Characteristic microbial community of a dry thermophilic methanogenic digester: Its long-term stability and change with feeding

Applied Microbiology and Biotechnology

Volumn 91, Issue 5, 2011, Pages 1447-1461

  Tang, Yue Qin ^a   Ji, Pan ^a   Hayashi, Junpei ^b   Koike, Yoji ^c   Wu, Xiao Lei ^a   Kida, Kenji ^b  

^a PEKING UNIVERSITY   (China)

^b KUMAMOTO UNIVERSITY   (Japan)

^c TOKYO GAS CO LTD   (Japan)

Author keywords

Cellulose degradation; Dry anaerobic digestion; Garbage digestion; Microbial community; Thermophilic anaerobic digestion

Indexed keywords

CELLULOSE DEGRADATION; DRY ANAEROBIC DIGESTION; GARBAGE DIGESTION; MICROBIAL COMMUNITIES; THERMOPHILIC ANAEROBIC DIGESTION;

BACTERIOLOGY; CELLULOSE; CLONING; CLOSTRIDIUM; ETHANOL; GENES; METHANE; METHANOGENS; RNA; SLUDGE DIGESTION; SOCIAL SCIENCES; VOLATILE FATTY ACIDS; WASTE PAPER;

ANAEROBIC DIGESTION;

CELLULOSE; METHANE;

ANOXIC CONDITIONS; DIGESTION; FATTY ACID; LONG-TERM CHANGE; METHANE; MICROBIAL ACTIVITY; MICROBIAL COMMUNITY; PROKARYOTE; TEMPERATURE EFFECT; VOLATILE SUBSTANCE;

ALCOHOL PRODUCTION; ARTICLE; BACTERIUM; BACTEROIDETES; CLOSTRIDIUM THERMOCELLUM; DEGRADATION; FIRMICUTES; HALOCELLA CELLUSILYTICA; METHANOBACTERIUM; METHANOCULLEUS; METHANOGEN; METHANOSARCINA; METHANOTHERMOBACTER; MICROBIAL COMMUNITY; MICROBIAL DIVERSITY; NONHUMAN; SLUDGE; THERMOSTABILITY;

ARCHAEA; BACTERIA; BIOREACTORS; FERMENTATION; HOT TEMPERATURE; METHANE; MOLECULAR SEQUENCE DATA; PHYLOGENY; SEWAGE;

ARCHAEA; BACTERIA (MICROORGANISMS); BACTEROIDETES; CLOSTRIDIUM STERCORARIUM; CLOSTRIDIUM THERMOCELLUM; FIRMICUTES; HALOCELLA; METHANOBACTERIUM; METHANOCULLEUS; METHANOSARCINA; METHANOTHERMOBACTER; OTUS;

EID: 80052613389     PISSN: 01757598     EISSN: 14320614     Source Type: Journal    
DOI: 10.1007/s00253-011-3479-9     Document Type: Article

References (64)

