Characterization of eubacterial and archaeal community diversity in the pit mud of Chinese Luzhou-flavor liquor by nested PCR-DGGE

World Journal of Microbiology and Biotechnology

Volumn 30, Issue 2, 2014, Pages 605-612

  Ding, Xiao Fei ^a   Wu, Chong De ^a   Zhang, Li Qiang ^a   Zheng, Jia ^a   Zhou, Rong Qing ^a,b  

^a SICHUAN UNIVERSITY   (China)

^b National Engineering Research Center of Solid   (China)

Author keywords

Archaea; Community diversity; DGGE; Eubacteria; Pit mud

Indexed keywords

ARCHAEA; COMMUNITY DIVERSITY; DGGE; EUBACTERIA; PIT MUD;

CLUSTER ANALYSIS; ELECTROPHORESIS; POLYMERASE CHAIN REACTION; RNA; SOCIAL SCIENCES;

MICROORGANISMS;

ACINETOBACTER; ACTINOBACTERIA; ARCHAEA; BACTERIA (MICROORGANISMS); BACTEROIDETES; CLOSTRIDIUM; FIRMICUTES; METHANOBACTERIUM; METHANOBREVIBACTER; METHANOCULLEUS; METHANOSAETA; PROTEOBACTERIA;

ARCHAEAL DNA; ARCHAEAL RNA; RIBOSOME DNA; RNA 16S;

ALCOHOLIC BEVERAGE; ARCHAEON; ARTICLE; BACTERIUM; BIOTA; CHEMISTRY; CHINA; CLASSIFICATION; CLUSTER ANALYSIS; DENATURING GRADIENT GEL ELECTROPHORESIS; DNA SEQUENCE; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; POLYMERASE CHAIN REACTION; RNA GENE; SEQUENCE HOMOLOGY;

ALCOHOLIC BEVERAGES; ARCHAEA; BACTERIA; BIOTA; CHINA; CLUSTER ANALYSIS; DENATURING GRADIENT GEL ELECTROPHORESIS; DNA, ARCHAEAL; DNA, RIBOSOMAL; GENES, RRNA; MOLECULAR SEQUENCE DATA; PHYLOGENY; POLYMERASE CHAIN REACTION; RNA, ARCHAEAL; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, NUCLEIC ACID;

EID: 84893673450     PISSN: 09593993     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11274-013-1472-4     Document Type: Article

References (31)

