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  • Public Library of Science  (45,333)
  • American Physical Society (APS)  (37,820)
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  • 2015-2019  (84,826)
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  • 1940-1944  (100)
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  • 1943  (100)
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  • 2015-2019  (84,826)
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  • 1940-1944  (100)
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  • 1
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 275-294 
    ISSN: 0066-4278
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 2
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 253-274 
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  • 3
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 345-356 
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  • 4
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 321-344 
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  • 5
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 1-26 
    ISSN: 0066-4154
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  • 6
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 27-44 
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  • 7
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 45-80 
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  • 8
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 81-92 
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  • 9
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 93-114 
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  • 10
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 135-156 
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  • 11
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 115-134 
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  • 12
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 157-182 
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  • 13
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 183-204 
    ISSN: 0066-4154
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 14
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 205-232 
    ISSN: 0066-4154
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  • 15
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 233-250 
    ISSN: 0066-4154
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  • 16
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 273-304 
    ISSN: 0066-4154
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 17
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 305-352 
    ISSN: 0066-4154
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 18
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 251-272 
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  • 19
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 353-396 
    ISSN: 0066-4154
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 20
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 397-424 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 21
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 425-446 
    ISSN: 0066-4154
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 22
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 447-472 
    ISSN: 0066-4154
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 23
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 473-492 
    ISSN: 0066-4154
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 24
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 493-528 
    ISSN: 0066-4154
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 25
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 529-550 
    ISSN: 0066-4154
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 26
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 587-614 
    ISSN: 0066-4154
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 27
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 551-586 
    ISSN: 0066-4154
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 28
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 639-660 
    ISSN: 0066-4154
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  • 29
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biochemistry 12 (1943), S. 615-638 
    ISSN: 0066-4154
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  • 30
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 1-16 
    ISSN: 0066-4278
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  • 31
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 17-34 
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  • 32
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 79-104 
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  • 33
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 123-132 
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  • 34
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 105-122 
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  • 35
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 181-206 
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  • 36
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 133-156 
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  • 37
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 157-180 
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  • 38
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 207-228 
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  • 39
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 229-252 
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  • 40
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 295-320 
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  • 41
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 357-372 
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  • 42
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 399-412 
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  • 43
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 373-398 
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  • 44
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 413-452 
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  • 45
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 63-78 
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  • 46
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 35-62 
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  • 47
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 479-539 
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  • 48
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 465-478 
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  • 49
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Physiology 5 (1943), S. 453-464 
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  • 50
    Publication Date: 2017-04-04
    Description: In recent years, an increasing number of surveys have definitively confirmed the seasonal presence of fin whales (Balaenoptera physalus) in highly productive regions of the Mediterranean Sea. Despite this, very little is yet known about the routes that the species seasonally follows within the Mediterranean basin and, particularly, in the Ionian area. The present study assesses for the first time fin whale acoustic presence offshore Eastern Sicily (Ionian Sea), throughout the processing of about 10 months of continuous acoustic monitoring. The recording of fin whale vocalizations was made possible by the cabled deep-sea multidisciplinary observatory, “NEMO-SN1”, deployed 25 km off the Catania harbor at a depth of about 2,100 meters. NEMO-SN1 is an operational node of the European Multidisciplinary Seafloor and water-column Observatory (EMSO) Research Infrastructure. The observatory was equipped with a low-frequency hydrophone (bandwidth: 0.05 Hz–1 kHz, sampling rate: 2 kHz) which continuously acquired data from July 2012 to May 2013. About 7,200 hours of acoustic data were analyzed by means of spectrogram display. Calls with the typical structure and patterns associated to the Mediterranean fin whale population were identified and monitored in the area for the first time. Furthermore, a background noise analysis within the fin whale communication frequency band (17.9–22.5 Hz) was conducted to investigate possible detection-masking effects. The study confirms the hypothesis that fin whales are present in the Ionian Sea throughout all seasons, with peaks in call detection rate during spring and summer months. The analysis also demonstrates that calls were more frequently detected in low background noise conditions. Further analysis will be performed to understand whether observed levels of noise limit the acoustic detection of the fin whales vocalizations, or whether the animals vocalize less in the presence of high background noise.
    Description: Published
    Description: e0141838
    Description: 3A. Ambiente Marino
    Description: JCR Journal
    Description: open
    Keywords: Whales ; Bioacoustics ; Background noise (acoustics) ; Acoustic signals ; Sperm whales ; Vocalization ; Acoustics ; Data acquisition ; 03. Hydrosphere::03.01. General::03.01.08. Instruments and techniques ; 03. Hydrosphere::03.02. Hydrology::03.02.04. Measurements and monitoring ; 03. Hydrosphere::03.02. Hydrology::03.02.07. Instruments and techniques ; 03. Hydrosphere::03.04. Chemical and biological::03.04.99. General or miscellaneous
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 51
    Publication Date: 2022-05-25
    Description: © The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 11 (2016): e0147808, doi:10.1371/journal.pone.0147808.
    Description: The amyloid precursor protein (APP) is a causal agent in the pathogenesis of Alzheimer’s disease and is a transmembrane protein that associates with membrane-limited organelles. APP has been shown to co-purify through immunoprecipitation with a kinesin light chain suggesting that APP may act as a trailer hitch linking kinesin to its intercellular cargo, however this hypothesis has been challenged. Previously, we identified an mRNA transcript that encodes a squid homolog of human APP770. The human and squid isoforms share 60% sequence identity and 76% sequence similarity within the cytoplasmic domain and share 15 of the final 19 amino acids at the C-terminus establishing this highly conserved domain as a functionally import segment of the APP molecule. Here, we study the distribution of squid APP in extruded axoplasm as well as in a well-characterized reconstituted organelle/microtubule preparation from the squid giant axon in which organelles bind microtubules and move towards the microtubule plus-ends. We find that APP associates with microtubules by confocal microscopy and co-purifies with KI-washed axoplasmic organelles by sucrose density gradient fractionation. By electron microscopy, APP clusters at a single focal point on the surfaces of organelles and localizes to the organelle/microtubule interface. In addition, the association of APP-organelles with microtubules is an ATP dependent process suggesting that the APP-organelles contain a microtubule-based motor protein. Although a direct kinesin/APP association remains controversial, the distribution of APP at the organelle/microtubule interface strongly suggests that APP-organelles have an orientation and that APP like the Alzheimer’s protein tau has a microtubule-based function.
    Description: Research reported in this publication was supported by an Institutional Development Award (IDeA) from the National Institute of General Medical Sciences of the National Institutes of Health under grant number P20GM103430.
    Repository Name: Woods Hole Open Access Server
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  • 52
    Publication Date: 2022-05-25
    Description: © The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 11 (2016): e0153197, doi:10.1371/journal.pone.0153197.
    Description: Benthic dinoflagellates in the genus Gambierdiscus produce the ciguatoxin precursors responsible for the occurrence of ciguatera toxicity. The prevalence of ciguatera toxins in fish has been linked to the presence and distribution of toxin-producing species in coral reef ecosystems, which is largely determined by the presence of suitable benthic habitat and environmental conditions favorable for growth. Here using single factor experiments, we examined the effects of salinity, irradiance, and temperature on growth of 17 strains of Gambierdiscus representing eight species/phylotypes (G. belizeanus, G. caribaeus, G. carolinianus, G. carpenteri, G. pacificus, G. silvae, Gambierdiscus sp. type 4–5), most of which were established from either Marakei Island, Republic of Kiribati, or St. Thomas, United States Virgin Island (USVI). Comparable to prior studies, growth rates fell within the range of 0–0.48 divisions day-1. In the salinity and temperature studies, Gambierdiscus responded in a near Gaussian, non-linear manner typical for such studies, with optimal and suboptimal growth occurring in the range of salinities of 25 and 45 and 21.0 and 32.5°C. In the irradiance experiment, no mortality was observed; however, growth rates at 55μmol photons · m-2 · s-1 were lower than those at 110–400μmol photons · m-2 · s-1. At the extremes of the environmental conditions tested, growth rates were highly variable, evidenced by large coefficients of variability. However, significant differences in intraspecific growth rates were typically found only at optimal or near-optimal growth conditions. Polynomial regression analyses showed that maximum growth occurred at salinity and temperature levels of 30.1–38.5 and 23.8–29.2°C, respectively. Gambierdiscus growth patterns varied among species, and within individual species: G. belizeanus, G. caribaeus, G. carpenteri, and G. pacificus generally exhibited a wider range of tolerance to environmental conditions, which may explain their broad geographic distribution. In contrast, G. silvae and Gambierdiscus sp. types 4–5 all displayed a comparatively narrow range of tolerance to temperature, salinity, and irradiance.
