Reproductive tissues-specific meta-QTLs and candidate genes for development of heat-tolerant rice cultivars

Raza, Qasim; Riaz, Awais; Sabar, Muhammad Farooq

doi:10.1007/s11103-020-01027-6

Cited by 33 publications

(14 citation statements)

References 70 publications

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“…Li et al (2018) used the RIL population exposed to high temperature at the heating and owering stage. QTL analysis revealed 11 QTLs associated with heat QTLs have already identi ed from the previous published papers and http://www.gramene.org/, compared these QTL identi ed with our research, we found that chromosomal distributions and locations of the QTL clusters qHTSF1a, qHTSF1b, qHTSF3, HTSF4 and qHTSF6 are similar to that of Gn1a, qHBT1-1, qSF3.2, qHTSF4.1 and qHTSF6.1(Ashikari et al, 2005;Cao et al, 2020;Nubankoh et al, 2020; Ye et al, 2015b;Raza et al, 2020). The major QTL qHTSF2 and qHTSF12 are two novelly identi ed major QTLs, and qHTSF12 can be found in different environments.BSA method was proved to be a convenient technology in detecting major QTLs, in particular for identify resistance QTLs (Illa-Berenguer et al, 2015;Yao et al, 2016;Nubankoh et al,2020).…”

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confidence: 73%

Mapping of QTL Associated With Heat Tolerance At The Reproductive Stage In Rice(Oryza Sativa L.)

Jin

Zhou

et al. 2021

Preprint

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Climate change has a negative effect on rice production and food security. High temperature stress is a major obstacle and can significantly reduce yield. A set of recombinant inbred lines (RILs) derived from the cross between Longdao5 (heat-sensitive) and Zhongyouzao8 (heat-tolerant) was used in the identification of heat tolerant QTL. Spikelet fertility (SF) and heat tolerance (HT) indexes showed a significant difference among the parents and RILs population, and SF and HT have different of effect under natural and artificial high temperature conditions. Sixty-one QTLs were detected on chromosomes 1-8, 10 and 12, while 25, 27 and 14 additive QTLs were identified under the control, natural and artificial high temperature conditions, respectively. Pleiotropic effects and QTL hotspots are the key factors affecting these traits, three key major QTL clusters qHTSF1, qHTSF4, and qHTSF12 can be stably expressed. In addition, epistatic effect is an important component in the regulation of heat tolerance. A total of 17 pairs of epistatic interaction loci were detected, and these additive QTL clusters have a significant epistatic effect. Bulk segregant analysis (BSA) method was proved to be a convenient method to detect major QTLs. Three QTLs, namely qSF1, qSF2 and qSF12 were detected under high temperature environment, and there is a highly significant correlation among these addictive QTLs. These results will lay the foundation for the further fine mapping of these major QTLs and enrich the molecular marker-assisted selection of heat-tolerant gene resources in rice breeding.

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confidence: 73%

Mapping of QTL Associated With Heat Tolerance At The Reproductive Stage In Rice(Oryza Sativa L.)

Jin

Zhou

et al. 2021

Preprint

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“…Despite recently discovered responsiveness to heat and drought stress (Raza et al . 2020; Wang et al . 2020) and to salicylic acid (Ramamoorthy et al .…”

Section: Resultsmentioning

confidence: 99%

“…The OsWRKY21 gene, which was most highly differentially expressed between genotypes, could be a potential candidate in chilling tolerance. Despite recently discovered responsiveness to heat and drought stress (Raza et al 2020;Wang et al 2020) and to salicylic acid (Ramamoorthy et al 2008), there is little information on their role in chilling stress. Zhang et al (2012) also found that OsWRKY21 is highly expressed in response to chilling in rice seedlings.…”

