SNPs in stress-responsive rice genes: validation, genotyping, functional relevance and population structure
Swarup K. Parida,Mitali Mukerji,Ashok Kumar Singh,Nagendra K. Singh,Trilochan Mohapatra,Trilochan Mohapatra +5 more
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TLDR
SNPs validated in biotic and abiotic stress-responsive rice genes can be used in association analyses to identify candidate genes and develop functional markers for stress tolerance in rice.Abstract:
Single nucleotide polymorphism (SNP) validation and large-scale genotyping are required to maximize the use of DNA sequence variation and determine the functional relevance of candidate genes for complex stress tolerance traits through genetic association in rice. We used the bead array platform-based Illumina GoldenGate assay to validate and genotype SNPs in a select set of stress-responsive genes to understand their functional relevance and study the population structure in rice.read more
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Journal ArticleDOI
Genome-wide association mapping of salinity tolerance in rice (Oryza sativa)
Vinod Kumar,Anshuman Singh,S. V. Amitha Mithra,S. L. Krishnamurthy,Swarup K. Parida,Sourabh Jain,Kapil K. Tiwari,Pankaj Kumar,Atmakuri Ramakrishna Rao,S. K. Sharma,Jitendra P. Khurana,Nagendra K. Singh,Trilochan Mohapatra +12 more
TL;DR: The region harbouring Saltol, a major quantitative trait loci on chromosome 1 in rice, which is known to control salinity tolerance at seedling stage, was detected as a major association with Na+/K+ ratio measured at reproductive stage in this study.
Journal ArticleDOI
A Review of Microsatellite Markers and Their Applications in Rice Breeding Programs to Improve Blast Disease Resistance
Gous Miah,Mohd Y. Rafii,Mohd Razi Ismail,Adam Puteh,Harun A. Rahim,Kh. Nurul Islam,Mohammad Abdul Latif +6 more
TL;DR: The aim of this review is to summarize the current knowledge concerning the linkage of microsatellite markers to rice blast resistance genes, as well as to explore the use of MAS in rice breeding programs aimed at improving blast resistance in this species.
Journal ArticleDOI
Avoiding damage and achieving cold tolerance in rice plants
Renata Pereira da Cruz,Raul Antonio Sperotto,Denise Cargnelutti,Janete Mariza Adamski,Tatiana de FreitasTerra,Janette Palma Fett +5 more
TL;DR: Although much progress has been achieved, joint efforts from breeders and plant biologists could speed up the production of cold-tolerant rice plants, and some possible approaches are suggested.
Journal ArticleDOI
Genomic-assisted haplotype analysis and the development of high-throughput SNP markers for salinity tolerance in soybean
Gunvant Patil,Tuyen D. Do,Tri D. Vuong,Babu Valliyodan,Jeong-Dong Lee,Juhi Chaudhary,J. Grover Shannon,Henry T. Nguyen +7 more
TL;DR: High quality whole-genome resequencing was utilized on 106 diverse soybean lines and three major structural variants and allelic variation in the promoter and genic regions of the GmCHX1 gene were identified, identifying salt-tolerant/sensitive genotypes and different structural-variants.
Journal ArticleDOI
Deploying QTL-seq for rapid delineation of a potential candidate gene underlying major trait-associated QTL in chickpea
Shouvik Das,Hari D. Upadhyaya,Deepak Bajaj,Alice Kujur,Saurabh Badoni,Laxmi,Vinod Kumar,Shailesh Tripathi,C. L. Laxmipathi Gowda,Shivali Sharma,Sube Singh,Akhilesh K. Tyagi,Swarup K. Parida +12 more
TL;DR: The proposed QTL-seq-driven integrated genome-wide strategy has potential to delineate major candidate gene(s) harbouring a robust trait regulatory QTL rapidly with optimal use of resources to extrapolate the molecular mechanism underlying complex quantitative traits at a genome- wide scale leading to fast-paced marker-assisted genetic improvement in diverse crop plants, including chickpea.
References
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