structure, and ecological characteristics of Pinus mugo scrub. Some subalpine and treeline species that characterize the early stages of Pinus mugo succession declined as several warm-adapted species increased. Furthermore, these changes were most likely due to the natural evolution of high-mountain krummholz combined with a thermophilization process occurring in alpine habitats. In contrast, a small group of cold-adapted species also increased, probably because the patchy spatial pattern of Pinus mugo scrubs gives rise to “mesic patches” in a matrix of arid grasslands. The re-visitation approach adopted for long-term analysis in this study can potentially be applied to other mountainous regions to better understand long-term ecological changes in high alpine vegetation.

Description: Diversity, Vol. 10, Pages 53: Chemical Composition and Antioxidant Potential Differences between Cynomorium coccineum L. Growing in Italy and in Tunisia: Effect of Environmental Stress Diversity doi: 10.3390/d10030053 Authors: Imen Ben Attia Paolo Zucca Flaminia Cesare Marincola Alessandra Piras Antonella Rosa Mohamed Chaieb Antonio Rescigno Cynomorium coccineum is a parasitic plant that has been known for centuries in ethnopharmacology. However, its biological activities have been scarcely studied, particularly in the case of plant grown in North Africa. Thus, we compared the chemical composition and antioxidant potential of C. coccineum taken from two regions characterized by very different climates: the Tataouine region in southeast Tunisia, which lies near the desert, and Sardinia in south Italy, which lies near the coast. The antioxidant potential of freeze-dried specimens from the hexane, ethyl acetate, acetone, methanolic, and aqueous extracts was tested using both electron transfer (ET) methods (i.e., TEAC-ABTS, FRAP, and DPPH) and hydrogen atom transfer (HAT) assay (ORAC-PYR). The metabolic profiles of both the methanolic and aqueous extracts were further investigated by 1H NMR spectroscopy. We also obtained fixed oils by supercritical fractioned extraction (SFE) with CO2. GC and HPLC were then used combined to determine the fatty acids profile. All extracts showed significantly different antioxidant capacities. 1H NMR spectroscopy showed evidence for the presence of amino acids, organic acids, and carbohydrates. The main fatty acids in the oils were 18:1 n-9, 18:2 n-6, 16:0, and 18:3 n-3. All the results showed a difference in chemical composition that influenced the total antioxidant power and the biological activity, verifying that climate affects the chemical composition of plants.

Description: Diversity, Vol. 10, Pages 62: Trends in Population Size of Rare Plant Species in the Alpine Habitats of the Ukrainian Carpathians under Climate Change Diversity doi: 10.3390/d10030062 Authors: Yuriy Kobiv Population trends in rare alpine plant species in the high-mountain zone of the Ukrainian Carpathians are described with regard to the types of habitats where they occur. Populations of cold-adapted species confined to snowbeds, alpine screes, poorly vegetated rocks, and the highest ridges, as well as mires and springs, are very vulnerable to climate change, while their habitats tend to shrink. The direct impact of warming affects mainly the most cryophilic species. Another driver of changes is climate-induced succession that results in denser vegetation cover and encroachment of more thermophilic plants, which replace low-competitive rare alpine species. Their replacement is largely caused by the loss of open microsites suitable for seed recruitment. However, the climate-driven decrease of snow cover often leads to frost damage to vegetation that provides gaps appropriate for the establishment of many rare species. One of the groups of species that benefit from warming includes rather thermophilic tall herbs that are more common in the subalpine zone but have been actively spreading at higher altitudes lately.

Description: Diversity, Vol. 10, Pages 63: Predicting Extinction Risk for Data Deficient Bats Diversity doi: 10.3390/d10030063 Authors: Jessica Nicole Welch Jeremy M. Beaulieu Conservation biology aims to identify species most at risk of extinction and to understand factors that forecast species vulnerability. The International Union for Conservation of Nature (IUCN) Red List is a leading source for extinction risk data of species globally, however, many potentially at risk species are not assessed by the IUCN owing to inadequate data. Of the approximately 1150 bat species (Chiroptera) recognized by the IUCN, 17 percent are categorized as Data Deficient. Here, we show that large trait databases in combination with a comprehensive phylogeny can identify which traits are important for assessing extinction risk in bats. Using phylogenetic logistic regressions, we show that geographic range and island endemism are the strongest correlates of binary extinction risk. We also show that simulations using two models that trade-off between data complexity and data coverage provide similar estimates of extinction risk for species that have received a Red List assessment. We then use our model parameters to provide quantitative predictions of extinction risk for 60 species that have not received risk assessments by the IUCN. Our model suggests that at least 20 bat species should be treated as threatened by extinction. In combination with expert knowledge, our results can be used as a quick, first-pass prioritization for conservation action.

Description: Diversity, Vol. 10, Pages 68: Cross-Life Stage Effects of Aquatic Larval Density and Terrestrial Moisture on Growth and Corticosterone in the Spotted Salamander Diversity doi: 10.3390/d10030068 Authors: Julie F. Charbonnier Jacquelyn Pearlmutter James R. Vonesh Caitlin R. Gabor Zachery R. Forsburg Kristine L. Grayson For organisms with complex life cycles, conditions experienced during early life stages may constrain later growth and survival. Conversely, compensatory mechanisms may attenuate negative effects from early life stages. We used the spotted salamander, Ambystoma maculatum, to test how aquatic larval density and terrestrial moisture influence juvenile growth, food intake, evaporative water loss and water reuptake rates, and corticosterone levels. We conducted an outdoor mesocosm experiment to manipulate larval density and transferred metamorphosed salamanders into low and high terrestrial moisture treatments in laboratory terrariums. After the larval stage, high-density salamanders were significantly smaller and had higher corticosterone release rates than those from low-density treatments. Salamanders in the low terrestrial moisture treatment consumed fewer roaches, had lower mass-specific growth rates, higher water reuptake, and higher corticosterone release rates than salamanders in high terrestrial moisture treatments. Across moisture treatments, smaller salamanders had higher mass-specific growth rates than larger salamanders. Our results suggest that salamanders can partially compensate for competition in the larval aquatic habitat with increased growth as juveniles, but this response is dependent on terrestrial habitat quality. Thus, the persistence of early life stage effects can be an important, yet context-dependent, component of amphibian life cycles.

