The impact of aridification and vegetation type on changes in the community structure of methane-cycling microorganisms in Japanese wetland soils

Bioscience, Biotechnology and Biochemistry

Volumn 75, Issue 9, 2011, Pages 1727-1734

  Narihiro, Takashi ^a,b   Hori, Tomoyuki ^a   Nagata, Osamu ^c   Hoshino, Tamotsu ^a   Yumoto, Isao ^a   Kamagata, Yoichi ^a,d  

^a NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY AIST   (Japan)

^b NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY AIST   (Japan)

^c NATIONAL AGRICULTURAL RESEARCH CENTER FOR HOKKAIDO REGION   (Japan)

^d HOKKAIDO UNIVERSITY   (Japan)

Author keywords

Methanogen; Methanotroph; Uncultured archaea; Vegetation type; Wetland

Indexed keywords

16S RRNA; 16S RRNA GENE; ARCHAEA; ARCHAEAL; ARIDIFICATION; COMMUNITY STRUCTURES; METHANOTROPH; METHYL-COENZYME M REDUCTASE; PARTICULATE METHANE MONOOXYGENASE (PMOA); PHYLOGENETIC ANALYSIS; VEGETATION TYPE; WETLAND SOILS; WETLAND VEGETATION;

GENES; METHANOGENS; MICROBIOLOGY; RNA; SOCIAL SCIENCES; VEGETATION; WETLANDS;

METHANE;

ARCHAEAL DNA; BACTERIAL DNA; METHANE; METHANE MONOOXYGENASE; METHYL COENZYME M REDUCTASE; OXIDOREDUCTASE; OXYGENASE; RIBOSOME DNA; RNA 16S;

ARTICLE; CHEMISTRY; CLASSIFICATION; ENZYMOLOGY; EURYARCHAEOTA; GENETICS; JAPAN; METABOLISM; METHYLOCYSTACEAE; METHYLOMONAS; MICROBIOLOGY; PHYLOGENY; SASA; SOIL; WETLAND;

DNA, ARCHAEAL; DNA, BACTERIAL; DNA, RIBOSOMAL; EURYARCHAEOTA; JAPAN; METHANE; METHYLOCYSTACEAE; METHYLOMONAS; OXIDOREDUCTASES; OXYGENASES; PHYLOGENY; RNA, RIBOSOMAL, 16S; SASA; SOIL; SOIL MICROBIOLOGY; WETLANDS;

ARCHAEA; METHYLOCYSTIS; METHYLOMONAS; SASA; SPHAGNUM;

EID: 80053137442     PISSN: 09168451     EISSN: 13476947     Source Type: Journal    
DOI: 10.1271/bbb.110265     Document Type: Article

References (71)

