Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges

Kamke J, Sczyrba A, Ivanova N, Schwientek P, Rinke C, Mavromatis K, Woyke T, Hentschel U (2013)
The ISME journal 7(12): 2287-2300.

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Abstract / Bemerkung
Many marine sponges are hosts to dense and phylogenetically diverse microbial communities that are located in the extracellular matrix of the animal. The candidate phylum Poribacteria is a predominant member of the sponge microbiome and its representatives are nearly exclusively found in sponges. Here we used single-cell genomics to obtain comprehensive insights into the metabolic potential of individual poribacterial cells representing three distinct phylogenetic groups within Poribacteria. Genome sizes were up to 5.4 Mbp and genome coverage was as high as 98.5%. Common features of the poribacterial genomes indicated that heterotrophy is likely to be of importance for this bacterial candidate phylum. Carbohydrate-active enzyme database screening and further detailed analysis of carbohydrate metabolism suggested the ability to degrade diverse carbohydrate sources likely originating from seawater and from the host itself. The presence of uronic acid degradation pathways as well as several specific sulfatases provides strong support that Poribacteria degrade glycosaminoglycan chains of proteoglycans, which are important components of the sponge host matrix. Dominant glycoside hydrolase families further suggest degradation of other glycoproteins in the host matrix. We therefore propose that Poribacteria are well adapted to an existence in the sponge extracellular matrix. Poribacteria may be viewed as efficient scavengers and recyclers of a particular suite of carbon compounds that are unique to sponges as microbial ecosystems.
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The ISME journal
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Kamke J, Sczyrba A, Ivanova N, et al. Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges. The ISME journal. 2013;7(12):2287-2300.
Kamke, J., Sczyrba, A., Ivanova, N., Schwientek, P., Rinke, C., Mavromatis, K., Woyke, T., et al. (2013). Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges. The ISME journal, 7(12), 2287-2300. doi:10.1038/ismej.2013.111
Kamke, J., Sczyrba, A., Ivanova, N., Schwientek, P., Rinke, C., Mavromatis, K., Woyke, T., and Hentschel, U. (2013). Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges. The ISME journal 7, 2287-2300.
Kamke, J., et al., 2013. Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges. The ISME journal, 7(12), p 2287-2300.
J. Kamke, et al., “Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges”, The ISME journal, vol. 7, 2013, pp. 2287-2300.
Kamke, J., Sczyrba, A., Ivanova, N., Schwientek, P., Rinke, C., Mavromatis, K., Woyke, T., Hentschel, U.: Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges. The ISME journal. 7, 2287-2300 (2013).
Kamke, Janine, Sczyrba, Alexander, Ivanova, Natalia, Schwientek, Patrick, Rinke, Christian, Mavromatis, Kostas, Woyke, Tanja, and Hentschel, Ute. “Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges”. The ISME journal 7.12 (2013): 2287-2300.

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Daten bereitgestellt von Europe PubMed Central.

Pangenomic comparison of globally distributed Poribacteria associated with sponge hosts and marine particles.
Podell S, Blanton JM, Neu A, Agarwal V, Biggs JS, Moore BS, Allen EE., ISME J 13(2), 2019
PMID: 30291328
Evolutionary Model of Cluster Divergence of the Emergent Marine Pathogen Vibrio vulnificus: From Genotype to Ecotype.
López-Pérez M, Jayakumar JM, Haro-Moreno JM, Zaragoza-Solas A, Reddi G, Rodriguez-Valera F, Shapiro OH, Alam M, Almagro-Moreno S., MBio 10(1), 2019
PMID: 30782660
Identification of a novel interspecific hybrid yeast from a metagenomic spontaneously inoculated beer sample using Hi-C.
Smukowski Heil C, Burton JN, Liachko I, Friedrich A, Hanson NA, Morris CL, Schacherer J, Shendure J, Thomas JH, Dunham MJ., Yeast 35(1), 2018
PMID: 28892574
Characterization of ecologically diverse viruses infecting co-occurring strains of cosmopolitan hyperhalophilic Bacteroidetes.
Villamor J, Ramos-Barbero MD, González-Torres P, Gabaldón T, Rosselló-Móra R, Meseguer I, Martínez-García M, Santos F, Antón J., ISME J 12(2), 2018
PMID: 29099492
Phylogeny and genomics of SAUL, an enigmatic bacterial lineage frequently associated with marine sponges.
