PMID- 15033234
OWN - NLM
STAT- MEDLINE
DCOM- 20040511
LR  - 20220317
IS  - 0378-1097 (Print)
IS  - 0378-1097 (Linking)
VI  - 232
IP  - 2
DP  - 2004 Mar 19
TI  - DGGE method for analyzing 16S rDNA of methanogenic archaeal community in paddy 
      field soil.
PG  - 153-63
AB  - A denaturing gradient gel electrophoresis (DGGE) method for analyzing 16S rDNA of 
      methanogenic archaeal community in paddy field soil is presented. Five specific 
      primers for 16S rDNA of methanogenic archaea, which were modified from the 
      primers for archaea, were first evaluated by polymerase chain reaction and DGGE 
      using genomic DNAs of 13 pure culture strains of methanogenic archaea. The DGGE 
      analysis was possible with two primer pairs (0348aF-GC and 0691R; 0357F-GC and 
      0691R) of the five pairs tested although 16S rDNA of some non-methanogenic 
      archaea was amplified with 0348aF-GC and 0691R. These two primer pairs were 
      further evaluated for use in analysis of methanogenic archaeal community in 
      Japanese paddy field soil. Good separation and quality of patterns were obtained 
      in DGGE analysis with both primer pairs. A total of 41 DNA fragments were excised 
      from the DGGE gels and their sequences were determined. All fragments belonged to 
      methanogenic archaea. These results indicate that the procedure of DGGE analysis 
      with the primer pair 0357F-GC and 0691R is suitable for investigating 
      methanogenic archaeal community in paddy field soil.
FAU - Watanabe, Takeshi
AU  - Watanabe T
AD  - Soil Biology and Chemistry, Graduate School of Bioagricultural Sciences, Nagoya 
      University, Furocho, Chikusa, Nagoya 464-8601, Japan. 
      i032049m@mbox.nagoya-u.ac.jp
FAU - Asakawa, Susumu
AU  - Asakawa S
FAU - Nakamura, Asumi
AU  - Nakamura A
FAU - Nagaoka, Kazunari
AU  - Nagaoka K
FAU - Kimura, Makoto
AU  - Kimura M
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
PL  - England
TA  - FEMS Microbiol Lett
JT  - FEMS microbiology letters
JID - 7705721
RN  - 0 (DNA, Archaeal)
RN  - 0 (RNA, Ribosomal, 16S)
RN  - OP0UW79H66 (Methane)
SB  - IM
MH  - Archaea/*genetics/metabolism
MH  - DNA, Archaeal/*analysis
MH  - Ecosystem
MH  - Electrophoresis, Polyacrylamide Gel/*methods
MH  - Japan
MH  - Methane/metabolism
MH  - Oryza/microbiology
MH  - Phylogeny
MH  - RNA, Ribosomal, 16S/*analysis
MH  - Soil Microbiology
EDAT- 2004/03/23 05:00
MHDA- 2004/05/12 05:00
CRDT- 2004/03/23 05:00
PHST- 2003/11/10 00:00 [received]
PHST- 2004/01/14 00:00 [revised]
PHST- 2004/01/15 00:00 [accepted]
PHST- 2004/03/23 05:00 [pubmed]
PHST- 2004/05/12 05:00 [medline]
PHST- 2004/03/23 05:00 [entrez]
AID - S037810970400045X [pii]
AID - 10.1016/S0378-1097(04)00045-X [doi]
PST - ppublish
SO  - FEMS Microbiol Lett. 2004 Mar 19;232(2):153-63. doi: 
      10.1016/S0378-1097(04)00045-X.