Description: Diversity, Vol. 10, Pages 76: Morphological and Genetic Diversity of Sea Buckthorn (Hippophae rhamnoides L.) in the Karakoram Mountains of Northern Pakistan Diversity doi: 10.3390/d10030076 Authors: Muhammad Arslan Nawaz Konstantin V. Krutovsky Markus Mueller Oliver Gailing Asif Ali Khan Andreas Buerkert Martin Wiehle Sea buckthorn (Hippophae rhamnoides L.) is a dioecious, wind-pollinated shrub growing in Eurasia including the Karakoram Mountains of Pakistan (Gilgit-Baltistan territory). Contrary to the situation in other countries, in Pakistan this species is heavily underutilized. Moreover, a striking diversity of berry colors and shapes in Pakistan raises the question: which varieties might be more suitable for different national and international markets? Therefore, both morphological and genetic diversity of sea buckthorn were studied to characterize and evaluate the present variability, including hypothetically ongoing domestication processes. Overall, 300 sea buckthorn individuals were sampled from eight different populations and classified as wild and supposedly domesticated stands. Dendrometric, fruit and leaf morphometric traits were recorded. Twelve EST-SSRs (expressed sequence tags-simple sequence repeats) markers were used for genotyping. Significant differences in morphological traits were found across populations and between wild and village stands. A significant correlation was found between leaf area and altitude. Twenty-two color shades of berries and 20 dorsal and 15 ventral color shades of leaves were distinguished. Mean genetic diversity was comparatively high (He = 0.699). In total, three distinct genetic clusters were observed that corresponded to the populations’ geographic locations. Considering high allelic richness and genetic diversity, the Gilgit-Baltistan territory seems to be a promising source for selection of improved germplasm in sea buckthorn.

Description: Diversity, Vol. 10, Pages 78: Lack of Behavioral and Chemical Interference Competition for Refuges among Native Treefrogs and Invasive Cuban Treefrogs (Osteopilus septentrionalis) Diversity doi: 10.3390/d10030078 Authors: Kristine E. Hoffmann Monica E. McGarrity Steve A. Johnson The introduction of a novel competitor can dramatically alter community dynamics, and competition-mediated impacts often result from biological invasions. Interference competition can be especially problematic as a source of methodological bias for studies seeking to evaluate population and community-level impacts of invasive species. We used polyvinyl chloride (PVC) refugia to conduct laboratory trials to determine whether behavioral or chemical cues of invasive Cuban treefrogs (Osteopilusseptentrionalis) interfere with artificial refuge use by conspecifics or treefrogs native to Florida (USA). We found no evidence of behavioral or chemical competition for refuges by Cuban treefrogs or native treefrogs. The inability of native treefrogs to avoid chemical cues from Cuban treefrogs, despite living sympatrically with the invasive treefrogs for 10–20 years, has important implications for predation risk.

Description: Diversity, Vol. 10, Pages 81: Effects of Emerging Infectious Diseases on Amphibians: A Review of Experimental Studies Diversity doi: 10.3390/d10030081 Authors: Andrew R. Blaustein Jenny Urbina Paul W. Snyder Emily Reynolds Trang Dang Jason T. Hoverman Barbara Han Deanna H. Olson Catherine Searle Natalie M. Hambalek Numerous factors are contributing to the loss of biodiversity. These include complex effects of multiple abiotic and biotic stressors that may drive population losses. These losses are especially illustrated by amphibians, whose populations are declining worldwide. The causes of amphibian population declines are multifaceted and context-dependent. One major factor affecting amphibian populations is emerging infectious disease. Several pathogens and their associated diseases are especially significant contributors to amphibian population declines. These include the fungi Batrachochytrium dendrobatidis and B. salamandrivorans, and ranaviruses. In this review, we assess the effects of these three pathogens on amphibian hosts as found through experimental studies. Such studies offer valuable insights to the causal factors underpinning broad patterns reported through observational studies. We summarize key findings from experimental studies in the laboratory, in mesocosms, and from the field. We also summarize experiments that explore the interactive effects of these pathogens with other contributors of amphibian population declines. Though well-designed experimental studies are critical for understanding the impacts of disease, inconsistencies in experimental methodologies limit our ability to form comparisons and conclusions. Studies of the three pathogens we focus on show that host susceptibility varies with such factors as species, host age, life history stage, population and biotic (e.g., presence of competitors, predators) and abiotic conditions (e.g., temperature, presence of contaminants), as well as the strain and dose of the pathogen, to which hosts are exposed. Our findings suggest the importance of implementing standard protocols and reporting for experimental studies of amphibian disease.

Description: Diversity, Vol. 10, Pages 47: How Does an Invasive Cyprinid Benefit from the Hydrological Disturbance of Mediterranean Temporary Streams? Diversity doi: 10.3390/d10020047 Authors: Paula Matono Janine da Silva Maria Ilhéu The Iberian Peninsula has been subjected to numerous fish introductions and the colonization of new areas by non-native species is constantly reported. However, there is a lack of knowledge about many aspects of the bio-ecology of these species and their invasive success within the environmental context of Mediterranean temporary rivers. This study aimed to address the following questions: (i) what are the main regional and local environmental drivers influencing fish assemblages and differentiating native from non-native species, particularly A. alburnus?; (ii) what are the environmental and anthropogenic disturbance factors responsible for the occurrence and abundance of A. alburnus?; (iii) is there a pattern in the spatiotemporal distribution of A. alburnus size classes, along the tributaries of reservoirs where the species occurs? Data on fish species, environmental variables, and anthropogenic disturbance were collected in 77 sites of the Guadiana and Sado river basins in the south of Portugal. Additionally, a seasonal sampling was performed along an upstream-downstream gradient of several tributaries from three reservoirs in these river basins. A multivariate analysis and a multi-model approach were used in data analyses. Native and non-native fish assemblages showed different environmental drivers and responses to anthropogenic disturbance levels, though A. alburnus has revealed similarities with native species. The occurrence of A. alburnus was mainly determined by hydrological and morphological disturbances driven by anthropogenic activities. Furthermore, this species apparently performed seasonal movements along the tributaries of several reservoirs, profiting from these lentic habitats as a stepping-stone for further invasions. This study highlighted the wide ecological plasticity of A. alburnus, as it benefits from the anthropogenic hydrological disturbance (induced by reservoirs), and is also able to cope with the natural hydrological disturbance (resulting from the intermittency of these streams), to guarantee and enhance its invasive success in Mediterranean intermittent streams. It also gives a sound contribution to understand the spread of A. alburnus in these vulnerable freshwater ecosystems, and to delineate management measures, namely by identifying critical points in the river network along with prioritizing river restoration measures that benefit native species.

