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  • 1
    Publication Date: 2024-05-05
    Description: During expedition EMB201 in the Baltic Sea we investigated the local producers of glycerol dialkyl glycerol tetraethers (GDGT) and their thriving depth by a combined 16S rRNA gene amplicon sequencing/ CARD-FISH and lipidomic approach. Water samples were taken in December 2018 by a pump-CTD, a giant water sampler and with Niskin bottles at the surface, suboxic and sulfidic zones of the Landsort Deep, Fårö Basin and East Gotland Basin. This data set contains the CARD-FISH and lipidomics data, while the 16S rRNA gene sequencing data is available on ENA. Cell abundance was analysed in an aliquot of 40 ml filtered (pore size 0.22 micro m) sea water fixed with particle-free formaldehyde. Archaeal cells on the filters were specifically hybridized via catalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH) using the Cren537 probe. Cells on the hybridized filter were counter-stained with 40,6-diamidin-2-phenylindol (DAPI). For lipid analysis, 150–600 L sea water were filtered with a flow rate of 1.5 L min-1 on pre-ashed, 142-mm-diameter, 0.7µm pore size glass fibre GF/F filters, and frozen at –20 °C. The filters were lyophilized before different extraction methods were used to obtain intact and core GDGTs by ultra-sonification in different solvent mixtures. The combined supernatants were phase separated before analysis by high performance liquid chromatography coupled to tandem mass spectrometry (HPLC-MS2) for intact polar lipids and by high performance liquid chromatography coupled to atmospheric pressure chemical ionization mass spectrometry (HPLC APCI-MS; ThermoScientific) for core GDGTs.
    Keywords: Archaea; Baltic Sea; BaltRap; BUCKET; Bucket water sampling; CARD-FISH; Catalyzed reporter deposition fluorescence in situ hybridisation (CARD-FISH); Cells, 4',6-Diamidin-2-phenylindol stained; Core acyclic glycerol dialkyl glycerol tetraether; Core crenarchaeol; Core crenarchaeol regio-isomer; Core dicyclic glycerol dialkyl glycerol tetraether; core lipids; Core monocyclic glycerol dialkyl glycerol tetraether; Core tricyclic glycerol dialkyl glycerol tetraether; Crenarchaeota, targeted with Cren537 oligonucleotide FISH-probe; CTD, Sea-Bird, SBE 911plus; CTD/Rosette; CTD-RO; DATE/TIME; DEPTH, water; Dihexose acyclic glycerol dialkyl glycerol tetraether; Dihexose-archaeol; Dihexose crenarchaeol; Dihexose dicyclic glycerol dialkyl glycerol tetraether; Dihexose monocyclic glycerol dialkyl glycerol tetraether; Dihexose tricyclic glycerol dialkyl glycerol tetraether; Eastern Gotland Basin; Elisabeth Mann Borgese; EMB201; EMB201_10-3; EMB201_10-9; EMB201_12-0; EMB201_12-4; EMB201_12-5; EMB201_5-3; EMB201_7-0; EMB201_7-1; EMB201_9-0; EMB201_9-1; Event label; Fårö Basin; glycerol dialkyl glycerol tetraethers; GOFLO; Go-Flo bottles; GPUMP; High performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC; Intact polar lipids; Landsort Deep; LATITUDE; LC-MS/MS; Location; LONGITUDE; Monohexose acyclic glycerol dialkyl glycerol tetraether; Monohexose-archaeol; Monohexose crenarchaeol; Monohexose crenarchaeol regio-isomer; Monohexose dicyclic glycerol dialkyl glycerol tetraether; Monohexose-macroarchaeol; Monohexose monocyclic glycerol dialkyl glycerol tetraether; Monohexose tricyclic glycerol dialkyl glycerol tetraether; Other event; Oxygen, dissolved; Phosphohexose acyclic glycerol dialkyl glycerol tetraether; Phosphohexose crenarchaeol; Phosphohexose dicyclic glycerol dialkyl glycerol tetraether; Phosphohexose monocyclic glycerol dialkyl glycerol tetraether; Phosphohexose tricyclic glycerol dialkyl glycerol tetraether; Sample code/label; Ships non-toxic pump; Site; Stat. 06; Stat. TF 271 Stat. 4; Station 04 (TF 271); Station 09; Station label; Temperature, water; Ultra high performance liquid chromatography (UHPLC), Dionex Corporation, UltiMate 3000 RS; coupled with Single quadrupole mass spectrometer, Thermo Scientific, MSQ Plus
    Type: Dataset
    Format: text/tab-separated-values, 371 data points
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  • 2
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    Universidade Estadual de Maringá. Departamento de Biologia. Programa de Pós-Graduação em Ecologia de Ambientes Aquáticos Continentais.
