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Bacterial and Archaeal Diversity in Permafrost

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Permafrost Soils

Part of the book series: Soil Biology ((SOILBIOL,volume 16))

Considerable numbers of both Bacteria and Archaea are routinely recovered from up to 3 million year old permafrost. The phylogenetic and phenotypic characteristics of these isolates reflect the unique and extreme conditions of the permafrost environment. Most studies have indicated that cultured microbial isolates only account for a small proportion (0.001-10%) of the total microbial population. Recent applications of modern culture-independent technologies to the study of permafrost have greatly expanded the number and diversity of microbial groups associated with permafrost, leading to a more comprehensive description of permafrost microbial populations. In this chapter, we review studies describing the abundance and diversity of the Archaea and Bacteria communities in permafrost and what these studies have contributed to our understanding of the functioning and biogeography of permafrost microbial ecosystems.

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References

  • Bai Y, Yang D, Wang J, Xu S, Wang X, An L (2006) Phylogenetic diversity of cultivable bacteria from alpine permafrost in the Tianshan Mountains, northwestern China. Res Microbiol 157:741–751

    Article  PubMed  CAS  Google Scholar 

  • Bakermans CA, Tsapin I, Souza-Egipsy V, Gilichinsky DA, Nealson KH (2003) Reproduction and metabolism at −10°C of bacteria isolated from Siberian permafrost. Environ Microbiol 5:321–326

    Article  PubMed  Google Scholar 

  • Bakermans C, Tollaksen SL, Giometti CS, Wilkerson C, Tiedje JM, Thomashow MF (2007) Proteomic analysis of Psychrobacter cryohalolentis K5 during growth at subzero temperatures. Extremophiles 11:343–354

    Article  PubMed  CAS  Google Scholar 

  • Boyd WL, Boyd JW (1964) The presence of bacteria in permafrost of the Alaskan Arctic. Can J Microbiol 10:917–919

    Article  PubMed  CAS  Google Scholar 

  • Cameron RE, Morelli FA (1974) Viable microoganisms from ancient Ross Island and Taylor Valley drill core. Antarct J US 9:113–116

    Google Scholar 

  • Christner BC, Mikucki JA, Foreman CM, Denson J, Priscu JC (2005) Glacial ice cores: A model system for developing extraterrestrial decontamination protocols. Icarus 174:572–584

    Article  CAS  Google Scholar 

  • Cowan DA, Russell N, Mamais A, Sheppard DM (2002) Antarctic Dry Valley mineral soils contain unexpectedly high levels of microbial biomass. Extremophiles 6:431–436

    Article  PubMed  CAS  Google Scholar 

  • Dmitriev VV, Suzina NE, Rusakova TG, Gilichinsky DA, Duda VI (2000) Ultrastructural characteristics of natural forms of microorganisms isolated from permafrost grounds of Eastern Siberia by the method of low-temperature fractionation. Dokl Biol Sci 378:304–306

    Article  Google Scholar 

  • Drancourt M, Raoult D (2005) Palaeomicrobiology: Current issues and perspectives. Nat Rev Microbiol 3:23–35

    Article  PubMed  CAS  Google Scholar 

  • Dumont MG, Neufeld JD, Murrell JC (2006) Isotopes as tools for microbial ecologists. Curr Opin Biotechnol 17:57–58

    Article  CAS  Google Scholar 

  • Gilichinsky DA (2002a) Permafrost. In: Bitton G (ed) Encyclopedia of environmental microbiology. Wiley, New York, pp 2367–2385

    Google Scholar 

  • Gilichinsky DA (2002b) Permafrost model of extraterrestrial habitats. In: Horneck G, Baumstark-Khan C (eds) Astrobiology: The quest for the conditions of life. Springer, Berlin, pp 125–142

    Google Scholar 

  • Gilichinsky DA, Khlebnikova GM, Zvyagintsev DG, Fedorov-Davydov DG, Kudryavtseva NN (1989) Microbiology of sedimentary materials in the permafrost zone. Int Geol Rev 31:847–858

    Article  Google Scholar 

  • Gilichinsky DA, Vorobyova E, Erokhina LG, Fyordorov-Dayvdov DG, Chaikovskaya NR (1992) Long-term preservation of microbial ecosystems in permafrost. Adv Space Res 12:255–263

    Article  PubMed  CAS  Google Scholar 

  • Gilichinsky DA, Wagener S, Vishnivetskaya TA (1995) Permafrost microbiology. Permafrost Periglac Process 6:281–291

