Photographic Identification Guide to Larvae at Hydrothermal Vents by Susan W
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Genomic, Transcriptomic, and Proteomic Insights Into Intracellular
Zhou et al. Microbiome (2021) 9:182 https://doi.org/10.1186/s40168-021-01099-6 RESEARCH Open Access Arms race in a cell: genomic, transcriptomic, and proteomic insights into intracellular phage–bacteria interplay in deep-sea snail holobionts Kun Zhou1,2, Ying Xu 2,3*, Rui Zhang4,5* and Pei-Yuan Qian1* Abstract Background: Deep-sea animals in hydrothermal vents often form endosymbioses with chemosynthetic bacteria. Endosymbionts serve essential biochemical and ecological functions, but the prokaryotic viruses (phages) that determine their fate are unknown. Results: We conducted metagenomic analysis of a deep-sea vent snail. We assembled four genome bins for Caudovirales phages that had developed dual endosymbiosis with sulphur-oxidising bacteria (SOB) and methane- oxidising bacteria (MOB). Clustered regularly interspaced short palindromic repeat (CRISPR) spacer mapping, genome comparison, and transcriptomic profiling revealed that phages Bin1, Bin2, and Bin4 infected SOB and MOB. The observation of prophages in the snail endosymbionts and expression of the phage integrase gene suggested the presence of lysogenic infection, and the expression of phage structural protein and lysozyme genes indicated active lytic infection. Furthermore, SOB and MOB appear to employ adaptive CRISPR–Cas systems to target phage DNA. Additional expressed defence systems, such as innate restriction–modification systems and dormancy- inducing toxin–antitoxin systems, may co-function and form multiple lines for anti-viral defence. To counter host defence, phages Bin1, Bin2, and Bin3 appear to have evolved anti-restriction mechanisms and expressed methyltransferase genes that potentially counterbalance host restriction activity. In addition, the high-level expression of the auxiliary metabolic genes narGH, which encode nitrate reductase subunits, may promote ATP production, thereby benefiting phage DNA packaging for replication. -
Vertical, Lateral and Temporal Structure in Larval Distributions at Hydrothermal Vents
MARINE ECOLOGY PROGRESS SERIES Vol. 293: 1–16, 2005 Published June 2 Mar Ecol Prog Ser Vertical, lateral and temporal structure in larval distributions at hydrothermal vents L. S. Mullineaux1,*, S. W. Mills1, A. K. Sweetman2, A. H. Beaudreau3, 4 5 A. Metaxas , H. L. Hunt 1Woods Hole Oceanographic Institution, MS 34, Woods Hole, Massachusetts 02543, USA 2Max-Planck-Institut für marine Mikrobiologie, Celsiusstraße 1, 28359 Bremen, Germany 3University of Washington, Box 355020, Seattle, Washington 98195, USA 4Dalhousie University, Halifax, Nova Scotia B3H 4J1, Canada 5University of New Brunswick, PO Box 5050, Saint John, New Brunswick E2L 4L5, Canada ABSTRACT: We examined larval abundance patterns near deep-sea hydrothermal vents along the East Pacific Rise to investigate how physical transport processes and larval behavior may interact to influence larval dispersal from, and supply to, vent populations. We characterized vertical and lateral distributions and temporal variation of larvae of vent species using high-volume pumps that recov- ered larvae in good condition (some still alive) and in high numbers (up to 450 individuals sample–1). Moorings supported pumps at heights of 1, 20, and 175 m above the seafloor, and were positioned directly above and at 10s to 100s of meters away from vent communities. Sampling was conducted on 4 cruises between November 1998 and May 2000. Larvae of 22 benthic species, including gastropods, a bivalve, polychaetes, and a crab, were identified unequivocally as vent species, and 15 additional species, or species-groups, comprised larvae of probable vent origin. For most taxa, abundances decreased significantly with increasing height above bottom. When vent sites within the confines of the axial valley were considered, larval abundances were significantly higher on-vent than off, sug- gesting that larvae may be retained within the valley. -