Description: Diversity, Vol. 10, Pages 48: Trophic Diversity of Plankton in the Epipelagic and Mesopelagic Layers of the Tropical and Equatorial Atlantic Determined with Stable Isotopes Diversity doi: 10.3390/d10020048 Authors: Antonio Bode Santiago Hernández-León Plankton living in the deep ocean either migrate to the surface to feed or feed in situ on other organisms and detritus. Planktonic communities in the upper 800 m of the tropical and equatorial Atlantic were studied using the natural abundance of stable carbon and nitrogen isotopes to identify their food sources and trophic diversity. Seston and zooplankton (>200 µm) samples were collected with Niskin bottles and MOCNESS nets, respectively, in the epipelagic (0–200 m), upper mesopelagic (200–500 m), and lower mesopelagic layers (500–800 m) at 11 stations. Food sources for plankton in the productive zone influenced by the NW African upwelling and the Canary Current were different from those in the oligotrophic tropical and equatorial zones. In the latter, zooplankton collected during the night in the mesopelagic layers was enriched in heavy nitrogen isotopes relative to day samples, supporting the active migration of organisms from deep layers. Isotopic niches showed also zonal differences in size (largest in the north), mean trophic diversity (largest in the tropical zone), food sources, and the number of trophic levels (largest in the equatorial zone). The observed changes in niche size and overlap (up to 71% between the mesopelagic layers but <50% between the epipelagic and upper mesopelagic layers) support the prevalence of in situ feeding at deep layers in tropical and equatorial zooplankton.

Description: Diversity, Vol. 10, Pages 7: Throat Patch Variation in Tayra (Eira barbara) and the Potential for Individual Identification in the Field Diversity doi: 10.3390/d10010007 Authors: Álvaro Villafañe-Trujillo Carlos López-González Joseph Kolowski The importance of identifying individuals of a population has been extensively documented in several species of carnivores, including some species of mustelids. This information is used in many kinds of ecological studies including density estimation, behavioral ecology and analyses of animal movement patterns. The objective of the present study was to determine if individual variation in the throat patches of Tayra (Eira barbara) permits individual identification. We examined 275 specimens from museum collections to determine the morphological variation of the throat patch in Eira barbara specimens collected throughout its distribution. We found differences in the shape and size of the throat patches significant enough to allow discrimination of individuals that display a throat patch (88.0% of 252 complete specimens). The proposed identification criterion was applied to photographic records obtained from a wild population using camera traps in the Peruvian Amazon. From nineteen images (54.0% of all images) in which the throat patch was visible, nine different individuals were identified and two of these were recaptured on multiple occasions.

Description: Diversity, Vol. 10, Pages 11: Kelps’ Long-Distance Dispersal: Role of Ecological/Oceanographic Processes and Implications to Marine Forest Conservation Diversity doi: 10.3390/d10010011 Authors: Manuela Bernardes Batista Antônio Batista Anderson Paola Franzan Sanches Paulo Simionatto Polito Thiago Lima Silveira Gabriela Velez-Rubio Fabrizio Scarabino Olga Camacho Caroline Schmitz Ana Martinez Leonardo Ortega Graciela Fabiano Mark Rothman Gang Liu Jaime Ojeda Andrés Mansilla Luis Barreto Jorge Assis Ester Serrão Rui Santos Paulo Antunes Horta Long-distance dispersal is one of the main drivers structuring the distribution of marine biodiversity. This study reports the first occurrence of Macrocystis pyrifera and Durvillaea antarctica rafts on the southwestern warm temperate coast of the Atlantic Ocean. Our results indicate that an extreme meteo-oceanographic event, characterized by a northward, displacement of cold sub-Antarctic oceanic waters driven by an extratropical cyclone, could account for these unusual occurrences. A niche model based on known current distribution and maximum entropy principle (MAXENT), revealed the availability of suitable habitats at lower latitudes, outside their actual distribution edges. The distributional boundaries, mainly driven by temperature and irradiance, suggest the existence of environmental suitability in warm temperate areas, as well as in the Northern Hemisphere off Atlantic and Asian coasts. These theoretical edges and respective environmental drivers agree with the physiological affinities of both species, supporting the hypothesis that these variables act as limiting factors for their occurrences in tropical or warmer areas. Emerging regions can function as refuges and stepping-stones, providing substrate with adequate habitat conditions for recruitment of propagules, allowing eventual colonization. Long dispersal events reinforce the need for an extensive discussion on selective management of natural dispersion, biological invasions, refuge mapping and conservation initiatives in a transnational perspective.

Description: Diversity, Vol. 10, Pages 3: Bee Diversity and Solanum didymum (Solanaceae) Flower–Visitor Network in an Atlantic Forest Fragment in Southern Brazil Diversity doi: 10.3390/d10010003 Authors: Francieli Lando Priscila Lustosa Cyntia P. da Luz Maria Buschini Brazil’s Atlantic Forest biome is currently undergoing forest loss due to repeated episodes of devastation. In this biome, bees perform the most frequent pollination system. Over the last decade, network analysis has been extensively applied to the study of plant–pollinator interactions, as it provides a consistent view of the structure of plant–pollinator interactions. The aim of this study was to use palynological studies to obtain an understanding of the relationship between floral visitor bees and the pioneer plant S. didymum in a fragment of the Atlantic Forest, and also learn about the other plants that interact to form this network. Five hundred bees were collected from 32 species distributed into five families: Andrenidae, Apidae, Colletidae, Megachilidae, and Halictidae. The interaction network consisted of 21 bee species and 35 pollen types. The Solanum-type bee species with the highest number of interactions were Anthrenoides sp. 1, Augochlora sp. 2, and Augochloropsis notophos, representing 71.78% of their interactions. Augochloropsis notophos and Augochlora sp. 2 were the only common species in the flowers of S. didymum. Given the results of our study, we conclude that Solanum is an important source of pollen grains for several native bee species, mainly for the solitary species that are more diverse in the south of Brazil. Moreover, our results indicate that bees from the families Halictidae (A. notophos, Augochlora) and Andrenidae (Anthrenoides) are the pollinators of S. didymum.

