Abstract
Hydrocarbon seeps are common features of all oceans and are located mainly along the continental margins (Fig. 1). Seeps are locally restricted, yet highly productive hotspots of biodiversity that experience very different environmental conditions and energy regimes than the surrounding deep-sea sediments. Hydrocarbon seep ecosystems are mostly fueled by methane. Occasionally, seeps are found that emit the short-chain hydrocarbons ethane, propane or butane, and even oil and asphalt seeps have been described. Seep ecosystems therefore comprise ecological niches and microbial clades that are distinct from those found in deep-sea sediments, which are not fuelled by methane and other hydrocarbons. This chapter provides an overview of the communities thriving at marine hydrocarbon seeps and the microbial metabolisms that create these oases of life (with references to other chapters in this book). It highlights the current knowledge of the diversity and biogeography of seep microbial communities and presents possible mechanisms governing their community assembly.
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References
Adam PS, Borrel G, Brochier-Armanet C, Gribaldo S (2017) The growing tree of Archaea: new perspectives on their diversity, evolution and ecology. ISME J 11:2407–2425
Adams M, Hoarfrost A, Bose A, Joye S, Girguis P (2013) Anaerobic oxidation of short-chain alkanes in hydrothermal sediments: potential influences on sulfur cycling and microbial diversity. Front Microbiol 4:110
Beal EJ, House CH, Orphan VJ (2009) Manganese- and iron-dependent marine methane oxidation. Science 325:184–187
Biddle JF, Cardman Z, Mendlovitz H, Albert DB, Lloyd KG, Boetius A, Teske A (2012) Anaerobic oxidation of methane at different temperature regimes in Guaymas Basin hydrothermal sediments. ISME J 6:1018–1031
Blazejak A, Erséus C, Amann R, Dubilier N (2005) Coexistence of bacterial sulfide oxidizers, sulfate reducers, and spirochetes in a gutless worm (Oligochaeta) from the Peru Margin. Appl Environ Microbiol 71:1553–1561
Blumenberg M, Seifert R, Michaelis W (2007) Aerobic methanotrophy in the oxic-anoxic transition zone of the Black Sea water column. Org Geochem 38:84–91
Boetius A, Ravenschlag K, Schubert CJ, Rickert D, Widdel F, Gieseke A et al (2000) A marine microbial consortium apparently mediating anaerobic oxidation of methane. Nature 407:623–626
Boetius A, Wenzhöfer F (2013) Seafloor oxygen consumption fuelled by methane from cold seeps. Nat Geosci 6:725–734
Bose A, Rogers D, Adams M, Joye S, Girguis P (2013) Geomicrobiological linkages between short-chain alkane consumption and sulfate reduction rates in seep sediments. Front Microbiol 4:386
Campbell B, Engel AS, Porter ML, Takai K (2006) The versatile epsilon-proteobacteria: key players in sulphidic habitats. Nat Rev Microbiol 4:458–468
Chevalier N, Bouloubassi I, Birgel D, Taphanel MH, López-García P (2013) Microbial methane turnover at Marmara Sea cold seeps: a combined 16S rRNA and lipid biomarker investigation. Geobiology 11:55–71
Cho H, Hyun J-H, You O-R, Kim M, Kim S-H, Choi D-L et al (2017) Microbial community structure associated with biogeochemical processes in the sulfate–methane transition zone (SMTZ) of gas-hydrate-bearing sediment of the Ulleung Basin, East Sea. Geomicrobiol J 34:207–219
Cordes EE, Arthur MA, Shea K, Arvidson RS, Fisher CR (2005) Modeling the mutualistic interactions between tubeworms and microbial consortia. PLoS Biol 3:e77
Costa RB, Okada DY, Martins TH, Foresti E (2017) Aerobic methanotrophs grew under anoxic conditions and supported a diverse heterotrophic bacterial community. Environ Eng Sci 35:804–814