    Article  Google Scholar 

  • Gilichinsky D, Rivkina E, Shcherbakova V, Laurinavichuis K, Tiedje J (2003) Supercooled water brines within permafrost — an unknown ecological niche for microorganisms: A model for astrobiology. Astrobiology 3:331—341

    Article  PubMed  CAS  Google Scholar 

  • Gilichinsky DA, Rivkina E, Bakermans C, Shcherbakova V, Petrovskaya L, Ozerskaya S, Ivanushkina N, Kochkina G, Laurinavichuis K, Pecheritsina S, Fattakhova R, Tiedje JM (2005) Biodiversity of cryopegs in permafrost. FEMS Microbiol Ecol 53:117–128

    Article  PubMed  CAS  Google Scholar 

  • Gilichinsky DA, Wilson GS, Friedmann EI, McKay CP, Sletten RS, Rivkina EM, Vishnivetskaya TA, Erokhina LG, Ivanushkina NE, Kochkina GA, Shcherbakova VA, Soina VS, Spirina EV, Vorobyova EA, Fyodorov-Davydov DG, Hallet B, Ozerskaya SM, Sorokovikov VA, Laurinavichyus KS, Shatilovich AV, Chanton JP, Ostroumov VE, Tiedje JM (2007) Microbial populations in Antarctic permafrost: Biodiversity, state, age, and implication for astrobiology. Astrobiology 7:275–311

    Article  PubMed  CAS  Google Scholar 

  • Gunde-Cimerman N, Sonjak S, Zalar P, Frisvad JC, Diderichsen B, Plemenitas (2003) Extremophilic fungi in arctic ice: A relationship between adaptation to low temperature and water activity. Phys Chem Earth 28:1273–1278

    Google Scholar 

  • Hansen AA, Herbert RA, Mikkelsen K, Jensen LL, Kristoffersen T, Tiedje JM, Lomstein BAa, Finster KW (2007) Viability, diversity and composition of the bacterial community in a high Arctic permafrost soil from Spitsbergen, Northern Norway. Environ Microbiol 9:2870–2884

    Article  PubMed  CAS  Google Scholar 

  • Horowitz NH, Cameron RE, Hubbard JS (1972) Microbiology of the Dry Valleys of Antarctica. Science 176:242–245

    Article  PubMed  Google Scholar 

  • Hughes Martiny JB, Bohannan BJM, Brown JH, Colwell RK, Fuhrman JA, Green JL, Horner-Devine MC, Kane M, Krumins JA, Kuske CR, Morin PJ, Naeem S, ØvreÃ¥s L, Reysenbach A-L, Smith VH, Staley JT (2006) Microbial biogeography: Putting microorganisms on the map. Nat Rev Microbiol 4:102–112

    Article  CAS  Google Scholar 

  • James N, Sutherland ML (1942) Are there living bacteria in permanently frozen subsoil? Can J Res 20:229–235

    Google Scholar 

  • Juck DF, Whissell G, Steven B, Pollard W, McKay CP, Greer CW, Whyte LG (2005) Utilization of fluorescent microspheres and a green fluorescent protein-marked strain for assessment of microbiological contamination of permafrost and ground ice core samples from the Canadian High Arctic. Appl Environ Microbiol 71:1035–1041

    Article  PubMed  CAS  Google Scholar 

  • Kaiser JP, Bollag J-M (1990) Microbial activity in the terrestrial subsurface. Experimentia 46:797–806

    Article  CAS  Google Scholar 

  • Katayama T, Tanaka M, Moriizumi J, Nakamura T, Brouchkov A, Douglas TA, Fukuda M, Tomita F, Asano K (2007) Phylogenetic analysis of bacteria preserved in a permafrost ice wedge for 25, 000 years. Appl Environ Microbiol 73:2360–2363

    Article  PubMed  CAS  Google Scholar 

  • Khlebnikova GM, Gilichinsky DA, Fedorov-Davydov DG, Vorob’eva EA (1990) Quantitative evaluation of microorganisms in permafrost deposits and buried soils. Microbiology 59:148–155

    Google Scholar 

  • Lee N, Nielsen PH, Andreasen KH, Juretschko S, Nielsen JL, Schleifer K-H, Wagner M (1999) Combination of fluorescent in situ hybridization and microautoradiography — a new tool for structure-function analyses in microbial ecology. Appl Environ Microbiol 65:1289–1297