(Gastropoda: Cocculiniformia) from Off the Caribbean Coast of Colombia
ó^S PROCEEDINGS OF THE BIOLOGICAL SOCIETY OF WASHINGTON ll8(2):344-366. 2005. Cocculinid and pseudococculinid limpets (Gastropoda: Cocculiniformia) from off the Caribbean coast of Colombia Néstor E. Ardila and M. G. Harasewych (NEA) Museo de Historia Natural Marina de Colombia, Instituto de Investigaciones Marinas, INVEMAR, Santa Marta, A.A. 1016, Colombia, e-mail: [email protected]; (MGH) Department of Invertebrate Zoology, MRC-I63, National Museum of Natural History, Smithsonian Institution, Washington, D.C. 20013-7012 U.S.A., e-mail: [email protected] Abstract.•The present paper reports on the occurrence of six species of Cocculinidae and three species of Pseudococculinidae off the Caribbean coast of Colombia. Cocculina messingi McLean & Harasewych, 1995, Cocculina emsoni McLean & Harasewych, 1995 Notocrater houbricki McLean & Hara- sewych, 1995 and Notocrater youngi McLean & Harasewych, 1995 were not previously known to occur within the of the Caribbean Sea, while Fedikovella beanii (Dall, 1882) had been reported only from the western margins of the Atlantic Ocean, including the lesser Antilles. New data are presented on the external anatomy and radular morphology of Coccocrater portoricensis (Dall & Simpson, 1901) that supports its placement in the genus Coccocrater. Coc- culina fenestrata n. sp. (Cocculinidae) and Copulabyssia Colombia n. sp. (Pseu- dococculinidae) are described from the upper continental slope of Caribbean Colombia. Cocculiniform limpets comprise two paraphyletic, with the Cocculinoidea related groups of bathyal to hadal gastropods with to Neomphalina and the Lepetelloidea in- global distribution that live primarily on cluded within Vetigastropoda (Ponder & biogenic substrates (e.g., wood, algal hold- Lindberg 1996, 1997; McArthur & Hara- fasts, whale bone, cephalopod beaks, crab sewych 2003). -
Biodiversity and Trophic Ecology of Hydrothermal Vent Fauna Associated with Tubeworm Assemblages on the Juan De Fuca Ridge
Biogeosciences, 15, 2629–2647, 2018 https://doi.org/10.5194/bg-15-2629-2018 © Author(s) 2018. This work is distributed under the Creative Commons Attribution 4.0 License. Biodiversity and trophic ecology of hydrothermal vent fauna associated with tubeworm assemblages on the Juan de Fuca Ridge Yann Lelièvre1,2, Jozée Sarrazin1, Julien Marticorena1, Gauthier Schaal3, Thomas Day1, Pierre Legendre2, Stéphane Hourdez4,5, and Marjolaine Matabos1 1Ifremer, Centre de Bretagne, REM/EEP, Laboratoire Environnement Profond, 29280 Plouzané, France 2Département de sciences biologiques, Université de Montréal, C.P. 6128, succursale Centre-ville, Montréal, Québec, H3C 3J7, Canada 3Laboratoire des Sciences de l’Environnement Marin (LEMAR), UMR 6539 9 CNRS/UBO/IRD/Ifremer, BP 70, 29280, Plouzané, France 4Sorbonne Université, UMR7144, Station Biologique de Roscoff, 29680 Roscoff, France 5CNRS, UMR7144, Station Biologique de Roscoff, 29680 Roscoff, France Correspondence: Yann Lelièvre ([email protected]) Received: 3 October 2017 – Discussion started: 12 October 2017 Revised: 29 March 2018 – Accepted: 7 April 2018 – Published: 4 May 2018 Abstract. Hydrothermal vent sites along the Juan de Fuca community structuring. Vent food webs did not appear to be Ridge in the north-east Pacific host dense populations of organised through predator–prey relationships. For example, Ridgeia piscesae tubeworms that promote habitat hetero- although trophic structure complexity increased with ecolog- geneity and local diversity. A detailed description of the ical successional stages, showing a higher number of preda- biodiversity and community structure is needed to help un- tors in the last stages, the food web structure itself did not derstand the ecological processes that underlie the distribu- change across assemblages. -
