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Comparative genome analysis of Oceanimonas sp. GK1, a halotolerant bacterium with considerable xenobiotics degradation potentials

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Abstract

The growing pollution by xenobiotic compounds generated through both natural and anthropogenic activities has endangered the environment. The advent of the next generation sequencing has provided fast and cost-effective tools to explore genomes to discover novel xenobiotic-degrading genes. A Gram-negative marine halotolerant Oceanimonas sp. GK1 was analyzed for main physiological and genetically important characteristics at the genome scale while being compared with six other phylogenetically-close sequenced genomes. This exploration revealed high potential of Oceanimonas sp. GK1 for biodegradation of xenobiotics compounds such as phenol. More specifically, the isolate utilizes phenol via the ortho-cleavage pathway as a carbon source in the citrate cycle. This was further confirmed by the significant shortage of carbohydrate active enzymes in Oceanimonas sp. GK1 genome, which has forced this bacterium during the course of evolution to change its metabolism and physiology to benefit unusual carbon and energy sources to survive under harsh conditions.

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Acknowledgment

The authors would like to thank the Iranian Biological Resource Center for financially supporting this study through the grant MO-1388-02.

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    Authors and Affiliations

    1. Molecular bank, Iranian Biological Resource Center (IBRC), ACECR, No.80, West Howeyzeh St., Northern Sohrevardi Ave., Tehran, Iran

      Reza Azarbaijani, Laleh Parsa Yeganeh, Seyyed Abolhassan Shahzadeh Fazeli, Meisam Tabatabaei & Ghasem Hosseini Salekdeh

    2. Bioinformatics and System Biology, Justus-Liebig-University Giessen, Giessen, Germany

      Jochen Blom

    3. Department of Environmental Science, Faculty of Natural Resources, Tarbiat Modares University, Noor, Mazandaran, Iran

      Habibollah Younesi

    4. Department of molecular and cellular biology, faculty of basic sciences and advanced technologies in biology, University of Science and Culture, Tehran, Iran

      Seyyed Abolhassan Shahzadeh Fazeli

    5. Agricultural Biotechnology Research Institute of Iran (ABRII), AREEO, Karaj, Iran

      Meisam Tabatabaei & Ghasem Hosseini Salekdeh

    6. Biofuel Research Team (BRTeam), Karaj, Iran

      Meisam Tabatabaei

    7. Department of Molecular Systems Biology at Cell Research Center, Royan Institute for Stem Cell Biology and Technology, ACECR, Tehran, Iran

      Ghasem Hosseini Salekdeh

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    1. Reza Azarbaijani
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    Correspondence to Ghasem Hosseini Salekdeh.

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    Reza Azarbaijani and Laleh Parsa Yeganeh contributed equally to this work.

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    Azarbaijani, R., Yeganeh, L.P., Blom, J. et al. Comparative genome analysis of Oceanimonas sp. GK1, a halotolerant bacterium with considerable xenobiotics degradation potentials. Ann Microbiol 66, 703–716 (2016). https://doi.org/10.1007/s13213-015-1156-4

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