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Research Journal of Microbiology

Year: 2008 | Volume: 3 | Issue: 10 | Page No.: 600-613
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Authors

Saubashya Sur

Asim K Bothra

Manprit Bajwa

Louis S. Tisa

Arnab Sen

Keywords

Research Article

In silico Analysis of Chlorobium Genomes Divulge Insights into the Lifestyle of the Bacteria

Saubashya Sur
NBU Bioinformatics Facility, Department of Botany,University of North Bengal, Siliguri-734013, West Bengal, India
Asim K Bothra
Chemiinformatics Bioinformatics Laboratory, Department of Chemistry,Raiganj University College, Raiganj-733134, West Bengal, India
Manprit Bajwa
NBU Bioinformatics Facility, Department of Botany,University of North Bengal, Siliguri-734013, West Bengal, India
Louis S. Tisa
Department of Microbiology, University of New Hampshire,Rudman Hall, 46 College Road, Durham NH 03824, USA
Arnab Sen
NBU Bioinformatics Facility, Department of Botany,University of North Bengal, Siliguri-734013, West Bengal, India
The finished sequences of three Chlorobium genomes were examined and compared to each other for their synonymous codon usage. Codon usage by Chlorobium was moderately biased but a considerable amount of variation was observed. GC3 composition plays an important role in the codon usage variation among the genes in the studied genomes. Similar homologs of horizontally transferred nitrogen fixing and photosynthesis related genes having high identity levels indicated their co-evolution within the genus. Correlation of codon usage bias with tRNA content in Chlorobium genomes revealed the inability of the translation machinery in these bacteria to co-evolve with higher codon usage resulting in moderate bias. Arrangement of the genes in leading strand and lagging strand of replication had virtually no role in influencing synonymous codon usage variation in these bacteria. Whole genome alignment revealed the conserved nature of the genomes. Using codon adaptation index, a set of potentially highly expressed genes in Chlorobium was determined taking ribosomal protein genes as a reference. A sizeable fraction of the potentially highly expressed (PHX) genes in the COG categories were related to metabolism. Quite fascinatingly, some of the genes associated with nitrogen fixation and photosynthesis like hydrogenases, nitrogenase iron protein complexes, bacteriochlorophylls, chlorosomes etc. were also PHX. These results offer insights into the survival patterns of these bacteria thriving under stressed conditions and efficiently carrying out two important metabolic processes especially under reduced light and anoxic environments.
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How to cite this article

Saubashya Sur, Asim K Bothra, Manprit Bajwa, Louis S. Tisa and Arnab Sen, 2008. In silico Analysis of Chlorobium Genomes Divulge Insights into the Lifestyle of the Bacteria. Research Journal of Microbiology, 3: 600-613.

URL: https://scialert.net/abstract/?doi=jm.2008.600.613

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