1. Liu YC and Whitman WB, Ann. NY Acad. Sci., 1125, 171-189 (2008).
2. Davidson EA and Janssens IA, Nature, 440, 165-173 (2006).
3. Smith LC, MacDonald GM, Velichko AA, Beilman DW, Borisova OK, Frey KE, Kremenetski KV, and Sheng Y, Science, 303, 353-356 (2004).
4. Petrenko VV, Smith AM, Brook EJ, Lowe D, Riedel K, Brailsford G, Hua Q, Schaefer H, Reeh N, Weiss RF, Etheridge D, and Severinghaus JP, Science, 324, 506-508 (2009).
5. Denman KL, Brasseur G, Chidthaisong A, Ciais P, Cox PM, Dickinson RE, Hauglustaine D, Heinze C, Holland E, Jacob D, Lohmann U, Ramachandran S, da Silva Dias PL, Wofsy SC, and Zhang X, "Climate Change 2007: The Physical Science Basis. Contribution of Working Group I to the Fourth Assessment Report of the Intergovernmental Panel on Climate Change," eds. Solomon S, Qin D, Manning M, Chen Z, Marquis M, Averyt KB, Tignor M, and Miller HL, Cambridge University Press, Cambridge and New York, pp. 501-587 (2007).
6. Conrad R, Microbiol. Rev., 60, 609-640 (1996).
7. Laanbroek HJ, Ann. Bot., 105, 141-153 (2010).
8. Lidstrom ME, "The Prokaryotes Volume 2: Ecophysiology and Biochemistry," eds. Dworkin M, Falkow S, Rosenberg E, Schleifer K-H, and Stackebrandt E, Springer, New York, pp. 618-634 (2006).
9. Mayumi D, Yoshimoto T, Uchiyama H, Nomura N, and Nakajima-Kambe T, Microbes Environ., 25, 156-163 (2010).
10. Shannon RD, White JR, Lawson JE, and Gilmour BS, J. Ecol. 84, 239-246 (1996).
11. Kato S and Watanabe K, Microbes Environ., 25,145-151 (2010).
12. Schink B, Microbiol. Mol. Biol. Rev., 61, 262-280 (1997).
13. Conrad R, FEMS Microbiol. Ecol., 28, 193-202 (1999).
14. Dedysh SN, Derakshani M, and Liesack W, Appl. Environ. Microbiol., 67, 4850-4857 (2001).
15. Brauer SL, Yashiro E, Ueno NG, Yavitt JB, and Zinder SH, FEMS Microbiol. Ecol., 57, 206-216 (2006).
16. Cadillo-Quiroz H, Brauer S, Yashiro E, Sun C, Yavitt J, and Zinder S, Environ. Microbiol., 8, 1428-1440 (2006).
17. Morris SA, Radajewski S, Willison TW, and Murrell JC, Appl. Environ. Microbiol., 68, 1446-1453 (2002).
18. Chen Y, Dumont MG, McNamara NP, Chamberlain PM, Bodrossy L, Stralis-Pavese N, and Murrell JC, Environ. Microbiol., 10, 446-459 (2008).
19. Chen Y, Dumont MG, Neufeld JD, Bodrossy L, Stralis-Pavese N, McNamara NP, Ostle N, Briones MJI, and Murrell JC, Environ. Microbiol., 10, 2609-2622 (2008).
20. Galand PE, Saarnio S, Fritze H, and Yrjala K, FEMSMicrobiol. Ecol., 42, 441-449 (2002).
21. Hales BA, Edwards C, Ritchie DA, Hall G, Pickup RW, and Saunders JR, Appl. Environ. Microbiol., 62, 668-675 (1996).
22. Golovatskaya EA and Dyukarev EA, Plant Soil, 315, 19-34 (2009).
23. Joabsson A, Christensen TR, and Wallen B, Trends Ecol. Evol. 14, 385-388 (1999).
24. McNamara NP, Plant T, Oakley S, Ward S, Wood C, and Ostle N, Set Total Environ., 404, 354-360 (2008).
25. Banaszuk P and Kamocki A, Ecol. Eng., 32, 133-146 (2008).
26. Klein E, Berg EE, and Dial R, Can. J. For. Res., 35, 1931-1941 (2005).
27. Kasubuchi T, Miyaji N, Kohyama K, and Yanagiya S, Jpn. J. Soil Set Plant Nutr. (in Japanese), 65, 326-333 (1994).
28. Kondo K, Tsutsuki K, and Mori R, Jpn. J. Soil Set Plant Nutr. (in Japanese), 68, 527-535 (1997).
29. Nagata O, Takakai F, and Hatano R, Phyton-Ann. Rei Bot. A, 45, 299-307 (2005).
30. Takakuwa J and Ito K, Hokkaido Univ. Collect. Sch. Acad. Pap. (in Japanese), 2, 47-65 (1986).
31. Tokida T, Miyazaki T, Mizoguchi M, Nagata O, Takakai F, Kagemoto A, and Hatano R, Global Biogeochem. Cycles, 21, GB2003, doi:10.1029/2006GB002790 (2007). (Pubitemid 47323952)
32. Fujimoto T, Iiyama I, Sakai M, Nagata O, and Hasegawa S, J. Jpn. Soc. Soil Phys. (in Japanese), 103, 39-47 (2006).
33. Putkinen A, Juottonen H, Juutinen S, Tuittila ES, Fritze H, and Yrjala K, FEMS Microbiol. Ecol., 70, 87-98 (2009).