Species Trophic Guild – Nutritional Mode Reference(S) Annelida Polychaeta Siboglinidae Ridgeia Piscesae Symbiotic Jones (1985)*; Southward Et Al
Species Trophic guild – nutritional mode Reference(s) Annelida Polychaeta Siboglinidae Ridgeia piscesae Symbiotic Jones (1985)*; Southward et al. (1995); Bergquist et al. (2007); this study Maldanidae Nicomache venticola Bacterivore – surface deposit feeder or grazer Blake and Hilbig (1990)*; Bergquist et al. (2007); this study Dorvilleidae Ophryotrocha globopalpata Predator Blake and Hilbig (1990)*; Bergquist et al. (2007); this study Orbiniidae Berkeleyia sp. nov. Scavenger/detritivore – suspension feeder Jumars et al. (2015); this study Hesionidae Hesiospina sp. nov.a Predator Bonifácio et al. (2018)*; this study Phyllodocidae Protomystides verenae Predator Blake and Hilbig (1990)*; Bergquist et al. (2007); this study Polynoidae Branchinotogluma tunnicliffeae Predator Pettibone (1988)*; Bergquist et al. (2007); this study Branchinotogluma sp. Predator – Lepidonotopodium piscesae Predator Pettibone (1988)*; Levesque et al. (2006); Bergquist et al. (2007); this study Levensteiniella kincaidi Predator Pettibone (1985)*; Bergquist et al. (2007); this study Sigalionidae Pholoe courtneyae Predator Blake (1995)*; Sweetman et al. (2013) Syllidae Sphaerosyllis ridgensis Predator Blake and Hilbig (1990)*; Bergquist et al. (2007); this study Alvinellidae Paralvinella dela Bacterivore – surface deposit feeder or grazer; suspension feeder Detinova (1988)*; this study Paralvinella palmiformis Bacterivore – surface deposit feeder or grazer; suspension feeder Desbruyères and Laubier (1986*, 1991); Levesque et al. (2003); this study Paralvinella pandorae Bacterivore – surface deposit feeder or grazer; suspension feeder Desbruyères and Laubier (1986*, 1991); Levesque et al. (2003); this study Paralvinella sulfincola Bacterivore – surface deposit feeder or grazer; suspension feeder Tunnicliffe et al. (1993)*; Levesque et al. (2003); this study Ampharetidae Amphisamytha carldarei Scavenger/detritivore – surface deposit feeder or grazer Stiller et al. (2013)*; McHugh and Tunnicliffe (1994); Bergquist et al. -
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. -
CINDY LEE VAN DOVER March 2017
CINDY LEE VAN DOVER March 2017 CONTACT INFORMATION Division of Marine Science and Conservation Duke University Marine Laboratory 135 Duke Marine Lab Road Beaufort NC 28516 Tel: 252-504-7655 Fax: 252-504-7648 [email protected] EDUCATION 1989 PhD Massachusetts Institute of Technology and Woods Hole Oceanographic Institution Joint Program in Biological Oceanography. Department of Biology, Woods Hole Oceanographic Institution. Dissertation Title: Chemosynthetic Communities in the Deep Sea: Ecological Studies. PhD. Advisor: J.F. Grassle 1985 MA University of California, Los Angeles; Ecology 1977 BS Cook College, Rutgers University; Environmental Science ACADEMIC POSITIONS 2016 Visiting Scientist, Université de Bretagne Occidentale 2006- Harvey W. Smith Professor, Division of Marine Science and Conservation, Duke University 2006-2016 Director, Duke University Marine Laboratory 2006-2016 Chair, Division of Marine Science and Conservation 2006-2014 Director, Certificate in Marine Science and Conservation Leadership 2005-2006 Associate Professor, Biology Department, College of William & Mary 2002-2005 Marjorie S. Curtis Associate Professor, Biology Department, College of William & Mary 2005 Instructor, Oregon Institute of Marine