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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
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, Onl 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