Minireview Indigenous Ectosymbiotic Bacteria Associated with Diverse
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The 2014 Golden Gate National Parks Bioblitz - Data Management and the Event Species List Achieving a Quality Dataset from a Large Scale Event
National Park Service U.S. Department of the Interior Natural Resource Stewardship and Science The 2014 Golden Gate National Parks BioBlitz - Data Management and the Event Species List Achieving a Quality Dataset from a Large Scale Event Natural Resource Report NPS/GOGA/NRR—2016/1147 ON THIS PAGE Photograph of BioBlitz participants conducting data entry into iNaturalist. Photograph courtesy of the National Park Service. ON THE COVER Photograph of BioBlitz participants collecting aquatic species data in the Presidio of San Francisco. Photograph courtesy of National Park Service. The 2014 Golden Gate National Parks BioBlitz - Data Management and the Event Species List Achieving a Quality Dataset from a Large Scale Event Natural Resource Report NPS/GOGA/NRR—2016/1147 Elizabeth Edson1, Michelle O’Herron1, Alison Forrestel2, Daniel George3 1Golden Gate Parks Conservancy Building 201 Fort Mason San Francisco, CA 94129 2National Park Service. Golden Gate National Recreation Area Fort Cronkhite, Bldg. 1061 Sausalito, CA 94965 3National Park Service. San Francisco Bay Area Network Inventory & Monitoring Program Manager Fort Cronkhite, Bldg. 1063 Sausalito, CA 94965 March 2016 U.S. Department of the Interior National Park Service Natural Resource Stewardship and Science Fort Collins, Colorado The National Park Service, Natural Resource Stewardship and Science office in Fort Collins, Colorado, publishes a range of reports that address natural resource topics. These reports are of interest and applicability to a broad audience in the National Park Service and others in natural resource management, including scientists, conservation and environmental constituencies, and the public. The Natural Resource Report Series is used to disseminate comprehensive information and analysis about natural resources and related topics concerning lands managed by the National Park Service. -
Publication List – Michael Wagner
Publication list – Michael Wagner I have published between 1992 – April 2021 in my six major research fields (nitrification, single cell microbiology, microbiome, wastewater microbiology, endosymbionts, sulfate reduction) 269 papers and more than 30 book chapters. According to Scopus (April 2021) my publications have been cited 40,640 (ISI: 37,997; Google Scholar: 59,804) and I have an H-index of 107 (ISI: 103; Google Scholar: 131). Seven of my publications appeared in Nature (plus a News & Views piece), three in Science, 13 in PNAS (all direct submission) and two in PLoS Biology. More info about my publications can be found at: Scopus: https://www.scopus.com/authid/detail.uri?authorId=57200814774 ResearcherID: https://publons.com/researcher/2814586/michael-wagner/ GoogleScholar: https://scholar.google.com/citations?user=JF6OQ_0AAAAJ&hl=de 269. Neuditschko B, Legin AA, Baier D, Schintlmeister A, Reipert S, Wagner M, Keppler BK, Berger W, Meier-Menches SM, Gerner C. 2021. Interaction with ribosomal proteins accompanies stress induction of the anticancer metallodrug BOLD-100/KP1339 in the endoplasmic reticulum. Angew Chem Int Ed Engl, 60:5063-5068 268. Willeit P, Krause R, Lamprecht B, Berghold A, Hanson B, Stelzl E, Stoiber H, Zuber J, Heinen R, Köhler A, Bernhard D, Borena W, Doppler C, von Laer D, Schmidt H, Pröll J, Steinmetz I, Wagner M. 2021. Prevalence of RT-qPCR-detected SARS-CoV-2 infection at schools: First results from the Austrian School-SARS-CoV-2 prospective cohort study. The Lancet Regional Health - Europe, 5:100086 267. Lee KS, Pereira FC, Palatinszky M, Behrendt L, Alcolombri U, Berry D, Wagner M, Stocker R. -