Description: Diversity, Vol. 10, Pages 5: Olive Tree (Olea europaea L.) Diversity in Traditional Small Farms of Ficalho, Portugal Diversity doi: 10.3390/d10010005 Authors: Maria Veloso Maria Simões-Costa Luís Carneiro Joana Guimarães Célia Mateus Pedro Fevereiro Cândido Pinto-Ricardo The genetic diversity of “Gama” and “Bico de Corvo”, local cultivars of olive tree (Olea europaea) from seven traditional orchards of Ficalho (Alentejo region, Portugal), was studied to characterize the local diversity and assess the level of on farm diversity. Two different analytical systems were used: endocarp morphological characteristics and genetic analysis by microsatellite markers (Simple Sequence Repeats or SSR). The seven screened loci were polymorphic and allowed the identification of 23 distinct SSR profiles within the 27 trees analyzed. A total of 52 different alleles were scored, with an average of 7.43 alleles/SSR locus, and considerable genetic diversity was found. Neighbor-Joining algorithm cluster analysis and principal co-ordinate analysis (PCoA) allowed for the identification of the genetic relationships between several accessions. The 27 Olea accessions were clearly separated into three different groups. SSR analysis was more precise than endocarp characterization in the classification of genetic diversity among the olive tree cultivars. The study shows reasonable olive tree diversity in Ficalho, indicating that these traditional orchards are important reservoirs of old minor cultivars and incubators of new genotypes.

Description: Diversity, Vol. 10, Pages 8: Better Resilient than Resistant—Regeneration Dynamics of Storm-Disturbed Mangrove Forests on the Bay Island of Guanaja (Honduras) during the First Two Decades after Hurricane Mitch (October 1998) Diversity doi: 10.3390/d10010008 Authors: Thomas Fickert Located at the interface of land and sea, Caribbean mangroves frequently experience severe disturbances by hurricanes, but in most cases storm-impacted mangrove forests are able to regenerate. How exactly regeneration proceeds, however, is still a matter of debate: does—due to the specific site conditions—regeneration follows a true auto-succession with exactly the same set of species driving regeneration that was present prior to the disturbance, or do different trajectories of regeneration exist? Considering the fundamental ecosystem services mangroves provide, a better understanding of their recovery is crucial. The Honduran island of Guanaja offers ideal settings for the study of regeneration dynamics of storm-impacted mangrove forests. The island was hit in October 1998 by Hurricane Mitch, one of the most intense Atlantic storms of the past century. Immediately after the storm, 97% of the mangroves were classified as dead. In 2005, long-term monitoring on the regeneration dynamics of the mangroves of the island was initiated, employing permanent line-transects at six different mangrove localities all around the island, which have been revisited in 2009 and 1016. Due to the pronounced topography of the island, different successional pathways emerge depending on the severity of the previous disturbance.

Description: Diversity, Vol. 10, Pages 9: Ecophysiological Response of Rhizophora mangle to the Variation in Hydrochemistry during Five Years along the Coast of Campeche, México Diversity doi: 10.3390/d10010009 Authors: Carlos Chan-Keb Claudia Agraz-Hernández Raquel Muñiz-Salazar Gregorio Posada-Vanegas Juan Osti-Sáenz Jordán Reyes Castellano Kenia Conde-Medina Beatriz Vega-Serratos We evaluated the phenological response and litterfall production of Rhizophora mangle to changes in pore water chemistry over a five-year period (from 2009 to 2014 and 2010 to 2016) along the coast of Campeche, México. Severe drought conditions were recorded in 2009 with a Standardized Precipitation Index (SPI) of −1.5 and again in 2015 with a SPI of −1.16). A precipitation deficit of 22.1% was recorded between 2009 and 2016 ranging from 9.5% in Laguna de Terminos in the south to 64.4% in Los Petenes Biosphere Reserve in the north. Precipitation varied significantly per year (p < 0.001), seasonally (p < 0.001), and between years and seasons (p < 0.001). An interaction was observed in the salinity (p < 0.05), redox potential (p < 0.001), and precipitation (p < 0.001) of the Laguna de Terminos, Rio Champoton, and Los Petenes Biosphere Reserve regions. Significant differences were found between the years in the leaf and propagule production (p < 0.001), and between seasons in production of leaves, flowers, and propagules (p < 0.001). The determining factor in the production of flowers during both the rainy and dry seasons was the salinity, and the determining factors for the production of propagules were the redox potential and salinity. The results of this study suggest a low phenotypic plasticity in R. mangle.

Description: Diversity, Vol. 10, Pages 10: Phylogeography of the Red Algal Laurencia Complex in the Macaronesia Region and Nearby Coastal Areas: Recent Advances and Future Perspectives Diversity doi: 10.3390/d10010010 Authors: María Machín-Sánchez Maria Candelaria Gil-Rodríguez Ricardo Haroun Abstract: Since the conception of the genus Laurencia by Lamouroux in 1813, several red macroalgal species have been included in it. In recent decades, the development of modern molecular tools has resulted in multiple taxonomic modifications, and presently, eight related genera are recognized in the so-called Laurencia complex. In the Macaronesian Region (Central East Atlantic Ocean), species from the Laurencia complex are keystone elements of the benthic communities, especially in the intertidal zone. In this review, we consolidate the existing knowledge about the Laurencia complex within the Macaronesian archipelagos and nearby areas. Morphological descriptions and phylogeographic remarks of the 16 currently accepted species—whose records were molecular or morphologically confirmed—are included together with an identification key for the Macaronesian Region. The phylogeographic data allowed us to re-visit the role of the Macaronesian archipelagos as a bridge area for the marine flora of the Mediterranean and Caribbean Seas (remnants of the former Thetyan Sea) or contemplate their marine flora as the result of successive processes of recolonization after the Quaternary glaciations from those donor areas. Finally, some comments about the frontiers of the research in the Laurencia complex in the Macaronesian Region and nearby coastal areas are included.

