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Online Journal of Bioinformatics ©
Volume 11 (1): 90-105, 2010.
Functional and comparative genomics studies on Carboxydothermus hydrogenoformans specific to CO-metabolism and hydrogen production
Chinnasamy Perumal Rajadurai and Gopal Ramesh Kumar *
Bioinformatics Lab, AU-KBC Research Centre, MIT Campus, Anna University Chennai, Chromepet, Chennai 600 044.India,
Rajadurai CP, Kumar GR, Functional and comparative genomics studies on Carboxydothermus hydrogenoformans specific to CO-metabolism and hydrogen production, Online J Bioinform 11 (1): 90-105, 2010. Manual re-annotation of the whole genome of Carboxydothermus hydrogenoformans Z-2901 was done to identify functions of putative coding regions or hypothetical proteins. Some carboxydotrophs especially C. hydrogenoformans produce hydrogen molecules by consuming carbon monoxide as an energy source. Functions of approximately 1,536 protein sequences have been assigned in the C. hydrogenoformans genome but many remain unassigned. Here, the complete re-annotation strategy was performed based on homology search, pattern or motif prediction and fold recognition to identify and assign the functions of unknown proteins that might code for CO dehydrogenase (CODH), an enzyme involved in hydrogen production. There were 855 unknown coding sequences (CDS) manually re-analyzed and re-annotated. The functions of 633 coding sequences were predicted, of which 21 coding sequences shard a functional identity with an array of genes specific to carbon metabolism. Among them, only 4 were considered putative CODH enzymes that could be investigated since known CODH signatures were identified.
Keywords: re-annotation, Carboxydothermus hydrogenoformans, coding sequences, hydrogen molecule, hypothetical, putative, motif pattern.