Alpine Soil Bacterial Community and Environmental Filters Bahar Shahnavaz
Alpine soil bacterial community and environmental filters Bahar Shahnavaz To cite this version: Bahar Shahnavaz. Alpine soil bacterial community and environmental filters. Other [q-bio.OT]. Université Joseph-Fourier - Grenoble I, 2009. English. tel-00515414 HAL Id: tel-00515414 https://tel.archives-ouvertes.fr/tel-00515414 Submitted on 6 Sep 2010 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. THÈSE Pour l’obtention du titre de l'Université Joseph-Fourier - Grenoble 1 École Doctorale : Chimie et Sciences du Vivant Spécialité : Biodiversité, Écologie, Environnement Communautés bactériennes de sols alpins et filtres environnementaux Par Bahar SHAHNAVAZ Soutenue devant jury le 25 Septembre 2009 Composition du jury Dr. Thierry HEULIN Rapporteur Dr. Christian JEANTHON Rapporteur Dr. Sylvie NAZARET Examinateur Dr. Jean MARTIN Examinateur Dr. Yves JOUANNEAU Président du jury Dr. Roberto GEREMIA Directeur de thèse Thèse préparée au sien du Laboratoire d’Ecologie Alpine (LECA, UMR UJF- CNRS 5553) THÈSE Pour l’obtention du titre de Docteur de l’Université de Grenoble École Doctorale : Chimie et Sciences du Vivant Spécialité : Biodiversité, Écologie, Environnement Communautés bactériennes de sols alpins et filtres environnementaux Bahar SHAHNAVAZ Directeur : Roberto GEREMIA Soutenue devant jury le 25 Septembre 2009 Composition du jury Dr. -
1 Crustaceans in Cold Seep Ecosystems: Fossil Record, Geographic Distribution, Taxonomic Composition, 2 and Biology 3 4 Adiël A
1 Crustaceans in cold seep ecosystems: fossil record, geographic distribution, taxonomic composition, 2 and biology 3 4 Adiël A. Klompmaker1, Torrey Nyborg2, Jamie Brezina3 & Yusuke Ando4 5 6 1Department of Integrative Biology & Museum of Paleontology, University of California, Berkeley, 1005 7 Valley Life Sciences Building #3140, Berkeley, CA 94720, USA. Email: [email protected] 8 9 2Department of Earth and Biological Sciences, Loma Linda University, Loma Linda, CA 92354, USA. 10 Email: [email protected] 11 12 3South Dakota School of Mines and Technology, Rapid City, SD 57701, USA. Email: 13 [email protected] 14 15 4Mizunami Fossil Museum, 1-47, Yamanouchi, Akeyo-cho, Mizunami, Gifu, 509-6132, Japan. 16 Email: [email protected] 17 18 This preprint has been submitted for publication in the Topics in Geobiology volume “Ancient Methane 19 Seeps and Cognate Communities”. Specimen figures are excluded in this preprint because permissions 20 were only received for the peer-reviewed publication. 21 22 Introduction 23 24 Crustaceans are abundant inhabitants of today’s cold seep environments (Chevaldonné and Olu 1996; 25 Martin and Haney 2005; Karanovic and Brandão 2015), and could play an important role in structuring 26 seep ecosystems. Cold seeps fluids provide an additional source of energy for various sulfide- and 27 hydrocarbon-harvesting bacteria, often in symbiosis with invertebrates, attracting a variety of other 28 organisms including crustaceans (e.g., Levin 2005; Vanreusel et al. 2009; Vrijenhoek 2013). The 29 percentage of crustaceans of all macrofaunal specimens is highly variable locally in modern seeps, from 30 0–>50% (Dando et al. 1991; Levin et al. -
Tsuchida S, Suzuki Y, Fujiwara Y, Kawato M, Uematsu K, Yamanaka T, Mizota