Cui H, Su X, Chen F, Wei S, Chen S, Wang J (2016) Vertical distribution of archaeal communities in cold seep sediments from the Jiulong methane reef area in the South China Sea. Biosci J 32:4
Decker C, Olu K, Cunha RL, Arnaud-Haond S (2013) Phylogeny and diversification patterns among vesicomyid bivalves. PLoS ONE 7:e33359
Dowell F, Cardman Z, Dasarathy S, Kellermann M, Lipp JS, Ruff SE, Biddle JF, McKay LJ, MacGregor BJ, Lloyd KG, Albert DB, Mendlovitz H, Hinrichs KU, Teske A (2016) Microbial communities in methane- and short chain alkane-rich hydrothermal sediments of Guaymas Basin. Front Microbiol 7:17
Dubilier N, Bergin C, Lott C (2008) Symbiotic diversity in marine animals: the art of harnessing chemosynthesis. Nat Rev Microbiol 6:725–740
Dubinina G, Grabovich M, Leshcheva N, Rainey FA, Gavrish E (2011) Spirochaeta perfilievii sp. nov., an oxygen-tolerant, sulfide-oxidizing, sulfur- and thiosulfate-reducing spirochaete isolated from a saline spring. Int J Syst Evol Microbiol 61:110–117
Duperron S, Halary S, Lorion J, Sibuet M, Gaill F (2008) Unexpected co-occurrence of six bacterial symbionts in the gills of the cold seep mussel Idas sp. (Bivalvia: Mytilidae). Environ Microbiol 10:433–445
Duperron S, Guezi H, Gaudron SM, Pop Ristova P, Wenzhöfer F, Boetius A (2011) Relative abundances of methane- and sulphur-oxidising symbionts in the gills of a cold seep mussel and link to their potential energy sources. Geobiology 9:481–491
Egger M, Rasigraf O, Sapart CJ, Jilbert T, Jetten MSM, Röckmann T et al (2015) Iron-mediated anaerobic oxidation of methane in brackish coastal sediments. Environ Sci Technol 49:277–283
Elvert M, Hopmans EC, Treude T, Boetius A, Suess E (2005) Spatial variations of methanotrophic consortia at cold methane seeps: implications from a high-resolution molecular and isotopic approach. Geobiology 3:195–209
Ettwig KF, Butler MK, Le Paslier D, Pelletier E, Mangenot S, Kuypers MMM et al (2010) Nitrite-driven anaerobic methane oxidation by oxygenic bacteria. Nature 464:543–548
Ettwig KF, Zhu B, Speth D, Keltjens JT, Jetten MSM, Kartal B (2016) Archaea catalyze iron-dependent anaerobic oxidation of methane. Proc Natl Acad Sci U S A 113:12792–12796
Felden J, Lichtschlag A, Wenzhöfer F, de Beer D, Feseker T, Pop Ristova P et al (2013) Limitations of microbial hydrocarbon degradation at the Amon mud volcano (Nile deep-sea fan). Biogeosciences 10:3269–3283
Felden J, Ruff SE, Ertefai T, Inagaki F, Hinrichs K-U, Wenzhöfer F (2014) Anaerobic methanotrophic community of a 5346-m-deep vesicomyid clam colony in the Japan Trench. Geobiology 12:183–199
Felden J, Wenzhöfer F, Feseker T, Boetius A (2010) Transport and consumption of oxygen and methane in different habitats of the Håkon Mosby Mud Volcano (HMMV). Limnol Oceanogr 55:2366–2380
Foucher J-P, Dupré S, Scalabrin C, Feseker T, Harmegnies F, Nouzé H (2010) Changes in seabed morphology, mud temperature and free gas venting at the Håkon Mosby mud volcano, offshore northern Norway, over the time period 2003–2006. Geo-Marine Lett 30:157–167
Girnth AC, Grünke S, Lichtschlag A, Felden J, Knittel K, Wenzhofer F et al (2011) A novel, mat-forming Thiomargarita population associated with a sulfidic fluid flow from a deep-sea mud volcano. Environ Microbiol 13:495–505
Gittel A, Kofoed MVW, Sørensen KB, Ingvorsen K, Schramm A (2012) Succession of Deferribacteres and Epsilonproteobacteria through a nitrate-treated high-temperature oil production facility. Syst Appl Microbiol 35:165–174
Grünke S, Felden J, Lichtschlag A, Girnth A-C, De Beer D, Wenzhöfer F, Boetius A (2011) Niche differentiation among mat-forming, sulfide-oxidizing bacteria at cold seeps of the Nile Deep Sea Fan (Eastern Mediterranean Sea). Geobiology 9:330–348
