J Genomics 2014; 2:131-140. doi:10.7150/jgen.9437 This volume Cite

Research Paper

Urochordate serpins are Classified into Six Groups Encoded by Exon-Intron Structures, Microsynteny and Bayesian Phylogenetic Analyses

Abhishek Kumar1,✉, Anita Bhandari2

1. Department of Genetics & Molecular Biology in Botany, Institute of Botany, Christian-Albrechts-University at Kiel, Kiel, Germany.
2. Molecular Physiology, Zoological Institute, Christian-Albrechts-University at Kiel, Kiel, Germany

Citation:
Kumar A, Bhandari A. Urochordate serpins are Classified into Six Groups Encoded by Exon-Intron Structures, Microsynteny and Bayesian Phylogenetic Analyses. J Genomics 2014; 2:131-140. doi:10.7150/jgen.9437. https://www.jgenomics.com/v02p0131.htm
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Abstract

Members of serpin superfamily are involved in wide array of cellular processes to control proteolytic activities of eukaryotic organisms. Vertebrate serpins are extensively studied and reported to be classified into six groups (V1-V6) based on gene structures. However, there is no study conducted for serpins in urochordates (the closest living invertebrates related to vertebrates) to date. To unravel further the phylogenetic history of serpin genes, we characterized serpin genes from two urochordates (Ciona intestinalis and Ciona savignyi). There are 11 and 5 serpins in the C. intestinalis and C. savignyi, respectively. The exon/intron structures and genomic locus comparisons together with sequence phylogenetic analysis, suggested that urochordate serpins are classified into six groups (U1-U6), different from six groups (V1-V6) of vertebrate serpins. Human α1-antitrypsin shared lower sequence identities and similarities with urochordates serpins ranged from 14-29% and 30-49%, respectively. Based on protein sequences, genes and genomic architectures, we conclude that these two urochordates do not contain a single copy of genuine ortholog of the vertebrate serpins.

Keywords: Bayesian phylogeny, Gene structure, Microsynteny, Serpins, Sequence analysis, Synteny, Urochordates


Citation styles

APA
Kumar, A., Bhandari, A. (2014). Urochordate serpins are Classified into Six Groups Encoded by Exon-Intron Structures, Microsynteny and Bayesian Phylogenetic Analyses. Journal of Genomics, 2, 131-140. https://doi.org/10.7150/jgen.9437.

ACS
Kumar, A.; Bhandari, A. Urochordate serpins are Classified into Six Groups Encoded by Exon-Intron Structures, Microsynteny and Bayesian Phylogenetic Analyses. J. Genomics 2014, 2, 131-140. DOI: 10.7150/jgen.9437.

NLM
Kumar A, Bhandari A. Urochordate serpins are Classified into Six Groups Encoded by Exon-Intron Structures, Microsynteny and Bayesian Phylogenetic Analyses. J Genomics 2014; 2:131-140. doi:10.7150/jgen.9437. https://www.jgenomics.com/v02p0131.htm

CSE
Kumar A, Bhandari A. 2014. Urochordate serpins are Classified into Six Groups Encoded by Exon-Intron Structures, Microsynteny and Bayesian Phylogenetic Analyses. J Genomics. 2:131-140.

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