Tsuchida S, Suzuki Y, Fujiwara Y, Kawato M, Uematsu K, Yamanaka T, Mizota C, Yamamoto H (2011) Epibiotic association between filamentous bacteria and the vent-associated galatheid crab, Shinkaia crosnieri (Decapoda: Anomura). J Mar Biol Ass 91:23-32 藤原義弘 (2010) 鯨骨が育む深海の小宇宙ー鯨骨生物群集研究の最前線ー.ビオ フィリア 6(2): 25-29. 藤原義弘 (2010) 深海のとっても変わった生きもの.幻冬舎. 藤原義弘・河戸勝 (2010) 鯨骨生物群集と二つの「飛び石」仮説.高圧力の科 学と技術 20(4): 315-320. 土屋正史・力石嘉人・大河内直彦・高野淑識・小川奈々子・藤倉克則・吉田尊 雄・喜多村稔・Dhugal J. Lindsay・藤原義弘・野牧秀隆・豊福高志・山本啓之・ 丸山正・和田英太郎 (2010) アミノ酸窒素同位体比に基づく海洋生態系の食物網 構造の解析.2010年度日本地球化学会年会. Watanabe H, Fujikura K, Kojima S, Miyazaki J-i, Fujiwara Y (2009) Japan: Vents and seeps in close proximity In: Topic in Geobiology. Springer, p in press Kinoshita G, Kawato M, Shinozaki A, Yamamoto T, Okoshi K, Kubokawa K, Yamamoto H, Fujiwara Y (2010) Protandric hermaphroditism in the whale-fall mussel Adipicola pacifica. Cah Biol Mar 51:in press Miyazaki M, Kawato M, Umezu Y, Pradillon F, Fujiwara Y (2010) Isolation of symbiont-like bacteria from Osedax spp. 58p. Kawato M, Fujiwara Y (2010) Discovery of chemosymbiotic ciliate Zoothamnium niveum from a whale fall in Japan. Japan Geoscience Union Meeting 2010. Fujiwara Y, Kawato M, Miyazaki M, (2010) Diversity and evolution of symbioses at whale falls. Memorial Symposium for the 26th International Prize for Biology ”Biology of Symbiosis”. 藤原 義弘,河戸 勝,山中 寿朗 (2010) 鯨骨産イガイ類における共生様式の進 化.日本地球惑星科学連合2010年大会. Nishimura A, Yamamoto T, Fujiwara Y, Masaru Kawato, Pradillon Florence and Kaoru Kubokawa (2010) Population Structure of Protodrilus sp. (Polychaeta) in Whale Falls. Trench Connection: International Symposium on the Deepest Environment on Earth. 永堀 敦志,藤原 義弘,河戸 勝 (2010) 鯨骨産二枚貝ヒラノマクラの鰓上皮細 胞の貪食能力に関する研究.日本地球惑星科学連合2010年大会. Shinozaki A, Kawato M, Noda C, Yamamoto T, Kubokawa K, Yamanaka T, Tahara J, Nakajoh H, Aoki T, Miyake H, Fujiwara Y (2010) Reproduction of the vestimentiferan tubeworm Lamellibrachia satsuma inhabiting a whale vertebra in an aquarium. -
Reproduction of Gastropods from Vents on the East Pacific Rise and the Mid-Atlantic Ridge
JOBNAME: jsr 27#1 2008 PAGE: 1 OUTPUT: Friday March 14 03:55:15 2008 tsp/jsr/159953/27-1-19 View metadata, citation and similar papers at core.ac.uk brought to you by CORE Journal of Shellfish Research, Vol. 27, No. 1, 107–118, 2008. provided by Woods Hole Open Access Server REPRODUCTION OF GASTROPODS FROM VENTS ON THE EAST PACIFIC RISE AND THE MID-ATLANTIC RIDGE PAUL A. TYLER,1* SOPHIE PENDLEBURY,1 SUSAN W. MILLS,2 LAUREN MULLINEAUX,2 KEVIN J. ECKELBARGER,3 MARIA BAKER1 AND CRAIG M. YOUNG4 1National Oceanography Centre, Southampton, University of Southampton, Southampton SO14 3ZH, United Kingdom; 2Biology Department Woods Hole Oceanographic Institution, Woods Hole Massachusetts 02543; 3Darling Marine Center, University of Maine, 193 Clark’s Cove Road. Walpole, Maine 04573; 4Oregon Institute of Marine Biology, University of Oregon, Charleston, Oregon 97420 ABSTRACT The gametogenic biology is described for seven species of gastropod from hydrothermal vents in the East Pacific and from the Mid-Atlantic Ridge. Species of the limpet genus Lepetodrilus (Family Lepetodrilidae) had a maximum unfertilized oocyte size of <90 mm and there was no evidence of reproductive periodicity or spatial variation in reproductive pattern. Individuals showed early maturity with females undergoing gametogenesis at less than one third maximum body size. There was a power relationship between shell length and fecundity, with a maximum of ;1,800 oocytes being found in one individual, although individual fecundity was usually <1,000. Such an egg size might be indicative of planktotrophic larval development, but there was never any indication of shell growth in larvae from species in this genus. -