Biology, University of Oregon 2004 Fulbright Research Scholar, IFREMER, Centre de Brest, France 1998-2002 Assistant Professor, Biology Department, College of William & Mary 1995-1998 Science Director, West Coast National Undersea Research Center and Research Associate Professor, Institute of Marine Science, University of Alaska, Fairbanks; Visiting Investigator, Dept. Geology & Geophysics, WHOI 1994-1995 Mary Derrickson McCurdy Visiting Scholar, Duke University School of the Environment, Duke Marine Lab., Beaufort, NC 1992-1994 Visiting Investigator, Department of Marine Chemistry and Geochemistry, WHOI 1989-1992 Submersible Pilot, ALVIN Group and Post-Doctoral Investigator, Biology Department, WHOI. -
The Specific and Exclusive Microbiome of the Deep-Sea Bone-Eating Snail, Rubyspira Osteovora Heidi S
FEMS Microbiology Ecology, 93, 2017, fiw250 doi: 10.1093/femsec/fiw250 Advance Access Publication Date: 16 December 2016 Research Article RESEARCH ARTICLE The specific and exclusive microbiome of the deep-sea bone-eating snail, Rubyspira osteovora Heidi S. Aronson, Amanda J. Zellmer and Shana K. Goffredi∗ Department of Biology, Occidental College, Los Angeles, CA 90041, USA ∗Corresponding author: Department of Biology, Occidental College, 1600 Campus Rd, Los Angeles, CA 90041, USA. Tel: +323-259-1470; E-mail: [email protected] One sentence summary: Rubyspira osteovora is an unusual snail found only at whalefalls in the deep-sea, with a gut microbiome dominated by bacteria not present in the surrounding environment. Editor: Julie Olson ABSTRACT Rubyspira osteovora is an unusual deep-sea snail from Monterey Canyon, California. This group has only been found on decomposing whales and is thought to use bone as a novel source of nutrition. This study characterized the gut microbiome of R. osteovora, compared to the surrounding environment, as well as to other deep-sea snails with more typical diets. Analysis of 16S rRNA gene sequences revealed that R. osteovora digestive tissues host a much lower bacterial diversity (average Shannon index of 1.9; n = 12), compared to environmental samples (average Shannon index of 4.4; n = 2) and are dominated by two bacterial genera: Mycoplasma and Psychromonas (comprising up to 56% and 42% average total recovered sequences, respectively). These two bacteria, along with Psychrilyobacter sp. (∼16% average recovered sequences), accounted for between 43% and 92% of the total recovered sequences in individual snail digestive systems, with other OTUs present at much lower proportions. -
Pleistocene Molluscs from the Namaqualand Coast
ANNALS OF THE SOUTH AFRICAN MUSEUM ANNALE VAN DIE SUID-AFRIKAANSE MUSEUM Volume 52 Band July 1969 Julie Part 9 Dee! PLEISTOCENE MOLLUSCS FROM THE NAMAQUALAND COAST By A.J.CARRINGTON & B.F.KENSLEY are issued in parts at irregular intervals as material becomes available Obtainable from the South African Museum, P.O. Box 61, Cape Town word uitgegee in dele opongereelde tye na beskikbaarheid van stof OUT OF PRINT/UIT nRUK I, 2(1, 3, 5, 7-8), 3(1-2, 5, t.-p.i.), 5(2, 5, 7-9), 6(1, t.-p.i.), 7(1, 3), 8, 9(1-2), 10(1-3), 11(1-2, 7, t.-p.i.), 21, 24(2), 27, 31(1-3), 38, 44(4)· Price of this part/Prys van hierdie deel Rg.oo Trustees of the South African Museum © 1969 Printed in South Africa by In Suid-Afrika gedruk deur The Rustica Press, Pty., Ltd. Die Rustica-pers, Edms., Bpk. Court Road, Wynberg, Cape Courtweg, Wynberg, Kaap By A. ]. CARRINGTON & B. F. KENSLEY South African Museum, Cape Town (With plates 18 to 29 and I I figures) PAGE Introduction 189 Succession 190 Systematic discussion. 191 Acknowledgements 222 Summary. 222 References 223 INTRODUCTION In the course of an examination of the Tertiary to Recent sediments of the Namaqualand coast, being carried out by one of the authors (A.].C.), a collection of fossil molluscs was assembled from the Pleistocene horizons encountered in the area. The purpose of this paper is to introduce and describe some twenty species from this collection, including forms new to the South Mrican palaeontological literature. -
