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Original Articles

Isolation of Anaerobic Bacteria from Terrestrial Mud Volcanoes (Salse di Nirano, Northern Apennines, Italy)

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Pages 355-364 | Received 01 Feb 2014, Accepted 01 Jun 2014, Published online: 03 Apr 2015

References

  • Alain K, Holler T, Musat F, Elvert F, Treude T, Krüger M. 2006. Microbiological investigation of methane- and hydrocarbon-discharging mud volcanoes in the Carpathian Mountains, Romania. Environ Microbiol 8:574–590.
  • Amann R, Fuchs BM. 2008. Single-cell identification in microbial communities by improved fluorescence in situ hybridization techniques. Nat Rev Microbiol 6:339–348.
  • Bauer R. 1988. Electron spectroscopic imaging: an advanced technique for imaging and analysis in transmission electron microscopy. In: F. Mayer, editor. Methods in Microbiology. Vol. 20. Electron microscopy in Microbiology. London: Academic Press. p113–146.
  • Betelli G, De Nardo MT. 2001. Geological outlines of Emilia Apennines (Italy) and introduction to the rock units cropping out in the areas of landslides reactivated in the 1994-1999 period. Quaderni di Geologica Applicata 8:7–28.
  • Bonini M. 2008. Elliptical mud volcano caldera as stress indicator in an active compressional setting (Nirano, Pede-Apennine margin, northern Italy). Geology 36:131–134.
  • Boschetti T, Toscani L, Shouakar-Stash O, Iacumin P, Venturelli G, Mucchino C, Frape S. 2010. Salt Waters of the Northern Apennine Foredeep Basin (Italy): Origin and Evolution. Aquat. Geochem. 17:1–38.
  • Capozzi R, Picotti V. 2002. Fluid migrations and origin of a mud volcano in the Northern Apennines (Italy): the role of deeply rooted normal faults. Terra Nova 14:363–370.
  • Capozzi R, Picotti V. 2010. Spontaneous fluid emissions in the Northern Apennines: Geochemistry, structures and implications for the petroleum system. Geol Soc Spec Publ 348:115–135.
  • Chang YH, Cheng TW, Lai WJ, Tsai WY, Sun CH, Lin LH, Wang PL. 2011. Microbial methane cycling in a terrestrial mud volcano in eastern Taiwan. Environ Microbiol 14:895–908.
  • Cheng TW, Chang YH, Tang SL, Tseng CH, Chiang PW, Chang KT, Sun CH, Chen YG, Kuo HC, Wang CH, Chu PH, Song SR, Wang PL, Lin LH. 2012. Metabolic stratification driven by surface and subsurface interactions in a terrestrial mud volcano. ISME J 6:2280–2290.
  • Donachie SP, Hou S, Lee KS, Riley CW, Pikina A, Belisle C, Kempe S, Gregory TS, Bossuyt A, Boerema J, Freitas TA, Malahoff A, Alam, M. 2004. The Hawaiian archipelago: a microbial community hotspot. Microb Ecol 48:509–520.
  • Delbès C, Moletta R, Godon JJ. 2001. Bacterial and archaeal 16S rDNA and 16S rRNA dynamics during an acetate crisis in an anaerobic digestor ecosystem. FEMS Microbiol Ecol 35:19–26.
  • Dimitrov LI. 2002. Mud volcanoes - the most important pathway for degassing deeply buried sediments. Earth Sci Rev 59:49–76.
  • Duncan KE, Gieg LM, Parisi VA, Tanner RS, Tringe SG, Bristow J, Suflita JM. 2009. Biocorrosive thermophilic microbial communities in Alaskan North Slope Oil Facilities. Environ Sci Technol 43:7977–7984.
  • Etiope G, Feyzullayev A, Baciu C. 2009a. Terrestrial methane seeps and mud volcanoes: A global perspective of gas origin. Mar Petroleum Geol 29:333–344.
