Whole genome de novo assembly of Vigna mungo and Vigna radiata and in silico comparative analysis for marker development

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dc.contributor.advisorSatinder Kaur
dc.contributor.authorThakur, Shivani
dc.date.accessioned2018-10-14T09:03:07Z
dc.date.available2018-10-14T09:03:07Z
dc.date.issued2018
dc.description.abstractUrdbean and mungbean provides nutritionally balanced food for vegetarian population of South and Southeast Asian countries. But, very less genomic studies are reported in these crops. In this study, we have sequenced (Illumina) and assembled whole genome sequences of V. mungo and V. radiata, covering 559.494 Mb and 588.520 Mb of genome respectively. Gene prediction, functional annotation of predicted genes, identification of (protein families, resistance genes, non-coding RNA genes, transmembrane helix, signal peptide), mapman classification of genes and generation of pseudomolecule was done. To increase genomic resources in these crops, in silico polymorphic marker (SSRs and SNPs) was developed from V. mungo and V. radiata genome sequences . To prove the usefulness of these predicted polymorphisms, validation of these newly designed molecular markers was carried on different Vigna genotypes viz. Vigna radiata, Vigna mungo, Vigna umbellata, Vigna mungo var sylvestris and Vigna radiata var sublobata. Among amplified primers, 91 SSRs and 92 KASPs were polymorphic, representing 85% and 93% of the polymorphism. The performance of these markers was evaluated using various statistical parameters defining the usefulness and robustness of primers. This includes effective multiplex ratio (EMR), resolving power (RP), PIC value and Marker index (MI).Thus, development and validation of these newly designed markers has increased genomic resources in V. mungo and V. radiata. This will benefit genetic mapping, assessment of genetic diversity, marker-assisted selection and translational genomics studies in both these crops. Also, these markers will opens the door to genomic research in other Vigna species.en_US
dc.identifier.urihttp://krishikosh.egranth.ac.in/handle/1/5810081066
dc.keywordsUrdbean, Mungbean, Genome sequencing, CLC assembler, In silico polymorphism, SSR, SNP, Popgene, Vigna speciesen_US
dc.language.isoenen_US
dc.pages96en_US
dc.publisherPunjab Agricultural University, Ludhianaen_US
dc.research.problemWhole genome de novo assembly of Vigna mungo and Vigna radiata and in silico comparative analysis for marker developmenten_US
dc.subAgricultural Biotechnologyen_US
dc.subjectnullen_US
dc.themeWhole genome de novo assembly of Vigna mungo and Vigna radiata and in silico comparative analysis for marker developmenten_US
dc.these.typePh.Den_US
dc.titleWhole genome de novo assembly of Vigna mungo and Vigna radiata and in silico comparative analysis for marker developmenten_US
dc.typeThesisen_US
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