1. Amann RI, Ludwig W, Schleifer KH (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. In: Microbiological reviews. American Society for Microbiology, New York, pp 143-169.
2. Bornstein B, Barker H (1948) The nutrition of Clostridium kluyveri. J Bacteriol 55(2): 223-230.
3. Bowers HA, Tengs T, Glasgow HB, Burkholder JAM, Rublee PA, Oldach DW (2000) Development of real-time PCR assays for rapid detection of Pfiesteria piscicida and related dinoflagellates. Appl Environ Microbiol 66(11): 4641-4648.
4. Cunliffe M, Whiteley AS, Newbold L, Oliver A, Schäfer H, Murrell JC (2009) Comparison of bacterioneuston and bacterioplankton dynamics during a phytoplankton bloom in a fjord mesocosm. Appl Environ Microbiol 75(22): 7173-7181.
5. Gao J, Xiao DQ, Liu XP, Wang NQ, Zhang DW (2012) Identification and optimal degradation conditions for cellulase-degrading enzyme of a methanol-utilizing and cellulase-producing bacterium. Ind Microbiol 42(2): 51-57 (in Chinese).
6. Goodfellow M, Kämpfer P, Busse HJ, Trujillo ME, Suzuki KI, Ludwig W, Whitman WB (2012) Bergey's manual of systematic bacteriology. Springer, New York.
7. Hu P, Zhou G, Xu X, Li C, Han Y (2009) Characterization of the predominant spoilage bacteria in sliced vacuum-packed cooked ham based on 16S rDNA-DGGE. Food Control 20(2): 99-104.
8. Kim TW, Lee JH, Park MH, Kim HY (2010) Analysis of bacterial and fungal communities in Japanese- and Chinese-fermented soybean pastes using nested PCR-DGGE. Curr Microbiol 60(5): 315-320.
9. Klemps R, Cypionka H, Widdel F, Pfennig N (1985) Growth with hydrogen, and further physiological characteristics of Desulfotomaculum species. Arch Microbiol 143(2): 203-208.
10. Koike S, Kobayashi Y (2006) Development and use of competitive PCR assays for the rumen cellulolytic bacteria: Fibrobacter succinogenes, Ruminococcus albus and Ruminococcus flavefaciens. FEMS Microbiol Lett 204(2): 361-366.
11. Martínková L, Uhnáková B, Pátek M, Nešvera J, Křen V (2009) Biodegradation potential of the genus Rhodococcus. Environ Int 35(1): 162-177.
12. Matsuyama T, Nakajima Y, Matsuya K, Ikenaga M, Asakawa S, Kimura M (2007) Bacterial community in plant residues in a Japanese paddy field estimated by RFLP and DGGE analyses. Soil Biol Biochem 39(2): 463-472.
13. Muyzer G (1999) DGGE/TGGE a method for identifying genes from natural ecosystems. Curr Opin Microbiol 2(3): 317-322.
14. Muyzer G, Smalla K (1998) Application of denaturing gradient gel electrophoresis (DGGE) and temperature gradient gel electrophoresis (TGGE) in microbial ecology. Antonie van Leeuwenhoek 73(1): 127-141.
15. Ovreås L, Forney L, Daae FL, Torsvik V (1997) Distribution of bacterioplankton in meromictic Lake Saelenvannet, as determined by denaturing gradient gel electrophoresis of PCR-amplified gene fragments coding for 16S rRNA. Appl Environ Microbiol 63(9): 3367-3373.
16. Owens JD, Allagheny N, Kipping G, Ames JM (1999) Formation of volatile compounds during Bacillus subtilis fermentation of soya beans. J Sci Food Agric 74(1): 132-140.
17. Ramos CL, de Almeida EG, Freire AL, Freitas Schwan R (2011) Diversity of bacteria and yeast in the naturally fermented cotton seed and rice beverage produced by Brazilian Amerindians. Food Microbiol 28(7): 1380-1386.
18. Shi S, Wang HY, Zhang WX, Deng Y, Lai DY, Fan A (2011) Analysis of microbial communities characteristics in different pit mud of Luzhou-flavor Liquor. Liquor Mak Sci Technol 5(203): 38-41 (in Chinese).
19. Sousa DZ, Smidt H, Alves MM, Stams AJM (2007) Syntrophomonas zehnderi sp. nov., an anaerobe that degrades long-chain fatty acids in co-culture with Methanobacterium formicicum. Int J Syst Evol Microbiol 57(3): 609-615.
20. Wang HY, Zhang XJ, Zhao LP, Xu Y (2008) Analysis and comparison of the bacterial community in fermented grains during the fermentation for two different styles of Chinese liquor. J Ind Microbiol Biotechnol 35(6): 603-609.
21. Wang Y, Ke X, Wu L, Lu Y (2009) Community composition of ammonia-oxidizing bacteria and archaea in rice field soil as affected by nitrogen fertilization. Syst Appl Microbiol 32(1): 27-36.
22. Wang S, Nomura N, Nakajima T, Uchiyama H (2012) Case study of the relationship between fungi and bacteria associated with high-molecular-weight polycyclic aromatic hydrocarbon degradation. J Biosci Bioeng 113(5): 624-630.
23. Watanabe T, Asakawa S, Nakamura A, Nagaoka K, Kimura M (2006) DGGE method for analyzing 16S rDNA of methanogenic archaeal community in paddy field soil. FEMS Microbiol Lett 232(2): 153-163.
24. Wenhui Z, Zucong C, Lichu Y, He Z (2007) Effects of the long-term application of inorganic fertilizers on microbial community diversity in rice-planting red soil as studied by using PCR-DGGE. Acta Ecol Sin 27(10): 4011-4018.
25. Worden R, Grethlein A, Jain M, Datta R (1991) Production of butanol and ethanol from synthesis gas via fermentation. Fuel 70(5): 615-619.
26. Wu ZY, Zhang WX, Zhang QS, Hu C, Wang R, Liu ZH (2009) Developing new sacchariferous starters for liquor production based on functional strains isolated from the pits of several famous Luzhou-flavor liquor brewers. J I Brewing 115(2): 111-115.
27. Xiu L, Kunliang G, Hongxun Z (2012) Determination of microbial diversity in Daqu, a fermentation starter culture of Maotai liquor, using nested PCR-denaturing gradient gel electrophoresis. World J Microbiol Biotechnol 28: 2375-2381.
28. Yang Q, Wang J, Wang H, Chen X, Ren S, Li X, Xu Y, Zhang H, Li X (2012) Evolution of the microbial community in a full-scale printing and dyeing wastewater treatment system. Bioresource Technol 117: 155-163.
29. Zhang W, Qiao Z, Shigematsu T, Tang Y, Hu C, Morimura S, Kida K (2005) Analysis of the bacterial community in Zaopei during production of Chinese Luzhou-flavor liquor. J I Brewing 111(2): 215-222.
30. Zheng X-W, Yan Z, Han B-Z, Zwietering MH, Samson RA, Boekhout T, Nout M (2012) Complex microbiota of a Chinese "Fen" liquor fermentation starter, revealed by culture-dependent and culture-independent methods. Food Microbiol 31: 293-300.
31. Zhu BF, Xu Y, Fan WL (2010) High-yield fermentative preparation of tetramethylpyrazine by Bacillus sp. using an endogenous precursor approach. J Ind Microbiol Biotechnol 37(2): 179-186.