Grünke S, Lichtschlag A, de Beer D, Felden J, Salman V, Ramette A et al (2012) Mats of psychrophilic thiotrophic bacteria associated with cold seeps of the Barents Sea. Biogeosciences 9:2947–2960
Haroon MF, Hu S, Shi Y, Imelfort M, Keller J, Hugenholtz P et al (2013) Anaerobic oxidation of methane coupled to nitrate reduction in a novel archaeal lineage. Nature 500:567–570
Harrison BK, Zhang H, Berelson W, Orphan VJ (2009) Variations in archaeal and bacterial diversity associated with the sulfate-methane transition zone in continental margin sediments (Santa Barbara Basin, California). Appl Environ Microbiol 75:1487–1499
Hayashi T, Obata H, Gamo T, Sano Y, Naganuma T (2007) Distribution and phylogenetic characteristics of the genes encoding enzymes relevant to methane oxidation in oxygen minimum zones of the Eastern Pacific Ocean. Res J Environ Sci 1:275–284
Hilário A, Capa M, Dahlgren TG, Halanych KM, Little CTS, Thornhill DJ et al (2011) New perspectives on the ecology and evolution of siboglinid tubeworms. PLoS ONE 6:e16309
Hinrichs K-U, Hayes JM, Sylva SP, Brewer PG, DeLong EF (1999) Methane-consuming archaebacteria in marine sediments. Nature 398:802–805
Holler T, Widdel F, Knittel K, Amann R, Kellermann MY, Hinrichs K-U, Teske A, Boetius A (2011) Thermophilic anaerobic oxidation of methane by marine microbial consortia. ISME J 5:1946–1956
Hu B, Shen L, Lian X, Zhu Q, Liu S, Huang Q et al (2014) Evidence for nitrite-dependent anaerobic methane oxidation as a previously overlooked microbial methane sink in wetlands. Proc Natl Acad Sci U S A 111:4495–4500
Inagaki F, Takai K, Nealson KH, Horikoshi K (2004a) Sulfurovum lithotrophicum gen. nov., sp. nov., a novel sulfur-oxidizing chemolithoautotroph within the ε-Proteobacteria isolated from Okinawa Trough hydrothermal sediments. Int J Syst Evol Microbiol 54:1477–1482
Inagaki F, Tsunogai U, Suzuki M, Kosaka A, Machiyama H, Takai K et al (2004b) Characterization of C1-metabolizing prokaryotic communities in methane seep habitats at the Kuroshima Knoll, Southern Ryukyu Arc, by analyzing pmoA, mmoX, mxaF, mcrA, and 16S rRNA genes. Appl Environ Microbiol 70:7445–7455
Jaekel U, Musat N, Adam B, Kuypers M, Grundmann O, Musat F (2013) Anaerobic degradation of propane and butane by sulfate-reducing bacteria enriched from marine hydrocarbon cold seeps. ISME J 7:885–895
Janssen PH, Liesack W, Schink B (2002) Geovibrio thiophilus sp. nov., a novel sulfur-reducing bacterium belonging to the phylum Deferribacteres. Int J Syst Evol Microbiol 52:1341–1347
Jones DS, Flood BE, Bailey JV (2015) Metatranscriptomic analysis of diminutive thiomargarita-like bacteria (“Candidatus Thiopilula” spp.) from abyssal cold seeps of the Barbados Accretionary Prism. Appl Environ Microbiol 81:3142–3156
Joye SB, Boetius A, Orcutt BN, Montoya JP, Schulz HN, Erickson MJ, Lugo SK (2004) The anaerobic oxidation of methane and sulfate reduction in sediments from Gulf of Mexico cold seeps. Chem Geol 205:219–238
Kato N, Yurimoto H, Thauer RK (2006) The physiological role of the ribulose monophosphate pathway in bacteria and Archaea. Biosci Biotechnol Biochem 70:10–21
Kirkegaard RH, Dueholm MS, McIlroy SJ, Nierychlo M, Karst SM, Albertsen M, Nielsen PH (2016) Genomic insights into members of the candidate phylum Hyd24-12 common in mesophilic anaerobic digesters. ISME J 10:2352–2364
Kleindienst S, Ramette A, Amann R, Knittel K (2012) Distribution and in situ abundance of sulfate-reducing bacteria in diverse marine hydrocarbon seep sediments. Environ Microbiol 14:2689–2710
