Culture-independent phylogenetic analysis of the microbial community in industrial sugarcane bagasse feedstock piles

Bioscience, Biotechnology and Biochemistry

Volumn 75, Issue 2, 2011, Pages 232-239

  Rattanachomsri, Ukrit ^a   Kanokratana, Pattanop ^a   Eurwilaichitr, Lily ^a   Igarashi, Yasuo ^b   Champreda, Verawat ^a  

^a NATIONAL SCIENCE AND TECHNOLOGY DEVELOPMENT AGENCY   (Thailand)

^b UNIVERSITY OF TOKYO   (Japan)

Author keywords

16S rDNA; Biodiversity; Internal transcribed spacer; Lignocelluloses; Sugarcane bagasse

Indexed keywords

16S RDNA; 16S RDNA SEQUENCE; ACTINOBACTERIA; ANAEROBIC BACTERIUM; BACTERIAL COMMUNITY; BACTERIAL TAXA; FIRMICUTES; GAMMAPROTEOBACTERIA; HIGH TEMPERATURE; INTERNAL TRANSCRIBED SPACER; INTERNAL TRANSCRIBED SPACERS; LIGNOCELLULOSE DEGRADATION; LIGNOCELLULOSES; LIGNOCELLULOSIC BIOMASS; MICROBIAL ASSEMBLAGE; MICROBIAL COMMUNITIES; MICROBIAL DIVERSITY; MICROBIAL INTERACTIONS; MOLECULAR BIODIVERSITY; PHYLOGENETIC ANALYSIS; SUGARCANE BAGASSE;

AEROBIC BACTERIA; BACTERIOLOGY; BIODIVERSITY; CELLULOSE; FEEDSTOCKS; INDUSTRY; LIGNIN; METHANE; PILES; TRANSCRIPTION;

BAGASSE;

BAGASSE; CELLULOSE;

ARTICLE; BACTERIUM; BIODIVERSITY; BIOMASS; CLASSIFICATION; INDUSTRY; METABOLISM; MICROBIOLOGY; PHYLOGENY; SUGARCANE;

BACTERIA; BIODIVERSITY; BIOMASS; CELLULOSE; INDUSTRY; PHYLOGENY; SACCHARUM;

ACIDOBACTERIA; ACTINOBACTERIA; ASCOMYCOTA; BACTERIA (MICROORGANISMS); BACTEROIDETES; EUKARYOTA; FIRMICUTES; GAMMAPROTEOBACTERIA;

EID: 79952136797     PISSN: 09168451     EISSN: 13476947     Source Type: Journal    
DOI: 10.1271/bbb.100429     Document Type: Article

References (53)