  • Etiope G, Feyzullayev A, Mikov AV, Waseda A, Mizobe K, Sun CH. 2009b. Evidence of subsurface anaerobic biodegradation of hydrocarbons and potential secondary methanogenesis in terrestrial mud volcanoes. Mar Petroleum Geol 26:1692–1703.
  • Ettoumi B, Raddadi N, Borin S, Daffonchio D, Boudabous A, Cherif A. 2009. Diversity and phylogeny of culturable spore-forming Bacilli isolated from marine sediments. J Basic Microbiol 49 Suppl. 1:S13–23.
  • Evans JB, Harrell LJ. 1977. Agar shake tube technique for simultaneous determination of aerobic andanaerobic susceptibility to antibiotics. Antimicrob Agents Chemother 12:534–536.
  • Heller C, Blumenberg M, Hoppert M, Taviani M, Reitner J. 2012. Terrestrial mud volcanoes of the Salse di Nirano (Italy) as a window into deeply buried organic-rich shales of Plio-Pleistocene age. Sediment Geol 263/264:202–209.
  • Heller C, Blumenberg M, Kokoschka S, Wrede C, Hoppert M, Taviani M, Reitner J. 2011. Geomicrobiology of fluid venting structures at the “Salse di Nirano” mud volcano area in the Northern Apennines (Italy). Lecture Notes Earth Sci 131:209–220.
  • Heller C. 2011. Fluid venting structures of terrestrial mud volcanoes (Italy) and marine cold seeps (Black Sea) - Organo-geochemical and biological approaches. PhD thesis, Georg-August-Universität Göttingen.
  • Hernández-Eugenio G, Fardeau ML, Cayol JL, Patel BKC, Thomas P, Macarie H, Garcia JL, Ollivier B. 2002. Clostridium thiosulfatireducens sp. nov., a proteolytic thiosulfate- and sulfur-reducing bacterium isolated from an upflow anaerobic sludge blanket (UASB) reactor. Intl J System Evol Microbiol 52:1461–1468.
  • Hoppert M. 2003. Microscopic Techniques in Biotechnology. Weinheim: Wiley-VCH.
  • Ivanova EP, Vysotskii MV, Svetashev VI, Nedashkovskaya OI, Gorshkova NM, Mikhailov VV, Yumoto N, Shigeri Y, Taguchi T, Yoshikawa, S. 1999. Characterization of Bacillus strains of marine origin. Intl Microbiol 2:267–271.
  • Jyothsna TSS, Sasikala C, Ramana CV. 2008. Desulfovibrio psychrotolerans sp. nov., a psychrotolerant and moderately alkaliphilic sulfate-reducing deltaproteobacterium from the Himalayas. Intl J System Evol Microbiol 58:821–825.
  • Kallmeyer J, Smith DC, Spivack AJ, D´Hondt S. 2008. New cell extraction procedure applied to deep subsurface sediments. Limnol Oceanogr Meth 6:236–245.
  • Kieu HTQ. 2010. Heavy metal removal by a highly heavy metal tolerant sulfidogenic consortium in anaerobic semi-continuous stirred tank reactors (CSTR): Changes of microbial community structure and abundance. München: Technische Universität München, PhD thesis.
  • HTQ Kieu, Müller E, Horn H. 2011. Heavy metal removal in anaerobic semi-continuous stirred tank reactors by a consortium of sulfate-reducing bacteria. Water Res 45:3863–3870.
  • Kikuchi E, Miyamoto Y, Narushuima S, Itoh K. 2002. Design of species-specific primers to identify 13 species of Clostridium harbored in human intestinal tracts. Microbiol Immunol 46:353–358.
  • Kniemeyer O, Musat F, Sievert SM, Knittel K, Wilkes H, Blumenberg M, Michaelis W, Classen A, Bolm C, Joye SB, Widdel F. 2007. Anaerobic oxidation of short-chain hydrocarbons by marine sulphate-reducing bacteria. Nature 449:898–901.
