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Comparative analyses of nonpathogenic, opportunistic, and totally pathogenic mycobacteria reveal genomic and biochemical variabilities and highlight the survival attributes of Mycobacterium tuberculosis.

Rahman SA, Singh Y, Kohli S, Ahmad J, Ehtesham NZ, Tyagi AK, Hasnain SE - MBio (2014)

Bottom Line: Mycobacterial evolution involves various processes, such as genome reduction, gene cooption, and critical gene acquisition.Our results clearly placed M. indicus pranii as an ancestor of the M. avium complex.Analyses of comparative metabolic pathways between M. indicus pranii (NP), M. tuberculosis (TP), and M. intracellulare (OP) pointed to the presence of novel alternative pathways in M. tuberculosis with implications for pathogenesis and survival in the human host and identification of new drug targets.

View Article: PubMed Central - PubMed

Affiliation: European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, United Kingdom asad@ebi.ac.uk seyedhasnain@gmail.com.

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Related in: MedlinePlus

Comparative plot for annotation of M. indicus pranii (MIP) based on annotations in COG and InterPro/Pfam.
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fig1: Comparative plot for annotation of M. indicus pranii (MIP) based on annotations in COG and InterPro/Pfam.

Mentions: InterPro/Pfam domain knowledge for M. indicus pranii proteins was used to assign potential functions to 4,363 M. indicus pranii open reading frames (ORFs; ~83% of the M. indicus pranii proteome) (Fig. 1). Of the remaining 891 proteins, 164 were annotated using the phylogenetic classification of proteins encoded in complete genomes known as COG (Cluster of Orthologous Groups classification), but they failed to match with any domain in Pfam or InterPro. Previously, 3,870 (~70%) of M. indicus pranii ORFs were assigned a putative function on the basis of COG classification (Fig. 1). Out of 1,554 hypothetical proteins in M. indicus pranii based on the COG annotation, 656 have been assigned a putative function based on functional domain knowledge from the InterPro/Pfam database.


Comparative analyses of nonpathogenic, opportunistic, and totally pathogenic mycobacteria reveal genomic and biochemical variabilities and highlight the survival attributes of Mycobacterium tuberculosis.

Rahman SA, Singh Y, Kohli S, Ahmad J, Ehtesham NZ, Tyagi AK, Hasnain SE - MBio (2014)

Comparative plot for annotation of M. indicus pranii (MIP) based on annotations in COG and InterPro/Pfam.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4222108&req=5

fig1: Comparative plot for annotation of M. indicus pranii (MIP) based on annotations in COG and InterPro/Pfam.
Mentions: InterPro/Pfam domain knowledge for M. indicus pranii proteins was used to assign potential functions to 4,363 M. indicus pranii open reading frames (ORFs; ~83% of the M. indicus pranii proteome) (Fig. 1). Of the remaining 891 proteins, 164 were annotated using the phylogenetic classification of proteins encoded in complete genomes known as COG (Cluster of Orthologous Groups classification), but they failed to match with any domain in Pfam or InterPro. Previously, 3,870 (~70%) of M. indicus pranii ORFs were assigned a putative function on the basis of COG classification (Fig. 1). Out of 1,554 hypothetical proteins in M. indicus pranii based on the COG annotation, 656 have been assigned a putative function based on functional domain knowledge from the InterPro/Pfam database.

Bottom Line: Mycobacterial evolution involves various processes, such as genome reduction, gene cooption, and critical gene acquisition.Our results clearly placed M. indicus pranii as an ancestor of the M. avium complex.Analyses of comparative metabolic pathways between M. indicus pranii (NP), M. tuberculosis (TP), and M. intracellulare (OP) pointed to the presence of novel alternative pathways in M. tuberculosis with implications for pathogenesis and survival in the human host and identification of new drug targets.

View Article: PubMed Central - PubMed

Affiliation: European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, United Kingdom asad@ebi.ac.uk seyedhasnain@gmail.com.

Show MeSH
Related in: MedlinePlus