    Description: This study was funded by the National Natural Science Foundation of China (41506137); Guangxi Natural Science Foundation (2015GXNSFCA139003), Centers for Disease Control and Prevention (U01 EH000421); USFDA (F223201000060C); NOAA NOS through the CiguaHAB program (Cooperative Agreement NA11NOS4780060, NA11NOS4780028); the Lana Vento Trust and VI-EPSCoR Program (NSF award # 346483 & 081441); and a System Fund from Key Laboratory of Environment Change and Resources Use in Beibu Gulf, Ministry of Education (2014BGERLXT01). Support was also provided by the Woods Hole Center for Oceans and Human Health through National Science Foundation (NSF) Grant OCE-1314642, National Institute of Environmental Health Sciences (NIEHS) Grant 1-P01-ES021923-014, as well as the China Scholarship Council.
    Repository Name: Woods Hole Open Access Server
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  • 53
    Publication Date: 2022-05-25
    Description: This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose.
    Description: Fungal secretomes contain a wide range of hydrolytic and oxidative enzymes, including cellulases, hemicellulases, pectinases, and lignin-degrading accessory enzymes, that synergistically drive litter decomposition in the environment. While secretome studies of model organisms such as Phanerochaete chrysosporium and Aspergillus species have greatly expanded our knowledge of these enzymes, few have extended secretome characterization to environmental isolates or conducted side-by-side comparisons of diverse species. Thus, the mechanisms of carbon degradation by many ubiquitous soil fungi remain poorly understood. Here we use a combination of LC-MS/MS, genomic, and bioinformatic analyses to characterize and compare the protein composition of the secretomes of four recently isolated, cosmopolitan, Mn(II)-oxidizing Ascomycetes (Alternaria alternata SRC1lrK2f, Stagonospora sp. SRC1lsM3a, Pyrenochaeta sp. DS3sAY3a, and Paraconiothyrium sporulosum AP3s5-JAC2a). We demonstrate that the organisms produce a rich yet functionally similar suite of extracellular enzymes, with species-specific differences in secretome composition arising from unique amino acid sequences rather than overall protein function. Furthermore, we identify not only a wide range of carbohydrate-active enzymes that can directly oxidize recalcitrant carbon, but also an impressive suite of redox-active accessory enzymes that suggests a role for Fenton-based hydroxyl radical formation in indirect, non-specific lignocellulose attack. Our findings highlight the diverse oxidative capacity of these environmental isolates and enhance our understanding of the role of filamentous Ascomycetes in carbon turnover in the environment.
    Description: This work was supported by the National Science Foundation (www.nsf.gov), grant numbers EAR-1249489 and CBET-1336496, both awarded to CMH. Personal support for CAZ was also provided by Harvard University (www.harvard.edu) and by a Ford Foundation (www.fordfoundation.org) Predoctoral Fellowship administered by the National Academies.
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  • 54
    Publication Date: 2022-05-25
    Description: © The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 11 (2016): e0160830, doi:10.1371/journal.pone.0160830 .
    Description: Advances in offshore wind farm (OWF) technology have recently led to their construction in coastal waters that are deep enough to be seasonally stratified. As tidal currents move past the OWF foundation structures they generate a turbulent wake that will contribute to a mixing of the stratified water column. In this study we show that the mixing generated in this way may have a significant impact on the large-scale stratification of the German Bight region of the North Sea. This region is chosen as the focus of this study since the planning of OWFs is particularly widespread. Using a combination of idealised modelling and in situ measurements, we provide order-of-magnitude estimates of two important time scales that are key to understanding the impacts of OWFs: (i) a mixing time scale, describing how long a complete mixing of the stratification takes, and (ii) an advective time scale, quantifying for how long a water parcel is expected to undergo enhanced wind farm mixing. The results are especially sensitive to both the drag coefficient and type of foundation structure, as well as the evolution of the pycnocline under enhanced mixing conditions—both of which are not well known. With these limitations in mind, the results show that OWFs could impact the large-scale stratification, but only when they occupy extensive shelf regions. They are expected to have very little impact on large-scale stratification at the current capacity in the North Sea, but the impact could be significant in future large-scale development scenarios.
    Description: Funding was provided by the Helmholtz Foundation through the Polar Regions and Coasts in the Changing Earth System II (PACES II) program.
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  • 55
    Publication Date: 2022-05-25
    Description: © The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS ONE 11 (2016): e0164107, doi:10.1371/journal.pone.0164107.
    Description: Common dolphins (Delphinus delphis) are responsible for the large majority of interactions with the pole-and-line tuna fishery in the Azores but the underlying drivers remain poorly understood. In this study we investigate the influence of various environmental and fisheries-related factors in promoting the interaction of common dolphins with this fishery and estimate the resultant catch losses. We analysed 15 years of fishery and cetacean interaction data (1998–2012) collected by observers placed aboard tuna fishing vessels. Dolphins interacted in less than 3% of the fishing events observed during the study period. The probability of dolphin interaction varied significantly between years with no evident trend over time. Generalized additive modeling results suggest that fishing duration, sea surface temperature and prey abundance in the region were the most important factors explaining common dolphin interaction. Dolphin interaction had no impact on the catches of albacore, skipjack and yellowfin tuna but resulted in significantly lower catches of bigeye tuna, with a predicted median annual loss of 13.5% in the number of fish captured. However, impact on bigeye catches varied considerably both by year and fishing area. Our work shows that rates of common dolphin interaction with the pole-and-line tuna fishery in the Azores are low and showed no signs of increase over the study period. Although overall economic impact was low, the interaction may lead to significant losses in some years. These findings emphasize the need for continued monitoring and for further research into the consequences and economic viability of potential mitigation measures.
    Description: This work was funded by Fundação para a Ciência e a Tecnologia (FCT) and DRCT/SRCTE, though FEDER, the Competitiveness Factors Operational (COMPETE), QREN European Social Fund, the Portuguese Ministry for Science and Education, under research projects TRACE (PTDC/MAR/74071/2006), FCT Exploratory Project (IF/00943/2013/CP1199/CT0001), and MAPCET (M2.1.2/F/012/2011). We acknowledge the support of Fundação para a Ciência e Tecnologia (FCT), through the strategic project UID/MAR/04292/2013 granted to MARE. We thank the Azorean Regional Government for funding POPA, the Ship-owners Association and the Association of the Tuna Canning Industries for their support to the program. MJC was supported by a DRCT doctoral grant (M3.1.2/F/008/2009). MAS was supported by POPH, QREN, European Social Fund and Portuguese Ministry for Science and Education, through an FCT Investigator grant (IF/00943/2013).
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  • 56
    Publication Date: 2022-05-25
    Description: © The Author(s), 2018. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 13 (2018): e0205015, doi:10.1371/journal.pone.0205015.
