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Volume 6, Issue 4

Analysis of the biodegradative and adaptive potential of the novel polychlorinated biphenyl degrader sp. WAY2 revealed by its complete genome sequence Open Access

Abstract

The complete genome sequence of sp. WAY2 (WAY2) consists of a circular chromosome, three linear replicons and a small circular plasmid. The linear replicons contain typical actinobacterial invertron-type telomeres with the central CGTXCGC motif. Comparative phylogenetic analysis of the 16S rRNA gene along with phylogenomic analysis based on the genome-to-genome distance phylogeny (GBDP) algorithm and digital DNA–DNA hybridization (dDDH) with other type strains resulted in a clear differentiation of WAY2, which is likely a new species. The genome of WAY2 contains five distinct clusters of , and genes, putatively involved in the degradation of several aromatic compounds. These clusters are distributed throughout the linear plasmids. The high sequence homology of the ring-hydroxylating subunits of these systems with other known enzymes has allowed us to model the range of aromatic substrates they could degrade. Further functional characterization revealed that WAY2 was able to grow with biphenyl, naphthalene and xylene as sole carbon and energy sources, and could oxidize multiple aromatic compounds, including ethylbenzene, phenanthrene, dibenzofuran and toluene. In addition, WAY2 was able to co-metabolize 23 polychlorinated biphenyl congeners, consistent with the five different ring-hydroxylating systems encoded by its genome. WAY2 could also use -alkanes of various chain-lengths as a sole carbon source, probably due to the presence of and gene copies, which are only found in its chromosome. These results show that WAY2 has a potential to be used for the biodegradation of multiple organic compounds.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): biodegradation , complete genome , hydrocarbons , PAH , PCB and Rhodococcus
Funding
This study was supported by the:
  • Grantová Agentura České Republiky (Award 17-00227S)
    • Principle Award Recipient: Ondrej Uhlik
  • Ministerio de Ciencia, Innovación y Universidades (Award RTI2018-0933991-B-I00)
    • Principle Award Recipient: Marta Martin
  • H2020 LEIT Biotechnology (Award 826312)
    • Principle Award Recipient: Rafael Rivilla
© 2020 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution License.
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Analysis of the biodegradative and adaptive potential of the novel polychlorinated biphenyl degrader Rhodococcus sp. WAY2 revealed by its complete genome sequence
M Gen 6, e000363 (2020); https://doi.org/10.1099/mgen.0.000363
/content/journal/mgen/10.1099/mgen.0.000363
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