A novel 33-bp insertion in the promoter of TaMFT-3A is associated with pre-harvest sprouting resistance in common wheat

Jiang, Hao; Zhao, Liangxia; Chen, Xuejian; Cao, Junhui; Wu, Zeng-Yun; Liu, Kai; Zhang, Can; Wei, Wenxin; Xie, Hong-Yong; Li, Li; Gan, Yi-Gang; Lu, Jie; Chang, Cheng; Zhang, Haiping; Xia, Xianchun; Xiao, Shuai; Ma, Chunyan

doi:10.1007/s11032-018-0830-1

Cited by 20 publications

(11 citation statements)

References 48 publications

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“…Genomic DNA was isolated from undamaged dry kernels of the J411 and HMC21 varieties using a modified phenol–chloroform method (Hu et al, 2016; Jiang et al, 2018). The full-length sequence of the TaGASR34 gene was obtained by querying the Chinese spring wheat genome.…”

Section: Methodsmentioning

confidence: 99%

Identification and Analysis of the GASR Gene Family in Common Wheat (Triticum aestivum L.) and Characterization of TaGASR34, a Gene Associated With Seed Dormancy and Germination

Cheng

Wang

et al. 2019

Front. Genet.

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Seed dormancy and germination are important agronomic traits in wheat (Triticum aestivum L.) because they determine pre-harvest sprouting (PHS) resistance and thus affect grain production. These processes are regulated by Gibberellic Acid-Stimulated Regulator (GASR) genes. In this study, we identified 37 GASR genes in common wheat, which were designated TaGASR1-37. Moreover, we identified 40 pairs of paralogous genes, of which only one had a Ka/Ks value greater than 1, indicating that most TaGASR genes have undergone negative selection. Chromosomal location and duplication analysis revealed 25 pairs of segmentally duplicated genes and seven pairs of tandemly duplicated genes, suggesting that large-scale duplication events may have contributed to the expansion of TaGASR gene family. Microarray analysis of the expression of 18 TaGASR genes indicated that these genes play diverse roles in different biological processes. Using wheat varieties with contrasting seed dormancy phenotypes, we investigated the expression patterns of TaGASR genes and the corresponding seed germination index phenotypes in response to water imbibition, exogenous ABA and GA treatment, and low- and high-temperature treatment. Based on these data, we identified the TaGASR34 gene as potentially associated with seed dormancy and germination. Further, we used a SNP mutation of the TaGASR34 promoter (-16) to develop the CAPS marker GS34-7B, which was then used to validate the association of TaGASR34 with seed dormancy and germination by evaluating two natural populations across environments. Notably, the frequency of the high-dormancy GS34-7Bb allele was significantly lower than that of the low-dormancy GS34-7Ba allele, implying that the favorable GS34-7Bb allele has not previously been used in wheat breeding. These results provide valuable information for further functional analysis of TaGASR genes and present a useful gene and marker combination for future improvement of PHS resistance in wheat.

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Section: Methodsmentioning

confidence: 99%

Identification and Analysis of the GASR Gene Family in Common Wheat (Triticum aestivum L.) and Characterization of TaGASR34, a Gene Associated With Seed Dormancy and Germination

Cheng

Wang

et al. 2019

Front. Genet.

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“…Several genes have been verified as associated with PHS in wheat in recent reports, including TaMFT/TaPHS1 , TaMKKK3 , Tamyb10 , and TaVp1 in wheat and TaSdr , TaQSd , and TaDOG1 in related crops (i.e., barley, maize, rice) or model ( Arabidopsis ) organisms [ 1 , 35 , 36 , 37 , 38 , 39 , 40 , 41 , 42 , 43 , 44 , 45 , 46 ]. In recent years, RNA-Seq has emerged as a powerful technique for DEG identification at the transcriptome level, which could provide insights into the molecular mechanism(s) underpinning PHS resistance [ 63 ].…”

Section: Discussionmentioning

confidence: 99%

“…Until recently, a few genes associated with PHS in wheat had been identified across multiple studies, including TaMFT/TaPHS1 , TaMKK3 , TaVp-1 , Tamyb10 , TaSdr , TaQSd , and TaDOG1 [ 1 , 35 , 36 , 37 , 38 , 39 , 40 , 41 , 42 , 43 , 44 , 45 , 46 ]. TaMFT/TaPHS1 was identified as a potential gene for a PHS QTL- QPhs.pseru-3A by Nakamura et al, 2018 and later confirmed by TaMFT that was found in a 3AS QTL, for which three single nucleotide polymorphisms (SNPs) were found in the promoter and third intron region, located at the −222 and 646/666 positions, respectively.…”