1. JH Ahn CF Forster 2000 Kinetic analyses of the operation of mesophilic and thermophilic anaerobic filters treating a simulated starch wastewater Proc Biochem 36 19 23 10.1016/S0032-9592(00)00166-7 1:CAS:528:DC%2BD3cXnt1yrurc%3D
2. N Ait N Creuzet P Forget 1979 Partial purification of cellulose from Clostridium thermocellum J Gen Microbiol 113 399 402 1:CAS:528: DyaL3cXltl2gsQ%3D%3D (Pubitemid 10236590)
3. I Angelidaki BK Ahring 1994 Anaerobic thermophilic digestion of manure at different ammonia loads: effect of temperature Water Res 28 727 731 10.1016/0043-1354(94)90153-8 1:CAS:528:DyaK2cXhvFGktLk%3D (Pubitemid 24050658)
4. JW Bae JR Park YH Chang SK Rhee BC Kim YH Park 2004 Clostridium hastiforme is a later synonym of Tissierella praeacuta Int J Syst Evol Microbiol 54 947 949 10.1099/ijs.0.63068-0 1:CAS:528:DC%2BD2cXlt1emtL8%3D (Pubitemid 38771800)
5. E Bagge L Sahlström A Albin 2005 The effect of hygienic treatment on the microbial flora of biowaste plants Water Res 39 4879 4886 10.1016/j.watres.2005.03.016 1:CAS:528:DC%2BD2MXht12jtL%2FF (Pubitemid 41772773)
6. DR Boone Y Liu ZJ Zhao DL Balkwill GR Drake TO Stevens HC Aldrich 1995 Bacillus infernus sp. nov., an Fe (III)- and Mn (1V)-reducing anaerobe from the deep terrestrial subsurface Int J Syst Bacteriol 45 441 448 10.1099/00207713-45- 3-441 1:CAS:528:DyaK2MXnsVemu7g%3D
7. AM Briones BJ Daugherty LT Angenent KD Rausch ME Tumbleson L Raskin 2007 Microbial diversity and dynamics in multi- and single-compartment anaerobic bioreactors processing sulfate-rich waste streams Environ Microbiol 9 93 106 10.1111/j.1462-2920.2006.01119.x 1:CAS:528:DC%2BD2sXis1SltLk%3D (Pubitemid 46059002)
8. PC Burrell C O'Sullivan H Song WP Clarke LL Blackall 2004 Identification, detection, and spatial resolution of cellulose degradation in a methanogenic landfill leachate bioreactor Appl Environ Microbiol 70 2414 2419 10.1128/AEM.70.4.2414-2419.2004 1:CAS:528:DC%2BD2cXjtlOhs7o%3D (Pubitemid 38500546)
9. R Chouari DL Paslier P Daegelen P Ginestet J Weissenbach A Sghir 2005 Novel predominant archaeal and bacterial groups revealed by molecular analysis of an anaerobic sludge digester Environ Microbiol 7 1104 1115 10.1111/j.1462-2920.2005.00795.x 1:CAS:528:DC%2BD2MXpt1Cisrg%3D (Pubitemid 41026511)
10. JR Cole B Chai RJ Farris Q Wang SA Kulam DM McGarrell GM Garrity JM Tiedje 2005 The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis Nucl Acids Res 33 Database Issue D294 D296 10.1093/nar/gki038 1:CAS:528:DC%2BD2MXisVerug%3D%3D (Pubitemid 40207881)
11. L De Baere 2000 Anaerobic digestion of solid waste: state-of-the-art Water Sci Technol 41 283 290 (Pubitemid 30246477)
12. M Engle Y Li C Woese J Wiegel 1995 Isolation and characterization of a novel alkali tolerant thermophile, Anaerobranca horikoshii gen. nov., sp. nov Int J Syst Bacteriol 45 454 461 10.1099/00207713-45-3-454 1:CAS:528: DyaK2MXnsVemu7Y%3D
13. C Erkel D Kemnitz M Kube P Ricke KJ Chin S Dedysh R Reinhardt R Conrad W Liesack 2005 Retrieval of first genome data for rice cluster I methanogens by a combination of cultivation and molecular techniques FEMS Microbiol Ecol 53 187 204 10.1016/j.femsec.2004.12.004 1:CAS:528:DC%2BD2MXltFakurc%3D (Pubitemid 40798870)