    Description: Channelopsins and photo-regulated ion channels make it possible to use light to control electrical activity of cells. This powerful approach has lead to a veritable explosion of applications, though it is limited to changing membrane voltage of the target cells. An enormous potential could be tapped if similar opto-genetic techniques could be extended to the control of chemical signaling pathways. Photopigments from invertebrate photoreceptors are an obvious choice—as they do not bleach upon illumination -however, their functional expression has been problematic. We exploited an unusual opsin, pScop2, recently identified in ciliary photoreceptors of scallop. Phylogenetically, it is closer to vertebrate opsins, and offers the advantage of being a bi-stable photopigment. We inserted its coding sequence and a fluorescent protein reporter into plasmid vectors and demonstrated heterologous expression in various mammalian cell lines. HEK 293 cells were selected as a heterologous system for functional analysis, because wild type cells displayed the largest currents in response to the G-protein activator, GTP-γ-S. A line of HEK cells stably transfected with pScop2 was generated; after reconstitution of the photopigment with retinal, light responses were obtained in some cells, albeit of modest amplitude. In native photoreceptors pScop2 couples to Go; HEK cells express poorly this G-protein, but have a prominent Gq/PLC pathway linked to internal Ca mobilization. To enhance pScop2 competence to tap into this pathway, we swapped its third intracellular loop—important to confer specificity of interaction between 7TMDRs and G-proteins—with that of a Gq-linked opsin which we cloned from microvillar photoreceptors present in the same retina. The chimeric construct was evaluated by a Ca fluorescence assay, and was shown to mediate a robust mobilization of internal calcium in response to illumination. The results project pScop2 as a potentially powerful optogenetic tool to control signaling pathways.
    Description: This work was funded by Colciencias grant FP44842-010-2015 and Connecticut Fund for Science.
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  • 57
    Publication Date: 2022-05-25
    Description: This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The definitive version was published in PLoS One 11 (2016): e0162401, doi:10.1371/journal.pone.0162401.
    Description: Heavy metals such as mercury (Hg) pose a significant health hazard through bioaccumulation and biomagnification. By penetrating cell membranes, heavy metal ions may lead to pathological conditions. Here we examined the responses of Ammonia parkinsoniana, a benthic foraminiferan, to different concentrations of Hg in the artificial sea water. Confocal images of untreated and treated specimens using fluorescent probes (Nile Red and Acridine Orange) provided an opportunity for visualizing the intracellular lipid accumulation and acidic compartment regulation. With increased Hg over time, we observed an increased number of lipid droplets, which may have acted as a detoxifying organelle where Hg is sequestered and biologically inactivated. Further, Hg seems to promote the proliferation of lysosomes both in terms of number and dimension that, at the highest level of Hg, resulted in cell death. We report, for the first time, the presence of Hg within the foraminiferal cell: at the basal part of pores, in the organic linings of the foramen/septa, and as cytoplasmic accumulations.
    Description: The research for this paper was partially made possible by the financial support from the PRIN 2010-2011 Ministero dell’Istruzione, dell’Università e della Ricerca (MIUR) (protocollo 2010RMTLYR) to RC. JMB acknowledges support from The Investment in Science Fund at WHOI. BG, JRE, AJ, LZ, and EMP were supported in part by the Office of Biological and Environmental Research, US Department of Energy (DOE) as part of the Mercury Science Focus Area at Oak Ridge National Laboratory, which is managed by UT-Battelle LLC for the DOE under contract DE-AC05-00OR22725.
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  • 58
    Publication Date: 2022-05-25
    Description: © The Author(s), 2018. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLos One 13 (2018): e0200386, doi:10.1371/journal.pone.0200386.
    Description: Soft robotics is an emerging technology that has shown considerable promise in deep-sea marine biological applications. It is particularly useful in facilitating delicate interactions with fragile marine organisms. This study describes the shipboard design, 3D printing and integration of custom soft robotic manipulators for investigating and interacting with deep-sea organisms. Soft robotics manipulators were tested down to 2224m via a Remotely-Operated Vehicle (ROV) in the Phoenix Islands Protected Area (PIPA) and facilitated the study of a diverse suite of soft-bodied and fragile marine life. Instantaneous feedback from the ROV pilots and biologists allowed for rapid re-design, such as adding “fingernails”, and re-fabrication of soft manipulators at sea. These were then used to successfully grasp fragile deep-sea animals, such as goniasterids and holothurians, which have historically been difficult to collect undamaged via rigid mechanical arms and suction samplers. As scientific expeditions to remote parts of the world are costly and lengthy to plan, on-the-fly soft robot actuator printing offers a real-time solution to better understand and interact with delicate deep-sea environments, soft-bodied, brittle, and otherwise fragile organisms. This also offers a less invasive means of interacting with slow-growing deep marine organisms, some of which can be up to 18,000 years old.
    Description: This work is supported by NOAA OER Grant # NA17OAR0110083 “Exploration of the Seamounts of the Phoenix Islands Protected Area” to RDR, EEC, TMS and DFG and Schmidt Ocean Institute Grant: “What is the Current State of the Deep-Sea Coral Ecosystem in the Phoenix Island Protected Area?” to EEC, RDR, TMS and DFG; NSF Instrument Development for Biological Research Award # 1556164 to RJW and #1556123 to DFG; the National Academies Keck Futures Initiative of the National Academy of Sciences under award #NAKFI DBS21 to RJW and DFG; and NFS Research Fellowship awarded to KPB (#DGE1144152). It is also supported by the Wyss Institute for Biologically Inspired Engineering at Harvard University. We are grateful for the support from the National Geographic Society Innovation Challenge (Grant No.: SP 12-14) to RJW and DFG.
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  • 59
    Publication Date: 2022-05-25
    Description: © The Author(s), 2018. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 13 (2018): e0207532, doi:10.1371/journal.pone.0207532.
    Description: Acoustic standing waves can precisely focus flowing particles or cells into tightly positioned streams for interrogation or downstream separations. The efficiency of an acoustic standing wave device is dependent upon operating at a resonance frequency. Small changes in a system’s temperature and sample salinity can shift the device’s resonance condition, leading to poor focusing. Practical implementation of an acoustic standing wave system requires an automated resonance control system to adjust the standing wave frequency in response to environmental changes. Here we have developed a rigorous approach for quantifying the optimal acoustic focusing frequency at any given environmental condition. We have demonstrated our approach across a wide range of temperature and salinity conditions to provide a robust characterization of how the optimal acoustic focusing resonance frequency shifts across these conditions. To generalize these results, two microfluidic bulk acoustic standing wave systems (a steel capillary and an etched silicon wafer) were examined. Models of these temperature and salinity effects suggest that it is the speed of sound within the liquid sample that dominates the resonance frequency shift. Using these results, a simple reference table can be generated to predict the optimal resonance condition as a function of temperature and salinity. Additionally, we show that there is a local impedance minimum associated with the optimal system resonance. The integration of the environmental results for coarse frequency tuning followed by a local impedance characterization for fine frequency adjustments, yields a highly accurate method of resonance control. Such an approach works across a wide range of environmental conditions, is easy to automate, and could have a significant impact across a wide range of microfluidic acoustic standing wave systems.
    Description: This research was supported by grants from the National Institute of General Medical Sciences of the National Institutes of Health under award number R21GM107805 and the NSF under award number (OCE-1130140 and OCE-1131134) to SWG, RJO, and HMS.
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  • 60
    Publication Date: 2022-05-25
    Description: © The Author(s), 2015. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 10 (2015): e0143299, doi:10.1371/journal.pone.0143299.