Astudillo-García C, Slaby BM, Waite DW, Bayer K, Hentschel U, Taylor MW., Environ Microbiol 20(2), 2018
PMID: 29098761
Coexistence of poribacterial phylotypes among geographically widespread and phylogenetically divergent sponge hosts.
Steinert G, Gutleben J, Atikana A, Wijffels RH, Smidt H, Sipkema D., Environ Microbiol Rep 10(1), 2018
PMID: 29194987
The sponge holobiont in a changing ocean: from microbes to ecosystems.
Pita L, Rix L, Slaby BM, Franke A, Hentschel U., Microbiome 6(1), 2018
PMID: 29523192
The Life Aquatic at the Microscale.
Raina JB., mSystems 3(2), 2018
PMID: 29629412
Fine metagenomic profile of the Mediterranean stratified and mixed water columns revealed by assembly and recruitment.
Haro-Moreno JM, López-Pérez M, de la Torre JR, Picazo A, Camacho A, Rodriguez-Valera F., Microbiome 6(1), 2018
PMID: 29991350
Expressed protein profile of a Tectomicrobium and other microbial symbionts in the marine sponge Aplysina aerophoba as evidenced by metaproteomics.
Chaib De Mares M, Jiménez DJ, Palladino G, Gutleben J, Lebrun LA, Muller EEL, Wilmes P, Sipkema D, van Elsas JD., Sci Rep 8(1), 2018
PMID: 30087358
Integrated metabolism in sponge-microbe symbiosis revealed by genome-centered metatranscriptomics.
Moitinho-Silva L, Díez-Vives C, Batani G, Esteves AI, Jahn MT, Thomas T., ISME J 11(7), 2017
PMID: 28338677
An improved filtering algorithm for big read datasets and its application to single-cell assembly.
Wedemeyer A, Kliemann L, Srivastav A, Schielke C, Reusch TB, Rosenstiel P., BMC Bioinformatics 18(1), 2017
PMID: 28673253
Metagenomic binning of a marine sponge microbiome reveals unity in defense but metabolic specialization.
Slaby BM, Hackl T, Horn H, Bayer K, Hentschel U., ISME J 11(11), 2017
PMID: 28696422
Comparative Metagenomics Reveals the Distinctive Adaptive Features of the Spongia officinalis Endosymbiotic Consortium.
Karimi E, Ramos M, Gonçalves JMS, Xavier JR, Reis MP, Costa R., Front Microbiol 8(), 2017
PMID: 29312205
PHASTER: a better, faster version of the PHAST phage search tool.
Arndt D, Grant JR, Marcu A, Sajed T, Pon A, Liang Y, Wishart DS., Nucleic Acids Res 44(w1), 2016
PMID: 27141966
IMNGS: A comprehensive open resource of processed 16S rRNA microbial profiles for ecology and diversity studies.
Lagkouvardos I, Joseph D, Kapfhammer M, Giritli S, Horn M, Haller D, Clavel T., Sci Rep 6(), 2016
PMID: 27659943
Shedding light on cell compartmentation in the candidate phylum Poribacteria by high resolution visualisation and transcriptional profiling.
Jahn MT, Markert SM, Ryu T, Ravasi T, Stigloher C, Hentschel U, Moitinho-Silva L., Sci Rep 6(), 2016
PMID: 27796326
Metagenomic Analysis of Genes Encoding Nutrient Cycling Pathways in the Microbiota of Deep-Sea and Shallow-Water Sponges.
Li Z, Wang Y, Li J, Liu F, He L, He Y, Wang S., Mar Biotechnol (NY) 18(6), 2016
PMID: 27819120
Genomic insights into the uncultivated marine Zetaproteobacteria at Loihi Seamount.
Field EK, Sczyrba A, Lyman AE, Harris CC, Woyke T, Stepanauskas R, Emerson D., ISME J 9(4), 2015
PMID: 25303714
VirSorter: mining viral signal from microbial genomic data.
Roux S, Enault F, Hurwitz BL, Sullivan MB., PeerJ 3(), 2015
PMID: 26038737
Lifestyle evolution in cyanobacterial symbionts of sponges.