Section: Introductionmentioning

confidence: 99%

“…TaMFT/TaPHS1 was identified as a potential gene for a PHS QTL- QPhs.pseru-3A by Nakamura et al, 2018 and later confirmed by TaMFT that was found in a 3AS QTL, for which three single nucleotide polymorphisms (SNPs) were found in the promoter and third intron region, located at the −222 and 646/666 positions, respectively. Notably, those lines carrying alleles at −222 and 646/666 were distinguished as having high resistance to PHS [ 45 , 47 ]. TaMKK3 is another candidate gene in the Phs1-4AL QTL.…”

Section: Introductionmentioning

confidence: 99%

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Identification of QTLs and a Candidate Gene for Reducing Pre-Harvest Sprouting in Aegilops tauschii–Triticum aestivum Chromosome Segment Substitution Lines

Zhang

Chen

et al. 2021

IJMS

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Wheat pre-harvest sprouting (PHS) causes serious losses in wheat yield. In this study, precise mapping was carried out in the chromosome segment substitution lines (CSSL) F2 population generated by a direct cross of Zhoumai 18 (PHS-sensitive) and Aegilops tauschii accession T093 (highly PHS-resistant). Three Ae. tauschii-derived quantitative trait loci (QTLs), QDor.3D.1, QDor.3D.2, and QDor.3D.3, were detected on chromosome 3DL using four simple sequence repeats (SSR) markers and 10 developed Kompetitive allele-specific PCR (KASP) markers. Alongside these QTL results, the RNA-Seq and qRT-PCR analysis revealed expression levels of TraesCS3D01G466100 in the QDor.3D.2 region that were significantly higher in CSSLs 495 than in Zhoumai 18 during the seed imbibition treatment. The cDNA sequencing results of TraesCS3D01G466100 showed two single nucleotide polymorphisms (SNPs), resulting in two changed amino acid substitutions between Zhoumai 18 and line 495, and the 148 nt amino acid substitution of TraesCS3D01G466100, derived from Ae. tauschii T093, which may play an important role in the functioning of ubiquitin ligase enzymes 3 (E3) according to the homology protein analysis, which could lead to differential PHS-resistance phenotypes. Taken together, our results may foster a better understanding of the mechanism of PHS resistance and are potentially valuable for marker-assisted selection in practical wheat breeding efforts.

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“…Identification of PHS resistance genes is very important to wheat breeding (Shao et al, 2018;Jiang et al, 2018). Many of these genes are linked to hormonal signaling, abscisic acid and gibberellic acid mainly.…”

Section: Introductionmentioning

confidence: 99%

Grain Yield and Its Associations With Pre-harvest Sprouting in Wheat

Rigatti¹,

Meira²,

Olivoto³

et al. 2019

JAS

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This study aimed to evaluate direct and indirect effects of agronomic traits importance on grain yield with focus in pre-harvest sprouting. Experiment was conducted in 2017 crop season, and conducted in a randomized block design, with three replications, with eight wheat cultivars (BRS Sábia, CD 105, CD 1104, CD 1440, Frontana, Jadeíte 11, Mirante and ORS Vintecinco). Grain yield and its components were evaluated, as well as other important traits such as pre-harvest sprouting. Data were submitted to variance analysis; and phenotypic, genotypic and environmental correlations were estimated to understand grain yield expression, direct and indirect effects of its components were evaluated through path analysis. Cultivar BRS Sabiá showed shorter cycle, cultivar CD 1104 was highlighted in number of spikes per area, hectoliter weight and grain yield. And cultivars Frontana, CD 1440 and ORS Vintecinco presented the best tolerances pre-harvest sprouting. Grain yield showed high and positive phenotypic and genotypic correlations with number of ears per square meter. Furthermore, high positive direct effect of pre-harvest sprouting on grain yield, revels lower tolerance for cultivars with high grain yield. Number of spikes per square meter showed intermediate and positive direct effect and pre-harvest sprouting had the greatest direct effect on grain yield.

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A novel 33-bp insertion in the promoter of TaMFT-3A is associated with pre-harvest sprouting resistance in common wheat

Cited by 20 publications

References 48 publications

Identification and Analysis of the GASR Gene Family in Common Wheat (Triticum aestivum L.) and Characterization of TaGASR34, a Gene Associated With Seed Dormancy and Germination

Identification and Analysis of the GASR Gene Family in Common Wheat (Triticum aestivum L.) and Characterization of TaGASR34, a Gene Associated With Seed Dormancy and Germination

Identification of QTLs and a Candidate Gene for Reducing Pre-Harvest Sprouting in Aegilops tauschii–Triticum aestivum Chromosome Segment Substitution Lines

Grain Yield and Its Associations With Pre-harvest Sprouting in Wheat

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