    Description: For phytoplankton and other microbes, nutrient receptors are often the passages through which viruses invade. This presents a bottom-up vs. top-down, co-limitation scenario; how do these would-be-hosts balance minimizing viral susceptibility with maximizing uptake of limiting nutrient(s)? This question has been addressed in the biological literature on evolutionary timescales for populations, but a shorter timescale, mechanistic perspective is lacking, and marine viral literature suggests the strong influence of additional factors, e.g. host size; while the literature on both nutrient uptake and host-virus interactions is expansive, their intersection, of ubiquitous relevance to marine environments, is understudied. I present a simple, mechanistic model from first principles to analyze the effect of this co-limitation scenario on individual growth, which suggests that in environments with high risk of viral invasion or spatial/temporal heterogeneity, an individual host’s growth rate may be optimized with respect to receptor coverage, producing top-down selective pressure on short timescales. The model has general applicability, is suggestive of hypotheses for empirical exploration, and can be extended to theoretical studies of more complex behaviors and systems.
    Description: This work was supported by the Massachusetts Institute of Technology Charles Vest Presidential Fellowship.
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  • 61
    Publication Date: 2022-05-25
    Description: © The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 11 (2016): e0146977, doi:10.1371/journal.pone.0146977 .
    Description: The article reports the radiocarbon investigation of Anzapalivoro, the largest za baobab (Adansonia za) specimen of Madagascar and of another za, namely the Big cistern baobab. Several wood samples collected from the large inner cavity and from the outer part/exterior of the tree were investigated by AMS (accelerator mass spectrometry) radiocarbon dating. For samples collected from the cavity walls, the age values increase with the distance into the wood up to a point of maximum age, after which the values decrease toward the outer part. This anomaly of age sequences indicates that the inner cavity of Anzapalivoro is a false cavity, practically an empty space between several fused stems disposed in a ring-shaped structure. The radiocarbon date of the oldest sample was 780 ± 30 bp, which corresponds to a calibrated age of around 735 yr. Dating results indicate that Anzapalivoro has a closed ring-shaped structure, which consists of 5 fused stems that close a false cavity. The oldest part of the biggest za baobab has a calculated age of 900 years. We also disclose results of the investigation of a second za baobab, the Big cistern baobab, which was hollowed out for water storage. This specimen, which consists of 4 fused stems, was found to be around 260 years old.
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  • 62
    Publication Date: 2022-05-25
    Description: This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The definitive version was published in PLoS One 11 (2016): e0154208, doi: 10.1371/journal.pone.0154208
    Description: Some species of butterflyfish have had preyed upon corals for millions of years, yet the mechanism of butterflyfish specialized coral feeding strategy remains poorly understood. Certain butterflyfish have the ability to feed on allelochemically rich soft corals, e.g. Sinularia maxima. Cytochrome P450 (CYP) is the predominant enzyme system responsible for the detoxification of dietary allelochemicals. CYP2-like and CYP3A-like content have been associated with butterflyfish that preferentially consumes allelochemically rich soft corals. To investigate the role of butterflyfish CYP2 and CYP3A enzymes in dietary preference, we conducted oral feeding experiments using homogenates of S. maxima and a toxin isolated from the coral in four species of butterflyfish with different feeding strategies. After oral exposure to the S. maxima toxin 5-episinulaptolide (5ESL), which is not normally encountered in the Hawaiian butterflyfish diet, an endemic specialist, Chaetodon multicinctus experienced 100% mortality compared to a generalist, Chaetodon auriga, which had significantly more (3–6 fold higher) CYP3A-like basal content and catalytic activity. The specialist, Chaetodon unimaculatus, which preferentially feed on S. maxima in Guam, but not in Hawaii, had 100% survival, a significant induction of 8–12 fold CYP3A-like content, and an increased ability (2-fold) to metabolize 5ESL over other species. Computer modeling data of CYP3A4 with 5ESL were consistent with microsomal transformation of 5ESL to a C15-16 epoxide from livers of C. unimaculatus. Epoxide formation correlated with CYP3A-like content, catalytic activity, induction, and NADPH-dependent metabolism of 5ESL. These results suggest a potentially important role for the CYP3A family in butterflyfish-coral diet selection through allelochemical detoxification.
    Description: This work received support from the following sources: Resource Allocation Program of the Agricultural Research Station for UCR to DS; Summer funding by Hilda and George Liebig Environmental Sciences Summer Fellowship and travel grant Albert March Environmental Sciences Scholarship from the University of California, Riverside; and the Chemistry and DMPK CORE of COBRE, P20GM104932 from the National Institute of General Medical Sciences (NIGMS), a component of the National Institutes of Health (NIH) supported the chemistry studies.
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  • 63
    Publication Date: 2022-05-25
    Description: This is an open access article, free of all copyright. The definitive version was published in PLoS ONE 11 (2016): e0164979, doi: 10.1371/journal.pone.0164979.
    Description: Understanding and managing dynamic coastal landscapes for beach-dependent species requires biological and geological data across the range of relevant environments and habitats. It is difficult to acquire such information; data often have limited focus due to resource constraints, are collected by non-specialists, or lack observational uniformity. We developed an open-source smartphone application called iPlover that addresses these difficulties in collecting biogeomorphic information at piping plover (Charadrius melodus) nest sites on coastal beaches. This paper describes iPlover development and evaluates data quality and utility following two years of collection (n = 1799 data points over 1500 km of coast between Maine and North Carolina, USA). We found strong agreement between field user and expert assessments and high model skill when data were used for habitat suitability prediction. Methods used here to develop and deploy a distributed data collection system have broad applicability to interdisciplinary environmental monitoring and modeling.
    Description: This work was supported by the North Atlantic Landscape Conservation Cooperative through the U.S. Department of the Interior Hurricane Sandy recovery program under the Disaster Relief Appropriations Act of 2013, and the U.S. Geological Survey Coastal and Marine Geology Program.
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  • 64
    Publication Date: 2022-05-25
    Description: The work is made available under the Creative Commons CCO public domain dedication.. The definitive version was published in PLoS Biology 16 (2018): e2006333, doi:10.1371/journal.pbio.2006333.
    Description: Our current understanding of biology is heavily based on a small number of genetically tractable model organisms. Most eukaryotic phyla lack such experimental models, and this limits our ability to explore the molecular mechanisms that ultimately define their biology, ecology, and diversity. In particular, marine protists suffer from a paucity of model organisms despite playing critical roles in global nutrient cycles, food webs, and climate. To address this deficit, an initiative was launched in 2015 to foster the development of ecologically and taxonomically diverse marine protist genetic models. The development of new models faces many barriers, some technical and others institutional, and this often discourages the risky, long-term effort that may be required. To lower these barriers and tackle the complexity of this effort, a highly collaborative community-based approach was taken. Herein, we describe this approach, the advances achieved, and the lessons learned by participants in this novel community-based model for research.
    Description: The research efforts, connections, and collaborations described in this paper and protocols.io (https://www.protocols.io/) were supported by the Gordon and Betty Moore Foundation’s Marine Microbiology Initiative.
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  • 65
    Publication Date: 2022-05-26
    Description: © The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS 11 (2016): e0149998, doi:10.1371/journal.pone.0149998.
    Description: Individuals with cystic fibrosis (CF) often acquire chronic lung infections that lead to irreversible damage. We sought to examine regional variation in the microbial communities in the lungs of individuals with mild-to-moderate CF lung disease, to examine the relationship between the local microbiota and local damage, and to determine the relationships between microbiota in samples taken directly from the lung and the microbiota in spontaneously expectorated sputum. In this initial study, nine stable, adult CF patients with an FEV1〉50% underwent regional sampling of different lobes of the right lung by bronchoalveolar lavage (BAL) and protected brush (PB) sampling of mucus plugs. Sputum samples were obtained from six of the nine subjects immediately prior to the procedure. Microbial community analysis was performed on DNA extracted from these samples and the extent of damage in each lobe was quantified from a recent CT scan. The extent of damage observed in regions of the right lung did not correlate with specific microbial genera, levels of community diversity or composition, or bacterial genome copies per ml of BAL fluid. In all subjects, BAL fluid from different regions of the lung contained similar microbial communities. In eight out of nine subjects, PB samples from different regions of the lung were also similar in microbial community composition, and were similar to microbial communities in BAL fluid from the same lobe. Microbial communities in PB samples were more diverse than those in BAL samples, suggesting enrichment of some taxa in mucus plugs. To our knowledge, this study is the first to examine the microbiota in different regions of the CF lung in clinically stable individuals with mild-to-moderate CF-related lung disease.