    Publication Date: 2024-05-04
    Description: Cichlids have evolved into models for studying the evolutionary history of Neotropical fish. Many authors attempted to recover the group's phylogeny using morphological and molecular data, presenting satisfying solutions across a wide range of genera. However, intrageneric relationships remain obscure in a number of genus, potentially complicating species delimitation. Mesonauta presents six distinct species that are highly valued by aquarists. Currently, there is no proposed phylogenetic relationship between its species; however, it has a wide geographic distribution and phenotypic variations, with the possibility of new species not yet described. Species of the genus were delimited using molecular and morphometric data from preserved and deposited species in ichthyological collections. From the six previously described species, COI delimitate different species, since two of them (Mesonauta egregius and M. guyanae) were not corroborated by delimitation analysis and two are putative new species, showing six different species: M. mirificus, M. festivus, Mesonauta sp. “Pantanal”, M. acora, Mesonauta sp. “Amapá” and M. insignis. The results showed a new basis for studies within the genus and further research is needed to understand the wide distribution of M. mirificus. Mesonauta's monophyly was tested and the relationships between species by constructing concatenated cladograms based on molecular characters (COI, 16S) using three phylogenetic methods, from which two main clades were recovered a new species of Mesonauta was described from the Amapá Grande river basin, based on morphological and molecular characteristics, in a region affected by the presence of mercury. This is the first step in investigating the molecular phylogeny of Mesonauta, which showed intrageneric relationships based on molecular data, enabled the description of a new species of the genus and provided information for future research on the evolutionary history of the group.
    Description: Ciclídeos tornaram-se modelos para o estudo da história evolutiva de peixes da região Neotropical. Muitos autores têm tentado recuperar a filogenia do grupo com dados morfológicos e moleculares, apresentando resoluções satisfatórias entre muitos gêneros. Entretanto, as relações de parentesco intragenéricas ainda permanecem obscuras para vários gêneros, o que pode dificultar até mesmo a delimitação das espécies. Mesonauta apresenta seis espécies válidas, muito apreciadas pelos aquaristas. Atualmente não há nenhuma proposta filogenética de relações entre suas espécies e o gênero apresenta ampla distribuição geográfica e variações fenotípicas, com possíveis espécies novas não descritas. Foram delimitadas as espécies do gênero, a partir de dados moleculares e morfométricos de espécimes conservados e depositados em coleções ictiológicas. Das seis espécies descritas anteriormente, o COI delimita espécies diferentes, uma vez que duas delas (Mesonauta egregius e M. guyanae) não foram corroboradas pela análise de delimitação e duas são supostas espécies novas, mostrando seis diferentes espécies: Mesonauta mirificus, M. festivus, Mesonauta sp. “Pantanal”, M. acora, Mesonauta sp. “Amapá” and M. insignis. Os resultados mostraram uma nova base para estudos dentro do gênero e novas pesquisas são necessárias para entender a ampla distribuição de M. mirificus. Foi testado o monofiletismo de Mesonauta e as relações entre as espécies, com a construção de cladogramas baseados em caracteres moleculares (COI, 16S) utilizando três métodos filogenéticos, dos quais dois clados principais foram recuperados. Uma espécie nova de Mesonauta foi descrita da bacia do rio Amapá Grande, baseada em características morfológicas e moleculares, em uma região afetada pela presença de mercúrio. Este é o primeiro passo na investigação da filogenia molecular de Mesonauta, que mostrou relações intragenéricas baseadas em dados moleculares, possibilitou a descrição de uma espécie nova do gênero e forneceu informações para futuras pesquisas sobre a história evolutiva do grupo.