Burgsdorf I, Slaby BM, Handley KM, Haber M, Blom J, Marshall CW, Gilbert JA, Hentschel U, Steindler L., MBio 6(3), 2015
PMID: 26037118
In Silico Analysis of the Metabolic Potential and Niche Specialization of Candidate Phylum "Latescibacteria" (WS3).
Youssef NH, Farag IF, Rinke C, Hallam SJ, Woyke T, Elshahed MS., PLoS One 10(6), 2015
PMID: 26039074
The candidate phylum Poribacteria by single-cell genomics: new insights into phylogeny, cell-compartmentation, eukaryote-like repeat proteins, and other genomic features.
Kamke J, Rinke C, Schwientek P, Mavromatis K, Ivanova N, Sczyrba A, Woyke T, Hentschel U., PLoS One 9(1), 2014
PMID: 24498082
Pyrosequencing reveals the microbial communities in the Red Sea sponge Carteriospongia foliascens and their impressive shifts in abnormal tissues.
Gao ZM, Wang Y, Lee OO, Tian RM, Wong YH, Bougouffa S, Batang Z, Al-Suwailem A, Lafi FF, Bajic VB, Qian PY., Microb Ecol 68(3), 2014
PMID: 24760170
Revealing microbial functional activities in the Red Sea sponge Stylissa carteri by metatranscriptomics.
Moitinho-Silva L, Seridi L, Ryu T, Voolstra CR, Ravasi T, Hentschel U., Environ Microbiol 16(12), 2014
PMID: 24920529
The genome of the intracellular bacterium of the coastal bivalve, Solemya velum: a blueprint for thriving in and out of symbiosis.
Dmytrenko O, Russell SL, Loo WT, Fontanez KM, Liao L, Roeselers G, Sharma R, Stewart FJ, Newton IL, Woyke T, Wu D, Lang JM, Eisen JA, Cavanaugh CM., BMC Genomics 15(), 2014
PMID: 25342549
GeoChip-based insights into the microbial functional gene repertoire of marine sponges (high microbial abundance, low microbial abundance) and seawater.
Bayer K, Moitinho-Silva L, Brümmer F, Cannistraci CV, Ravasi T, Hentschel U., FEMS Microbiol Ecol 90(3), 2014
PMID: 25318900
Polyketide synthases in the microbiome of the marine sponge Plakortis halichondrioides: a metagenomic update.
Della Sala G, Hochmuth T, Teta R, Costantino V, Mangoni A., Mar Drugs 12(11), 2014
PMID: 25405856
Effects of sample handling and cultivation bias on the specificity of bacterial communities in keratose marine sponges.
Hardoim CC, Cardinale M, Cúcio AC, Esteves AI, Berg G, Xavier JR, Cox CJ, Costa R., Front Microbiol 5(), 2014
PMID: 25477868

91 References

Daten bereitgestellt von Europe PubMed Central.

The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics.
Cantarel BL, Coutinho PM, Rancurel C, Bernard T, Lombard V, Henrissat B., Nucleic Acids Res. 37(Database issue), 2008
PMID: 18838391
Tracing C-enriched dissolved and particulate organic carbon in the bacteria-containing coral reef sponge Halisarca caerulea: evidence for DOM feeding
De JM, Moodley L, Houtekamer M, Carballeira NM, Van FC., 2008
Evolution of xyloglucan-related genes in green plants.
Del Bem LE, Vincentz MG., BMC Evol. Biol. 10(), 2010
PMID: 21054875
Complex microbiome underlying secondary and primary metabolism in the tunicate-Prochloron symbiosis.
Donia MS, Fricke WF, Partensky F, Cox J, Elshahawi SI, White JR, Phillippy AM, Schatz MC, Piel J, Haygood MG, Ravel J, Schmidt EW., Proc. Natl. Acad. Sci. U.S.A. 108(51), 2011
PMID: 22123943
Three-dimensional chitin-based scaffolds from Verongida sponges (Demospongiae: Porifera). Part I. Isolation and identification of chitin.
Ehrlich H, Ilan M, Maldonado M, Muricy G, Bavestrello G, Kljajic Z, Carballo JL, Schiaparelli S, Ereskovsky A, Schupp P, Born R, Worch H, Bazhenov VV, Kurek D, Varlamov V, Vyalikh D, Kummer K, Sivkov VV, Molodtsov SL, Meissner H, Richter G, Steck E, Richter W, Hunoldt S, Kammer M, Paasch S, Krasokhin V, Patzke G, Brunner E., Int. J. Biol. Macromol. 47(2), 2010
PMID: 20471418
Functional equivalence and evolutionary convergence in complex communities of microbial sponge symbionts.
