Complete genome sequence of Pseudomonas alcaliphila JAB1 (=DSM 26533), a versatile degrader of organic pollutants

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F60461373%3A22330%2F18%3A43914593" target="_blank" >RIV/60461373:22330/18:43914593 - isvavai.cz</a>

Alternative codes found

RIV/61388971:_____/18:00501882 RIV/68378050:_____/18:00501882

Result on the web

<a href="https://standardsingenomics-biomedcentral-com.ezproxy.vscht.cz/articles/10.1186/s40793-017-0306-7" target="_blank" >https://standardsingenomics-biomedcentral-com.ezproxy.vscht.cz/articles/10.1186/s40793-017-0306-7</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1186/s40793-017-0306-7" target="_blank" >10.1186/s40793-017-0306-7</a>

Result language

angličtina

Original language name

Complete genome sequence of Pseudomonas alcaliphila JAB1 (=DSM 26533), a versatile degrader of organic pollutants

Original language description

In this study, following its isolation from contaminated soil, the genomic sequence of Pseudomonas alcaliphila strain JAB1 (=DSM 26533), a biphenyl-degrading bacterium, is reported and analyzed in relation to its extensive degradative capabilities. The P. alcaliphila JAB1 genome (GenBank accession no. CP016162) consists of a single 5.34 Mbp-long chromosome with a GC content of 62.5%. Gene function was assigned to 3816 of the 4908 predicted genes. The genome harbors a bph gene cluster, permitting degradation of biphenyl and many congeners of polychlorinated biphenyls (PCBs), a ben gene cluster, enabling benzoate and its derivatives to be degraded, and phe gene cluster, which permits phenol degradation. In addition, P. alcaliphila JAB1 is capable of cometabolically degrading cis-1,2-dichloroethylene (cDCE) when grown on phenol. The strain carries both catechol and protocatechuate branches of the β-ketoadipate pathway, which is used to funnel the pollutants to the central metabolism. Furthermore, we propose that clustering of MALDI-TOF MS spectra with closest phylogenetic relatives should be used when taxonomically classifying the isolated bacterium; this, together with 16S rRNA gene sequence and chemotaxonomic data analyses, enables more precise identification of the culture at the species level.

Czech name

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Czech description

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Type

J_imp - Article in a specialist periodical, which is included in the Web of Science database

CEP classification

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OECD FORD branch

10606 - Microbiology

Project

Result was created during the realization of more than one project. More information in the Projects tab.

Continuities

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year

2018

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

Standards in Genomic Sciences

ISSN

1944-3277

e-ISSN

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Volume of the periodical

13

Issue of the periodical within the volume

Feb

Country of publishing house

GB - UNITED KINGDOM

Number of pages

10

Pages from-to

3

UT code for WoS article

000424476300001

EID of the result in the Scopus database

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