14. LA Fdéz.-Güelfo C Álvarez-Gallego D Sales Márquez LI Romero García 2010 Start-up of thermophilic-dry anaerobic digestion of OFMSW using adapted modified SEBAC inoculum Bioresour Technol 101 9031 9039 10.1016/j.biortech.2010.07.021
15. A Fernández S Huang S Seston J Xing R Hickey C Criddle J Tiedje 1999 How stable is stable? Function versus community composition Appl Environ Microbiol 65 3697 3704 (Pubitemid 29399005)
16. M Goberna H Insam IH Franke-Whittle 2009 Effect of biowaste sludge maturation on the diversity of thermophilic bacteria and archaea in an anaerobic reactor Appl Environ Microbiol 75 2566 2572 10.1128/AEM.02260-08 1:CAS:528:DC%2BD1MXlsFChsbs%3D
17. V Gorlenko A Tsapin Z Namsaraev T Teal T Tourova D Engler R Mielke K Nealson 2004 Anaerobranca californiensis sp. nov., an anaerobic, alkali thermophilic, fermentative bacterium isolated from a hot spring on Mono Lake Int J Syst Evol Microbiol 54 739 743 10.1099/ijs.0.02909-0 1:CAS:528: DC%2BD2cXlt1emsrs%3D (Pubitemid 38771773)
18. J Guendouz P Buffière J Cacho M Carrère JP Delgenes 2010 Dry anaerobic digestion in batch mode: design and operation of a laboratory-scale, completely mixed reactor Waste Manage 30 1768 1771 10.1016/j.wasman.2009.12.024 1:CAS:528:DC%2BC3cXhtFarsbbJ
19. M Hatamoto H Imachi Y Yashiro A Ohashi H Harada 2007 Diversity of anaerobic microorganisms involved in long-chain fatty acid degradation in methanogenic sludges as revealed by RNA-based stable isotope probing Appl Environ Microbiol 73 4119 4127 10.1128/AEM.00362-07 1:CAS:528: DC%2BD2sXot1OrsL4%3D (Pubitemid 47068148)
20. S Hattori Y Kamagata S Hanada H Shoun 2000 Thermacetogenium phaeum gen. nov., sp. nov., a strictly anaerobic, thermophilic, syntrophic acetate-oxidizing bacterium Int J Syst Evol Microbiol 50 1601 1609 10.1099/00207713-50-4-1601 1:CAS:528:DC%2BD3cXlvVyqsLg%3D (Pubitemid 30601972)
21. T Hori S Haruta Y Ueno M Ishii Y Igarashi 2006 Dynamic transition of a methanogenic population in response to the concentration of volatile fatty acids in a thermophilic anaerobic digester Appl Environ Microbiol 72 1623 1630 10.1128/AEM.72.2.1623-1630.2006 1:CAS:528:DC%2BD28Xhs1Ghu7w%3D (Pubitemid 43271278)
22. D Karakashev DJ Batstone I Angelidaki 2005 Influence of environmental conditions on methanogenic compositions in anaerobic biogas reactors Appl Environ Microbiol 71 331 338 10.1128/AEM.71.1.331-338.2005 1:CAS:528: DC%2BD2MXotleisw%3D%3D (Pubitemid 40116286)
23. T Kobayashi K Sawada N Sumitomo Y Hatada H Hagihara S Ito 2003 Bifunctional pectinolytic enzyme with separate pectate lyase and pectin methylesterase domains from an alkaliphilic Bacillus World J Microbiol Biotechnol 19 269 277 10.1023/A:1023698007103 1:CAS:528:DC%2BD3sXjtl2ktbc%3D (Pubitemid 36610694)
24. Y Koike MZ An YQ Tang T Syo N Osaka S Morimura K Kida 2009 Production of fuel ethanol and methane from garbage by high-efficiency two-stage fermentation process J Biosci Bioeng 108 508 512 10.1016/j.jbiosc.2009.06.007 1:CAS:528:DC%2BC3cXkt12ktr8%3D
25. J Kopečný B Hodrová CS Stewart 1996 The effect of rumen chitinolytic bacteria on cellulolytic anaerobic fungi Lett Appl Microbiol 23 199 202 10.1111/j.1472-765X.1996.tb00064.x (Pubitemid 26297967)
