OJBTM
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.