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Whole genome phylogeny of Prochlorococcus marinus group of cyanobacteria: genome alignment and overlapping gene approach

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Abstract

Prochlorococcus is the smallest known oxygenic phototrophic marine cyanobacterium dominating the mid-latitude oceans. Physiologically and genetically distinct P. marinus isolates from many oceans in the world were assigned two different groups, a tightly clustered high-light (HL)-adapted and a divergent low-light (LL-) adapted clade. Phylogenetic analysis of this cyanobacterium on the basis of 16S rRNA and other conserved genes did not show consistency with its phenotypic behavior. We analyzed phylogeny of this genus on the basis of complete genome sequences through genome alignment, overlapping-gene content and gene-order approach. Phylogenetic tree of P. marinus obtained by comparing whole genome sequences in contrast to that based on 16S rRNA gene, corresponded well with the HL/LL ecotypic distinction of twelve strains and showed consistency with phenotypic classification of P. marinus. Evidence for the horizontal descent and acquisition of genes within and across the genus was observed. Many genes involved in metabolic functions were found to be conserved across these genomes and many were continuously gained by different strains as per their needs during the course of their evolution. Consistency in the physiological and genetic phylogeny based on whole genome sequence is established. These observations improve our understanding about the adaptation and diversification of these organisms under evolutionary pressure.

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Authors and Affiliations

  1. National Bureau of Agriculturally Important Microorganisms, Indian Council of Agricultural Research, Kushmaur, Maunath Bhanjan, 275103, India

    Ratna Prabha & Dhananjaya P. Singh

  2. CSIR-Indian Institute of Toxicology Research, 80, Mahatma Gandhi Marg, Kaisarbagh, Lucknow, 226001, India

    Shailendra K. Gupta

  3. Indian Agricultural Statistical Research Institute, Indian Council of Agricultural Research, Pusa, New Delhi, 110012, India

    Anil Rai

  4. Department of Biotechnology, Mewar University, Gangrar, Chittorgarh, Rajasthan, India

    Ratna Prabha

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Correspondence to Dhananjaya P. Singh.

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Prabha, R., Singh, D.P., Gupta, S.K. et al. Whole genome phylogeny of Prochlorococcus marinus group of cyanobacteria: genome alignment and overlapping gene approach. Interdiscip Sci Comput Life Sci 6, 149–157 (2014). https://doi.org/10.1007/s12539-013-0024-9

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  • DOI: https://doi.org/10.1007/s12539-013-0024-9

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