26. N Krakat A Westphal SP Schmidt 2010 Anaerobic digestion of renewable biomass: thermophilic temperature governs methanogen population dynamics Appl Environ Microbiol 76 1842 1850 10.1128/AEM.02397-09 1:CAS:528: DC%2BC3cXjvVGjsLk%3D
27. L Levén ARB Eriksson Schnürer 2007 Effect of process temperature on bacterial and archaeal communities in two methanogenic bioreactors treating organic household waste FEMS Microbiol Ecol 59 683 693 10.1111/j.1574-6941.2006.00263.x (Pubitemid 46376245)
28. T Li L Mazéas A Sghir G Leblon T Bouchez 2009 Insights into networks of functional microbes catalysing methanization of cellulose under mesophilic conditions Environ Microbiol 11 889 904 10.1111/j.1462-2920.2008. 01810.x 1:CAS:528:DC%2BD1MXltlSltrY%3D
29. K Liu YQ Tang T Matsui S Morimura XL Wu K Kida 2009 Thermophilic anaerobic co-digestion of garbage, screened swine and dairy cattle manure J Biosci Bioeng 107 54 60 10.1016/j.jbiosc.2008.09.007 1:CAS:528: DC%2BD1MXjtl2rsrk%3D
30. RH Madden 1983 Isolation and characterization of Clostridium stercorarium sp. nov., cellulolytic thermophile Int J Syst Bacteriol 33 837 840 10.1099/00207713-33-4-837
31. RJ Menes L Muxí 2002 Anaerobaculum mobile sp. nov., a novel anaerobic, moderately thermophilic, peptide-fermenting bacterium that uses crotonate as an electron acceptor, and emended description of the genus Anaerobaculum Int J Syst Evol Microbiol 52 157 164 1:CAS:528: DC%2BD38XhsVWmtb4%3D (Pubitemid 34105701)
32. O'Sullivan CA, Burrell PC, Clarke WP, Blackall LL (2005) Structure of a cellulose degrading bacterial community during anaerobic digestion. Biotech Bioeng 871-878
33. P Partanen J Hultman L Paulin P Auvinen M Romantschuk 2010 Bacterial diversity at different stages of the composting process BMC Microbiol 10 94 10.1186/1471-2180-10-94
34. CM Plugge M Balk EG Zoetendal AJM Stams 2002 Gelria glutamica gen. nov., sp. nov., a thermophilic, obligately syntrophic, glutamate-degrading anaerobe Int J Syst Evol Microbiol 52 401 407 1:CAS:528:DC%2BD38XivV2rtb4%3D (Pubitemid 34257397)
35. E Pruesse C Quast K Knittel B Fuchs W Ludwig J Peplies FO Glöckner 2007 SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB Nucl Acids Res 35 7188 7196 10.1093/nar/gkm864 1:CAS:528:DC%2BD1cXhtFGmtg%3D%3D
36. D Sasaki T Hori S Haruta Y Ueno M Ishii Y Igarashi 2011 Methanogenic pathway and community structure in a thermophilic anaerobic digestion process of organic solid waste J Biosci Bioeng 111 41 46 10.1016/j.jbiosc.2010.08.011 1:CAS:528:DC%2BC3MXktlakurc%3D
37. K Sasaki S Haruta Y Ueno M Ishii Y Igarashi 2007 Microbial population in the biomass adhering to supporting material in a packed-bed reactor degrading organic solid waste Appl Microbial Biotechnol 75 941 952 10.1007/s00253-007- 0888-x 1:CAS:528:DC%2BD2sXlslClu7s%3D (Pubitemid 47164905)
38. S Sawayama K Tsukahara T Yagishita 2006 Phylogenetic description of immobilized methanogenic community using real-time PCR in a fixed-bed anaerobic digester Bioresour Technol 97 69 76 10.1016/j.biortech.2005.02.011 1:CAS:528:DC%2BD2MXpvVSkurw%3D (Pubitemid 41265790)
39. PD Schloss SL Westcott T Ryabin JR Hall M Hartmann EB Hollister RA Lesniewski BB Oakley DH Parks CJ Robinson JW Sahl B Stres GG Thallinger DJ Van Horn CF Weber 2009 Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities Appl Environ Microbiol 75 7537 7541 10.1128/AEM.01541-09 1:CAS:528: DC%2BC3cXis1yltw%3D%3D
