title: Comparative genomics of cell envelope components in mycobacteria.
abstract: Mycobacterial cell envelope components have been a major focus of research due to their unique features that confer intrinsic resistance to antibiotics and chemicals apart from serving as a low-permeability barrier. The complex lipids secreted by Mycobacteria are known to evoke/repress host-immune response and thus contribute to its pathogenicity. This study focuses on the comparative genomics of the biosynthetic machinery of cell wall components across 21-mycobacterial genomes available in GenBank release 179.0. An insight into survival in varied environments could be attributed to its variation in the biosynthetic machinery. Gene-specific motifs like 'DLLAQPTPAW' of ufaA1 gene, novel functional linkages such as involvement of Rv0227c in mycolate biosynthesis; Rv2613c in LAM biosynthesis and Rv1209 in arabinogalactan peptidoglycan biosynthesis were detected in this study. These predictions correlate well with the available mutant and coexpression data from TBDB. It also helped to arrive at a minimal functional gene set for these biosynthetic pathways that complements findings using TraSH.
authors.affiliation: Bioinformatics Group, Centre for Development of Advanced Computing, Pune University Campus, Pune, Maharashtra, India.
authors.forename: Ruma
authors.initials: R
authors.lastname: Banerjee
authors.forename: Pankaj
authors.initials: P
authors.lastname: Vats
authors.forename: Sonal
authors.initials: S
authors.lastname: Dahale
authors.forename: Sunitha Manjari
authors.initials: SM
authors.lastname: Kasibhatla
authors.forename: Rajendra
authors.initials: R
authors.lastname: Joshi
mesh_terms: D000595:Amino Acid Sequence; D001426:Bacterial Proteins / Q000737:chemistry / Q000145:classification / Q000235:genetics / Q000378:metabolism; D002473:Cell Wall / Q000378:metabolism*; D005685:Galactans / Q000378:metabolism; D023281:Genomics / Q000379:methods*; D008070:Lipopolysaccharides / Q000378:metabolism; D008780:Methyltransferases / Q000737:chemistry / Q000145:classification / Q000235:genetics / Q000378:metabolism; D008969:Molecular Sequence Data; D009161:Mycobacterium / Q000235:genetics / Q000378:metabolism*; D009171:Mycolic Acids / Q000378:metabolism; D010457:Peptidoglycan / Q000378:metabolism; D010802:Phylogeny; D017386:Sequence Homology, Amino Acid
chemical_list: D001426:Bacterial Proteins; D005685:Galactans; D008070:Lipopolysaccharides; D009171:Mycolic Acids; D010457:Peptidoglycan; C050016:lipoarabinomannan; D008780:Methyltransferases; C019964:cyclopropane synthetase; C005653:arabinogalactan