    PubMed  CAS  Google Scholar 

  • Miteva VI, Sheridan PP, Brenchley JE (2004) Phylogenetic and physiological diversity of micro-organisms isolated from a deep Greenland ice core. Appl Environ Microbiol 70:202–213

    Article  PubMed  CAS  Google Scholar 

  • Ochmann H, Elwyn S, Moran NA (1999) Calibrating bacterial evolution. Proc Natl Acad Sci USA 96:12638–12643

    Article  Google Scholar 

  • Ochsenreiter T, Selezi D, Quaiser A, Bonch-Osmolovskaya L, Schleper C (2003) Diversity and abundance of Crenarchaeota in terrestrial habitats studied by 16S RNA surveys and real time PCR. Environ Microbiol 5:787–797

    Article  PubMed  CAS  Google Scholar 

  • Oliver JD (2005) The viable but non-culturable state in Bacteria. J Microbiol 43:93–100

    PubMed  Google Scholar 

  • O’Malley MA (2007) The nineteenth century roots of ‘everything is everywhere’. Nat Rev Microbiol 5:647–651

    Article  PubMed  CAS  Google Scholar 

  • Ponder MA, Gilmour SJ, Bergholz PW, Mindock CA, Hollingsworth R, Thomashow MF, Tiedje JM (2005) Characterization of potential stress responses in ancient Siberian permafrost psychroactive bacteria. FEMS Microbiol Ecol 53:103–115

    Article  PubMed  CAS  Google Scholar 

  • Price PB (2007) Microbial life in glacial ice and implications for a cold origin of life. FEMS Microbiol Ecol 59:217–231

    PubMed  CAS  Google Scholar 

  • Qiu Y, Kathariou S, Lubman DM (2006) Proteomic analysis of cold adaptation in Siberian permafrost bacterium — Exiguobacterium sibiricum 255-15 by two-dimensional liquid separation coupled with mass spectrometry. Proteomic 6:5221–5233

    Article  CAS  Google Scholar 

  • Ramette A, Tiedje JM (2007) Biogeography: An emerging cornerstone for understanding prokaryotic diversity, ecology, and evolution. FEMS Microbiol Ecol 53:197–207

    Google Scholar 

  • Rivkina E, Gilichinsky D, Wagener S, Tiedje J, McGrath J (1998) Biogeochemical activity of anaerobic microorganisms from buried permafrost sediments. Geomicrobiology 15:87–193

    Google Scholar 

  • Rivkina EM, Friedmann EI, McKay CP, Gilichinsky DA (2000) Metabolic activity of permafrost bacteria below the freezing point. Appl Environ Microbiol 66:3230–3233

    Article  PubMed  CAS  Google Scholar 

  • Rivkina EM, Laurinavichus KS, Gilichinsky DA, Shcherbakova VA (2002) Methane generation in permafrost sediments. Microbiology 383:199–181

    Google Scholar 

  • Rivkina E, Shcherbakova V, Laurinavichiu K, Petrovskaya L, Krivushin K, Kraev G, Pecheritsina S, Gilichinsky D (2007) Biogeochemistry of methane and methanogenic archaea in permafrost. FEMS Microb Ecol 61:1–15

    Article  CAS  Google Scholar 

  • Shi T, Reeves RH, Gilichinsky DA, Friedmann EI (1997) Characterization of viable bacteria from Siberian permafrost by 16S rDNA sequencing. Microb Ecol 33:169–179

    Article  PubMed  CAS  Google Scholar 

  • Soina V, Vorobiova EA, Zvyagintsev DG, Gilichinsky DA (1995) Preservation of cell structures in permafrost: A model for exobiology. Adv Space Res 15:237–242

    Article  PubMed  CAS  Google Scholar 

  • Soina V, Mulyukin AL, Demkina EV, Vorobyova EA, El-Registan GI (2004) The structure of resting bacterial populations in soil and subsoil permafrost. Astrobiology 4:345–358

    Article  PubMed  Google Scholar 

  • Spiegelman D, Whissell G, Greer CW (2005) A survey of the methods for the characterization of microbial consortia and communities. Can J Microbiol 51:355–386

    Article  PubMed  CAS  Google Scholar 

  • Steven B, Léveillé R, Pollard WH, Whyte LG (2006) Microbial ecology and biodiversity in permafrost. Extremophiles 10:259–267