40. A Schnürer B Schink BH Sversson 1996 Clostridium ultunense sp. nov., a mesophilic bacterium oxidizing acetate in syntrophic association with a hydrogenotrophic methanogenic bacterium Int J Syst Bacteriol 46 1145 1152 10.1099/00207713-46-4-1145 (Pubitemid 26339246)
41. H Shiratori H Ohiwa H Ikeno S Ayame N Kataoka A Miya T Beppu K Ueda 2008 Lutispora thermophila gen. nov., sp. nov., a thermophilic, spore-forming bacterium isolated from a thermophilic methanogenic bioreactor digesting municipal solid wastes Int J Syst Evol Microbiol 58 964 969 10.1099/ijs.0.65490- 0
42. MV Simankova NA Chernych GA Osipov GA Zavarzin 1993 Halocella cellulolytica gen. nov., sp. nov., a new obligately anaerobic, halophilic, cellulolytic bacterium Syst Appl Microbiol 16 385 389 1:CAS:528: DyaK2cXivFeqtLc%3D (Pubitemid 24010289)
43. DR Singleton MA Furlong SL Rathbun WB Whitman 2001 Quantitative comparisons of 16S rDNA sequence libraries from environmental samples Appl Environ Microbiol 67 4373 4376 10.1128/AEM.67.9.4374-4376.2001 (Pubitemid 33641744)
44. AI Slobodkin TP Tourova NA Kostrikina AM Lysenko KE German EA Bonch-Osmolovskaya NK Birkeland 2006 Tepidimicrobium ferriphilum gen. nov., sp. nov., a novel moderately thermophilic, Fe(III)-reducing bacterium of the order Clostridiales Int J Syst Evol Microbiol 56 369 372 10.1099/ijs.0.63694-0 1:CAS:528:DC%2BD28XislKhtLs%3D (Pubitemid 43273850)
45. DY Sorokin TP Tourova M Mussmann G Muyzer 2008 Dethiobacter alkaliphilus gen. nov. sp. nov., and Desulfurivibrio alkaliphilus gen. nov. sp. nov.: two novel representatives of reductive sulfur cycle from soda lakes Extremophiles 12 431 439 10.1007/s00792-008-0148-8 1:CAS:528:DC%2BD1cXltlCksL4%3D
46. K Tamura J Dudley M Nei S Kumar 2007 MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0 Mol Biol Evol 24 1596 1599 10.1093/molbev/msm092 1:CAS:528:DC%2BD2sXpsVGrsL8%3D (Pubitemid 47236692)
47. YQ Tang Y Fujimura T Shigematsu S Morimura K Kida 2007 Anaerobic treatment performance and microbial population of thermophilic upflow anaerobic filter reactor treating Awamori distillery wastewater J Biosci Bioeng 104 281 287 10.1263/jbb.104.281 1:CAS:528:DC%2BD1cXjtV2ltg%3D%3D (Pubitemid 350102401)
48. YQ Tang T Matsui S Morimura XL Wu K Kida 2008 Effect of temperature on microbial community of a glucose-degrading methanogenic consortium under hyperthermophilic chemostat cultivation J Biosci Bioeng 106 180 187 10.1263/jbb.106.180 1:CAS:528:DC%2BD1cXhtlWnsrzP
49. YQ Tang T Shigematsu MS Ikbal K Kida 2004 The effects of micro-aeration on the phylogenetic diversity of microorganisms in a thermophilic anaerobic municipal solid-waste digester Water Res 38 2537 2550 10.1016/j.watres.2004.03. 012 1:CAS:528:DC%2BD2cXktFKksLs%3D (Pubitemid 38680736)
50. YQ Tang T Shigematsu S Morimura K Kida 2007 Effect of dilution rate on the microbial structure of a mesophilic butyrate-degrading methanogenic community during continuous cultivation Appl Microbiol Biotechnol 75 451 465 10.1007/s00253-006-0819-2 1:CAS:528:DC%2BD2sXmsV2iu7w%3D (Pubitemid 46866526)
