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Complete genome sequencing of Dehalococcoides sp. strain UCH007 using a differential reads picking method.

ABSTRACT: A novel Dehalococcoides sp. strain UCH007 was isolated from the groundwater polluted with chlorinated ethenes in Japan. This strain is capable of dechlorinating trichloroethene, cis-1,2-dichloroethene and vinyl chloride to ethene. Dehalococcoides bacteria are hardly cultivable, so genome sequencing has presented a challenge. In this study, we developed a differential reads picking method for mixed genomic DNA obtained from a co-culture, and applied it to the sequencing of strain UCH007. The genome of strain UCH007 consists of a 1,473,548-bp chromosome that encodes 1509 coding sequences including 29 putative reductive dehalogenase genes. Strain UCH007 is the first strain in the Victoria subgroup found to possess the pceA, tceA and vcrA genes.

SUBMITTER: Uchino Y

PROVIDER: S-EPMC4644273 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature

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Complete genome sequencing of Dehalococcoides sp. strain UCH007 using a differential reads picking method.

Uchino Yoshihito Y Miura Takamasa T Hosoyama Akira A Ohji Shoko S Yamazoe Atsushi A Ito Masako M Takahata Yoh Y Suzuki Ken-Ichiro K Fujita Nobuyuki N

Standards in genomic sciences 20151114

A novel Dehalococcoides sp. strain UCH007 was isolated from the groundwater polluted with chlorinated ethenes in Japan. This strain is capable of dechlorinating trichloroethene, cis-1,2-dichloroethene and vinyl chloride to ethene. Dehalococcoides bacteria are hardly cultivable, so genome sequencing has presented a challenge. In this study, we developed a differential reads picking method for mixed genomic DNA obtained from a co-culture, and applied it to the sequencing of strain UCH007. The geno ...[more]

PMID: 26568785

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