Characterization of Environmental and Cultivable Antibiotic- Resistant Microbial Communities Associated with Wastewater Treatment
antibiotics Article Characterization of Environmental and Cultivable Antibiotic- Resistant Microbial Communities Associated with Wastewater Treatment Alicia Sorgen 1, James Johnson 2, Kevin Lambirth 2, Sandra M. Clinton 3 , Molly Redmond 1 , Anthony Fodor 2 and Cynthia Gibas 2,* 1 Department of Biological Sciences, University of North Carolina at Charlotte, Charlotte, NC 28223, USA; [email protected] (A.S.); [email protected] (M.R.) 2 Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Charlotte, NC 28223, USA; [email protected] (J.J.); [email protected] (K.L.); [email protected] (A.F.) 3 Department of Geography & Earth Sciences, University of North Carolina at Charlotte, Charlotte, NC 28223, USA; [email protected] * Correspondence: [email protected]; Tel.: +1-704-687-8378 Abstract: Bacterial resistance to antibiotics is a growing global concern, threatening human and environmental health, particularly among urban populations. Wastewater treatment plants (WWTPs) are thought to be “hotspots” for antibiotic resistance dissemination. The conditions of WWTPs, in conjunction with the persistence of commonly used antibiotics, may favor the selection and transfer of resistance genes among bacterial populations. WWTPs provide an important ecological niche to examine the spread of antibiotic resistance. We used heterotrophic plate count methods to identify Citation: Sorgen, A.; Johnson, J.; phenotypically resistant cultivable portions of these bacterial communities and characterized the Lambirth, K.; Clinton, -
Metagenomic Analysis Shows the Presence of Bacteria Related To
ORIGINAL RESEARCH published: 28 May 2018 doi: 10.3389/fmars.2018.00171 Metagenomic Analysis Shows the Presence of Bacteria Related to Free-Living Forms of Sulfur-Oxidizing Chemolithoautotrophic Symbionts in the Rhizosphere of the Seagrass Zostera marina Catarina Cúcio 1, Lex Overmars 1, Aschwin H. Engelen 2 and Gerard Muyzer 1* 1 Edited by: Microbial Systems Ecology, Department of Freshwater and Marine Ecology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, Netherlands, 2 Marine Ecology and Evolution Research Group, Jillian Petersen, CCMAR-CIMAR Centre for Marine Sciences, Universidade do Algarve, Faro, Portugal Universität Wien, Austria Reviewed by: Stephanie Markert, Seagrasses play an important role as ecosystem engineers; they provide shelter to many Institut für Marine Biotechnologie, animals and improve water quality by filtering out nutrients and by controlling pathogens. Germany Annette Summers Engel, Moreover, their rhizosphere promotes a myriad of microbial interactions and processes, University of Tennessee, Knoxville, which are dominated by microorganisms involved in the sulfur cycle. This study United States provides a detailed insight into the metabolic sulfur pathways in the rhizobiome of the *Correspondence: Gerard Muyzer seagrass Zostera marina, a dominant seagrass species across the temperate northern [email protected] hemisphere. Shotgun metagenomic sequencing revealed the relative dominance of Gamma- and Deltaproteobacteria, and comparative analysis of sulfur genes identified a Specialty section: This article was submitted to higher abundance of genes related to sulfur oxidation than sulfate reduction. We retrieved Aquatic Microbiology, four high-quality draft genomes that are closely related to the gill symbiont of the clam a section of the journal Solemya velum, which suggests the presence of putative free-living forms of symbiotic Frontiers in Marine Science bacteria. -