    Description: PhD
    Keywords: Mesonauta Günther 1862 (Cichliformes: Cichlidae: Cichlinae) "acará, cará" ; Peixes de água doce ; Sistemática filogenética ; Delimitação de espécies ; Descrição de espécies ; ASFA_2015::F::Freshwater fish ; ASFA_2015::F::Freshwater ecology ; ASFA_2015::S::Species ; ASFA_2015::S::Systematics ; ASFA_2015::T::Taxonomy ; ASFA_2015::P::Phylogeny
    Repository Name: AquaDocs
    Type: Thesis/Dissertation
    Format: 197pp.
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  • 3
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    In:  Blumea: Biodiversity, Evolution and Biogeography of Plants vol. 67 no. 1, pp. 33-36
    Publication Date: 2024-05-04
    Description: Gomphostemma phetchaburiense, a new species from Phetchaburi Province, Thailand, is described and illustrated. A key to the species of Gomphostemma in Thailand is provided and conservation status and the dimorphic leaf characters are discussed.
    Keywords: Plant Science ; Ecology ; Evolution ; Behavior and Systematics ; convective heat ; Gomphostemma ; Lamiaceae ; leaf serration ; limestone ; Primulina
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 4
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    Naturalis Biodiversity Center
    In:  Blumea: Biodiversity, Evolution and Biogeography of Plants vol. 67 no. 1, pp. 20-25
    Publication Date: 2024-05-04
    Description: A revision of Leptopus and Notoleptopus (Phyllanthaceae tribe Poranthereae) in Malesia is presented. Both genera are present with a single species in Malesia, L. australis and N. decasnei, respectively. Phylogenetically the two genera are distinct, but morphologically their differences are minimal. Nomenclature, descriptions, distributions and various notes are presented, just as a technical drawing of both species.
    Keywords: Plant Science ; Ecology ; Evolution ; Behavior and Systematics ; Leptopus ; Malesia ; Phyllanthaceae ; Poranthereae ; revision ; taxonomy
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 5
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    Naturalis Biodiversity Center
    In:  Blumea: Biodiversity, Evolution and Biogeography of Plants vol. 68 no. 2, pp. 73-84
    Publication Date: 2024-05-04
    Description: Detailed morphological and molecular research has led to the conclusion that the majority of the species of the genus Brachiaria have to move to the much smaller genus Urochloa. Although many of the necessary new combinations were made, in Africa a fair number of accepted species still do not yet have a name within Urochloa. Following work on WestAfrica, CentralAfrica and Madagascar, this paper now provides these new combinations for the remaining sub-SaharanAfrican species, as well as a full synonymy for all EastAfrican ones, including typification. In total, the paper deals with 40 species, for 12 of these new combinations are created, while 55 lectotypes and one neotype of both accepted names and synonyms are designated.