Fan L, Reynolds D, Liu M, Stark M, Kjelleberg S, Webster NS, Thomas T., Proc. Natl. Acad. Sci. U.S.A. 109(27), 2012
PMID: 22699508
Circular proteoglycans from sponges: first members of the spongican family.
Fernandez-Busquets X, Burger MM., Cell. Mol. Life Sci. 60(1), 2003
PMID: 12613660
Discovery of the novel candidate phylum "Poribacteria" in marine sponges.
Fieseler L, Horn M, Wagner M, Hentschel U., Appl. Environ. Microbiol. 70(6), 2004
PMID: 15184179
HMMER web server: interactive sequence similarity searching.
Finn RD, Clements J, Eddy SR., Nucleic Acids Res. 39(Web Server issue), 2011
PMID: 21593126
Further studies on the formation of choline sulfate by bacteria.
Fitzgerald JW, Luschinski PC., Can. J. Microbiol. 23(5), 1977
PMID: 871964
Temporal variation of the microbial community associated with the mediterranean sponge Aplysina aerophoba
Friedrich AB, Fischer I, Proksch P, Hacker J, Hentschel U., 2001
A functional myo-inositol catabolism pathway is essential for rhizopine utilization by Sinorhizobium meliloti
Galbraith MP, Feng SF, Borneman J, Triplett EW, de FJ, Rossbach S., 1998
Electron microscopy of a mucopolysaccharide cell coat in sponges
Garrone R, Thiney Y, Pavans M., 1971
Benthic suspension feeders: their paramount role in littoral marine food webs.
Gili JM, Coma R., Trends Ecol. Evol. (Amst.) 13(8), 1998
PMID: 21238320
Aphid genome expression reveals host-symbiont cooperation in the production of amino acids.
Hansen AK, Moran NA., Proc. Natl. Acad. Sci. U.S.A. 108(7), 2011
PMID: 21282658
Microbial diversity of marine sponges.
Hentschel U, Fieseler L, Wehrl M, Gernert C, Steinert M, Hacker J, Horn M., Prog. Mol. Subcell. Biol. 37(), 2003
PMID: 15825640
Genomic insights into the marine sponge microbiome.
Hentschel U, Piel J, Degnan SM, Taylor MW., Nat. Rev. Microbiol. 10(9), 2012
PMID: 22842661
Metagenomic discovery of biomass-degrading genes and genomes from cow rumen.
Hess M, Sczyrba A, Egan R, Kim TW, Chokhawala H, Schroth G, Luo S, Clark DS, Chen F, Zhang T, Mackie RI, Pennacchio LA, Tringe SG, Visel A, Woyke T, Wang Z, Rubin EM., Science 331(6016), 2011
PMID: 21273488
Chemical structures and bioactivities of sulfated polysaccharides from marine algae.
Jiao G, Yu G, Zhang J, Ewart HS., Mar Drugs 9(2), 2011
PMID: 21566795
Exploring symbioses by single-cell genomics.
Kamke J, Bayer K, Woyke T, Hentschel U., Biol. Bull. 223(1), 2012
PMID: 22983031
Inositol catabolism, a key pathway in sinorhizobium meliloti for competitive host nodulation.
Kohler PR, Zheng JY, Schoffers E, Rossbach S., Appl. Environ. Microbiol. 76(24), 2010
PMID: 20971862
Widespread distribution of poribacteria in demospongiae.
Lafi FF, Fuerst JA, Fieseler L, Engels C, Goh WW, Hentschel U., Appl. Environ. Microbiol. 75(17), 2009
PMID: 19561181
Molecular biology of osmoregulation.
Le Rudulier D, Strom AR, Dandekar AM, Smith LT, Valentine RC., Science 224(4653), 1984
PMID: 16827211
Metaproteogenomic analysis of a community of sponge symbionts.
Liu M, Fan L, Zhong L, Kjelleberg S, Thomas T., ISME J 6(8), 2012
PMID: 22297557
Amino-acid cycling drives nitrogen fixation in the legume-Rhizobium symbiosis.