Kleindienst S, Herbst F-A, Stagars M, von Netzer F, von Bergen M, Seifert J et al (2014) Diverse sulfate-reducing bacteria of the Desulfosarcina/Desulfococcus clade are the key alkane degraders at marine seeps. ISME J 8:2029–2044
Knittel K, Boetius A (2009) Anaerobic oxidation of methane: progress with an unknown process. Annu Rev Microbiol 63:311–334
Knittel K, Boetius A, Lemke A, Eilers H, Lochte K, Pfannkuche O et al (2003) Activity, distribution, and diversity of sulfate reducers and other bacteria in sediments above gas hydrate (Cascadia Margin, Oregon). Geomicrobiol J 20:269–294
Knittel K, Lösekann T, Boetius A, Kort R, Amann R (2005) Diversity and distribution of methanotrophic archaea at cold seeps. Appl Environ Microbiol 71:467–479
Krukenberg V, Harding K, Richter M, Glöckner FO, Gruber-Vodicka HR, Adam B et al (2016) Candidatus Desulfofervidus auxilii, a hydrogenotrophic sulfate-reducing bacterium involved in the thermophilic anaerobic oxidation of methane. Environ Microbiol 18:3073–3091
Laso-Pérez R, Wegener G, Knittel K, Widdel F, Harding KJ, Krukenberg V et al (2016) Thermophilic archaea activate butane via alkyl-coenzyme M formation. Nature 539:396–401
Lazar CS, L’Haridon S, Pignet P, Toffin L (2011) Archaeal populations in hypersaline sediments underlying orange microbial mats in the Napoli Mud Volcano. Appl Environ Microbiol 77:3120–3131
Levin LA (2005) Ecology of cold seep sediments: interactions of fauna with flow, chemistry and microbes. In: Gibson RN, Atkinson RJA, Gordon JDM (eds) Oceanography and marine biology: an annual review. Taylor & Francis, Boca Raton, pp 1–46
Li M, Jain S, Baker BJ, Taylor C, Dick GJ (2013) Novel hydrocarbon monooxygenase genes in the metatranscriptome of a natural deep-sea hydrocarbon plume. Environ Microbiol 16:60–71
Lloyd KG, Albert DB, Biddle JF, Chanton JP, Pizarro O, Teske A (2010) Spatial structure and activity of sedimentary microbial communities underlying a Beggiatoa spp. mat in a Gulf of Mexico hydrocarbon seep. PLoS One 5:e8738
Lloyd KG, Lapham L, Teske A (2006) An anaerobic methane-oxidizing community of ANME-1b archaea in hypersaline Gulf of Mexico sediments. Appl Environ Microbiol 72:7218–7230
Lösekann T, Knittel K, Nadalig T, Fuchs B, Niemann H, Boetius A, Amann R (2007) Diversity and abundance of aerobic and anaerobic methane oxidizers at the Haakon Mosby Mud Volcano, Barents Sea. Appl Environ Microbiol 73:3348–3362
Marlow JJ, Steele JA, Case DH, Connon SA, Levin LA, Orphan VJ (2014) Microbial abundance and diversity patterns associated with sediments and carbonates from the methane seep environments of Hydrate Ridge, OR. Front Mar Sci 1:44
Martinez-Cruz K, Leewis M-C, Herriott IC, Sepulveda-Jauregui A, Anthony KW, Thalasso F, Leigh MB (2017) Anaerobic oxidation of methane by aerobic methanotrophs in sub-Arctic lake sediments. Sci Total Environ 607–608:23–31
Mastalerz V, de Lange GJ, Dählmann A (2009) Differential aerobic and anaerobic oxidation of hydrocarbon gases discharged at mud volcanoes in the Nile deep-sea fan. Geochim Cosmochim Acta 73:3849–3863
Merkel AY, Huber JA, Chernyh NA, Bonch-Osmolovskaya EA, Lebedinsky AV (2012) Detection of putatively thermophilic anaerobic methanotrophs in diffuse hydrothermal Vent fluids. Appl Environ Microbiol 79:915–923
Meyer S, Wegener G, Lloyd KG, Teske A, Boetius A, Ramette A (2013) Microbial habitat connectivity across spatial scales and hydrothermal temperature gradients at Guaymas Basin. Front Microbiol 4:207
Meyerdierks A, Kube M, Kostadinov I, Teeling H, Glöckner FO, Reinhardt R, Amann R (2010) Metagenome and mRNA expression analyses of anaerobic methanotrophic archaea of the ANME-1 group. Environ Microbiol 12:422–439