1. Kamm B and Kamm M, Appl. Microbiol. Biotechnol., 64, 137-145 (2004).
2. Pandey A, Soccol CR, Nigam P, and Soccol VT, Bioresour. Technol, 74, 69-80 (2000).
3. Kiatkittipong W, Wongsuchoto P, and Pavasant P, Waste Manag., 29, 1628-1633 (2009).
4. Sharma RK, Yadav KR, Maheshwari VL, and Kothari RM, Crit. Rev. Biotechnol, 20, 237-263 (2000).
5. Yadav KR, Chaudhari AB, Sharma RK, and Kothari RM, Indian J. Chem. Technol, 12, 7-11 (2005).
6. Yadav KR, Patil RP, Chaudhari AB, Sharma RK, and Kothari RM, Indian J. Chem. Technol, 12, 528-533 (2005).
7. Technical Association of Pulp and Paper Industry, "TAPPI Test Method: Determination of Cellulose and Pentosan Contents of Wood," TAPPI press, Atlanta (1992).
8. Sluiter A, Hamez B, Ruiz R, Scarlata C, Sluiter J, and Templeton D, "Determination of Sugars, Byproducts, and Degradation Products in Liquid Fraction Process Samples," NREL Biomass Program, National Bioenergy Center, USA (2005).
9. Miller GL, Anal Chem., 31, 426-428 (1959).
10. Zhou J, Bruns MA, and Tiedje JM, Appl Environ. Microbiol, 62, 316-322 (1996).
11. Kanokratana P, Chanapan S, Pootanakit K, and Eurwilaichitr L, J. Basic Microbiol, 44, 430-444 (2004).
12. Harnpicharnchai P, Thongaram T, Sriprang R, Champreda V, Tanapongpipat S, and Eurwilaichitr L, Lett. Appl Microbiol, 45, 387-391 (2007).
13. Henry T, Iwen PC, and Hindrich SH, J. Clin. Microbiol, 38, 1510-1515 (2000).
14. Sambrook J, Fritsch EF, and Maniatis T, "Molecular Cloning, a Laboratory Manual" 2nd edn, Cold Spring Harbor Laboratory Press, Cold Spring Harbor (1989).
15. Altschul SF, Gish W, Miller W, Myers EW, and Lipman DJ, J. Mol. Biol, 215, 403-410 (1990).
16. Cole JR, Chai B, Marsh TL, Farris RJ, Wang Q, Kulam SA, Chandra S, McGarrell DM, Schmidt TM, Garrity GM, and Tiedje JM, Nucleic Acids Res., 31, 442-443 (2003).
17. Kumar S, Dudley J, Nei M, and Tamura K, Brief. Bioinform., 9, 299-306 (2008).
18. Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ, Sahl JW, Stres B, Thallinger GG, van Horn DJ, and Weber CF, Appl. Environ. Microbiol, 75, 7537-7541 (2009).
19. Garrity GM and Holt GJ, "BERGEY's Manual of Systematic Bacteriology" 2nd edn Vol. 1, eds. Boone DR, Castenholz RW, and Garrity GM, Springer-Verlag, New York, pp. 119-166 (2001).
20. Stackebrandt E and Goebel BM, Int. J. Syst. Bacteriol, 44, 846-849 (1994).
21. Simon C, Wiezer A, Strittmatter AW, and Daniel R, Appl. Environ. Microbiol, 75, 7519-7526 (2009).
22. Kim J-S, Sparovek G, Longo RM, Wanderley JDM, and Crowley D, Soil Biol. Biochem., 39, 684-690 (2007).
23. Navarro-Noya YE, Jan-Roblero J, Gonzalez-Chavez Mdel C, Hernandez-Gama R, and Hernandez-Rodriguez C, Antonie Van Leeuwenhoek, 97, 335-349 (2010).
24. Stott MB, Crowe MA, Mountain BW, Smirnova AV, Hou S, Alam M, and Dunfield PF, Environ. Microbiol, 10, 2030-2041 (2008).
25. Hayes AC, Zhang Y, Liss SN, and Allen DG, Appl. Microbiol. Biotechnol, 85, 1151-1166 (2010).
26. Schniiler A and Schnuler J, Waste Manag., 26, 1205-1211 (2005).
27. Kumar A, Gaind H, and Nain L, Biodegradation, 19, 395-402 (2008).
28. Lynd LR, Weimer PJ, van Zyl WH, and Pretorius IS, Microbiol. Mol. Biol. Rev., 66, 506-577 (2002).
29. Ulrich A and Wirth S, Microb. Ecol, 37, 238-247 (1999).
30. Pourcher A, Sutra L, Hebe II, Moguedet G, Bollet C, Simoneau P, and Garden L, FEMS Microbiol. Ecol, 34, 229-241 (2001).
31. Guevara C and Zambrano MM, FEMS Microbiol. Lett, 255, 52-58 (2005).
32. Eckert K and Schneider EA, Eur. J. Biochem., 270, 3593-3602 (2003).
33. Pason P, Kosugi A, Waeonukul R, Tachaapaikoon C, Ratanakhanokchai K, Arai T, Murata Y, Nakajima J, and Mori Y, Appl. Microbiol. Biotechnol, 85, 573-580 (2010).
34. Wilson DB, Chem. Rec, 4, 72-82 (2004).
35. Mohagheghi A, Grohmann K, Himmel M, Leighton L, and Updegraff DM, Int. J. Syst. Bacteriol, 36, 435-443 (1986).
36. Mullings R and Parish JH, J. Appl. Bacteriol, 57, 455-468 (1984).
37. Coughlan MP and Mayer F, "The Prokaryotes: A Handbook on the Biology of Bacteria" 2nd edn, eds. Balows A, Triiper HG, Dworkin M, Harder W, and Schleifer KH, Springer-Verlag, New York, pp. 460-516 (1992).
38. Ward NL, Challacombe JF, Janssen PH, Henrissat B, Coutinho PM, Wu M, Xie G, Haft DH, Sait M, Badger J, Barabote RD, Bradley B, Brettin TS, Brinkac LM, Bruce D, Creasy T, Daugherty SC, Davidsen TM, DeBoy RT, Detter JC, Dodson RJ, Durkin AS, Ganapathy A, Gwinn-Giglio M, Han CS, Khouri H, Kiss H, Kothari SP, Madupu R, Nelson KE, Nelson WC, Paulsen I, Penn K, Ren Q, Rosovitz MJ, Selengut JD, Shrivastava S, Sullivan SA, Tapia R, Thompson LS, Watkins KL, Yang Q, Yu C, Zafar N, Zhou L, and Kuske CR, Appl. Environ. Microbiol, 75, 2046-2056 (2009).
39. Beldman G, Searle-Van Leeuwen MF, Rombouts FM, and Voragen FG, Eur. J. Biochem., 146, 301-308 (1985).
40. Jeya M, Joo AR, Lee KM, Sim WI, Oh DK, Kim YS, Kim IW, and Lee JK, Appl. Microbiol. Biotechnol, 85, 1005-1014 (2010).
41. Camassola M and Dillon AJ, J. Appl. Microbiol, 103, 2196-2204 (2006).
42. Schulein M, J. Biotechnol, 16, 71-81 (1997).
43. McCarthy T, Hanniffy O, Savage AV, and Tuohy MG, Int. J. Biol. Macrobiol, 33, 141-148 (2003).
44. Rosgaard L, Pedersen S, Cherry JR, Harris P, and Meyer AS, Biotechnol. Prog., 22, 492-498 (2006).
45. Singh S, Madlala AM, and Prior BA, FEMS Microbiol. Rev., 27, 3-16 (2003).
46. Yu H, Zeng G, Huang H, Xi X, Wang R, Huang D, Huang G, and Li J, Biodegradation, 18, 793-802 (2007).
47. Veal DA and Lynch JM, Nature, 310, 695-696 (1984).
48. Li T, Mazeas L, Sghir A, Leblon G, and Bouchez T, Environ. Microbiol, 11, 889-904 (2009).
49. Rui J, Peng J, and Lu Y, Appl. Environ. Microbiol, 75, 4879-4886 (2009).
50. Tchobanoglous G, Theisen H, and Vigil SA, "Integrated Solid Waste Management," McGraw-Hill, Singapore (1993).
51. Garsia J-L, Patel BKC, and Ollivier B, Anaerobe, 6, 205-226 (2000).
52. Luton PE, Wayne JM, Sharp RJ, and Riley PW, Microbiology, 148, 3521-3530 (2002).
53. Hanson RS and Hanson TE, Microbiol. Rev., 60, 439-471 (1996).