Discovery of SNPs in important legumes through comparative genome analysis and conversion of SNPs into PCR-based markers.

Publication Overview
TitleDiscovery of SNPs in important legumes through comparative genome analysis and conversion of SNPs into PCR-based markers.
AuthorsShilpa HB, Lohithaswa HC
TypeJournal Article
Journal NameJournal of genetics
Volume100
Year2021
CitationShilpa HB, Lohithaswa HC. Discovery of SNPs in important legumes through comparative genome analysis and conversion of SNPs into PCR-based markers.. Journal of genetics. 2021; 100.

Abstract

Compared to cereal crops several legumes are less characterized at the genomic level and rightly referred as orphan crops. Transfer of knowledge between model and crop legumes allows development of orthologous pan-taxon genomic tools to benefit research on resource poor taxa. Here, we developed 278 intron flanking gene-specific markers by BLAST aligning pigeonpea (Cajanus cajan (L.) Millsp.) expressed sequence tags (ESTs) with complete genome sequence of barrel medic (Medicago truncatula). A random 192 PCR primer pairs representing loci across the haploid genome (n = 8) of barrel medic were tested on a few important members of legume family. The single copy amplification rates of 31.8% (peanut, Arachis hypogaea) to 77.6% (barrel medic) signifies the success of cross taxon primers and suggested their potential use in comparative legume genomics. Genetic diversity was assessed in 48 pigeonpea genotypes using 143 intron flanking markers which revealed 71 polymorphic markers with PIC values ranging from 0.04 to 0.45 with an average of 0.23 per marker. The PCR products of different varieties of pigeonpea, cowpea and chickpea were sequenced and aligned to find putative SNPs. Integration of these newly developed markers into genetic maps in resource poor legumes will not only aid in the map saturation but also in designing successful marker-assisted selection programmes.

Features
This publication contains information about 289 features:
Feature NameUniquenameType
CcMt_001_ESTCcMt_001_ESTgenetic_marker
CcMt_002_ESTCcMt_002_ESTgenetic_marker
CcMt_003_ESTCcMt_003_ESTgenetic_marker
CcMt_004_ESTCcMt_004_ESTgenetic_marker
CcMt_005_ESTCcMt_005_ESTgenetic_marker
CcMt_006_ESTCcMt_006_ESTgenetic_marker
CcMt_007_ESTCcMt_007_ESTgenetic_marker
CcMt_008_ESTCcMt_008_ESTgenetic_marker
CcMt_009_ESTCcMt_009_ESTgenetic_marker
CcMt_010_ESTCcMt_010_ESTgenetic_marker
CcMt_011_ESTCcMt_011_ESTgenetic_marker
CcMt_012_ESTCcMt_012_ESTgenetic_marker
CcMt_013_ESTCcMt_013_ESTgenetic_marker
CcMt_014_ESTCcMt_014_ESTgenetic_marker
CcMt_015_ESTCcMt_015_ESTgenetic_marker
CcMt_016_ESTCcMt_016_ESTgenetic_marker
CcMt_017_ESTCcMt_017_ESTgenetic_marker
CcMt_018_ESTCcMt_018_ESTgenetic_marker
CcMt_019_ESTCcMt_019_ESTgenetic_marker
CcMt_020_ESTCcMt_020_ESTgenetic_marker
CcMt_021_ESTCcMt_021_ESTgenetic_marker
CcMt_022_ESTCcMt_022_ESTgenetic_marker
CcMt_023_ESTCcMt_023_ESTgenetic_marker
CcMt_024_ESTCcMt_024_ESTgenetic_marker
CcMt_025_ESTCcMt_025_ESTgenetic_marker

Pages

Properties
Additional details for this publication include:
Property NameValue
Publication ModelPrint
ISSN0973-7731
eISSN0973-7731
Publication Date2021
Journal AbbreviationJ Genet
PII75
Elocation75
Language Abbreng
Publication TypeJournal Article
Journal CountryIndia
LanguageEnglish