Mills HJ, Martinez RJ, Story S, Sobecky PA (2005) Characterization of microbial community structure in Gulf of Mexico gas hydrates: comparative analysis of DNA- and RNA-derived clone libraries. Appl Environ Microbiol 71:3235–3247
Mills HJ, Martinez RJ, Story S, Sobecky PA (2004) Identification of members of the metabolically active microbial populations associated with Beggiatoa species mat communities from Gulf of Mexico cold-seep sediments. Appl Environ Microbiol 70:5447–5458
Muyzer G, Stams AJM (2008) The ecology and biotechnology of sulphate-reducing bacteria. Nat Rev Microbiol 6:441–454
Niemann H, Elvert M, Hovland M, Orcutt B, Judd A, Suck I et al (2005) Methane emission and consumption at a North Sea gas seep (Tommeliten area). Biogeosciences 2:335–351
Niemann H, Lösekann T, de Beer D, Elvert M, Nadalig T, Knittel K et al (2006) Novel microbial communities of the Haakon Mosby mud volcano and their role as a methane sink. Nature 443:854–858
Omoregie EO, Mastalerz V, de Lange G, Straub KL, Kappler A, Røy H et al (2008) Biogeochemistry and community composition of iron- and sulfur-precipitating microbial mats at the Chefren Mud Volcano (Nile Deep Sea Fan, Eastern Mediterranean). Appl Environ Microbiol 74:3198–3215
Oni OE, Friedrich MW (2017) Metal oxide reduction linked to anaerobic methane oxidation. Trends Microbiol 25:88–90
Orcutt B, Boetius A, Elvert M, Samarkin V, Joye SB (2005) Molecular biogeochemistry of sulfate reduction, methanogenesis and the anaerobic oxidation of methane at Gulf of Mexico cold seeps. Geochim Cosmochim Acta 69:4267–4281
Orphan VJ, Hinrichs KU, Ussler W, Paull CK, Taylor LT, Sylva SP et al (2001) Comparative analysis of methane-oxidizing archaea and sulfate-reducing bacteria in anoxic marine sediments. Appl Environ Microbiol 67:1922–1934
Orphan VJ, House CH, Hinrichs K-U, McKeegan KD, DeLong EF (2002) Multiple archaeal groups mediate methane oxidation in anoxic cold seep sediments. Proc Natl Acad Sci U S A 99:7663–7668
Oshkin IY, Wegner C-E, Lüke C, Glagolev MV, Filippov IV, Pimenov NV et al (2014) Gammaproteobacterial methanotrophs dominate cold methane seeps in floodplains of West Siberian Rivers. Appl Environ Microbiol 80:5944–5954
Pachiadaki MG, Lykousis V, Stefanou EG, Kormas KA (2010) Prokaryotic community structure and diversity in the sediments of an active submarine mud volcano (Kazan mud volcano, East Mediterranean Sea). FEMS Microbiol Ecol 72:429–444
Paul BG, Ding H, Bagby SC, Kellermann MY, Redmond MC, Andersen GL, Valentine DL (2017) Methane-oxidizing bacteria shunt carbon to microbial mats at a marine hydrocarbon seep. Front Microbiol 8:186
Pernthaler A, Dekas AE, Brown CT, Goffredi SK, Embaye T, Orphan VJ (2008) Diverse syntrophic partnerships from deep-sea methane vents revealed by direct cell capture and metagenomics. Proc Natl Acad Sci U S A 105:7052–7057
Petersen JM, Dubilier N (2009) Methanotrophic symbioses in marine invertebrates. Environ Microbiol Rep 1:319–335
Portillo MC, Leff JW, Lauber CL, Fierer N (2013) Cell size distributions of soil bacterial and archaeal taxa. Appl Environ Microbiol 79:7610–7617
Preisler A, de Beer D, Lichtschlag A, Lavik G, Boetius A, Jørgensen BB (2007) Biological and chemical sulfide oxidation in a Beggiatoa inhabited marine sediment. ISME J 1:341–353
Ravenschlag K, Sahm K, Amann R (2001) Quantitative molecular analysis of the microbial community in marine arctic sediments (Svalbard). Appl Environ Microbiol 67:387–395
Redmond MC, Valentine DL, Sessions AL (2010) Identification of novel methane-, ethane-, and propane-oxidizing bacteria at marine hydrocarbon seeps by stable isotope probing. Appl Environ Microbiol 76:6412–6422