    Description: Support from the Cystic Fibrosis Foundation Research Development Program (STANTO07R0) as a pilot grant to DAH and AA. Research reported in this publication was also supported by grants from the National Institutes of Health to DAH (R01 AI091702 to DAH) and the American Asthma Foundation Scholars Award and CFFT-ASHARE15A0 and R01HL122372 to AA and R01 HL074175 (BAS). The Dartmouth Lung Biology Center and CF Translational Research Core was supported by an Institutional Development Award (IDeA) from the National Institute of General Medical Sciences of the National Institutes of Health under grant number P30GM106394 and by the CFF RDP (CFRDP STANTO11R0).
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  • 66
    Publication Date: 2022-05-26
    Description: © The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS 11 (2016): e0150660, doi:10.1371/journal.pone.0150660.
    Description: Sperm whales are present in the Canary Islands year-round, suggesting that the archipelago is an important area for this species in the North Atlantic. However, the area experiences one of the highest reported rates of sperm whale ship-strike in the world. Here we investigate if the number of sperm whales found in the archipelago can sustain the current rate of ship-strike mortality. The results of this study may also have implications for offshore areas where concentrations of sperm whales may coincide with high densities of ship traffic, but where ship-strikes may be undocumented. The absolute abundance of sperm whales in an area of 52933 km2, covering the territorial waters of the Canary Islands, was estimated from 2668 km of acoustic line-transect survey using Distance sampling analysis. Data on sperm whale diving and acoustic behaviour, obtained from bio-logging, were used to calculate g(0) = 0.92, this is less than one because of occasional extended periods when whales do not echolocate. This resulted in an absolute abundance estimate of 224 sperm whales (95% log-normal CI 120–418) within the survey area. The recruitment capability of this number of whales, some 2.5 whales per year, is likely to be exceeded by the current ship-strike mortality rate. Furthermore, we found areas of higher whale density within the archipelago, many coincident with those previously described, suggesting that these are important habitats for females and immature animals inhabiting the archipelago. Some of these areas are crossed by active shipping lanes increasing the risk of ship-strikes. Given the philopatry in female sperm whales, replacement of impacted whales might be limited. Therefore, the application of mitigation measures to reduce the ship-strike mortality rate seems essential for the conservation of sperm whales in the Canary Islands.
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  • 67
    Publication Date: 2022-05-26
    Description: © The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS 11 (2016): e0151089, doi: 10.1371/journal.pone.0151089 .
    Description: The majority of ovarian tumors eventually recur in a drug resistant form. Using cisplatin sensitive and resistant cell lines assembled into 3D spheroids we profiled gene expression and identified candidate mechanisms and biological pathways associated with cisplatin resistance. OVCAR-8 human ovarian carcinoma cells were exposed to sub-lethal concentrations of cisplatin to create a matched cisplatin-resistant cell line, OVCAR-8R. Genome-wide gene expression profiling of sensitive and resistant ovarian cancer spheroids identified 3,331 significantly differentially expressed probesets coding for 3,139 distinct protein-coding genes (Fc 〉2, FDR 〈 0.05) (S2 Table). Despite significant expression changes in some transporters including MDR1, cisplatin resistance was not associated with differences in intracellular cisplatin concentration. Cisplatin resistant cells were significantly enriched for a mesenchymal gene expression signature. OVCAR-8R resistance derived gene sets were significantly more biased to patients with shorter survival. From the most differentially expressed genes, we derived a 17-gene expression signature that identifies ovarian cancer patients with shorter overall survival in three independent datasets. We propose that the use of cisplatin resistant cell lines in 3D spheroid models is a viable approach to gain insight into resistance mechanisms relevant to ovarian tumors in patients. Our data support the emerging concept that ovarian cancers can acquire drug resistance through an epithelial-to-mesenchymal transition.
    Description: This work was funded by the NIH NCRR supplement grant P41 RR001395-27S1 (J.W.H.), NSF DBI-1005378 “REU Site: Biological Discovery in Woods Hole”, faculty startup funds from the Office of Research at Oklahoma State University (W.C.), and the Mary Kay Foundation (A.S.B.).
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  • 68
    Publication Date: 2022-05-26
    Description: This article is distributed under the terms of the Creative Commons public domain dedication. The definitive version was published in PLoS One 11 (2016): e0158495, doi:10.1371/journal.pone.0158495.
    Description: The number of fluorescent labels that can unambiguously be distinguished in a single image when acquired through band pass filters is severely limited by the spectral overlap of available fluorophores. The recent development of spectral microscopy and the application of linear unmixing algorithms to spectrally recorded image data have allowed simultaneous imaging of fluorophores with highly overlapping spectra. However, the number of distinguishable fluorophores is still limited by the unavoidable decrease in signal to noise ratio when fluorescence signals are fractionated over multiple wavelength bins. Here we present a spectral image analysis algorithm to greatly expand the number of distinguishable objects labeled with binary combinations of fluorophores. Our algorithm utilizes a priori knowledge about labeled specimens and imposes a binary label constraint on the unmixing solution. We have applied our labeling and analysis strategy to identify microbes labeled by fluorescence in situ hybridization and here demonstrate the ability to distinguish 120 differently labeled microbes in a single image.
    Description: This work was supported by Grant 2007-3- 13 from the Alfred P. Sloan Foundation (to GGB), National Institutes of Health Grant 1RC1-DE020630 from the National Institute of Dental and Craniofacial Research (NIDCR) (to GGB) and by National Institutes of Health Fellowship 1F31-DE019576 from NIDCR (to AMV).
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  • 69
    Publication Date: 2022-05-26
    Description: © The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS 11 (2016): e0150820, doi:10.1371/journal.pone.0150820.
    Description: Methanol is a major volatile organic compound on Earth and serves as an important carbon and energy substrate for abundant methylotrophic microbes. Previous geochemical surveys coupled with predictive models suggest that the marine contributions are exceedingly large, rivaling terrestrial sources. Although well studied in terrestrial ecosystems, methanol sources are poorly understood in the marine environment and warrant further investigation. To this end, we adapted a Purge and Trap Gas Chromatography/Mass Spectrometry (P&T-GC/MS) method which allowed reliable measurements of methanol in seawater and marine phytoplankton cultures with a method detection limit of 120 nanomolar. All phytoplankton tested (cyanobacteria: Synechococcus spp. 8102 and 8103, Trichodesmium erythraeum, and Prochlorococcus marinus), and Eukarya (heterokont diatom: Phaeodactylum tricornutum, coccolithophore: Emiliania huxleyi, cryptophyte: Rhodomonas salina, and non-diatom heterokont: Nannochloropsis oculata) produced methanol, ranging from 0.8–13.7 micromolar in culture and methanol per total cellular carbon were measured in the ranges of 0.09–0.3%. Phytoplankton culture time-course measurements displayed a punctuated production pattern with maxima near early stationary phase. Stabile isotope labeled bicarbonate incorporation experiments confirmed that methanol was produced from phytoplankton biomass. Overall, our findings suggest that phytoplankton are a major source of methanol in the upper water column of the world’s oceans.
    Description: This project was solely supported by a grant to TJM from the National Science Foundation (Award# CHE-OCE 1131415).