Lodwig EM, Hosie AH, Bourdes A, Findlay K, Allaway D, Karunakaran R, Downie JA, Poole PS., Nature 422(6933), 2003
PMID: 12700763
Fossil steroids record the appearance of Demospongiae during the Cryogenian period.
Love GD, Grosjean E, Stalvies C, Fike DA, Grotzinger JP, Bradley AS, Kelly AE, Bhatia M, Meredith W, Snape CE, Bowring SA, Condon DJ, Summons RE., Nature 457(7230), 2009
PMID: 19194449
ARB: a software environment for sequence data.
Ludwig W, Strunk O, Westram R, Richter L, Meier H, Yadhukumar , Buchner A, Lai T, Steppi S, Jobb G, Forster W, Brettske I, Gerber S, Ginhart AW, Gross O, Grumann S, Hermann S, Jost R, Konig A, Liss T, Lussmann R, May M, Nonhoff B, Reichel B, Strehlow R, Stamatakis A, Stuckmann N, Vilbig A, Lenke M, Ludwig T, Bode A, Schleifer KH., Nucleic Acids Res. 32(4), 2004
PMID: 14985472
Siliceous sponges as a silicon sink: an overlooked aspect of benthopelagic coupling in the marine silicon cycle
Maldonado M, Carmona MC, Velasquez Z, Puig A, Cruzado A, López A., 2005
Nutrient fluxes through sponges: biology, budgets, and ecological implications.
Maldonado M, Ribes M, van Duyl FC., Adv. Mar. Biol. 62(), 2012
PMID: 22664122
IMG/M: the integrated metagenome data management and comparative analysis system.
Markowitz VM, Chen IM, Chu K, Szeto E, Palaniappan K, Grechkin Y, Ratner A, Jacob B, Pati A, Huntemann M, Liolios K, Pagani I, Anderson I, Mavromatis K, Ivanova NN, Kyrpides NC., Nucleic Acids Res. 40(Database issue), 2011
PMID: 22086953
IMG: the Integrated Microbial Genomes database and comparative analysis system.
Markowitz VM, Chen IM, Palaniappan K, Chu K, Szeto E, Grechkin Y, Ratner A, Jacob B, Huang J, Williams P, Huntemann M, Anderson I, Mavromatis K, Ivanova NN, Kyrpides NC., Nucleic Acids Res. 40(Database issue), 2012
PMID: 22194640
IMG ER: a system for microbial genome annotation expert review and curation.
Markowitz VM, Mavromatis K, Ivanova NN, Chen IM, Chu K, Kyrpides NC., Bioinformatics 25(17), 2009
PMID: 19561336
Capturing single cell genomes of active polysaccharide degraders: an unexpected contribution of Verrucomicrobia.
Martinez-Garcia M, Brazel DM, Swan BK, Arnosti C, Chain PS, Reitenga KG, Xie G, Poulton NJ, Lluesma Gomez M, Masland DE, Thompson B, Bellows WK, Ziervogel K, Lo CC, Ahmed S, Gleasner CD, Detter CJ, Stepanauskas R., PLoS ONE 7(4), 2012
PMID: 22536372
Inositol and its derivatives: their evolution and functions.
Michell RH., Adv. Enzyme Regul. 51(1), 2010
PMID: 21070803
Species-specific aggregation factor in sponges. Sialyltransferase associated with aggregation factor.
Muller WE, Arendes J, Kurelec B, Zahn RK, Muller I., J. Biol. Chem. 252(11), 1977
PMID: 16920
Role of the aggregation factor in the regulation of phosphoinositide metabolism in sponges. Possible consequences on calcium efflux and on mitogenesis.
Muller WE, Rottmann M, Diehl-Seifert B, Kurelec B, Uhlenbruck G, Schroder HC., J. Biol. Chem. 262(20), 1987
PMID: 3036873
Hydrogen is an energy source for hydrothermal vent symbioses.
Petersen JM, Zielinski FU, Pape T, Seifert R, Moraru C, Amann R, Hourdez S, Girguis PR, Wankel SD, Barbe V, Pelletier E, Fink D, Borowski C, Bach W, Dubilier N., Nature 476(7359), 2011
PMID: 21833083
SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes.
Pruesse E, Peplies J, Glockner FO., Bioinformatics 28(14), 2012
PMID: 22556368
The Pfam protein families database.
