ICAR Research Data Repository for Knowledge Management
Single Nucleotide Polymorphism Genotyping for Breeding and Genetics Applications in Chickpea and Pigeonpea using the BeadXpress Platform
OAR@ICRISAT
View Archive Info| Field | Value | |
| Relation |
http://oar.icrisat.org/7047/
http://dx.doi.org/10.3835/plantgenome2013.05.0017 |
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| Title |
Single Nucleotide Polymorphism Genotyping for Breeding and Genetics Applications in Chickpea and Pigeonpea using the BeadXpress Platform
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| Creator |
Roorkiwal, M
Sawargaonkar, S L Chitikineni, A Thudi, M Saxena, R K Upadhyaya, H D Vales, M I Riera-Lizarazu, O Varshney, R K |
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| Subject |
Chickpea
Pigeonpea Genetics and Genomics |
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| Description |
Single nucleotide polymorphisms (SNPs) are ideal molecular markers due to their higher abundance. Although several types of genotyping platforms for assaying large number of SNPs are available, in cases such as marker-assisted selection, where few markers are required for genotyping a set of potential lines, high-throughput SNP genotyping platforms (e.g., iScan or Infinium) may not be cost effective. In this scenario, GoldenGate assays based on VeraCode technology using Illumina BeadXpress seems to be the most cost-effective platform. The objective of this study was to develop cost-effective SNP genotyping platforms in chickpea (Cicer arietinum L.) and pigeonpea (Cajanus cajan L.). Two sets of SNPs, one each for chickpea (96 SNPs) and pigeonpea (48 SNPs), were developed and tested by genotyping 288 diverse genotypes from respective reference sets. The SNPs selected for the oligo pool assays had high transferability to crop wild relative species. The mean polymorphism information content value of assayed SNP markers was 0.31 and 0.32 in chickpea and pigeonpea, respectively. No unique pattern was observed in the chickpea reference set whereas two major groups were observed in the case of the pigeonpea reference set. The Illumina BeadXpress platform assays developed for chickpea and pigeonpea are highly informative and cost effective for undertaking genetic studies in these legume species.
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| Publisher |
Crop Science Society of America
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| Date |
2013
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| Type |
Article
PeerReviewed |
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| Format |
application/pdf
application/vnd.ms-excel application/vnd.ms-excel application/vnd.ms-excel application/vnd.ms-excel |
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| Language |
en
en en en en |
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| Rights |
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| Identifier |
http://oar.icrisat.org/7047/1/tpg-6-2-plantgenome2013.05.0017.pdf
http://oar.icrisat.org/7047/7/plantgenome2013.05.0017-supplement1.xlsx http://oar.icrisat.org/7047/8/plantgenome2013.05.0017-supplement2.xlsx http://oar.icrisat.org/7047/9/plantgenome2013.05.0017-supplement3.xls http://oar.icrisat.org/7047/10/plantgenome2013.05.0017-supplement4.xls Roorkiwal, M and Sawargaonkar, S L and Chitikineni, A and Thudi, M and Saxena, R K and Upadhyaya, H D and Vales, M I and Riera-Lizarazu, O and Varshney, R K (2013) Single Nucleotide Polymorphism Genotyping for Breeding and Genetics Applications in Chickpea and Pigeonpea using the BeadXpress Platform. The Plant Genome, 6 (2). pp. 1-10. ISSN 1940-3372 |
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