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OJBTM
Online Journal of Bioinformatics©
Established 1995
ISSN 1443-2250
Volume
24 (1):26-34, 2023.
In silico phylogenetics
of functional proteins in entomo-pathogenic bacteria
Razia M1, Karthik Raja R1, Padmanaban
K1, Chellapandi P2 and Sivaramakrishnan S1
ABSTRACT
Razia
M, Karthik RR, Padmanaban K,
Chellapandi P, Sivaramakrishnan
S., In silico phylogenetics of functional proteins in
entomo-pathogenic bacteria, Onl
J Bioinform., 24 (1):26-34, 2023. Bacterial genes can synthetize polyketides. We
describe In silico proteins of Photorhabdus luminescens subsp. laumondii TT01 by assigning
functional relationship with polyketide synthases. PSI-BLAST was used to develop In silico proteins for homology to polyketides
at genomic region 2247626-2249476 bp in chromosome 1.
We found high similarity with ketoacyl synthase and acyl
carrier protein. Keto-synthase-acyltransferase di-domain module 5 of Saccharopolyspora erythraea was
suitable template for 3D model. ProFunc and Castp servers determined structure-function relationship and
primary and secondary constructs resembled synthase homologs. Phylogenetic
analysis of sequence and structure of β-polyketide synthase showed
evolutionary relationship with soil and entero bacteria.
We found horizontal gene transfer in P. luminescence genome suggesting abundance of polyketide genes in entomo pathogenic bacteria.
Keywords entomopathogenic nematodes, Heterorhabdus, Photorhabdus,
ketoacyl synthase, phylogenetics,
polyketides, gene annotation, functional assignment.