34. McDonald IR, Upton M, Hall G, Pickup RW, Edwards C, Saunders JR, Ritchie DA, and Murrell JC, Microbial. Ecol., 38, 225-233 (1999).
35. Hori T, Noll M, Igarashi Y, Friedrich MW, and Conrad R, Appl. Environ. Microbiol., 73, 101-109 (2007).
36. Horz HP, Rich V, Avrahami S, and Bohannan BJM, Appl. Environ. Microbiol., 71, 2642-2652 (2005).
37. Nunoura T, Oida H, Miyazaki J, Miyashita A, Imachi H, and Takai K, FEMS Microbiol. Ecol., 64, 240-247 (2008).
38. Grosskopf R, Janssen PH, and Liesack W, Appl. Environ. Microbiol., 64, 960-969 (1998).
39. Stahl DA and Amann R, "Nucleic Acid Techniques in Bacterial Systematics," eds. Stackebrandt E and Goodfellow M, Wiley, Chichester, pp. 205-248 (1991).
40. Narihiro T, Terada T, Kikuchi K, Iguchi A, Ikeda M, Yamauchi T, Shiraishi K, Kamagata Y, Nakamura K, and Sekiguchi Y, Microbes Environ., 24, 88-96 (2009).
41. Saitou N and Nei M, Mol. Biol. Evol., 4, 406-425 (1987).
42. Tamura K, Dudley J, Nei M, and Kumar S, Mol. Biol. Evol., 24, 1596-1599 (2007).
43. Felsenstein J, Evolution, 39, 783-791 (1985).
44. Good IJ, Biometrika, 40, 237-264 (1953).
45. Hanson RS and Hanson TE, Microbiol. Rev., 60, 439-471 (1996).
46. Knief C and Dunfield PF, Environ. Microbiol., 7, 1307-1317 (2005).
47. Knief C, Kolb S, Bodelier PLE, Lipski A, and Dunfield PF, Environ. Microbiol., 8, 321-333 (2006).
48. Brauer SL, Cadillo-Quiroz H, Ward RJ, Yavitt J, and Zinder S, Int. J. Syst. Evol. Microbiol., 61, 45-52 (2011).
49. Juottonen H, Tuittila ES, Juutinen S, Fritze H, and Yrjala K, ISME J., 2, 1157-1168 (2008).
50. Brauer SL, Cadillo-Quiroz H, Yashiro E, Yavitt JB, and Zinder SH, Nature, 442, 192-194 (2006).
51. Cadillo-Quiroz H, Yashiro E, Yavitt JB, and Zinder SH, Appl. Environ. Microbiol., 74, 2059-2068 (2008).
52. Cadillo-Quiroz H, Yavitt JB, and Zinder SH, Int. J. Syst. Evol. Microbiol., 59, 928-935 (2009).
53. Springer E, Sachs MS, Woese CR, and Boone DR, Int. J. Syst. Bacteriol., 45, 554-559 (1995).
54. Luton PE, Wayne JM, Sharp RJ, and Riley PW, Microbiology, 148, 3521-3530 (2002).
55. Chin KJ, Lukow T, and Conrad R, Appl. Environ. Microbiol. 65, 2341-2349 (1999).
56. Glissmann K, Chin KJ, Casper P, and Conrad R, Microbial. Ecol., 48, 389-399 (2004).
57. Kotsyurbenko OR, Chin KJ, Glagolev MV, Stubner S, Simankova MV, Nozhevnikova AN, and Conrad R, Environ. Microbiol., 6, 1159-1173 (2004).
58. Baker BJ, Tyson GW, Webb RI, Flanagan J, Hugenholtz P, Allen EE, and Banfield JF, Science, 314, 1933-1935 (2006).
59. Baker BJ, Comolli LR, Dick GJ, Hauser LJ, Hyatt D, Dill BD, Land ML, VerBerkmoes NC, Hettich RL, and Banfield JF, Proc. Natl. Acad. Set USA, 107, 8806-8811 (2010).
60. Nicol GW, Campbell CD, Chapman SJ, and Prosser JI, FEMS Microbiol. Ecol., 60, 51-59 (2007).
61. Jurgens G, Lindstrom K, and Saano A, Appl. Environ. Microbiol., 63, 803-805 (1997).
62. Kemnitz D, Kolb S, and Conrad R, FEMS Microbiol. Ecol., 60, 442-448 (2007).
63. Nicol GW, Glover LA, and Prosser JI, Environ. Microbiol., 5, 152-162 (2003).
64. Bomberg M and Timonen S, Microbial. Ecol., 54, 406-416 (2007).
65. Simon HM, Dodsworth JA, and Goodman RM, Environ. Microbiol., 2, 495-505 (2000).
66. Bomberg M, Jurgens G, Saano A, Sen R, and Timonen S, FEMS Microbiol. Ecol., 43, 163-171 (2003).
67. Ravikumar R, Ananthakrishnan G, Appasamy T, and Ganapathi A, For. Ecol. Manage., 98, 205-208 (1997).
68. Smith SE and Read DJ, "Mycorrhizal Symbiosis," Academic press, London, pp. 458-506 (2008).
69. Rooney-Varga JN, Giewat MW, Duddleston KN, Chanton JP, and Hines ME, FEMS Microbiol. Ecol., 60, 240-251 (2007).
70. Hamberger A, Horn MA, Dumont MG, Murrell JC, and Drake HL, Appl. Environ. Microbiol., 74, 3112-3120 (2008).
71. Nicol GW and Schleper C, Trends Microbiol., 14, 207-212 (2006).