    Article  PubMed  Google Scholar 

  • Steven B, Briggs G, McKay CP, Pollard WH, Greer CW, Whyte LG (2007a) Characterization of the microbial diversity in a permafrost sample from the Canadian high Arctic using culture-dependent and culture-independent methods. FEMS Microbiol Ecol 59:513–523

    Article  PubMed  CAS  Google Scholar 

  • Steven B, Niederberger TD, Bottos EM, Dyen MR, Whyte LG (2007b) Development of a sensitive radiorespiration method for detecting microbial activity at subzero temperatures. J Microbiol Methods 71:275–280

    Article  PubMed  CAS  Google Scholar 

  • Steven B, Pollard WH, Greer CW, Whyte LG (2008a) Microbial diversity and activity through a permafrost/ground ice core profile from the Canadian high Arctic. Environ Microbiol 10: in press

    Google Scholar 

  • Steven B, Chen MQ, Greer CW, Whyte LG, Niederberger TD (2008b) Tumebacillus permanentifrigoris gen. nov., sp. nov., an aerobic, spore-forming bacterium isolated from Canadian high Arctic permafrost. Int J Syst Evol Microbiol 58:1497–1501

    Article  PubMed  CAS  Google Scholar 

  • Vishnivetskaya T, Kathariou S, McGrath J, Gilichinsky DA, Tiedje JM (2000) Low temperature recovery strategies for the isolation of bacteria from ancient permafrost sediments. Extremophiles 4:165–173

    Article  PubMed  CAS  Google Scholar 

  • Vishnivetskaya TA, Petrova MA, Urbance J, Ponder M, Moyer CL, Gilichinsky DA Tiedje JM (2006) Bacterial community in ancient Siberian permafrost as characterized by culture and culture-independent methods. Astrobiology 6:400–415

    Article  PubMed  CAS  Google Scholar 

  • Vorobyova E, Soina V, Gorlenko M, Minkovskaya N, Zalinova N, Mamukelashvili A, Gilichinsky DA, Rivkina E, Vishnivetskaya T (1997) The deep cold biosphere: Facts and hypothesis. FEMS Microbiol Rev 20:277–290

    Article  CAS  Google Scholar 

  • Vorobyova E, Minkovsky N, Mamukelashvili A, Zvyagintsev D, Soina V, Polanskaya L, Gilichinsky D (2001) Micro-organisms and biomarkers in permafrost. In: Paepe R, Melnikov VP (eds) Permafrost response on economic development, environmental security and natural resources. Kluwer, Norwell, MA, pp 527–541

    Google Scholar 

  • Vreeland RH, Rosenzweig WD (2002) The question of uniqueness of ancient bacteria. J Ind Microbiol Biotechnol 28:32–41

    Article  PubMed  CAS  Google Scholar 

  • Willerslev E, Hansen AJ, Binladen J, Brand TB, Gilbert MTP, Shapiro B, Bunce M, Wiuf C, Gilichinsky DA, Cooper A (2003) Diverse plant and animal genetic records from Halocene and Pleistocene sediments. Science 300:791–795

    Article  PubMed  CAS  Google Scholar 

  • Willerslev E, Hansen AJ, Rønn R, Brand TB, Barnes I, Wiuf C, Gilichinsky D, Mitchell D, Cooper A (2004a) Long-term persistence of bacterial DNA. Curr Biol 14:R9–R10

    Article  PubMed  CAS  Google Scholar 

  • Willerslev E, Hansen AJ, Poiner HN (2004b) Isolation of nucleic acids and cultures from fossil ice and permafrost. Trends Ecol Evol 19:141–147

    Article  PubMed  Google Scholar 

  • Xu J (2006) Microbial ecology in the age of genomics and metagenomics: Concepts, tools, and recent advances. Mol Ecol 15:1713–1731

    Article  PubMed  CAS  Google Scholar 

  • Zhang G, Ma X, Niu F, Dong M, Feng H, An L, Cheng G (2007) Diversity and distribution of alkaphilic psychrotolerant bacteria in the Qinghai-Tibet Plateau permafrost region. Extremophiles 11:415–424

    Article  PubMed  CAS  Google Scholar 

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Correspondence to Lyle G. Whyte .

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Steven, B., Niederberger, T.D., Whyte, L.G. (2009). Bacterial and Archaeal Diversity in Permafrost. In: Margesin, R. (eds) Permafrost Soils. Soil Biology, vol 16. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-69371-0_5

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