Nanosims and Tissue Autoradiography Reveal Symbiont Carbon fixation and Organic Carbon Transfer to Giant Ciliate Host
The ISME Journal (2018) 12:714–727 https://doi.org/10.1038/s41396-018-0069-1 ARTICLE NanoSIMS and tissue autoradiography reveal symbiont carbon fixation and organic carbon transfer to giant ciliate host 1 2 1 3 4 Jean-Marie Volland ● Arno Schintlmeister ● Helena Zambalos ● Siegfried Reipert ● Patricija Mozetič ● 1 4 2 1 Salvador Espada-Hinojosa ● Valentina Turk ● Michael Wagner ● Monika Bright Received: 23 February 2017 / Revised: 3 October 2017 / Accepted: 9 October 2017 / Published online: 9 February 2018 © The Author(s) 2018. This article is published with open access Abstract The giant colonial ciliate Zoothamnium niveum harbors a monolayer of the gammaproteobacteria Cand. Thiobios zoothamnicoli on its outer surface. Cultivation experiments revealed maximal growth and survival under steady flow of high oxygen and low sulfide concentrations. We aimed at directly demonstrating the sulfur-oxidizing, chemoautotrophic nature of the symbionts and at investigating putative carbon transfer from the symbiont to the ciliate host. We performed pulse-chase incubations with 14C- and 13C-labeled bicarbonate under varying environmental conditions. A combination of tissue autoradiography and nanoscale secondary ion mass spectrometry coupled with transmission electron microscopy was used to fi 1234567890();,: follow the fate of the radioactive and stable isotopes of carbon, respectively. We show that symbiont cells x substantial amounts of inorganic carbon in the presence of sulfide, but also (to a lesser degree) in the absence of sulfide by utilizing internally stored sulfur. Isotope labeling patterns point to translocation of organic carbon to the host through both release of these compounds and digestion of symbiont cells. The latter mechanism is also supported by ultracytochemical detection of acid phosphatase in lysosomes and in food vacuoles of ciliate cells. -
Remarkable Convergent Evolution in Specialized Parasitic Thecostraca (Crustacea)
Remarkable convergent evolution in specialized parasitic Thecostraca (Crustacea) Pérez-Losada, Marcos; Høeg, Jens Thorvald; Crandall, Keith A Published in: BMC Biology DOI: 10.1186/1741-7007-7-15 Publication date: 2009 Document version Publisher's PDF, also known as Version of record Citation for published version (APA): Pérez-Losada, M., Høeg, J. T., & Crandall, K. A. (2009). Remarkable convergent evolution in specialized parasitic Thecostraca (Crustacea). BMC Biology, 7(15), 1-12. https://doi.org/10.1186/1741-7007-7-15 Download date: 25. Sep. 2021 BMC Biology BioMed Central Research article Open Access Remarkable convergent evolution in specialized parasitic Thecostraca (Crustacea) Marcos Pérez-Losada*1, JensTHøeg2 and Keith A Crandall3 Address: 1CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, Campus Agrário de Vairão, Portugal, 2Comparative Zoology, Department of Biology, University of Copenhagen, Copenhagen, Denmark and 3Department of Biology and Monte L Bean Life Science Museum, Brigham Young University, Provo, Utah, USA Email: Marcos Pérez-Losada* - [email protected]; Jens T Høeg - [email protected]; Keith A Crandall - [email protected] * Corresponding author Published: 17 April 2009 Received: 10 December 2008 Accepted: 17 April 2009 BMC Biology 2009, 7:15 doi:10.1186/1741-7007-7-15 This article is available from: http://www.biomedcentral.com/1741-7007/7/15 © 2009 Pérez-Losada et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. -