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. -
Mollusca, Archaeogastropoda) from the Northeastern Pacific
Zoologica Scripta, Vol. 25, No. 1, pp. 35-49, 1996 Pergamon Elsevier Science Ltd © 1996 The Norwegian Academy of Science and Letters Printed in Great Britain. All rights reserved 0300-3256(95)00015-1 0300-3256/96 $ 15.00 + 0.00 Anatomy and systematics of bathyphytophilid limpets (Mollusca, Archaeogastropoda) from the northeastern Pacific GERHARD HASZPRUNAR and JAMES H. McLEAN Accepted 28 September 1995 Haszprunar, G. & McLean, J. H. 1995. Anatomy and systematics of bathyphytophilid limpets (Mollusca, Archaeogastropoda) from the northeastern Pacific.—Zool. Scr. 25: 35^9. Bathyphytophilus diegensis sp. n. is described on basis of shell and radula characters. The radula of another species of Bathyphytophilus is illustrated, but the species is not described since the shell is unknown. Both species feed on detached blades of the surfgrass Phyllospadix carried by turbidity currents into continental slope depths in the San Diego Trough. The anatomy of B. diegensis was investigated by means of semithin serial sectioning and graphic reconstruction. The shell is limpet like; the protoconch resembles that of pseudococculinids and other lepetelloids. The radula is a distinctive, highly modified rhipidoglossate type with close similarities to the lepetellid radula. The anatomy falls well into the lepetelloid bauplan and is in general similar to that of Pseudococculini- dae and Pyropeltidae. Apomorphic features are the presence of gill-leaflets at both sides of the pallial roof (shared with certain pseudococculinids), the lack of jaws, and in particular many enigmatic pouches (bacterial chambers?) which open into the posterior oesophagus. Autapomor- phic characters of shell, radula and anatomy confirm the placement of Bathyphytophilus (with Aenigmabonus) in a distinct family, Bathyphytophilidae Moskalev, 1978. -
A Molecular Phylogeny of the Patellogastropoda (Mollusca: Gastropoda)
^03 Marine Biology (2000) 137: 183-194 ® Spnnger-Verlag 2000 M. G. Harasevvych A. G. McArthur A molecular phylogeny of the Patellogastropoda (Mollusca: Gastropoda) Received: 5 February 1999 /Accepted: 16 May 2000 Abstract Phylogenetic analyses of partiaJ J8S rDNA formia" than between the Patellogastropoda and sequences from species representing all living families of Orthogastropoda. Partial 18S sequences support the the order Patellogastropoda, most other major gastro- inclusion of the family Neolepetopsidae within the su- pod groups (Cocculiniformia, Neritopsma, Vetigastro- perfamily Acmaeoidea, and refute its previously hy- poda, Caenogastropoda, Heterobranchia, but not pothesized position as sister group to the remaining Neomphalina), and two additional classes of the phylum living Patellogastropoda. This region of the Í8S rDNA Mollusca (Cephalopoda, Polyplacophora) confirm that gene diverges at widely differing rates, spanning an order Patellogastropoda comprises a robust clade with high of magnitude among patellogastropod lineages, and statistical support. The sequences are characterized by therefore does not provide meaningful resolution of the the presence of several insertions and deletions that are relationships among higher taxa of patellogastropods. unique to, and ubiquitous among, patellogastropods. Data from one or more genes that evolve more uni- However, this portion of the 18S gene is insufficiently formly and more rapidly than the ISSrDNA gene informative to provide robust support for the mono- (possibly one or more