  • Kopf A, Klaeschen D, Mascle J. 2001. Extreme efficiency of mud volcanism in dewatering accretionary prisms. Earth Planetary Sci Lett 189:295–313.
  • Kopf AJ. 2002. Significance of mud volcanism. Rev Geophys 40: 2.1–2.52.
  • 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.
  • 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.
  • Maity JP, Liu CC, Nath B, Bundschuh J, Kar S, Jean JS, Bhattacharya P, Liu JH, Atla SB, Chem CY 2011. Biogeochemical characteristics of Kuan-Tzu-Ling, Chung-Lun and Bao-Lai hot springs in southern Taiwan. J Environ Health A Tox Hazard Subst Environ Eng 46:1207–1217.
  • Martinelli G, Ferrari G. 1991. Earthquake forerunners in a selected area of Northern Italy: recent developments in automatic geochemical monitoring. Tectonophysics 193:397–410.
  • Martinelli G, Judd A. 2004. Mud volcanoes of Italy. Geol J 39:49–61.
  • Martinelli G, Rabbi E. 1998. The Nirano mud volcanoes. In: Abstracts and Guide Book, Vth Intl. Conf. on Gas in Marine Sediments. Curzi PV and Judd AG. (eds). Bologna, Italy: Grafiche A & B.
  • Muyzer G, De Waal EC, Uitterlinden AG. 1993. Profiling of complexmicrobial population by denaturing gradient gel electrophoresis analysis ofpolymerase chain reaction-amplified genes coding for 16S rRNA. Appl Environ Microbiol 59:695–700.
  • Ng H, Vaughn RH. 1963. Clostridium rubrum sp. n. and other pectinolytic Clostridia from soil. J Bacteriol 85:1104–1113.
  • Niemann H, Boetius A. 2010. Mud Volcanoes. In: Timmis KN, editor. Handbook of Hydrocarbon and Lipid Microbiology, part 3, Berlin: Springer.
  • Omoregie EO, Mastalerz V, de Lange G, Straub KL, Kappler A, Røy H, Stadnitskaia A, Foucher JP, Boetius A. 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.
  • Pernthaler J, Glockner FO, Schonhuber W, Amann R. 2001. Fluorescence in situ hybridization (FISH) with rRNA-targeted oligonucleotide probes. Meth Microbiol 30:207–226.
  • Postgate JR. 1951. On the nutrition of Desulphovibrio desulphuricans. J Gen Microbiol 5:714–724.
  • Rabus R, Fukui M, Wilkes H, Widdel F. 1996. Degradative capacities and 16S rRNA-targeted whole-cell hybridization of sulfate-reducing bacteria in an anaerobic enrichment culture utilizing alkylbenzenes from crude oil. Appl Environ Microbiol 62:3605–3613.
  • Ricci Lucchi F. 1986. The Oligocene to recent foreland basins of the northern Apennines. In: Allen P, Homewood P, editors. Foreland Basins. Oxford: Blackwell Publishing P 105–139.
  • Rosenfeld, WD. 1947. Anaerobic oxidation of hydrocarbons by sulfate-reducing bacteria. J Bacteriol 54:664–665.
  • Sambrook J, Fritsch EF Maniatis T. 1989. Molecular Cloning: A Laboratory Manual, 2nd ed. Woodbury, NY: Cold Spring Harbor Laboratory Press.
  • Shariaki P, Mitchell WJ, Boyd A, Priest FG. 1995. Anaerobic metabolism in Bacillus licheniformis NCIB6346. Microbiology 141:1117–1124.
  • Smith EA, Macfarlane GT. 2006. Enumeration of amino acid fermenting bacteria in the human large intestine: effects of pH and starch on peptide metabolism and dissimilation of amino acids. FEMS Microbiol Ecol 25:355–368.