Description: Diversity, Vol. 10, Pages 88: The Molecular Phylogeny of the New Zealand Endemic Genus Hadramphus and the Revival of the Genus Karocolens Diversity doi: 10.3390/d10030088 Authors: Emily Fountain Robert Cruickshank Adrian Paterson The delineation of species is important to the fields of evolution, ecology and conservation. The use of only a single line of evidence, e.g., morphology or a single gene sequence, may underestimate or overestimate the level of diversity within a taxon. This problem often occurs when organisms are morphologically similar but genetically different, i.e., for cryptic species. The Hadramphus genus contains four endangered, morphologically similar species of weevils, each endemic to a specific New Zealand region (Hadramphus spinipennis Chatham Islands, H. stilbocarpae Fiordland, H. tuberculatus McKenzie Country, H. pittospori Poor Knights Islands). The systematic relationships among these species are unclear. We used samples from these species and a closely related genus, Lyperobius huttoni, to obtain data from the mitochondrial gene cytochrome c oxidase subunit I and the nuclear gene internal transcribe spacer 2. In addition to the multi-locus coalescent approach, we modelled morphological characteristics combined with the genetic data. We found that H. spinipennis, H. tuberculatus and H. stilbocarpae were a closely related clade. Despite a strong morphological similarity, Hadramphus pittospori was found to be genetically distinct from the other Hadramphus species, which supports the resurrection of the monotypic genus Karocolens for this species.

Description: Diversity, Vol. 10, Pages 95: A Combined Molecular and Morphological Approach to Explore the Higher Phylogeny of Entimine Weevils (Coleoptera: Curculionidae), with Special Reference to South American Taxa Diversity doi: 10.3390/d10030095 Authors: Adriana E. Marvaldi María Guadalupe del Río Vanina A. Pereyra Nicolás Rocamundi Analía A. Lanteri The Entiminae are broad-nosed weevils constituting the most diverse subfamily of Curculionidae, with over 50 tribes. We performed Bayesian and Maximum Parsimony combined phylogenetic analyses with the main objective of testing higher-level relationships and the naturalness of the major Neotropical and Southern South American (Patagonia and Andes) tribes, including some members from other regions. We compiled a data matrix of 67 terminal units with 63 Entiminae species, as well as four outgroup taxa from Cyclominae, by 3522 molecular (from nuclear 18S rDNA and 28S rDNA, and mitochondrial 16S rDNA and COI gene sequences) and 70 morphological characters. The resulting trees recover a clade Entiminae with a monophyletic Cylydrorhinini and Premnotrypes branching off early. The tree resulting from parsimony analysis shows a clade of Leptopiini from the Australian region and another clade including taxa mainly distributed in the Palaearctic and Neotropical regions, but in the Bayesian tree the South American and Australian Leptopiini are grouped together. The mainly Palaearctic Entiminae (e.g., Brachyderini, Laparocerini, Otiorhynchini, Peritelini, Polydrusini, Phyllobiini and Sciaphylini) form a subclade separated from Southern Hemisphere taxa. Among the latter, the well-supported Naupactini are the sister group of the South American Tanymecini, excluding Platyaspistes, herein transferred to Leptopiini (new placement). Another well-justified clade is Eustylini–Geonemini, which also includes the enigmatic Galapagonotus, and the genus Artipus, thus corroborating its recent exclusion from Naupactini.

Description: Diversity, Vol. 10, Pages 101: A Tribute to Guillermo (Willy) Kuschel (1918–2017) Diversity doi: 10.3390/d10030101 Authors: Rolf G. Oberprieler Christopher H. C. Lyal Kimberi R. Pullen Mario Elgueta Richard A. B. Leschen Samuel D. J. Brown This tribute commemorates the life and work of Guillermo (Willy) Kuschel, who made substantial contributions to the understanding of weevil systematics, evolution and biology. Willy was born in Chile in 1918 and studied philosophy, theology and biology. He became fascinated by weevils early on and completed his Ph.D. degree on South American Erirhinini. Subsequent employment by the University of Chile provided him with many opportunities to further his weevil research and undertake numerous collecting expeditions, including to remote and rugged locations such as the Juan Fernandez Islands and southern Chile. In 1963 he accepted a position at the Department of Scientific and Industrial Research in New Zealand, where he became Head of the Systematics Group in the Entomology Division. His emphasis on field work and collections led to the establishment of the New Zealand Arthropod Collection, which he guided through its greatest period of expansion. His retirement in 1983 offered him increased opportunities to pursue his weevil research. In 1988 he presented a new scheme of the higher classification of weevils, which ignited and inspired much subsequent research into weevil systematics. The breadth and quality of his research and his huge collecting efforts have left a legacy that will benefit future entomologists, especially weevil workers, for decades to come. This tribute presents a biography of Willy and accounts of his contributions to, and impact on, the systematics of weevils both regionally and globally. All of his publications and the genera and species named after him are listed in two appendices.

Description: Diversity, Vol. 10, Pages 13: Training for Translocation: Predator Conditioning Induces Behavioral Plasticity and Physiological Changes in Captive Eastern Hellbenders (Cryptobranchus alleganiensis alleganiensis) (Cryptobranchidae, Amphibia) Diversity doi: 10.3390/d10010013 Authors: Erin Kenison Rod Williams Translocations are stressful, especially when captive animals are naïve to natural stimuli. Captive eastern hellbenders (Cryptobranchus alleganiensis alleganiensis) identify predatory fish as threats, but may be more vulnerable to predation and stress because of inexperience with them. We investigated the use of predator conditioning to prepare hellbenders, behaviorally and physiologically, for the presence of a common predator, largemouth bass (Micropterus salmoides). We reared hellbenders for 30 d with and without continuous exposure to largemouth bass kairomones and heterospecific alarm cues and found conditioned hellbenders became less active compared to unconditioned individuals (p = 0.017). After conditioning, we exposed hellbenders to water, a low concentration of kairomones, or a high concentration of kairomones in a closed respirometer system. We measured activity within respirometer chambers and routine metabolic rate. We found unconditioned hellbenders exposed to low and high concentrations of kairomones were 41% and 119% more active than conditioned animals (p = 0.002 and p < 0.001). Moreover, conditioned individuals had on average 6.5% lower metabolic rates across all three kairomone concentrations compared to unconditioned individuals (p = 0.017). Our data suggest that predator conditioning induces behavioral avoidance tactics and physiological changes that could improve future translocation efforts for hellbenders and other imperiled species.

