Genetic analysis and fine mapping of an enclosed panicle mutant esp2 in rice (Oryza sativa L.)

Guan, Huaijin; Duan, Yanwu; Liu, Huaqing; Chen, Zhiwei; Zhuo, Ming; LiJun, Zhuang; Qi, WenMing; Pan, Runsen; Mao, Damei; Zhou, Yuanchang; Wang, Feng; Wu, Weiren

doi:10.1007/s11434-011-4552-9

Cited by 15 publications

(19 citation statements)

References 6 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Rice is a staple food for nearly half of the world’s population. Rice yield is seriously reduced when panicle enclosure occurs in cultivated varieties, particularly in hybrid rice varieties (Guan et al 2011; Duan et al 2012). It is well known that panicle exsertion (PE) and the uppermost internode (UI) play a critical role in the regulation of panicle enclosure (da Cruz et al 2008; Qiao et al 2008; Duan et al 2012).…”

Section: Introductionmentioning

confidence: 99%

“…It is well known that panicle exsertion (PE) and the uppermost internode (UI) play a critical role in the regulation of panicle enclosure (da Cruz et al 2008; Qiao et al 2008; Duan et al 2012). Panicle enclosure means that panicles are partly or fully enclosed within the flag leaf sheath, mainly caused by the shortening of UI (Yin et al 2007; Guan et al 2011). Simultaneously, both PE and UI are connected to the culm and panicle, controlling the transport efficiency of water and nutrients from the leaves and stems to grains and ultimately affecting grain filling and crop yield (Ma et al 2002; da Cruz et al 2008; Liu et al 2008).…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Genome-wide association analysis of panicle exsertion and uppermost internode in rice (Oryza sativa L.)

Zhan

Pang

et al. 2019

Rice

View full text Add to dashboard Cite

Background Rice (Oryza sativa L.) yield is seriously influenced by panicle exsertion (PE) and the uppermost internode (UI) through panicle enclosure or energy transport during grain-filling stages. We evaluated the traits of PE and UI of 205 rice accessions in two independent environments and performed genome-wide association (GWAS) to explore the key genes controlling PE and UI, which could be used to improve panicle enclosure in rice breeding. Results In this study, extensive genetic variation was found in both PE and UI among the 205 rice accessions, and 10.7% of accessions had panicle enclosure (PE/UI ≤ 0). Correlation analysis revealed that PE was significantly positively correlated with 1000-grain weight (1000-GW) but negatively correlated with heading date (HD), and UI was significantly positively correlated with HD but no significantly correlated with 1000-GW. A total of 22 and 24 quantitative trait loci (QTLs) were identified for PE and UI using GWAS, respectively. Eight loci for PE and nine loci for UI were simultaneously detected both in 2015 and in 2016, seven loci had adjacent physical positions between PE and UI, and ten loci for PE and seven loci for UI were located in previously reported QTLs. Further, we identified the CYP734A4 gene, encoding a cytochrome P450 monooxygenase, and the OsLIS-L1 gene, encoding a lissencephaly type-1-like protein, as causal genes for qPE14 and qUI14, and for qPE19, respectively. PE and UI were both significantly shorter in these two genes’ mutants than in WT. Allelic Hap.1/2/4 of CYP734A4 and Hap.1/2/4 of OsLIS-L1 increased PE, UI, PE/UI, and 1000-GW, but Hap.3 of CYP734A4 and Hap.3 of OsLIS-L1 reduced them. In addition, six candidate genes were also detected for four key novel loci, qPE16, qPE21, qUI1, and qUI18, that seemed to be related to PE and UI. Conclusions Our results provide new information on the genetic architecture of PE and UI in rice, confirming that the CYP734A4 and OsLIS-L1 genes participate in PE and UI regulation, which could improve our understanding of the regulatory mechanism of PE and UI for rice breeding in the future.

show abstract

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Genome-wide association analysis of panicle exsertion and uppermost internode in rice (Oryza sativa L.)