  • Sowers KR, Noll KM. 1995. Techniques for Anaerobic Growth. In Robb FT, Place AR, Sowers KR, Schreier HJ, DasSarma S, Fleischmann EM. (editors). Archaea: A laboratory manual. Woodbury (NY): Cold Spring Harbor Laboratory Press.
  • Spurr AR. 1969. A low-viscosity epoxy resin embedding medium for electron microscopy. J Ultrastruct Res 26:31–43.
  • Stadnitskaia A, Muyzer G, Abbas B, Coolen MJL, Hoppmans EC, Baas M, van Weering, TCE, Ivanov MK, Poludetkina E, Sinninghe Damsté JS. 2005. Biomarker and 16S rDNA evidence for anaerobic oxidation of methane and related carbonate precipitation in deep-sea mud volcanoes of the Sorokin Trough, Black Sea. Mar Geol 217:67–96.
  • Tassi F, Bonini M, Montegrossi G, Capecchiacci F, Capaccioni B, Vaselli, O. 2012. Origin of light hydrocarbons in gases from mud volcanoes and CH4-rich emissions, Chem Geol 294/295:113–126.
  • Tang YQ, Li Y, Zhao JY, Chi, CQ, Huand LX, Dong HP, Wu XL. 2012. Microbial communities in long-term, water-flooded petroleum reservoirs with different in situ temperatures in the Huabei Oilfield, China. Plos One 7:e33535.
  • GB Vai, IP Martini. 2001. Anatomy of an Orogen. The Apennines and Adjacent Mediterranean Basins. Dordrecht: Kluwer.
  • Vai GB, Ricci Lucchi F. (1977) Algal crusts, autochthonous and clastic gypsum in a cannibalistic evaporite basin: a case history from the Messinian of Northern Apennines. Sedimentology 24:211–244.
  • Veith B, Herzberg C, Steckel S, Feesche J, Maurer KH, Ehrenreich P, Bäumer S, Henne A, Liesegang H, Merkl R, Ehrenreich A, Gottschalk G. 2004. The complete genome sequence of Bacillus licheniformis DSM13, an organism with great industrial potential. J Mol Microbiol Biotechnol. 7:204–211.
  • Wang PL, Chiu YP, Cheng TW, Chang YH, Tu WX, Lin LH. 2014. Spatial variations of community structures and methane cycling across a transect of Lei-Gong-Hou mud volcanoes in eastern Taiwan. Front Microbiol 5:121.
  • Weilharter A, Mitter, B, Shin, MV, Chain PSG, Nowak J, Sessitsch A. 2011. Complete genome sequence of the plant growth-promoting endophyte Burkholderia phytofirmans strain PsJN. J. Bacteriol 193:3383–3384.
  • Wentzel A, Ellingsen TE, Kotlar HK, Zotchev SB, Throne-Holst M. 2007. Bacterial metabolism of longchain n-alkanes. Appl Microbiol Biotechnol 76:1209–1221.
  • Wrede C, Brady S, Rockstroh S, Dreier A, Kokoschka S, Heinzelmann SM, Heller C, Reitner J, Taviani M, Daniel R, Hoppert M. 2012. Aerobic and anaerobic methane oxidation in terrestrial mud volcanoes in the Northern Apennines. Sediment Geol 263/264:210–219.
  • Wrede C, Heller C, Reitner J, Hoppert M. 2008. Correlative light/electron microscopy for the investigation of microbial mats from Black Sea cold seeps. J Microbiol Meth 73:85–91.
  • Xie X, Li S, He H, Liu X. 2003. Seismic evidence for fluid migration pathways from an overpressured system in the South China Sea. Geofluids 3:245–253.
  • Yakimov MM, Amro MM, Bock M, Bosecker K, Fredrickson HL, Kessel DG, Timmis KN. 1997. The potential of Bacillus licheniformis strains for in situ enhanced oil recovery. J Petroleum Sci Eng 18:147–160.

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