Description: Diversity, Vol. 10, Pages 14: Centuries-Old DNA from an Extinct Population of Aesculapian Snake (Zamenis longissimus) Offers New Phylogeographic Insight Diversity doi: 10.3390/d10010014 Authors: Morten Allentoft Arne Rasmussen Hans Kristensen The Aesculapian snake (Zamenis longissimus) is distributed in Central and Southern Europe, the Balkans, Anatolia, and Iran, but had a wider mid-Holocene distribution into Northern Europe. To investigate the genetic affinity of a Danish population that went extinct in historical times, we analysed three ethanol-preserved individuals dating back to 1810 using a silica-in-solution ancient DNA extraction method, combined with next-generation sequencing. Bioinformatic mapping of the reads against the published genome of a related colubrid snake revealed that two of the three specimens contained endogenous snake DNA (up to 8.6% of the reads), and this was evident for tooth, bone, and soft tissue samples. The DNA was highly degraded, observed by very short average sequence lengths (<50 bp) and 11–15% C to T deamination damage at the first 5′ position. This is an effect of specimen age, combined with suboptimal, and possibly damaging, molecular preservation conditions. Phylogeographic analyses of a 1638 bp mtDNA sequence securely placed the two Danish Aesculapian snakes in the Eastern (Balkan glacial refugium) clade within this species, and revealed one previously-undescribed haplotype. These results provide new information on the past distribution and postglacial re-colonization patterns of this species.

Description: Diversity, Vol. 10, Pages 16: Nutrient Removal Efficiency of Rhizophora mangle (L.) Seedlings Exposed to Experimental Dumping of Municipal Waters Diversity doi: 10.3390/d10010016 Authors: Claudia Agraz-Hernández Rodolfo del Río-Rodríguez Carlos Chan-Keb Juan Osti-Saenz Raquel Muñiz-Salazar Mangrove forests are conspicuous components of tropical wetlands that sustain continuous exposure to wastewater discharges commonly of municipal origins. Mangroves can remove nutrients from these waters to fulfill their nutrients demand, although the effects of continuous exposure are unknown. An experimental greenhouse imitating tidal regimes was built to measure the efficiency of mangrove seedlings to incorporate nutrients, growth and above biomass production when exposed to three periodic wastewater discharges. The experiment totaled 112 d. Nutrient removal by the exposed group, such as phosphates, ammonia, nitrites, nitrates and dissolved inorganic nitrogen (97%, 98.35%, 71.05%, 56.57% and 64.36%, respectively) was evident up to the second dumping. By the third dumping, all nutrient concentrations increased in the interstitial water, although significant evidence of removal by the plants was not obtained (p > 0.05). Nutrient concentrations in the control group did not change significantly throughout the experiment (p > 0.05). Treated plants increased two-fold in stem girth when compared to the control (p < 0.05), although control plants averaged higher heights (p < 0.05). Biomass of treated group increased up to 45% against 37% of the control during the duration of the experiment (p < 0.05). We suggest that nutrient removal efficiency of mangroves is linked to the maintenance of oxic conditions in the pore-water because of oxygen transference from their aerial to their subterranean radicular system that facilitates the oxidation of reduced nitrogen compounds and plants uptake. Nevertheless, continuous inflows of wastewater would lead to eutrophication, establishment of anoxic conditions in water and soil, and lessening of nutrient absorption of mangroves.

Description: Diversity, Vol. 10, Pages 17: Genotyping by Sequencing Reasserts the Close Relationship between Tef and Its Putative Wild Eragrostis Progenitors Diversity doi: 10.3390/d10020017 Authors: Dejene Girma Gina Cannarozzi Annett Weichert Zerihun Tadele The genus Eragrostis consists of 350 species, including tef (Eragrostis tef (Zucc.) Trotter), the only cultivated species in this genus. Very little is known about the genetic potential of these species for tef improvement and genomics research. Here, we investigated a germplasm panel consisting of 40 Eragrostis species and 42 tef lines with single nucleotide polymorphism (SNP) data generated using the genotyping by sequencing (GBS) protocol. Thousands of SNPs were identified genome-wide from the germplasm panel. High-quality SNPs were used to assess sequence similarity and/or divergence, genetic diversity, population structure, and phylogenetic relationships. Mapping individual reads to the tef reference genome revealed that of the 40 wild Eragrostis species included in this study, E. pilosa, E. aethiopica, E. obtusa, E. ferruginea, E. lugens, and E. lehmanniana had 92% of their sequences represented in the tef reference genome. In the maximum likelihood phylogenetic analysis, these wild species clearly showed grouping in the clade consisting of the entire tef germplasm. Population structure analysis showed two major clusters consistent with the germplasm class information and the inferred phylogenetic relationships. The wild Eragrostis species were more diverse than the tef cultivars and could therefore potentially be used to enrich the tef gene pool. The SNP dataset and the results documented here are taxonomically the most inclusive to date and could be a useful informational tool for the design of genomics-informed tef breeding and research.

Description: Diversity, Vol. 10, Pages 18: The Functional Impact of Transposable Elements on the Diversity of Plant Genomes Diversity doi: 10.3390/d10020018 Authors: Dariusz Grzebelus Transposable elements (TEs) are self-mobilized DNA sequences that constitute a large portion of plant genomes. Being selfish DNA, they utilize different mobilization mechanisms to persist and proliferate in host genomes. It is important that new TE insertions generate de novo variability, most of which is likely to be deleterious, but some can be advantageous. Also, a growing body of evidence shows that TEs were continually recruited by their hosts to provide additional functionality. Here, we review potential ways in which transposable elements can provide novel functions to host genomes, from simple gene knock-outs to complex rewiring of gene expression networks. We discuss possible implications of TE presence and activity in crop genomes for agricultural production.

Description: Diversity, Vol. 10, Pages 12: Twenty Years of Tomato Breeding at EPSO-UMH: Transfer Resistance from Wild Types to Local Landraces—From the First Molecular Markers to Genotyping by Sequencing (GBS) Diversity doi: 10.3390/d10010012 Authors: Pedro Carbonell Aranzazu Alonso Adrián Grau Juan Salinas Santiago García-Martínez Juan Ruiz In 1998, the plant breeding team at the School of Engineering of Orihuela (EPSO), part of the Miguel Hernández University (UMH) in Elche, commenced a tomato breeding program. Marker-assisted selection and backcrossing were used to simultaneously introduce three genes (Tm-2a, Ty-1, and Sw-5) that confer resistance to relevant viruses, such as tomato mosaic virus (ToMV), tomato yellow curl virus (TYLCV), and tomato spotted wilt virus (TSWV), to traditional varieties of local tomatoes, specifically the “Muchamiel” and the “De la pera” types. After each backcross, cleaved amplified polymorphic sequence (CAPS) molecular markers were used to select the plants with the resistance genes of interest. A previously described marker was used for TSWV, and new markers were designed for ToMV, and TYLCV using available sequences in the National Center for Biotechnology Information (NCBI) database. In parallel to the breeding program, several molecular markers—Sequence Related Amplified Polymorphism (SRAP), Simple Sequence Repeats (SSRs), Amplified Fragment Length Polymorphisms (AFLPs), Single Nucleotide Polymorphisms (SNPs), and (GATA)4 probes—were used to study genetic variability, and to identify a collection of Spanish and Italian traditional tomato varieties. The results showed a limited genetic variability among cultivated tomato varieties. The breeding lines Muchamiel UMH 1200, and De la pera 1203 (both with homozygous resistance to the three viruses) were the first new varieties that were obtained. They were included in the Register of Protected Plant Varieties in 2013. Lines without a resistance to TYLCV were also developed, and protected in 2017. We have begun to use SNP massive genotyping for studies of genetic association, and for selecting plants with the Ty-1 gene with less linkage drag. Molecular markers have been extremely useful in identifying the different steps of the tomato breeding program at EPSO-UMH.

