Genetics and Breeding of Rice (Oryza sativa L.)

A special issue of Genes (ISSN 2073-4425). This special issue belongs to the section "Plant Genetics and Genomics".

Deadline for manuscript submissions: closed (15 December 2023) | Viewed by 2063

Special Issue Editors


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Guest Editor
ICAR - Indian Institute of Rice Research, Hyderabad, India
Interests: rice; genetics; genome editing; plant biotechnology; stress tolerance; biochemistry

E-Mail Website
Guest Editor
ICAR - Indian Institute of Rice Research, Hyderabad, India
Interests: rice; genetics; genome editing; rice biotechnology; molecular breeding; genomics

Special Issue Information

Dear Colleagues,

Rice is the primary calorie source for more than half of the world’s population, thereby ensuring global food security. The last two decades have witnessed tremendous progress in breeding technologies, resulting in the development of climate-resilient, high-yielding rice cultivars. In addition to yield improvement, serious efforts have been made to enhance the nutrition and quality of rice grain, specifically the zinc and protein content. Wild rice species are serving as a novel source of genes for breeding stress-tolerant and high-yielding genotypes. Next-generation sequencing technologies have aided the generation of massive genomics data through sequencing, resequencing, and transcriptomics of coding and non-coding RNAs. In addition to structural genomics, the progress on functional genomics has accelerated in recent times through the development of mutants, the mapping of QTLs and genes, transgenic development and genome editing. The information generated through genomics has been successfully utilized in developing new cultivars/genotypes through breeding and genome-editing approaches.

In this Special Issue, we aim to publish high-quality research articles and reviews on all aspects of new breeding tools including but not limited to genomics-assisted breeding (GAB), high-throughput genotyping and phenotyping, genomic resources derived from wild rice and mutants and their utilization in breeding programs through genomic tools. This Special Issue will cover the identification and characterization of genes/alleles/haplotypes through the sequencing and resequencing of rice germplasm, transcriptomics, bioinformatics, over-expression and knock-out/knockdown through genome-editing/RNAi approaches. All aspects of structural and functional genomics are within the scope of this Issue.

Dr. Satendra Kumar Mangrauthia
Dr. Raman Meenakshi Sundaram
Guest Editors

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Keywords

  • rice
  • genomics
  • genome editing
  • GAB
  • wild rice
  • MAB

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Published Papers (1 paper)

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Research

18 pages, 3347 KiB  
Article
Genome-Wide Association Analysis Unravels New Quantitative Trait Loci (QTLs) for Eight Lodging Resistance Constituent Traits in Rice (Oryza sativa L.)
by Ognigamal Sowadan, Shanbin Xu, Yulong Li, Everlyne Mmbone Muleke, Hélder Manuel Sitoe, Xiaojing Dang, Jianhua Jiang, Hui Dong and Delin Hong
Genes 2024, 15(1), 105; https://doi.org/10.3390/genes15010105 - 16 Jan 2024
Cited by 2 | Viewed by 1619
Abstract
Lodging poses a significant challenge to rice yield, prompting the need to identify elite alleles for lodging resistance traits to improve cultivated rice varieties. In this study, a natural population of 518 rice accessions was examined to identify elite alleles associated with plant [...] Read more.
Lodging poses a significant challenge to rice yield, prompting the need to identify elite alleles for lodging resistance traits to improve cultivated rice varieties. In this study, a natural population of 518 rice accessions was examined to identify elite alleles associated with plant height (PH), stem diameter (SD), stem anti-thrust (AT/S), and various internode lengths (first (FirINL), second (SecINL), third (ThirINL), fourth (ForINL), and fifth (FifINL) internode lengths). A total of 262 SSR markers linked to these traits were uncovered through association mapping in two environmental conditions. Phenotypic evaluations revealed striking differences among cultivars, and genetic diversity assessments showed polymorphisms across the accessions. Favorable alleles were identified for PH, SD, AT/S, and one to five internode lengths, with specific alleles displaying considerable effects. Noteworthy alleles include RM6811-160 bp on chromosome 6 (which reduces PH) and RM161-145 bp on chromosome 5 (which increases SD). The study identified a total of 42 novel QTLs. Specifically, seven QTLs were identified for PH, four for SD, five for AT/S, five for FirINL, six for SecINL, five for ThirINL, six for ForINL, and four for FifINL. QTLs qAT/S-2, qPH2.1, qForINL2.1, and qFifINL exhibited the most significant phenotypic variance (PVE) of 3.99% for the stem lodging trait. AT/S, PH, ForINL, and FifINL had additive effects of 5.31 kPa, 5.42 cm, 4.27 cm, and 4.27 cm, respectively, offering insights into eight distinct cross-combinations for enhancing each trait. This research suggests the potential for crossbreeding superior parents based on stacked alleles, promising improved rice cultivars with enhanced lodging resistance to meet market demands. Full article
(This article belongs to the Special Issue Genetics and Breeding of Rice (Oryza sativa L.))
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