    Keywords: Africa ; grasses ; nomenclature ; Paniceae ; taxonomy ; typification
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 6
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    Naturalis Biodiversity Center
    In:  Persoonia - Molecular Phylogeny and Evolution of Fungi vol. 45, pp. 46-67
    Publication Date: 2024-05-04
    Description: Strains with a yeast-like appearance were frequently collected in two surveys on the biodiversity of fungi in Germany, either associated with necroses in wood of Prunus trees in orchards in Saxony, Lower Saxony and Baden-Württemberg or captured in spore traps mounted on grapevine shoots in a vineyard in Rhineland-Palatinate. The morphology of the strains was reminiscent of the genus Collophorina: all strains produced aseptate conidia on integrated conidiogenous cells directly on hyphae, on discrete phialides, adelophialides and by microcyclic conidiation, while in some strains additionally endoconidia or conidia in conidiomata were observed. Blastn searches with the ITS region placed the strains in the Leotiomycetes close to Collophorina spp. Analyses based on morphological and multi-locus sequence data (LSU, ITS, EF-1α, GAPDH) revealed that the 152 isolates from wood of Prunus spp. belong to five species including C. paarla, C. africana and three new species. A further ten isolates from spore traps belonged to seven new species, of which one was isolated from Prunus wood as well. However, a comparison with both LSU and ITS sequence data of these collophorina-like species with reference sequences from further Leotiomycetes revealed the genus Collophorina to be polyphyletic and the strains to pertain to several genera within the Phacidiales. Collophorina paarla and C. euphorbiae are transferred to the newly erected genera Pallidophorina and Ramoconidiophora, respectively. The new genera Capturomyces, Variabilispora and Vexillomyces are erected to accommodate five new species isolated from spore traps. In total nine species were recognised as new to science and described as Collophorina badensis, C. germanica, C. neorubra, Capturomyces funiculosus, Ca. luteus, Tympanis inflata, Variabilispora flava, Vexillomyces palatinus and V. verruculosus.
    Keywords: Ecology ; Evolution ; Behavior and Systematics ; Collophora ; morphology ; multi-locus phylogeny ; new taxa ; species diversity ; systematics
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 7
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    Naturalis Biodiversity Center
    In:  Blumea: Biodiversity, Evolution and Biogeography of Plants vol. 66 no. 3, pp. 249-262
    Publication Date: 2024-05-04
    Description: According to recent taxonomic treatments, up to 13 Nymphoides species exist in eastern Asia, with some species purported to be narrowly endemic. However, these treatments have largely covered rather limited geographic areas, whereas the genus can be found worldwide. In order to evaluate the global distinctness of currently accepted Nymphoides species in easternAsia, we quantitatively examined their distinguishing morphological characters using information from published treatments and data from herbarium specimens. Out of 13 evaluated species, nine were found to be morphologically distinct (N. aurantiaca, N. cambodiana, N. coreana, N. hastata, N. hydrophylla, N. indica, N. lungtanensis, N. parviflora, N. peltata), and the remaining species (N. coronata, N. cristata, N. siamensis, N. tonkinensis) lacked characters that clearly could distinguish them. We thus propose that the morphologically indistinct species should be considered synonymous with other Nymphoides species. Herein we establish N. parviflora comb. nov., to accommodate the species that was heretofore known by the invalid name N. parvifolia. Lectotypes are designated for Limnanthemum calycinum, L. coreanum, L. coronatum, L. hastatum, L. kleinianum, and L. tonkinense, and neotypes are designated for Menyanthes hydrophylla and M. nymphoides.