Description: Diversity, Vol. 10, Pages 2: Acknowledgement to Reviewers of Diversity in 2017 Diversity doi: 10.3390/d10010002 Authors: Diversity Editorial Office Peer review is an essential part in the publication process, ensuring that Diversity maintains high quality standards for its published papers.[...]

Description: Diversity, Vol. 10, Pages 4: The Contribution of Professor Gian Tommasso Scarascia Mugnozza to the Conservation and Sustainable Use of Biodiversity Diversity doi: 10.3390/d10010004 Authors: Mario Pagnotta Arshiya Noorani During his lifetime, Professor Scarascia Mugnozza contributed significantly to the field of population genetics, his research ranging from wheat breeding in arid and semi-arid regions, to the conservation of forest ecosystems. He promoted regional networks across the Mediterranean, linking science and policy at national and international levels, focusing on the conservation and sustainable use of genetic diversity. In addition, he worked intensely on improvement of knowledge bases, raising awareness on how research could inform international agreements, and thus lead to evidence-based policies. The loss of biodiversity and the resulting implications for environmental, socio-economic, political, and ethical management of plant genetic resources were of major concern, and he highlighted the absolute necessity for conservation of genetic diversity, stressing the importance of building positive feedback linkages among ex situ, in situ, on-farm conservation strategies, and participatory approaches at the community level. His work emphasized the importance of access to diverse plant genetic resources by researchers and farmers, and promoted equitable access to genetic resources through international frameworks. Farmers’ rights, especially those in centres of origin and diversity of cultivated plants, were a key concern for Professor Scarascia Mugnozza, as their access to germplasm needed to be secured as custodians of diversity and the knowledge of how to use these vital resources. Consequently, he promoted the development of North-South cooperation mechanisms and platforms, including technology transfer and the sharing of information of how to maintain and use genetic resources sustainably.

Description: Diversity, Vol. 10, Pages 6: Evaluation of Conspecific Attraction as a Management Tool across Several Species of Anurans Diversity doi: 10.3390/d10010006 Authors: Valerie Buxton Michael Ward Jinelle Sperry Amphibian populations are declining worldwide, with habitat loss and alteration being a primary driver of many declines. Management strategies to mitigate these declines include translocation and creation or restoration of breeding habitats, yet these techniques are not always effective. We examined whether conspecific attraction—a management tool frequently used in avian conservation—would be similarly valuable in management and conservation of anuran amphibians (i.e., frogs and toads). We broadcast conspecific chorus sounds at unoccupied, artificial breeding ponds for six anuran species across three field sites. We documented when frogs arrived at each pool and when eggs were laid. We compared differences in number of pools found with adults and egg masses between playback and control pools and examined latency to first colonization. We found that Mexican spadefoots colonized playback ponds faster and more often than control ponds, while Cope’s gray treefrogs, Arizona treefrogs, green frogs, spring peepers, and wood frogs exhibited weak or non-existent responses. We discuss why breeding ecology may influence tendency to exhibit conspecific attraction and how this behavior could be used in amphibian management and conservation.

Description: Diversity, Vol. 9, Pages 37: Dispersal, Isolation, and Interaction in the Islands of Polynesia: A Critical Review of Archaeological and Genetic Evidence Diversity doi: 10.3390/d9030037 Authors: K. Horsburgh Mark McCoy Integration of archaeology, modern genetics, and ancient DNA holds promise for the reconstruction of the human past. We examine the advances in research on the indigenous peoples of Polynesia to determine: (1) what do archaeological and genetic data (ancient and modern DNA) tell us about the origins of Polynesians; and, (2) what evidence is there for long-distance travel and contacts between Polynesians and indigenous populations of the Americas? We note that the general dispersal pattern of founding human populations in the remote islands of the Pacific and long-distance interaction spheres continue to reflect well-established models. New research suggests that the formation of an Ancestral Polynesia Culture in Western Polynesia may have involved differential patterns of dispersal followed by significant later migrations. It has also been suggested that the pause between the settlement of Western and Eastern Polynesia was centuries longer than currently thought, followed by a remarkably rapid pulse of island colonization. Long-distance travel between islands of the Pacific is currently best documented through the sourcing of artifacts, while the discovery of admixture of Native American DNA within the genome of the people from Easter Island (Rapa Nui) is strong new evidence for sustained contacts between Polynesia and the Americas.

Description: Diversity, Vol. 9, Pages 38: NGS-Based Genotyping, High-Throughput Phenotyping and Genome-Wide Association Studies Laid the Foundations for Next-Generation Breeding in Horticultural Crops Diversity doi: 10.3390/d9030038 Authors: Nunzio D’Agostino Pasquale Tripodi Demographic trends and changes to climate require a more efficient use of plant genetic resources in breeding programs. Indeed, the release of high-yielding varieties has resulted in crop genetic erosion and loss of diversity. This has produced an increased susceptibility to severe stresses and a reduction of several food quality parameters. Next generation sequencing (NGS) technologies are being increasingly used to explore “gene space” and to provide high-resolution profiling of nucleotide variation within germplasm collections. On the other hand, advances in high-throughput phenotyping are bridging the genotype-to-phenotype gap in crop selection. The combination of allelic and phenotypic data points via genome-wide association studies is facilitating the discovery of genetic loci that are associated with key agronomic traits. In this review, we provide a brief overview on the latest NGS-based and phenotyping technologies and on their role to unlocking the genetic potential of vegetable crops; then, we discuss the paradigm shift that is underway in horticultural crop breeding.