Roalkvam I, Jørgensen SL, Chen Y, Stokke R, Dahle H, Hocking WP et al (2011) New insight into stratification of anaerobic methanotrophs in cold seep sediments. FEMS Microbiol Ecol 78:233–243
Roslev P, King GM (1995) Aerobic and anaerobic starvation metabolism in methanotrophic bacteria. Appl Environ Microbiol 61:1563–1570
Roslev P, King GM (1994) Survival and recovery of methanotrophic bacteria starved under oxic and anoxic conditions. Appl Environ Microbiol 60:2602–2608
Rossel PE, Elvert M, Ramette A, Boetius A, Hinrichs K-U (2011) Factors controlling the distribution of anaerobic methanotrophic communities in marine environments: evidence from intact polar membrane lipids. Geochim Cosmochim Acta 75:164–184
Rubin-Blum M, Antony CP, Borowski C, Sayavedra L, Pape T, Sahling H et al (2017) Short-chain alkanes fuel mussel and sponge Cycloclasticus symbionts from deep-sea gas and oil seeps. Nat Microbiol 2:17093
Ruff SE, Arnds J, Knittel K, Amann R, Wegener G, Ramette A, Boetius A (2013) Microbial communities of deep-sea methane seeps at Hikurangi Continental Margin (New Zealand). PLoS ONE 8:e72627
Ruff SE, Biddle JF, Teske AP, Knittel K, Boetius A, Ramette A (2015) Global dispersion and local diversification of the methane seep microbiome. Proc Natl Acad Sci U S A 112:4015–4020
Ruff SE, Felden J, Gruber-Vodicka HR, Marcon Y, Knittel K, Ramette A, Boetius A (2019) In situ development of a methanotrophic microbiome in deep-sea sediments. ISME J 13:197–213
Saad S, Bhatnagar S, Tegetmeyer HE, Geelhoed JS, Strous M, Ruff SE (2017) Transient exposure to oxygen or nitrate reveals ecophysiology of fermentative and sulfate-reducing benthic microbial populations. Environ Microbiol 19:4866–4881
Schreiber L, Holler T, Knittel K, Meyerdierks A, Amann R (2010) Identification of the dominant sulfate-reducing bacterial partner of anaerobic methanotrophs of the ANME-2 clade. Environ Microbiol 12:2327–2340
Sender R, Fuchs S, Milo R (2016) Revised estimates for the number of human and bacteria cells in the body. PLoS Biol 14:e1002533
Sivan O, Antler G, Turchyn AV, Marlow JJ, Orphan VJ (2014) Iron oxides stimulate sulfate-driven anaerobic methane oxidation in seeps. Proc Natl Acad Sci U S A 111:E4139–E4147
Sommer S, Linke P, Pfannkuche O, Schleicher T, Schneider von Deimling J, Reitz A et al (2009) Seabed methane emissions and the habitat of frenulate tubeworms on the Captain Arutyunov mud volcano (Gulf of Cadiz). Mar Ecol Prog Ser 382:69–86
Sommer S, Linke P, Pfannkuche O, Niemann H, Treude T (2010) Benthic respiration in a seep habitat dominated by dense beds of ampharetid polychaetes at the Hikurangi Margin (New Zealand). Mar Geol 272:223–232
Stagars MH, Ruff SE, Amann R, Knittel K (2016) High diversity of anaerobic alkane-degrading microbial communities in marine seep sediments based on (1-methylalkyl) succinate synthase genes. Front Microbiol 6:1511
Tavormina PL, Ussler W, Orphan VJ (2008) Planktonic and sediment-associated aerobic methanotrophs in two seep systems along the North American Margin. Appl Environ Microbiol 74:3985–3995
Teske A, Hinrichs K-U, Edgcomb V, de Vera Gomez A, Kysela D, Sylva SP, Sogin ML, Jannasch HW (2002) Microbial diversity of hydrothermal sediments in the Guaymas Basin: evidence for anaerobic methanotrophic communities. Appl Environ Microbiol 68:1994–2007
Thurber AR, Levin LA, Rowden AA, Sommer S, Linke P, Kröger K (2013) Microbes, macrofauna, and methane: a novel seep community fueled by aerobic methanotrophy. Limnol Oceanogr 58:1640–1656