    Keywords: Plant Science ; Ecology ; Evolution ; Behavior and Systematics ; Cambodia ; China ; endemism ; Laos ; Nymphoides ; Thailand ; Vietnam
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 8
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    Naturalis Biodiversity Center
    In:  Persoonia - Molecular Phylogeny and Evolution of Fungi vol. 44, pp. 113-139
    Publication Date: 2024-05-04
    Description: Strobilomyces is broadly distributed geographically and serves an important ecological function. However, it has been difficult to delimit species within the genus, primarily due to developmental variations and phenotypic plasticity. To elucidate phylogenetic relationships among species within the genus and to understand its species diversity, especially in Asia, materials of the genus collected from five continents (Africa, Asia, Australia, Europe, and North/Central America) were investigated. The phylogeny of Strobilomyces was reconstructed based on nucleotide sequences of four genes coding for: the largest and the second largest subunits of the RNA polymerase II (RPB1 and RPB2); the translation elongation factor subunit 1-α (TEF1); and the mitochondrial cytochrome oxidase subunit 3 (COX3). The combined results based on molecular phylogenetics, morphological characters, host tree associations, and geographical distribution patterns support a new classification consisting of two sections, sect. Strobilomyces and sect. Echinati. Using the genealogical concordance phylogenetic species recognition (GCPSR) approach, at least 33 phylogenetic species in Asia can be delimited, all of which are supported by morphological features, and five phylogenetic species remain to be described. The mountainous region of Southwest China is especially special, containing at least 21 species and likely represents a centre of diversification. We further compared our specimens with the type specimens of 25 species of Strobilomyces. Our comparisons suggest that, there are a total of 31 distinct species, while S. sanmingensis, S. verruculosus, S. subnigricans, and S. zangii/S. areolatus, are synonyms of S. mirandus, S. giganteus, S. alpinus and S. seminudus, respectively. Eight new species, namely, S. albidus, S. anthracinus, S. calidus, S. cingulatus, S. densisquamosus, S. douformis, S. microreticulatus and S. pinophilus, are described. A dichotomous key to the Asian Strobilomyces species is provided.
    Keywords: Ecology ; Evolution ; Behavior and Systematics ; Boletes ; ectomycorrhizal fungi ; infrageneric treatment ; morphological characters ; taxonomy
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 9
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    Naturalis Biodiversity Center
    In:  Blumea: Biodiversity, Evolution and Biogeography of Plants vol. 66 no. 2, pp. 107-221
    Publication Date: 2024-05-04
    Description: This taxonomic revision of the continental African species of Monanthotaxis (Annonaceae) includes 79 species and one variety. Thirteen new species (M. aestuaria, M. bidaultii, M. confusa, M. glabra, M. hexamera, M. mcphersonii, M. quasilanceolata, M. sterilis, M. submontana, M. suffruticosa, M. ursus, M. vulcanica and M. wieringae) are described and 5 new combinations (M. biglandulosa, M. kenyensis, M. ochroleuca, M. pynaertii and M. seretii) are made. The genus Monanthotaxis consists of lianas or lianescent shrubs. It occurs throughout forests in tropical Africa and the highest species diversity is found in the Western Central African rain forests. A key for flowering material is provided, just like a synoptic key including 45 characters. Topics included in the revision are the history of the taxonomy of Monanthotaxis, morphology, leaf anatomy, floral biology, distribution and habitat, phylogeny and finally ethnobotany and phytochemistry. Each species is fully described including synonymy, notes on distribution, habitat & ecology, vernacular names, uses and a preliminary IUCN conservation status. Distribution maps are provided for all species, illustrations for 48 species and photographs of 22 species. An index of exsiccatae and an index of the scientific names are included at the end.
    Keywords: Plant Science ; Ecology ; Evolution ; Behavior and Systematics ; distributions ; ethnobotany ; floral biology ; habitat ; leaf anatomy ; morphology ; phylogeny ; phytochemistry ; pollination ; seed dispersion
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 10
    Publication Date: 2024-05-04
    Keywords: Aluminium oxide; Archive of Ocean Data; ARCOD; Ashadze hydrothermal field; Calculated; CAMECA electron microprobe; Chromium(III) oxide; Dredge; DRG; Elevation of event; Elevation of event 2; Event label; Iron oxide, FeO; Latitude of event; Longitude of event; Magnesium number; Magnesium oxide; Manganese oxide; Nickel oxide; PL22; PL22-1040; PL22-1086; PL26; PL26-1419; PL26-1448; PL26-1454; Pourquoi Pas ? (2005); Professor Logachev; Rock type; Sample code/label; SeDr5; Serpentine; Silicon dioxide; Strontium carbonate, strontianite; Sum; Titanium dioxide; Vanadium(III) oxide; Zinc oxide
    Type: Dataset
    Format: text/tab-separated-values, 329 data points
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