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Construction and preliminary analysis of a metagenomic library from a deep-sea sediment of east Pacific Nodule Province.
- Source :
-
FEMS microbiology ecology [FEMS Microbiol Ecol] 2007 Dec; Vol. 62 (3), pp. 233-41. Date of Electronic Publication: 2007 Sep 10. - Publication Year :
- 2007
-
Abstract
- The Pacific Nodule Province is a unique ocean area containing an abundance of polymetallic nodules. To explore more genetic information and discover potentially industrial useful genes of the microbial community from this particular area, a cosmid library with an average insert of about 35 kb was constructed from the deep-sea sediment. The bacteria in the cosmid library were composed mainly of Proteobacteria including Alphaproteobacteria, Gammaproteobacteria and Deltaproteobacteria. The end sequences of some cosmid clones were determined and the complete insert sequences of two cosmid clones, 10D02 and 17H9, are presented. 10D02 has a length of 40.8 kb and contains 40 predicted encoding genes. It contains a partial 16S rRNA gene of Alphaproteobacteria. 17H9 is 36.8 kb and predicted to have 31 encoding genes and a 16S-23S-5S rRNA gene operon. Phylogenetic analysis of 16S and 23S rRNA gene sequence on the 17H9 both reveals that the inserted DNA from 17H9 came from a novel Alphaproteobacteria and is closely related to Magnetospirillum species. The predicted proteins of ORF 1-11 also have high identity to those of Magnetospirillum species, and the organization of these genes is highly conserved among known Magnetospirillum species. The data suggest that the retrieved DNA in 17H9 might be derived from a novel Magnetospirillum species.
- Subjects :
- Bacteria genetics
Bacteria isolation & purification
DNA, Bacterial analysis
DNA, Ribosomal analysis
Genes, rRNA
Magnetospirillum classification
Magnetospirillum genetics
Magnetospirillum isolation & purification
Molecular Sequence Data
Pacific Ocean
Phylogeny
Proteobacteria classification
Proteobacteria genetics
Proteobacteria isolation & purification
RNA, Ribosomal, 16S genetics
RNA, Ribosomal, 23S genetics
RNA, Ribosomal, 5S genetics
Sequence Analysis, DNA
Bacteria classification
Cosmids genetics
Gene Library
Geologic Sediments microbiology
Seawater microbiology
Subjects
Details
- Language :
- English
- ISSN :
- 0168-6496
- Volume :
- 62
- Issue :
- 3
- Database :
- MEDLINE
- Journal :
- FEMS microbiology ecology
- Publication Type :
- Academic Journal
- Accession number :
- 17850328
- Full Text :
- https://doi.org/10.1111/j.1574-6941.2007.00377.x