Trembath-Reichert E, Case DH, Orphan VJ (2016) Characterization of microbial associations with methanotrophic archaea and sulfate-reducing bacteria through statistical comparison of nested Magneto-FISH enrichments. PeerJ 4:e1913
Vigneron A, Cruaud P, Pignet P, Caprais J-C, Cambon-Bonavita M-A, Godfroy A, Toffin L (2013) Archaeal and anaerobic methane oxidizer communities in the Sonora Margin cold seeps, Guaymas Basin (Gulf of California). ISME J 7:1595–1608
Vigneron A, Cruaud P, Roussel EG, Pignet P, Caprais J-C, Callac N et al (2014) Phylogenetic and functional diversity of microbial communities associated with subsurface sediments of the Sonora Margin, Guaymas Basin. PLoS One 9:e104427
Vigneron A, Bishop A, Alsop EB, Hull K, Rhodes I, Hendricks R et al (2017) Microbial and isotopic evidence for methane cycling in hydrocarbon-containing groundwater from the Pennsylvania Region. Front Microbiol 8:593
Wankel SD, Adams MM, Johnston DT, Hansel CM, Joye SB, Girguis PR (2012) Anaerobic methane oxidation in metalliferous hydrothermal sediments: influence on carbon flux and decoupling from sulfate reduction. Environ Microbiol 14:2726–2740
Wasmund K, Kurtböke DI, Burns KA, Bourne DG (2009) Microbial diversity in sediments associated with a shallow methane seep in the tropical Timor Sea of Australia reveals a novel aerobic methanotroph diversity. FEMS Microbiol Ecol 68:142–151
Weber HS, Habicht KS, Thamdrup B (2017) Anaerobic methanotrophic archaea of the ANME-2d cluster are active in a low-sulfate, iron-rich freshwater sediment. Front Microbiol 8:619
Wegener G, Krukenberg V, Riedel D, Tegetmeyer HE, Boetius A (2015) Intercellular wiring enables electron transfer between methanotrophic archaea and bacteria. Nature 526:587–590
Wegener G, Shovitri M, Knittel K, Niemann H, Hovland M, Boetius A (2008) Biogeochemical processes and microbial diversity of the Gullfaks and Tommeliten methane seeps (Northern North Sea). Biogeosciences 5:1127–1144
Wegener G, Krukenberg V, Ruff SE, Kellermann MY, Knittel K (2016) Metabolic capabilities of microorganisms involved in and associated with the anaerobic oxidation of methane. Front Microbiol 7:46
Winkel M, Mitzscherling J, Overduin PP, Horn F, Winterfeld M, Rijkers R et al (2018) Anaerobic methanotrophic communities thrive in deep submarine permafrost. Sci Rep 8:1291
Yan T, Ye Q, Zhou J, Zhang CL (2006) Diversity of functional genes for methanotrophs in sediments associated with gas hydrates and hydrocarbon seeps in the Gulf of Mexico. FEMS Microbiol Ecol 57:251–259
Yanagawa K, Sunamura M, Lever MA, Morono Y, Hiruta A, Ishizaki O et al (2011) Niche separation of methanotrophic archaea (ANME-1 and -2) in methane-seep sediments of the Eastern Japan Sea Offshore Joetsu. Geomicrobiol J 28:118–129
Yoshinaga MY, Lazar CS, Elvert M, Lin Y-S, Zhu C, Heuer VB et al (2015) Possible roles of uncultured archaea in carbon cycling in methane-seep sediments. Geochim Cosmochim Acta 164:35–52
Zhang Y, Su X, Chen F, Jiao L, Jiang H, Dong H, Ding G (2012) Abundance and diversity of candidate division JS1- and Chloroflexi-related bacteria in cold seep sediments of the northern South China Sea. Front Earth Sci 6:373–382
Zhou Z, Liu Y, Lloyd KG, Pan J, Yang Y, Gu J-D, Li M (2019) Genomic and transcriptomic insights into the ecology and metabolism of benthic archaeal cosmopolitan Thermoprofundales (MBG-D archaea). ISME J 13:885–901
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Emil Ruff, S. (2020). Microbial Communities and Metabolisms at Hydrocarbon Seeps. In: Teske, A., Carvalho, V. (eds) Marine Hydrocarbon Seeps. Springer Oceanography. Springer, Cham. https://doi.org/10.1007/978-3-030-34827-4_1
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