Title: Identification of Conserved Orthologous Set (COS) Markers in Cultivated Vigna radiata (L.) Wilczek.

Name: J J Rajappa*, S D Umdale** , P R Kole** and K V Bhat**

*Division of Plant Genetic Resources, Indian Agricultural Research Institute, New Delhi-12

**Division of Genomic Resources, National Bureau of Plant Genetic Resources, New Delhi-12

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With an aim to develop widely applicable conserved gene markers to identify and tag orthologous genes from related Vigna species to reveal phylogenetic relationships and the nature of genes conserved in genus Vigna across the evolution, low copy nuclear Conserved Ortholog Set (COS) genes were tested to explore the interspecific genetic relationship of Vigna radiata(L.) Wilczekwith other species such as V. mungo(L.), V. umbellataThunb., V. angularisWilld.and V. unguiculata (L.) Walp. To detect COS regions, computational approach was followed utilizing the available expressed sequence tags (EST) database of Vigna radiata and its related species. The ESTs were processed to eliminate sequence repeats, contaminants and low-complexity sequences. Upon alignment with Soybean genome, only high quality ESTs were grouped into clusters from which consensus sequences representing putative genes are generated for each Vigna species. From 6443 ESTs, 2550 contigs were acquired to develop 230 primers to amplify conserved orthologous sequences across Vigna species. Among 14 primer pairs used for validation with genotypes of V. radiata, 3 gave double bands (paralogs) and 9 produced single bands indicating single copy orthologs. This infers that DNA sequences identified by this comparative genomics approach would be of great use in analyzing genomic information of related, unexplored crop genomes to augment gene discovery and plant breeding in other legumes.

Biography

Dr.Rajappa J.J. has completed his PhD at the age of 32 years from Division of Plant Genetic Resources, Indian Agricultural Research Institute, New Delhi, India. He is scientist(Economic Botany and Plant Genetic Resources) in Agroforestry section, Natural Resource Management(NRM) of ICAR Research Complex for NEH Region, Umiam (Barapani) - 793 103, Meghalaya, INDIA

Presenting author details
Full name: Dr.Rajappa J.J.
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Category: (Oral presentation/ Poster presentation): ORAL and POSTER

Identification of Conserved Orthologous Set (COS) Markers in Cultivated Vigna radiata (L.)Wilczek.

J JRajappa , S D Umdale , P R Kole and K V Bhat

Division of Plant Genetic Resources, Indian Agricultural Research Institute, Pusa campus, New Delhi-110012

Abstract:

With an aim to develop widely applicable conserved gene markers to identify and tag orthologous genes from related Vigna species to reveal phylogenetic relationships and the nature of genes conserved in genus Vigna across the evolution, low copy nuclear Conserved Ortholog Set (COS) genes were tested to explore the interspecific genetic relationship of Vigna radiata(L.) Wilczekwith other species such as V. mungo(L.), V. umbellataThunb., V. angularisWilld.and V. unguiculata (L.) Walp. To detect COS regions, computational approach was followed utilizing the available expressed sequence tags (EST) database of Vigna radiata and its related species. The ESTs were processed to eliminate sequence repeats, contaminants and low-complexity sequences. Upon alignment with Soybean genome, only high quality ESTs were grouped into clusters from which consensus sequences representing putative genes are generated for each Vigna species. From 6443 ESTs, 2550 contigs were acquired to develop 230 primers to amplify conserved orthologous sequences across Vigna species. Among 14 primer pairs used for validation with genotypes of V. radiata, 3 gave double bands (paralogs) and 9 produced single bands indicating single copy orthologs. This infers that DNA sequences identified by this comparative genomics approach would be of great use in analyzing genomic information of related, unexplored crop genomes to augment gene discovery and plant breeding in other legumes.

Key Words: Comparative Genomics, Conserved orthologous Set (COS) markers, ESTs, Vigna