Punta M, Coggill PC, Eberhardt RY, Mistry J, Tate J, Boursnell C, Pang N, Forslund K, Ceric G, Clements J, Heger A, Holm L, Sonnhammer EL, Eddy SR, Bateman A, Finn RD., Nucleic Acids Res. 40(Database issue), 2011
PMID: 22127870
Metatranscriptomics of the marine sponge Geodia barretti: tackling phylogeny and function of its microbial community.
Radax R, Rattei T, Lanzen A, Bayer C, Rapp HT, Urich T, Schleper C., Environ. Microbiol. 14(5), 2012
PMID: 22364353
Genomic evidence for complementary purine metabolism in the pea aphid, Acyrthosiphon pisum, and its symbiotic bacterium Buchnera aphidicola.
Ramsey JS, MacDonald SJ, Jander G, Nakabachi A, Thomas GH, Douglas AE., Insect Mol. Biol. 19 Suppl 2(), 2010
PMID: 20482654
Extracellular glycoconjugates produced by cyanobacterium Wollea saccata.
Ray B, Bandyopadhyay SS, Capek P, Kopecky J, Hindak F, Lukavsky J., Int. J. Biol. Macromol. 48(4), 2011
PMID: 21277321
Bacterial polymers: biosynthesis, modifications and applications.
Rehm BH., Nat. Rev. Microbiol. 8(8), 2010
PMID: 20581859
Shifting the genomic gold standard for the prokaryotic species definition.
Richter M, Rossello-Mora R., Proc. Natl. Acad. Sci. U.S.A. 106(45), 2009
PMID: 19855009
Genomic variation landscape of the human gut microbiome.
Schloissnig S, Arumugam M, Sunagawa S, Mitreva M, Tap J, Zhu A, Waller A, Mende DR, Kultima JR, Martin J, Kota K, Sunyaev SR, Weinstock GM, Bork P., Nature 493(7430), 2012
PMID: 23222524
Molecular microbial diversity survey of sponge reproductive stages and mechanistic insights into vertical transmission of microbial symbionts.
Schmitt S, Angermeier H, Schiller R, Lindquist N, Hentschel U., Appl. Environ. Microbiol. 74(24), 2008
PMID: 18820053
Deep sequencing reveals diversity and community structure of complex microbiota in five Mediterranean sponges
Schmitt S, Hentschel U, Taylor MW., 2011
Assessing the complex sponge microbiota: core, variable and species-specific bacterial communities in marine sponges.
Schmitt S, Tsai P, Bell J, Fromont J, Ilan M, Lindquist N, Perez T, Rodrigo A, Schupp PJ, Vacelet J, Webster N, Hentschel U, Taylor MW., ISME J 6(3), 2011
PMID: 21993395
Coral larvae exhibit few measurable transcriptional changes during the onset of coral–dinoflagellate endosymbiosis
Schnitzler CE, Weis VM., 2010
Single-cell genomics reveals the lifestyle of Poribacteria, a candidate phylum symbiotically associated with marine sponges.
Siegl A, Kamke J, Hochmuth T, Piel J, Richter M, Liang C, Dandekar T, Hentschel U., ISME J 5(1), 2010
PMID: 20613790
Sponge-specific clusters revisited: a comprehensive phylogeny of sponge-associated microorganisms.
Simister RL, Deines P, Botte ES, Webster NS, Taylor MW., Environ. Microbiol. 14(2), 2011
PMID: 22151434
Bacterial extracellular polymeric substances and their effect on settlement of zoospore of Ulva fasciata
Singh RP, Shukla MK, Mishra A, Reddy CR, Jha B., 2012
The role of choline sulphate in the sulphur metabolism of fungi.
Spencer B, Harada T., Biochem. J. 77(2), 1960
PMID: 16748848
Single cell genomics: an individual look at microbes.
Stepanauskas R., Curr. Opin. Microbiol. 15(5), 2012
PMID: 23026140
Sponge-associated microorganisms: evolution, ecology, and biotechnological potential.
Taylor MW, Radax R, Steger D, Wagner M., Microbiol. Mol. Biol. Rev. 71(2), 2007
PMID: 17554047
'Sponge-specific' bacteria are widespread (but rare) in diverse marine environments.
Taylor MW, Tsai P, Simister RL, Deines P, Botte E, Ericson G, Schmitt S, Webster NS., ISME J 7(2), 2012
PMID: 23038173
Functional genomic signatures of sponge bacteria reveal unique and shared features of symbiosis.