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  • 70
    Publication Date: 2022-05-26
    Description: © The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 11 (2016): e0160080, doi: 10.1371/journal.pone.0160080 .
    Description: Pilot whales are two cetacean species (Globicephala melas and G. macrorhynchus) whose distributions are correlated with water temperature and partially overlap in some areas like the North Atlantic Ocean. In the context of global warming, distribution range shifts are expected to occur in species affected by temperature. Consequently, a northward displacement of the tropical pilot whale G. macrorynchus is expected, eventually leading to increased secondary contact areas and opportunities for interspecific hybridization. Here, we describe genetic evidences of recurrent hybridization between pilot whales in northeast Atlantic Ocean. Based on mitochondrial DNA sequences and microsatellite loci, asymmetric introgression of G. macrorhynchus genes into G. melas was observed. For the latter species, a significant correlation was found between historical population growth rate estimates and paleotemperature oscillations. Introgressive hybridization, current temperature increases and lower genetic variation in G. melas suggest that this species could be at risk in its northern range. Under increasing environmental and human-mediated stressors in the North Atlantic Ocean, it seems recommendable to develop a conservation program for G. melas.
    Description: LM had a PCTI Grant from the Asturias Regional Government, referenced BP 10-004. MAS was supported by a 2013 FCT Investigator contract through POPH, QREN European Social Fund and the Portuguese Ministry for Science and Education. This study was also supported by a grant from the Principality of Asturias (reference: GRUPIN-2014-093).
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  • 71
    Publication Date: 2022-05-26
    Description: © The Author(s), 2017. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 12 (2017): e0188601, doi:10.1371/journal.pone.0188601.
    Description: Many animals go through one or more metamorphoses during their lives, however, the molecular underpinnings of metamorphosis across diverse species are not well understood. Medusozoa (Cnidaria) is a clade of animals with complex life cycles, these life cycles can include a polyp stage that metamorphoses into a medusa (jellyfish). Medusae are produced through a variety of different developmental mechanisms—in some species polyps bud medusae (Hydrozoa), in others medusae are formed through polyp fission (Scyphozoa), while in others medusae are formed through direct transformation of the polyp (Cubozoa). To better understand the molecular mechanisms that may coordinate these different forms of metamorphosis, we tested two compounds first identified to induce metamorphosis in the moon jellyfish Aurelia aurita (indomethacin and 5-methoxy-2-methylindole) on a broad diversity of medusozoan polyps. We discovered that indole-containing compounds trigger metamorphosis across a broad diversity of species. All tested discomedusan polyps metamorphosed in the presence of both compounds, including species representatives of several major lineages within the clade (Pelagiidae, Cyaneidae, both clades of Rhizostomeae). In a cubozoan, low levels of 5-methoxy-2-methylindole reliably induced complete and healthy metamorphosis. In contrast, neither compound induced medusa metamorphosis in a coronate scyphozoan, or medusa production in either hydrozoan tested. Our results support the hypothesis that metamorphosis is mediated by a conserved induction pathway within discomedusan scyphozoans, and possibly cubozoans. However, failure of these compounds to induce metamorphosis in a coronate suggests this induction mechanism may have been lost in this clade, or is convergent between Scyphozoa and Cubozoa.
    Description: National Science Foundation Graduate Research Fellowship (DGE - 1058262; https://www.nsfgrfp.org/general_resources/about) to RRH. Evo-Devo-Eco Network (IOS # 0955517; http://edenrcn.com/) Research Exchange Funds, awarded to RRH. National Science Foundation Rhode Island Established Program to Stimulate Competitive Graduate Research Fellowship to RRH (DEB-1256695; http://web.uri.edu/rinsfepscor/grad-fellowships/). Brown University Ecology and Evolutionary Biology Dissertation Development Grant from the Bushnell Research and Education Fund awarded to RRH.
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  • 72
    Publication Date: 2022-05-26
    Description: © The Author(s), 2018. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 13 (2018): e0191509, doi:10.1371/journal.pone.0191509.
    Description: Wintertime convective mixing plays a pivotal role in the sub-polar North Atlantic spring phytoplankton blooms by favoring phytoplankton survival in the competition between light-dependent production and losses due to grazing and gravitational settling. We use satellite and ocean reanalyses to show that the area-averaged maximum winter mixed layer depth is positively correlated with April chlorophyll concentration in the northern Labrador Sea. A simple theoretical framework is developed to understand the relative roles of winter/spring convection and gravitational sedimentation in spring blooms in this region. Combining climate model simulations that project a weakening of wintertime Labrador Sea convection from Arctic sea ice melt with our framework suggests a potentially significant reduction in the initial fall phytoplankton population that survive the winter to seed the region’s spring bloom by the end of the 21st century.
    Description: KB, LB, PJR and LRL were supported by the Office of Science (BER), U. S. Department of Energy as part of the Regional and Global Climate Modelling (RGCM) Program. SCD acknowledges support from NASA Award NNX15AE65G North Atlantic Aerosol and Marine Ecosystem Study (NAAMES).
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  • 73
    Publication Date: 2022-05-26
    Description: © The Author(s), 2017. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 12 (2017): e0188340, doi:10.1371/journal.pone.0188340.
    Description: Prion diseases include a number of progressive neuropathies involving conformational changes in cellular prion protein (PrPc) that may be fatal sporadic, familial or infectious. Pathological evidence indicated that neurons affected in prion diseases follow a dying-back pattern of degeneration. However, specific cellular processes affected by PrPc that explain such a pattern have not yet been identified. Results from cell biological and pharmacological experiments in isolated squid axoplasm and primary cultured neurons reveal inhibition of fast axonal transport (FAT) as a novel toxic effect elicited by PrPc. Pharmacological, biochemical and cell biological experiments further indicate this toxic effect involves casein kinase 2 (CK2) activation, providing a molecular basis for the toxic effect of PrPc on FAT. CK2 was found to phosphorylate and inhibit light chain subunits of the major motor protein conventional kinesin. Collectively, these findings suggest CK2 as a novel therapeutic target to prevent the gradual loss of neuronal connectivity that characterizes prion diseases.
    Description: This work was supported by Alzheimer Association New Investigator Research Grant to Promote Diversity NIRGD-11-206379 and Consejo Nacional de Investigaciones Científicas y Técnicas PIP 112 20150100954 CO (to GP), National Institutes of Health NS066942A and NS096642 (to GM), R01-NS023868 and R01-NS041170 (to STB).
    Repository Name: Woods Hole Open Access Server
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  • 74
    Publication Date: 2022-05-26
    Description: © The Author(s), 2018. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 13 (2018): e0190905, doi:10.1371/journal.pone.0190905.
    Description: Trichoplax adhaerens has only six cell types. The function as well as the structure of crystal cells, the least numerous cell type, presented an enigma. Crystal cells are arrayed around the perimeter of the animal and each contains a birefringent crystal. Crystal cells resemble lithocytes in other animals so we looked for evidence they are gravity sensors. Confocal microscopy showed that their cup-shaped nuclei are oriented toward the edge of the animal, and that the crystal shifts downward under the influence of gravity. Some animals spontaneously lack crystal cells and these animals behaved differently upon being tilted vertically than animals with a typical number of crystal cells. EM revealed crystal cell contacts with fiber cells and epithelial cells but these contacts lacked features of synapses. EM spectroscopic analyses showed that crystals consist of the aragonite form of calcium carbonate. We thus provide behavioral evidence that Trichoplax are able to sense gravity, and that crystal cells are likely to be their gravity receptors. Moreover, because placozoans are thought to have evolved during Ediacaran or Cryogenian eras associated with aragonite seas, and their crystals are made of aragonite, they may have acquired gravity sensors during this early era.
    Description: This research was supported by the intramural research program of the NIH, NINDS.