Section: Potential Positive Regulators Of Chilling Tolerancementioning

confidence: 99%

When rice gets the chills: comparative transcriptome profiling at germination shows WRKY transcription factor responses

et al. 2021

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Rice is vital for food security. Due to its tropical origin, rice suffers from cold temperatures that affect its entire life cycle. Key genes have been identified involved in cold tolerance. WRKYs are generally downstream of the MAPK cascade and can act together with VQ proteins to regulate stress-responsive genes.• Chilling treatment was applied at germination to two rice genotypes (tolerant and sensitive). Shoots at S3 stage were collected for RNA-seq to identify OsWRKY, OsMAPKs and OsVQs expression. Relationships among MAPKs, WRKYs and VQs were predicted through correlation analysis. OsWRKY transcriptional regulation was predicted by in silico analysis of cis-regulatory elements.• A total of 39 OsWRKYs were differentially expressed. OsWRKY21, OsWRK24 and OsWRKY69 are potential positive regulators, while OsWRKY10, OsWRK47, OsWRKY62, OsWRKY72 and OsWRKY77 are potential negative regulators, of chilling tolerance. 12 OsMAPKs were differentially expressed. OsMAPKs were downregulated and negatively correlated with the upregulated OsWRKYs in the tolerant genotype. 19 OsVQs were differentially expressed, three and six OsVQs were positively correlated with OsWRKYs in the tolerant and sensitive genotypes, respectively. Seven differentially expressed OsWRKYs have cold-responsive elements in their promoters and five upregulated OsWRKYs in the tolerant genotype contained the Wbox motif.• Chilling causes changes in OsWRKY, OsMAPK and OsVQ gene expression at germination. OsWRKYs may not act downstream of the MAPK cascade to coordinate chilling tolerance, but OsWRKYs may act with VQs to regulate chilling tolerance. Candidate OsWRKYs are correlated and have a W-box in the promoter, suggesting an autoregulation mechanism.

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“…On the other hand, it is reported that an autophagy gene OsATG8b controls grain quality in addition to candidate genes, including qGC10 for gel consistency, qHd2-1 and qGS-7 for grain size, physical appearance of grain, eating, and cooking quality [128][129][130]. Similarly, several novel QTL, metaQTL, ortho-MQTL, and candidate genes for grain yield and related traits, drought, salinity, and heat stresses have been identified [131][132][133]. Employing the latest editing technologies on these candidate genes/QTLs has remarkable potential for fine-tuning rice grain yield, abiotic stress tolerance, grain appearance, and quality improvement in the future breeding program.…”

Section: Discussionmentioning

confidence: 99%

Applications and Potential of Genome-Editing Systems in Rice Improvement: Current and Future Perspectives

et al. 2021

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Food crop production and quality are two major attributes that ensure food security. Rice is one of the major sources of food that feeds half of the world’s population. Therefore, to feed about 10 billion people by 2050, there is a need to develop high-yielding grain quality of rice varieties, with greater pace. Although conventional and mutation breeding techniques have played a significant role in the development of desired varieties in the past, due to certain limitations, these techniques cannot fulfill the high demands for food in the present era. However, rice production and grain quality can be improved by employing new breeding techniques, such as genome editing tools (GETs), with high efficiency. These tools, including clustered, regularly interspaced short palindromic repeats (CRISPR) systems, have revolutionized rice breeding. The protocol of CRISPR/Cas9 systems technology, and its variants, are the most reliable and efficient, and have been established in rice crops. New GETs, such as CRISPR/Cas12, and base editors, have also been applied to rice to improve it. Recombinases and prime editing tools have the potential to make edits more precisely and efficiently. Briefly, in this review, we discuss advancements made in CRISPR systems, base and prime editors, and their applications, to improve rice grain yield, abiotic stress tolerance, grain quality, disease and herbicide resistance, in addition to the regulatory aspects and risks associated with genetically modified rice plants. We also focus on the limitations and future prospects of GETs to improve rice grain quality.

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Reproductive tissues-specific meta-QTLs and candidate genes for development of heat-tolerant rice cultivars

Cited by 33 publications

References 70 publications

Mapping of QTL Associated With Heat Tolerance At The Reproductive Stage In Rice(Oryza Sativa L.)

Mapping of QTL Associated With Heat Tolerance At The Reproductive Stage In Rice(Oryza Sativa L.)

When rice gets the chills: comparative transcriptome profiling at germination shows WRKY transcription factor responses

Applications and Potential of Genome-Editing Systems in Rice Improvement: Current and Future Perspectives

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