Thomas T, Rusch D, DeMaere MZ, Yung PY, Lewis M, Halpern A, Heidelberg KB, Egan S, Steinberg PD, Kjelleberg S., ISME J 4(12), 2010
PMID: 20520651
Etude en microscopie électronique de l'association entre bactéries et spongiaires du genre Verongia (Dictyoceratida)
Vacelet J., 1975
Sulfated polysaccharides from marine sponges (Porifera): an ancestor cell–cell adhesion event based on the carbohydrate–carbohydrate interaction
Vilanova E, Coutinho CC, Mourao PA., 2009
Metagenomic and functional analysis of hindgut microbiota of a wood-feeding higher termite.
Warnecke F, Luginbuhl P, Ivanova N, Ghassemian M, Richardson TH, Stege JT, Cayouette M, McHardy AC, Djordjevic G, Aboushadi N, Sorek R, Tringe SG, Podar M, Martin HG, Kunin V, Dalevi D, Madejska J, Kirton E, Platt D, Szeto E, Salamov A, Barry K, Mikhailova N, Kyrpides NC, Matson EG, Ottesen EA, Zhang X, Hernandez M, Murillo C, Acosta LG, Rigoutsos I, Tamayo G, Green BD, Chang C, Rubin EM, Mathur EJ, Robertson DE, Hugenholtz P, Leadbetter JR., Nature 450(7169), 2007
PMID: 18033299
Deep sequencing reveals exceptional diversity and modes of transmission for bacterial sponge symbionts.
Webster NS, Taylor MW, Behnam F, Lucker S, Rattei T, Whalan S, Horn M, Wagner M., Environ. Microbiol. 12(8), 2009
PMID: 21966903
Physiology. What determines coral health?
Weis VM, Allemand D., Science 324(5931), 2009
PMID: 19478172
Symbiosis insights through metagenomic analysis of a microbial consortium.
Woyke T, Teeling H, Ivanova NN, Huntemann M, Richter M, Gloeckner FO, Boffelli D, Anderson IJ, Barry KW, Shapiro HJ, Szeto E, Kyrpides NC, Mussmann M, Amann R, Bergin C, Ruehland C, Rubin EM, Dubilier N., Nature 443(7114), 2006
PMID: 16980956
Assembling the marine metagenome, one cell at a time.
Woyke T, Xie G, Copeland A, Gonzalez JM, Han C, Kiss H, Saw JH, Senin P, Yang C, Chatterji S, Cheng JF, Eisen JA, Sieracki ME, Stepanauskas R., PLoS ONE 4(4), 2009
PMID: 19390573
In situ feeding and element removal in the symbiont-bearing sponge Theonella swinhoei: bulk DOC is the major source for carbon
Yahel G, Sharp JH, Marie D, Hase C, Genin ARN., 2003
dbCAN: a web resource for automated carbohydrate-active enzyme annotation.
Yin Y, Mao X, Yang J, Chen X, Mao F, Xu Y., Nucleic Acids Res. 40(Web Server issue), 2012
PMID: 22645317
Single-cell genomics reveals organismal interactions in uncultivated marine protists.
Yoon HS, Price DC, Stepanauskas R, Rajah VD, Sieracki ME, Wilson WH, Yang EC, Duffy S, Bhattacharya D., Science 332(6030), 2011
PMID: 21551060
Three inositol dehydrogenases involved in utilization and interconversion of inositol stereoisomers in a thermophile, Geobacillus kaustophilus HTA426.
Yoshida K, Sanbongi A, Murakami A, Suzuki H, Takenaka S, Takami H., Microbiology (Reading, Engl.) 158(Pt 8), 2012
PMID: 22609753
myo-Inositol catabolism in Bacillus subtilis.
Yoshida K, Yamaguchi M, Morinaga T, Kinehara M, Ikeuchi M, Ashida H, Fujita Y., J. Biol. Chem. 283(16), 2008
PMID: 18310071
Velvet: algorithms for de novo short read assembly using de Bruijn graphs.
Zerbino DR, Birney E., Genome Res. 18(5), 2008
PMID: 18349386
Evidence of cellulose metabolism by the giant panda gut microbiome.
Zhu L, Wu Q, Dai J, Zhang S, Wei F., Proc. Natl. Acad. Sci. U.S.A. 108(43), 2011
PMID: 22006317

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