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  • 75
    Publication Date: 2016-07-09
    Description: Author(s): Stefan Rex, Flavio S. Nogueira, and Asle Sudbø The magnetoelectric effect predicted in topological insulators makes heterostructures that combine magnetic materials and such insulators promising candidates for spintronics applications. Here, we theoretically consider a setup that exhibits two well-separated interfaces between a topological insul… [Phys. Rev. B 94, 020404(R)] Published Thu Jul 07, 2016
    Keywords: Magnetism
    Print ISSN: 1098-0121
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  • 76
    Publication Date: 2016-07-09
    Description: Author(s): A. K. Choquette, C. R. Smith, R. J. Sichel-Tissot, E. J. Moon, M. D. Scafetta, E. Di Gennaro, F. Miletto Granozio, E. Karapetrova, and S. J. May The control of octahedral rotations in perovskite heterostructures is an emerging strategy for inducing new functionality as evidenced by recent predictions of improper ferroelectricity, polar metals, and multiferroics. Many of these predictions are predicated on the presence of a specific rotation pattern ( a − a − c + ) in superlattices that exhibit the orthorhombic ( P b n m ) perovskite structural variant. The authors use synchrotron diffraction to measure the octahedral rotation patterns in strained ferrite, manganite, and gallate perovskite films finding that compressive strain strongly favors a + a − c − rotation patterns and tensile strain weakly favors a − a − c + structures. In contrast, films grown on orthorhombic substrates exhibit the same rotation pattern orientation as the substrate, even for epitaxial conditions where strain would favor the opposite structural orientation. The results indicate that substrate imprinting is a more robust method than strain for controlling the rotation pattern in P b n m -type perovskite films, a finding that should enable more efficient experimental pursuits of rotation-driven ferroic states in oxide heterostructures. [Phys. Rev. B 94, 024105] Published Thu Jul 07, 2016
    Keywords: Structure, structural phase transitions, mechanical properties, defects
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  • 77
    Publication Date: 2016-07-09
    Description: Author(s): E.-M. Anton, S. Granville, A. Engel, S. V. Chong, M. Governale, U. Zülicke, A. G. Moghaddam, H. J. Trodahl, F. Natali, S. Vézian, and B. J. Ruck Ferromagnetism and superconductivity are two generally incompatible states of matter. Their coexistence has been observed only under very unusual circumstances and so far only in metals. In contrast, most semiconductors are not naturally magnetic or superconducting, but introducing magnetism or superconductivity into semiconductors is seen as an important step towards radical improvement of our electronics capabilities and therefore a hotly pursued goal. Here, the authors report the discovery of superconductivity coexisting with ferromagnetism in the semiconducting material samarium nitride (SmN). The large intrinsic exchange splitting of the conduction band in SmN requires the superconducting order to be of unconventional (likely p -wave) type. Superconductivity is observed to be even further enhanced in superlattices where layers of SmN alternate with layers made of the strongly ferromagnetic but non-superconducting material gadolinium nitride. These features render SmN an interesting laboratory for understanding more about the fundamentals of ferromagnetism and superconductivity in semiconductors and exploring opportunities for integrating superconducting spintronics into the design of semiconductor-based electronic devices. [Phys. Rev. B 94, 024106] Published Thu Jul 07, 2016
    Keywords: Structure, structural phase transitions, mechanical properties, defects
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  • 78
    Publication Date: 2016-07-09
    Description: Author(s): Fadi Sun, Jinwu Ye, and Wu-Ming Liu In this paper, we study the rotated ferromagnetic Heisenberg model (RFHM) in two different transverse fields, h x and h z , which can be intuitively visualized as studying spin-orbit coupling (SOC) effects in two-dimensional (2D) Ising or anisotropic X Y model in a transverse field. At a special SOC cla… [Phys. Rev. B 94, 024409] Published Thu Jul 07, 2016
    Keywords: Magnetism
    Print ISSN: 1098-0121
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  • 79
    Publication Date: 2016-07-09
    Description: Author(s): Lars Bjaalie, Anderson Janotti, Burak Himmetoglu, and Chris G. Van de Walle Complex-oxide interfaces can give rise to two-dimensional electron gases (2DEGs) with extremely high densities: for SrTiO 3 / GdTiO 3 (STO/GTO), a density of 1/2 electron per unit-cell area is found within the STO. In this work we use first-principles calculations to study GTO/STO/GTO heterostructures, … [Phys. Rev. B 94, 035115] Published Thu Jul 07, 2016
    Keywords: Electronic structure and strongly correlated systems
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  • 80
    Publication Date: 2016-07-09
    Description: Author(s): Jörg Bünemann, Thorben Linneweber, Ute Löw, Frithjof B. Anders, and Florian Gebhard We employ the Gutzwiller variational approach to investigate the interplay of Coulomb interaction and spin-orbit coupling in a three-orbital Hubbard model. Already in the paramagnetic phase we find a substantial renormalization of the spin-orbit coupling that enters the effective single-particle Ham… [Phys. Rev. B 94, 035116] Published Thu Jul 07, 2016
    Keywords: Electronic structure and strongly correlated systems
    Print ISSN: 1098-0121
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  • 81
    Publication Date: 2016-07-09
    Description: Author(s): Maxim Trushin, Mark Oliver Goerbig, and Wolfgang Belzig We develop an analytically solvable model able to qualitatively explain nonhydrogenic exciton spectra observed recently in two-dimensional (2D) semiconducting transition-metal dichalcogenides. Our exciton Hamiltonian explicitly includes additional angular momentum associated with the pseudospin degr… [Phys. Rev. B 94, 041301(R)] Published Thu Jul 07, 2016
    Keywords: Semiconductors II: surfaces, interfaces, microstructures, and related topics
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  • 82
    Publication Date: 2016-07-09
    Description: Author(s): Anthony G. Duarte, Orlando Oliveira, and Paulo J. Silva The dependence of the Landau gauge two-point gluon and ghost correlation functions on the lattice spacing and on the physical volume are investigated for pure SU(3) Yang-Mills theory in four dimensions using lattice simulations. We present data from very large lattices up to 128 4 and for two lattice… [Phys. Rev. D 94, 014502] Published Fri Jul 08, 2016
    Keywords: Lattice Methods
    Print ISSN: 0556-2821
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  • 83
    Publication Date: 2016-07-09
    Description: Author(s): Takahiro Morimoto and Naoto Nagaosa We study excitonic processes second order in the electric fields in noncentrosymmetric crystals. We derive formulas for shift current and second harmonic generation produced by exciton creation, by using the Floquet formalism combined with the Keldysh Green's function method. It is shown that (i) th… [Phys. Rev. B 94, 035117] Published Thu Jul 07, 2016
    Keywords: Electronic structure and strongly correlated systems
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  • 84
    Publication Date: 2016-07-09
    Description: Author(s): V. P. Gonçalves, B. D. Moreira, F. S. Navarra, and D. Spiering In this paper, we study leading neutron production in photon-hadron interactions that take place in p p and p A collisions at large impact parameters. Using a model that describes the recent leading neutron data at HERA, we consider exclusive vector meson production in association with a leading neutr… [Phys. Rev. D 94, 014009] Published Thu Jul 07, 2016
    Keywords: Strong Interactions
    Print ISSN: 0556-2821
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  • 85
    Publication Date: 2016-07-09
    Description: Author(s): Rafael C. Nunes, Supriya Pan, and Emmanuel N. Saridakis We use the latest compilation of observational Hubble parameter measurements estimated with the differential evolution of cosmic chronometers, in combination with the local value of the Hubble constant recently measured with 2.4% precision, to constrain the cosmological scenario where dark energy in… [Phys. Rev. D 94, 023508] Published Thu Jul 07, 2016
    Keywords: Cosmology
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  • 86