51. JD Thompson TJ Gibson F Plewniak F Jeanmougin DG Higgins 1997 The CLUSTAL-X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools Nucl Acids Res 25 4876 4882 10.1093/nar/25.24.4876 1:CAS:528:DyaK1cXntFyntQ%3D%3D (Pubitemid 28022245)
52. NO van Gylswyk 1980 Fusobacterium polysaccharolyticum sp. nov., a gram-negative rod from the rumen that produces butyrate and ferments cellulose and starch J Gen Microbiol 116 57 163
53. JB van Lier A Tilche BK Ahring H Macarie R Moletta M Dohanyos LWH Pol P Lens W Verstraete 2001 New perspectives in anaerobic digestion Water Sci Technol 43 1 18 (Pubitemid 32185798)
54. A Weiss V Jérôme D Burghardt L Likke S Peiffer EM Hofstetter R Gabler R Freitag 2009 Investigation of factors influencing biogas production in a large-scale thermophilic municipal biogas plant Appl Microbiol Biotechnol 84 987 1001 10.1007/s00253-009-2093-6 1:CAS:528:DC%2BD1MXhtFaqsLvJ
55. A Weiss V Jèrôme R Freitag HK Mayer 2008 Diversity of the resident microbiota in a thermophilic municipal biogas plant Appl Microbiol Biotechnol 81 163 173 10.1007/s00253-008-1717-6 1:CAS:528:DC%2BD1cXht1OisbrP
56. Wiegel J, Tanner R, Rainey FA (2005) An introduction to the family Clostridiaceae. In: Dworkin M (ed) The prokaryotes: an evolving electronic resource for the microbiological community, 3rd edn. Springer, New York, pp 654-678
57. C Wu X Dong X Liu 2007 Syntrophomonas wolfei subsp. methylbutyratica subsp. nov., and assignment of Syntrophomonas wolfei subsp. saponavida to Syntrophomonas saponavida sp. nov. comb. nov Syst Appl Microbiol 30 376 380 10.1016/j.syapm.2006.12.001 (Pubitemid 46962943)
58. C Wu X Liu X Dong 2006 Syntrophomonas cellicola sp. nov., a sporeforming syntrophic bacterium isolated from a distilled-spirit-fermenting cellar, and assignment of Syntrophospora bryantii to Syntrophomonas bryantii comb. nov Int J Syst Evol Microbiol 56 2331 2335 10.1099/ijs.0.64377-0 1:CAS:528: DC%2BD28Xht1WntbvO (Pubitemid 44566801)
59. H Yabu C Sakai T Fujiwara N Nishio Y Nakashimada 2011 Thermophilic two-stage dry anaerobic digestion of model garbage with ammonia stripping J Biosci Bioeng 111 312 319 10.1016/j.jbiosc.2010.10.011 1:CAS:528: DC%2BC3MXmslOgs7s%3D
60. Yu SL, Tang YQ, Li Y, Zhang H, Wu XL (2010) Gradient decrement of annealing time can improve PCR with fluorescent-labeled primers. J Biosci Bioeng 110:500-504
61. P Zhang Y Chen Q Zhou X Zheng X Zhu Y Zhao 2010 Understanding short-chain fatty acids accumulation enhanced in waste activated sludge alkaline fermentation: kinetics and microbiology Environ Sci Technol 44 9343 9348 10.1021/es102878m 1:CAS:528:DC%2BC3cXhsVOktrjN
62. TN Zhilina DG Zavarzina TV Kolganova AM Lysneko TP Tourova 2009 Alkaliphilus peptidofermentans sp. nov., a new alkaliphilic bacterial soda lake isolate capable of peptide fermentation and Fe (III) reduction Mikrobiologiia 78 445 454 1:CAS:528:DC%2BD1MXpvV2gu78%3D
63. Zinder SH (1993) Physiological ecology of methanogens. In: Ferry JG (ed) Methanogenesis. Chapman & Hall, New York, pp 128-206
64. E Zumstein R Moletta JJ Godon 2000 Examination of two years of community dynamics in an anaerobic bioreactor using fluorescence polymerase chain reaction (PCR) single-strand conformation polymorphism analysis Environ Microbiol 2 69 78 10.1046/j.1462-2920.2000.00072.x 1:CAS:528:DC%2BD3cXhs12ht7c%3D (Pubitemid 33124583)