Molecular Species Delimitation and Biogeography of Canadian Marine Planktonic Crustaceans
Molecular Species Delimitation and Biogeography of Canadian Marine Planktonic Crustaceans by Robert George Young A Thesis presented to The University of Guelph In partial fulfilment of requirements for the degree of Doctor of Philosophy in Integrative Biology Guelph, Ontario, Canada © Robert George Young, March, 2016 ABSTRACT MOLECULAR SPECIES DELIMITATION AND BIOGEOGRAPHY OF CANADIAN MARINE PLANKTONIC CRUSTACEANS Robert George Young Advisors: University of Guelph, 2016 Dr. Sarah Adamowicz Dr. Cathryn Abbott Zooplankton are a major component of the marine environment in both diversity and biomass and are a crucial source of nutrients for organisms at higher trophic levels. Unfortunately, marine zooplankton biodiversity is not well known because of difficult morphological identifications and lack of taxonomic experts for many groups. In addition, the large taxonomic diversity present in plankton and low sampling coverage pose challenges in obtaining a better understanding of true zooplankton diversity. Molecular identification tools, like DNA barcoding, have been successfully used to identify marine planktonic specimens to a species. However, the behaviour of methods for specimen identification and species delimitation remain untested for taxonomically diverse and widely-distributed marine zooplanktonic groups. Using Canadian marine planktonic crustacean collections, I generated a multi-gene data set including COI-5P and 18S-V4 molecular markers of morphologically-identified Copepoda and Thecostraca (Multicrustacea: Hexanauplia) species. I used this data set to assess generalities in the genetic divergence patterns and to determine if a barcode gap exists separating interspecific and intraspecific molecular divergences, which can reliably delimit specimens into species. I then used this information to evaluate the North Pacific, Arctic, and North Atlantic biogeography of marine Calanoida (Hexanauplia: Copepoda) plankton. -
The Heart of a Dragon: 3D Anatomical Reconstruction of the 'Scaly-Foot Gastropod'
The heart of a dragon: 3D anatomical reconstruction of the 'scaly-foot gastropod' (Mollusca: Gastropoda: Neomphalina) reveals its extraordinary circulatory system Chen, C., Copley, J. T., Linse, K., Rogers, A. D., & Sigwart, J. D. (2015). The heart of a dragon: 3D anatomical reconstruction of the 'scaly-foot gastropod' (Mollusca: Gastropoda: Neomphalina) reveals its extraordinary circulatory system. Frontiers in zoology, 12(13), [13]. https://doi.org/10.1186/s12983-015-0105-1 Published in: Frontiers in zoology Document Version: Publisher's PDF, also known as Version of record Queen's University Belfast - Research Portal: Link to publication record in Queen's University Belfast Research Portal Publisher rights © 2015 Chen et al. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. General rights Copyright for the publications made accessible via the Queen's University Belfast Research Portal is retained by the author(s) and / or other copyright owners and it is a condition of accessing these publications that users recognise and abide by the legal requirements associated with these rights. Take down policy The Research Portal is Queen's institutional repository that provides access to Queen's research output. Every effort has been made to ensure that content in the Research Portal does not infringe any person's rights, or applicable UK laws.