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dc.contributor.authorSengupta, Kriti
dc.contributor.authorSwain, Martin
dc.contributor.authorLivingstone, Paul
dc.contributor.authorWhitworth, David
dc.contributor.authorSaha, Pradipta
dc.date.accessioned2019-02-05T10:28:47Z
dc.date.available2019-02-05T10:28:47Z
dc.date.issued2019-01-04
dc.identifier.citationSengupta, K., Swain, M.T., Livingstone, P.G., Whitworth, D.E. and Saha, P. (2018) ‘Genome sequencing and comparative transcriptomics provide a holistic view of 4-nitrophenol degradation and concurrent fatty acid catabolism by Rhodococcus sp. strain BUPNP1’, Frontiers in microbiology, 9, p.3209. DOI: 10.3389/fmicb.2018.03209.en_US
dc.identifier.issn1664-302X
dc.identifier.urihttps://www.frontiersin.org/articles/10.3389/fmicb.2018.03209/full
dc.identifier.urihttp://hdl.handle.net/10369/10268
dc.descriptionArticle published in Frontiers in Microbiology on 04 January 2019 (online), available open access at: https://doi.org/10.3389/fmicb.2018.03209.en_US
dc.description.abstractRhodococcus sp.strain BUPNP1 can utilize the priority environmental pollutant 4-nitrophenol (4-NP) as its sole source of carbon and energy. In this study, genome and transcriptome sequencing were used to gain mechanistic insights into 4-NP degradation. The draft BUPNP1 genome is 5.56 Mbp and encodes 4,963 proteins, which are significantly enriched in hypothetical proteins compared to other Rhodococcus sp. A novel 4-NP catabolic 43 gene cluster “nph” was identified that encodes all the genes required for the conversion of 4-NP into acetyl-CoA and succinate, via 4-nitrocatechol. The cluster also encodes pathways for the catabolism of other diverse aromatic compounds. Comparisons between BUPN1 growing on either 4-NP or glucose resulted in significant changes in the expression of many nph cluster genes, and, during 4-NP growth, a loss of lipid inclusions. Moreover, fatty acid degradation/synthesis genes were found within the nph cluster, suggesting fatty acids may be concurrently catabolised with 4-NP. A holistic model for the action of the nph gene cluster is proposed which incorporates genetic architecture, uptake and metabolism of aromatic compounds, enzymatic activities and transcriptional regulation. The model provides testable hypotheses for further biochemical investigations into the genes of the nph cluster, for potential exploitation in bioremediation.en_US
dc.description.sponsorshipKS and DW were financially supported by a grant (F.No. BT/IN/UK/DBT-BC/2015-16) under the Newton-Bhabha short term Ph.D. placement program, a joint venture of the British Council, United Kingdom and the Department of Biotechnology (DBT). IBERS receives strategic funding from the BBSRC.en_US
dc.language.isoenen_US
dc.publisherFrontiers Mediaen_US
dc.relation.ispartofseriesFrontiers in Microbiology;
dc.titleGenome sequencing and comparative transcriptomics provide a holistic view of 4-nitrophenol degradation and concurrent fatty acid catabolism by Rhodococcus sp. strain BUPNP1en_US
dc.typeArticleen_US
dc.identifier.doihttps://doi.org/10.3389/fmicb.2018.03209
dcterms.dateAccepted2018-12-11
rioxxterms.versionVoRen_US
rioxxterms.licenseref.urihttps://creativecommons.org/licenses/by/4.0/en_US
rioxxterms.licenseref.startdate2019-02-04


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