Description: Diversity, Vol. 9, Pages 33: An eDNA-Based SNP Assay for Ungulate Species and Sex Identification Diversity doi: 10.3390/d9030033 Authors: Ruth Nichols Göran Spong Many processes in wild populations are difficult to study. Genetic data, often non-invasively collected, may provide a solution to these difficulties and are increasingly used to study behavioral, demographic, ecological, and evolutionary processes. Moreover, the improved sensitivity of genetic methods now allows analyses of trace amounts of DNA left by animals in their environment (e.g., saliva, urine, epithelial cells). Environmental DNA (eDNA) thus offers new opportunities to study a range of historic and contemporary questions. Here, we present a species and sex diagnostic kit for studying browsing in a multispecies temperate ungulate assemblage. Using mitochondrial sequences deposited in Genbank, we developed four single nucleotide polymorphisms (SNPs) for identifying four temperate ungulate species. We also sequenced portions of the Amelogenin gene on the X- and Y-chromosomes and developed six SNPs (three on the X-chromosome and three on the Y-chromosome) for sex determination. We tested the SNP assays on high and low quality/quantity DNA samples.

Description: Diversity, Vol. 9, Pages 31: 16S rRNA Gene-Based Metagenomic Analysis of Ozark Cave Bacteria Diversity doi: 10.3390/d9030031 Authors: Cássia Oliveira Lauren Gunderman Cathryn Coles Jason Lochmann Megan Parks Ethan Ballard Galina Glazko Yasir Rahmatallah Alan Tackett David Thomas The microbial diversity within cave ecosystems is largely unknown. Ozark caves maintain a year-round stable temperature (12–14 °C), but most parts of the caves experience complete darkness. The lack of sunlight and geological isolation from surface-energy inputs generate nutrient-poor conditions that may limit species diversity in such environments. Although microorganisms play a crucial role in sustaining life on Earth and impacting human health, little is known about their diversity, ecology, and evolution in community structures. We used five Ozark region caves as test sites for exploring bacterial diversity and monitoring long-term biodiversity. Illumina MiSeq sequencing of five cave soil samples and a control sample revealed a total of 49 bacterial phyla, with seven major phyla: Proteobacteria, Acidobacteria, Actinobacteria, Firmicutes, Chloroflexi, Bacteroidetes, and Nitrospirae. Variation in bacterial composition was observed among the five caves studied. Sandtown Cave had the lowest richness and most divergent community composition. 16S rRNA gene-based metagenomic analysis of cave-dwelling microbial communities in the Ozark caves revealed that species abundance and diversity are vast and included ecologically, agriculturally, and economically relevant taxa.

Description: Diversity, Vol. 9, Pages 32: Venetian Local Corn (Zea mays L.) Germplasm: Disclosing the Genetic Anatomy of Old Landraces Suited for Typical Cornmeal Mush Production Diversity doi: 10.3390/d9030032 Authors: Fabio Palumbo Giulio Galla Liliam Martínez-Bello Gianni Barcaccia Due to growing concern for the genetic erosion of local varieties, four of the main corn landraces historically grown in Veneto (Italy)—Sponcio, Marano, Biancoperla and Rosso Piave—were characterized in this work. A total of 197 phenotypically representative plants collected from field populations were genotyped at 10 SSR marker loci, which were regularly distributed across the 10 genetic linkage groups and were previously characterized for high polymorphism information content (PIC), on average equal to 0.5. The population structure analysis based on this marker set revealed that 144 individuals could be assigned with strong ancestry association (>90%) to four distinct clusters, corresponding to the landraces used in this study. The remaining 53 individuals, mainly from Sponcio and Marano, showed admixed ancestry. Among all possible pairwise comparisons of individual plants, these two landraces exhibited the highest mean genetic similarity (approximately 67%), as graphically confirmed through ordination analyses based on PCoA centroids and UPGMA trees. Our findings support the hypothesis of direct gene flow between Sponcio and Marano, likely promoted by the geographical proximity of these two landraces and their overlapping cultivation areas. Conversely, consistent with its production mainly confined to the eastern area of the region, Rosso Piave scored the lowest genetic similarity (<59%) to the other three landraces and firmly grouped (with average membership of 89%) in a separate cluster, forming a molecularly distinguishable gene pool. The elite inbred B73 used as tester line scored very low estimates of genetic similarity (on average <45%) with all the landraces. Finally, although Biancoperla was represented at K = 4 by a single subgroup with individual memberships higher than 80% in almost all cases (57 of 62), when analyzed with an additional level of population structure for K = 6, it appeared to be entirely (100%) constituted by individuals with admixed ancestry. This suggests that the current population could be the result of repeated hybridization events between the two accessions currently bred in Veneto. The genetic characterization of these heritage landraces should prove very useful for monitoring and preventing further genetic erosion and genetic introgression, thus preserving their gene pools, phenotypic identities and qualitative traits for the future.

Description: Diversity, Vol. 9, Pages 35: A Comparative Analysis of Viral Richness and Viral Sharing in Cave-Roosting Bats Diversity doi: 10.3390/d9030035 Authors: Anna Willoughby Kendra Phelps PREDICT Consortium Kevin Olival Caves provide critical roosting habitats for bats globally, but are increasingly disturbed or destroyed by human activities such as tourism and extractive industries. In addition to degrading the habitats of cave-roosting bats, such activities often promote contact between humans and bats, which may have potential impacts on human health. Cave-roosting bats are hosts to diverse viruses, some of which emerged in humans with severe consequences (e.g., severe acute respiratory syndrome coronavirus and Marburg virus). Characterizing patterns of viral richness and sharing among bat species are therefore important first steps for understanding bat-virus dynamics and mitigating future bat-human spillover. Here we compile a database of bat-virus associations and bat species ecological traits, and investigate the importance of roosting behavior as a determinant of viral richness and viral sharing among bat species. We show that cave-roosting species do not host greater viral richness, when accounting for publication bias, diet, body mass, and geographic range size. Our global analyses, however, show that cave-roosting bats do exhibit a greater likelihood of viral sharing, especially those documented in the literature as co-roosting in the same cave. We highlight the importance of caves as critical foci for bat conservation, as well as ideal sites for longitudinal surveillance of bat-virus dynamics.