Zhan

Pang

et al. 2019

Rice

View full text Add to dashboard Cite

show abstract

“…Further, 33 QTLs associated with PEL have been identified using bi-parental segregating populations. These QTL were distributed throughout all 12 chromosomes (Yamamoto et al, 2001 ; Hittalmani et al, 2003 ; Qiao et al, 2007 ; Xiao et al, 2008 ; Yang et al, 2009 ; Guan et al, 2011 ; Ji et al, 2014 ; Zhao et al, 2015 ).…”

Section: Introductionmentioning

confidence: 99%

Favorable Marker Alleles for Panicle Exsertion Length in Rice (Oryza sativa L.) Mined by Association Mapping and the RSTEP-LRT Method

et al. 2017

View full text Add to dashboard Cite

The panicle exsertion length (PEL) in rice (Oryza sativa L.) is an important trait for hybrid seed production. We investigated the PEL in a chromosome segment substitution line (CSSL) population consisting of 66 lines and a natural population composed of 540 varieties. In the CSSL population, a total of seven QTLs for PEL were detected across two environments. The percentage of phenotypic variance explained (PVE) ranged from 10.22 to 50.18%, and the additive effect ranged from −1.77 to 6.47 cm. Among the seven QTLs, qPEL10.2 had the largest PVE, 44.05 and 50.18%, with an additive effect of 5.91 and 6.47 cm in 2015 and in 2016, respectively. In the natural population, 13 SSR marker loci were detected that were associated with PEL in all four environments, with the PVE ranging from 1.20 to 6.26%. Among the 13 loci, 7 were novel. The RM5746-170 bp allele had the largest phenotypic effect (5.11 cm), and the typical carrier variety was Qiaobinghuang. An RM5620-RM6100 region harboring the EUI2 locus on chromosome 10 was detected in both populations. The sequencing results showed that the accessions with a shorter PEL contained the A base, while the accessions with a longer PEL contained the G base at the 1,475 bp location of the EUI2 gene.

show abstract

“…To date, several genes controlling rice panicle development have been reported, and most of these were identified as mutants; examples are leafty head (lhd) [14,15], branched floretless 1 (bfl1) [16], short panicle 1 (sp1) [17], aberrant spikelet and panicle 1 (asp1) [18], floral organ number (fon) [6,18,19], and enclosed panicle 2 (esp2) [20]. Also, other genes have been reported to be associated with rice hull development, including frizzy panicle (fzp) [21], abnormal hull (ah) [22], long sterile lemma (gl) [23], elongated empty glume (ele) [24], leafy hull sterile 1 (lhs1) [25], depressed palea (dp) [26], and triangular hull (th1) [11].…”

Section: Disscussionmentioning

confidence: 99%

Genetic analysis and gene cloning of a triangular hull 1 (tri1) mutant in rice (Oryza sativa L.)

Guo¹,

Zhang²,

Tang³

et al. 2013

Chin. Sci. Bull.

View full text Add to dashboard Cite

Grain shape and size are two key factors that determine rice yield and quality. In the present study, a rice triangular hull mutant (tri1) was obtained from the progeny of japonica rice variety Taipei 309 treated with 60 Co γ-rays. Compared to the wild type, the tri1 mutant presents a triangular hull, and exhibits an increase in grain thickness and protein content, but with a slight decrease in plant height and grain weight. Genetic analysis indicated that the mutant phenotype was controlled by a recessive nuclear gene which is stably inherited. Using a map-based cloning strategy, we fine-mapped tri1 to a 47-kb region between the molecular markers CHR0122 and CHR0127 on the long arm of chromosome 1, and showed that it co-segregates with the molecular marker CHR0119. According to the rice genome sequence annotation there are six predicated genes within the mapped region. Sequencing analysis of the mutant and the wild type indicated that there was a deletion of an A nucleotide in exon 3 of the OsMADS32 gene, which could result in a downstream frameshift mutation and premature termination of the predicted polypeptide. Both semi-quantitative and real-time RT-PCR analyses showed that this gene expressed highly in young inflorescences, while expressed at very low levels in other tissues. These results implied that the OsMADS32 gene could be a candidate of TRI1. Taken together, the results of this study lay the foundation for further investigation into the molecular mechanisms regulating rice caryopsis development.Oryza sativa L., triangular hull 1 mutant (tri1), genetic analysis, gene cloning, OsMADS32

show abstract

Genetic analysis and fine mapping of an enclosed panicle mutant esp2 in rice (Oryza sativa L.)

Cited by 15 publications

References 6 publications

Genome-wide association analysis of panicle exsertion and uppermost internode in rice (Oryza sativa L.)

Genome-wide association analysis of panicle exsertion and uppermost internode in rice (Oryza sativa L.)

Favorable Marker Alleles for Panicle Exsertion Length in Rice (Oryza sativa L.) Mined by Association Mapping and the RSTEP-LRT Method

Genetic analysis and gene cloning of a triangular hull 1 (tri1) mutant in rice (Oryza sativa L.)

Contact Info

Product

Resources

About