    Publication Date: 2016-07-09
    Description: Author(s): Marina Cermeño, M. Ángeles Pérez-García, and Joseph Silk We calculate the mean free path in a hot and dense nuclear environment for a fermionic dark matter particle candidate in the ∼ GeV mass range interacting with nucleons via scalar and vector effective couplings. We focus on the effects of density and temperature in the nuclear medium in order to evalu… [Phys. Rev. D 94, 023509] Published Thu Jul 07, 2016
    Keywords: Cosmology
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  • 87
    Publication Date: 2016-07-09
    Description: Author(s): M. Astorino, G. Compère, R. Oliveri, and N. Vandevoorde The explicit solution for a Kerr-Newman black hole immersed in an external magnetic field, sometimes called the Melvin-Kerr-Newman black hole, has been derived by Ernst and Wild in 1976. In this paper, we clarify the first law and Smarr formula for black holes in a magnetic field. We then define the… [Phys. Rev. D 94, 024019] Published Thu Jul 07, 2016
    Keywords: General Relativity and Gravitation
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  • 88
    Publication Date: 2016-07-09
    Description: Author(s): Yue Dai, Zhejun Shen, and Yu Shi We consider quantum entanglement of three accelerating qubits, each of which is locally coupled with a real scalar field, without causal influence among the qubits or among the fields. The initial states are assumed to be the GHZ and W states, which are the two representative three-partite entangled… [Phys. Rev. D 94, 025012] Published Thu Jul 07, 2016
    Keywords: Field Theory, Formal Particle Theory
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  • 89
    Publication Date: 2016-07-09
    Description: Author(s): George Moutsopoulos We show how, by assuming at least eight real timelike supersymmetries in the maximally supersymmetric three-dimensional ungauged supergravity and a further simplifying ansatz, we are naturally led to a pair of Liouville field equations. These are solvable in terms of two meromorphic functions, and w… [Phys. Rev. D 94, 025013] Published Thu Jul 07, 2016
    Keywords: Field Theory, Formal Particle Theory
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  • 90
    Publication Date: 2016-07-09
    Description: Author(s): Yago Bea, Niko Jokela, and Alfonso V. Ramallo We study the properties of a D6-brane probe in the Aharony-Bergman-Jafferis-Maldacena (ABJM) background with smeared massless dynamical quarks in the Veneziano limit. Working at zero temperature and nonvanishing charge density, we show that the system undergoes a quantum phase transition in which th… [Phys. Rev. D 94, 026003] Published Thu Jul 07, 2016
    Keywords: String Theory
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  • 91
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    Publication Date: 2016-07-09
    Description: Author(s): Sergio Chibbaro and Christophe Josserand We investigate the onset of intermittency for vibrating elastic plate turbulence in the framework of the weak wave turbulence theory using a numerical approach. The spectrum of the displacement field and the structure functions of the fluctuations are computed for different forcing amplitudes. At lo… [Phys. Rev. E 94, 011101(R)] Published Fri Jul 08, 2016
    Keywords: Fluid Dynamics
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  • 92
    Publication Date: 2016-07-09
    Description: Author(s): Ilja Doršner, Svjetlana Fajfer, and Nejc Košnik We advocate the possibility that the observed diphoton excess at 750 GeV at the LHC can be addressed by the scalar field that is a part of the S U ( 5 ) symmetry breaking sector. The field in question is the Standard Model singlet that resides in the adjoint representation that breaks S U ( 5 ) down to S U ( 3 … [Phys. Rev. D 94, 015009] Published Thu Jul 07, 2016
    Keywords: Beyond the Standard Model
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  • 93
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    Publication Date: 2016-07-09
    Description: Author(s): Adam Falkowski and Jernej F. Kamenik The diphoton excess around m X = 750     GeV observed by ATLAS and CMS can be interpreted as coming from a massive spin-2 excitation. We explore this possibility in the context of warped five-dimensional models with the Standard Model (SM) fields propagating in the bulk of the extra dimension. The 750 GeV… [Phys. Rev. D 94, 015008] Published Thu Jul 07, 2016
    Keywords: Beyond the Standard Model
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  • 94
    Publication Date: 2016-07-09
    Description: Author(s): Kenny C. Y. Ng, John F. Beacom, Annika H. G. Peter, and Carsten Rott The solar disk is a bright gamma-ray source. Surprisingly, its flux is about 1 order of magnitude higher than predicted. As a first step toward understanding the physical origin of this discrepancy, we perform a new analysis in 1–100 GeV using 6 years of public Fermi-LAT data. Compared to the previo… [Phys. Rev. D 94, 023004] Published Thu Jul 07, 2016
    Keywords: Astrophysics
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  • 95
    Publication Date: 2016-07-09
    Description: Author(s): Saroj Kumar Nandi and Sriram Ramaswamy We study the growth kinetics of glassy correlations in a structural glass by monitoring the evolution, within mode-coupling theory, of a suitably defined three-point function χ C ( t , t w ) with time t and waiting time t w . From the complete wave-vector-dependent equations of motion for domain growth, we p… [Phys. Rev. E 94, 012607] Published Thu Jul 07, 2016
    Keywords: Colloids, Complex Fluids, and Active Matter
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  • 96
    Publication Date: 2016-07-09
    Description: Author(s): V. K. Chandrasekar, R. Gopal, D. V. Senthilkumar, and M. Lakshmanan We report the emergence of a collective dynamical state, namely, the phase-flip chimera, from an ensemble of identical nonlinear oscillators that are coupled indirectly via the dynamical variables from a common environment, which in turn are nonlocally coupled. The phase-flip chimera is characterize… [Phys. Rev. E 94, 012208] Published Thu Jul 07, 2016
    Keywords: Nonlinear Dynamics and Chaos
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  • 97
    Publication Date: 2016-07-09
    Description: Author(s): Oleg Borisenko, Volodymyr Chelnokov, Francesca Cuteri, and Alessandro Papa It is argued that two-dimensional U ( N ) spin models for any N undergo a Berezinskii-Kosterlitz-Thouless (BKT)-like phase transition, similarly to the famous X Y model. This conclusion follows from the Berezinskii-like calculation of the two-point correlation function in U ( N ) models, approximate renorm… [Phys. Rev. E 94, 012108] Published Thu Jul 07, 2016
    Keywords: Statistical Physics
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  • 98
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    Publication Date: 2016-07-09
    Description: Author(s): V. I. Yukalov Statistical systems composed of atoms interacting with each other trough nonintegrable interaction potentials are considered. Examples of these potentials are hard-core potentials and long-range potentials, for instance, the Lennard-Jones and dipolar potentials. The treatment of such potentials is k… [Phys. Rev. E 94, 012106] Published Thu Jul 07, 2016
    Keywords: Statistical Physics
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  • 99
    Publication Date: 2016-07-09
    Description: Author(s): T. P. Lyubimova, D. V. Lyubimov, D. T. Baydina, E. A. Kolchanova, and K. B. Tsiberkin The linear stability of plane-parallel flow of an incompressible viscous fluid over a saturated porous layer is studied to model the instability of water flow in a river over aquatic plants. The saturated porous layer is bounded from below by a rigid plate and the pure fluid layer has a free, undefo… [Phys. Rev. E 94, 013104] Published Thu Jul 07, 2016
    Keywords: Fluid Dynamics
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  • 100
    Publication Date: 2016-07-09
    Description: Author(s): Tomoshige Miyaguchi, Takuma Akimoto, and Eiji Yamamoto Recently, anomalous subdiffusion, aging, and scatter of the diffusion coefficient have been reported in many single-particle-tracking experiments, though the origins of these behaviors are still elusive. Here, as a model to describe such phenomena, we investigate a Langevin equation with diffusivity… [Phys. Rev. E 94, 012109] Published Fri Jul 08, 2016
    Keywords: Statistical Physics
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