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OJBTM
Online Journal of Bioinformatics ©
Volume 13(3):400-417,
2012.
Amino acid sequences based phylogenetic and motif
assessment of lipases from different organisms
Santosh Kumar Yadav1,
Amit Kumar Dubey2, Sangeeta
Yadav2, Deepali Bisht1, Nandan Singh Darmwal1 and Dinesh Yadav2*
1Department
of Microbiology (Centre of Excellence), Dr. R.M. L. Avadh University, Faizabad, 2Department
of Biotechnology, D.D.U Gorakhpur University, Gorakhpur, Uttar Pradesh, India. Present
address: 2Australian Centre for Plant Functional
Genomics, University of Adelaide, PMB1, Glen Osmond, South Australia 5064
ABSTRACT
Yadav
SK, Dubey AK, Yadav S, Bisht D, Darmwal NS, Yadav D., Amino acid sequences based phylogenetic and motif
assessment of lipases from different organisms, Online J Bioinform.,
13(3):400-417, 2012. Bacterial, fungal, plant and
animal lipases amino acid sequences retrieved from different databases were analyzed for homology search, multiple sequence alignment,
phylogenetic and motif assessment using different bioinformatics tools. The
multiple sequence alignment revealed different conserved stretches of amino
acids exclusively for each groups along with a highly conserved glycine residue
for plant and animal lipases. The phylogenetic tree constructed for different
groups uniformly showed two major clusters divided into several sub-clusters
based on the closeness of the lipases protein sequences irrespective of the
source organisms. The 64 bacterial lipases protein sequences were distributed
into two main clusters with various sub-clusters revealing the rich diversity
of lipases among diverse bacterial strains. The fungal lipase protein sequences
based phylogenetic tree revealed two major clusters for representing two
important groups namely ascomycota and basidomycota with several sub-clusters. The Aspergillus species were placed closely in
the cluster along with Penicillium species.
The distributions of three conserved motifs were analyzed
among these lipases. Bacterial lipases motifs represented α/β
hydrolase fold family while fungal, animal and plant lipases revealed lipase 3
families though all represented the same Clan 0028. The motif sequences of
these lipases also showed five conserved amino acids residues GHSAG for
bacterial, fungal and plant lipases though it was not observed in the case of
animal lipases.
Key Words: Lipases, Phylogenetic
tree, Motif analysis, Bacterial, Plant, Fungal, Animal