Resequencing of 1,143 indica rice accessions reveals important genetic variations and different heterosis patterns

Lv, Qiming; Li, Weiguo; Sun, Zhizhong; Ouyang, Ning; Jing, Xin; He, Qingfang; Wu, Jun; Zheng, Jiakui; Zheng, Jufeng; Tang, Shaoqing; Zhu, Rong; Tian, Yaxi; Duan, Meijuan; Tan, Yanning; Yu, Dong; Sheng, Xiabing; Sun, Xuefang; Jia, Guanqing; Hong-zhen, Gao; Zeng, Qin; Li, Yufei; Tang, Li; Xu, Qiang; Zhao, Baisuo; Huang, Zhiyuan; Lü, Hongfeng; Li, Na; Zhao, Jian; Zhu, Lihuang; Li, Dong; Yuan, Longping; Yuan, Dingyang

doi:10.1038/s41467-020-18608-0

Cited by 65 publications

(44 citation statements)

References 51 publications

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“…Generally, positive heterosis is desirable for yield while negative heterosis in concern to early maturity followed by early flowering. Exploitation of heterosis is of utmost importance for increasing agricultural productivity and also one of the most successful examples in many crops including rice (Lv et al, 2020;Ismaeel et al, 2019;Singh et al, 2019). Therefore, the objective of this study is to estimate three types of heterosis for yield related traits of boro rice.…”

Section: Introductionmentioning

confidence: 99%

Heterobeltiosis and Economic Heterosis for Grain Yield Related Traits of Boro Rice (Oryza sativa L.)

Ray

Islam

Rasul

et al. 2021

Int J Appl Sci Biotechnol

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Rice is a staple food for more than half of the world’s population and to increase the yield potential of rice would be a key factor for mitigating global demands of about 810 million tons of rice by 2025. To exploit the economic importance of heterosis, quantitative valuation was carried out in a randomized complete block design with three replications for 16 agronomic traits of 5x5 half diallel populations during boro season of 2017-2018. Diallel populations were generated by using five selected parents (P1: BRRI dhan28, P2: BRRI dhan74, P3: BINA dhan10, P4: IR59418-7B-21-3 and P5: BRRI dhan67) where, P1 was considered as standard check to estimate the economic heterosis. Analysis of variance revealed highly significant variability among the genotypes for most of the traits except grain length and length-breadth ratio. The results showed that none of the hybrid combination performed better for all the traits over the three types of heterosis. The highest relative heterosis was recorded in P3×P4 followed by P4×P5 for grain yield plant-1, filled grains panicle-1, effective tillers plant-1. Majority of the cross combinations (>60%) revealed highly significant positive heterosis for grain yield plant-1 over mid parent. Heterobeltiosis for grain yield plant-1 was observed significant for 50% cross combinations and could be utilized in hybrid breeding. Whereas, more than 70% crosses exhibited undesirable negative standard heterosis for grain yield plant-1. Only two cross combinations (P3×P5 and P3×P4) among ten revealed significant positive economic heterosis for grain yield plant-1 and those could be exploited in rice breeding. Int. J. Appl. Sci. Biotechnol. Vol 9(1): 45-53

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Section: Introductionmentioning

confidence: 99%

Heterobeltiosis and Economic Heterosis for Grain Yield Related Traits of Boro Rice (Oryza sativa L.)

Ray

Islam

Rasul

et al. 2021

Int J Appl Sci Biotechnol

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“…The utilization of hybrid rice heterosis has led to a dramatic increase in rice production in China and other Asian countries (Lv et al, 2020; Wang et al, 2018; Yuan, 2014). But high seed production cost is a barrier to the use of hybrid rice.…”

Section: Discussionmentioning

confidence: 99%

Rice MutLγ, the MLH1–MLH3 heterodimer, participates in the formation of type I crossovers and regulation of embryo sac fertility

Mao

Zheng

Huang

et al. 2021

Plant Biotechnology Journal

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The development of embryo sacs is crucial for seed production in plants, but the genetic basis regulating the meiotic crossover formation in the macrospore and microspore mother cells remains largely unclear. Here, we report the characterization of a spontaneous rice female sterile variation 1 mutant (fsv1) that showed severe embryo sacs abortion with low seed-setting rate. Through map-based cloning and functional analyses, we isolated the causal gene of fsv1, OsMLH3 encoding a MutL-homolog 3 protein, an ortholog of HvMLH3 in barley and AtMLH3 in Arabidopsis. OsMLH3 and OsMLH1 (MutL-homolog 1) interact to form a heterodimer (MutLc) to promote crossover formation in the macrospore and microspore mother cells and development of functional megaspore during meiosis, defective OsMLH3 or OsMLH1 in fsv1 and CRISPR/Cas9based knockout lines results in reduced type I crossover and bivalent frequency. The fsv1 and OsMLH3-knockout lines are valuable germplasms for development of female sterile restorer lines for mechanized seed production of hybrid rice.

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“…The data revealed by the FNP screen suggest a plausible genetic basis for the stable and broad blast resistance exhibited by the modern cultivars, Digu, R207, Lu28S, TianfengB, R217, Zhonghua 11, Gumeizao 4, Moliruanzhan, Yuehesimiao and Yuejingsimiao 2, in that all of these cultivars harbour a functional allele at each of the three Pid genes (Table S2). It might be truly expected that integration of both indica and japonica resistance genes into upcoming cultivars would be one of the most promising ways to enlarge their genetic diversities of resistance genic resources thereby withstanding ever-growing pressure from the pathogen across indica and japonica rice areas (Shang et al 2009;Zhang et al 2016;Lv et al 2017Lv et al , 2020.…”

Section: Discussionmentioning

confidence: 99%

The Rice Blast Resistance Gene Pid Family has been Strictly Diverged into Indica and Japonica Subspecies

Chai¹,

Wang²,

Wang³

et al. 2021

Preprint

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Background: Rice blast (causative agent the fungus Pyricularia oryzae) represents a major constraint over the productivity of one of the world’s most important staple foods. Genes encoding resistance have been identified in both the indica and japonica subspecies genepools, and combining these within new cultivars represents a rational means of combating the pathogen.Results: In this research, a deeper allele mining was carried out on Pid-2, Pid-3, and Pid-4 by their specific FNP markers in the three panels consisting of 70 indica and 58 japonica cultivars. Within Pid-2, three functional and one non-functional alleles were identified; the former were only identified in indica type entries. At Pid-3, four functional and one non-functional alleles were identified, and once again, all of the former were present in indica type entries. However, the pattern of variation at Pid-4 was rather different: here, the five functional alleles uncovered were dispersed across the japonica type germplasm. Among all the 12 candidate functional alleles, both Pid2-ZS and Pid3-ZS were predominant.Conclusions: Variation in both Pid-2 and Pid-3 appears to have evolved in response to pathogen pressure exerted on indica type cultivars, while that in Pid-4 reflects the interaction between the fungus and the host in japonica type crops. Owning to the founder lineage, ‘Zhenzhuai 11-ZS97’, rather limited genotypes of the Pid family have been effective in both indica and japonica rice groups, of which Pid2-ZS+Pid3-ZS is present in a large proportion of Chinese indica cultivars released since the 1960s.

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Resequencing of 1,143 indica rice accessions reveals important genetic variations and different heterosis patterns

Cited by 65 publications

References 51 publications

Heterobeltiosis and Economic Heterosis for Grain Yield Related Traits of Boro Rice (Oryza sativa L.)

Heterobeltiosis and Economic Heterosis for Grain Yield Related Traits of Boro Rice (Oryza sativa L.)

Rice MutLγ, the MLH1–MLH3 heterodimer, participates in the formation of type I crossovers and regulation of embryo sac fertility

The Rice Blast Resistance Gene Pid Family has been Strictly Diverged into Indica and Japonica Subspecies

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