Identification of genetic loci and a candidate gene related to flag leaf traits in common wheat by genome-wide association study and linkage mapping

Yan, Xuefang; Zhao, Lei; Ren, Yan; Zhang, Ning; Dong, Zhongdong; Chen, Feng

doi:10.1007/s11032-020-01135-7

Cited by 17 publications

(17 citation statements)

References 46 publications

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“…QFLW-1A mapped between Excalibur_c9662_70 and Tdurum_contig44112_1609 and was physically located between 102.14 and 556.49 Mb on chromosome 1A. It overlapped with QFLW-1A , which mapped to 511.45 Mb ( Yan et al, 2020 ). QFLW-6A.1 overlapped with QFlw.sicau-6A.2 as reported by Ma et al (2020) and was close to QFLW-6A ( Yan et al, 2020 ).…”

Section: Discussionmentioning

confidence: 99%

“…It overlapped with QFLW-1A , which mapped to 511.45 Mb ( Yan et al, 2020 ). QFLW-6A.1 overlapped with QFlw.sicau-6A.2 as reported by Ma et al (2020) and was close to QFLW-6A ( Yan et al, 2020 ). QFLW-7A.1 overlapped with a genetic region reported by Yang et al (2016) .…”

Section: Discussionmentioning

confidence: 99%

“…A total of 43 QTL for traits related to flag leaves and yield were identified using four RIL populations ( Hu et al, 2020 ). Using the wheat 90K SNP array and both genome-wide association study (GWAS) analysis and bi-parental linkage mapping, 23 QTL regulating flag-leaf-related traits were detected ( Yan et al, 2020 ). Eight stable QTL in six populations were reported by using a 55K SNP array and SSR markers ( Ma et al, 2020 ) and eight major QTL were identified in 11 environments ( Tu et al, 2021 ).…”

Section: Introductionmentioning

confidence: 99%

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Identification of genetic loci for flag-leaf-related traits in wheat (Triticum aestivum L.) and their effects on grain yield

et al. 2022

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Flag-leaf-related traits including length (FLL), width (FLW), area (FLA), thickness (FLT), and volume (FLV) of flag leaves are the most important determinants of plant architecture and yield in wheat. Understanding the genetic basis of these traits could accelerate the breeding of high yield wheat varieties. In this study, we constructed a doubled haploid (DH) population and analyzed flag-leaf-related traits in five experimental locations/years using the wheat 90K single-nucleotide polymorphism array. It’s worth noting that a novel method was used to measure FLT and FLV easily. Leaf thickness at two-thirds of the leaf length from tip to collar represented the average leaf thickness as measured with freehand sections and was used to calculate the leaf volume. In addition, flag-leaf-related traits showed positive correlations with yield related traits under two different water regimes. A total of 79 quantitative trait loci (QTL) controlling the five traits were detected among all chromosomes except 4D and 5A, explaining 3.09–14.52% of the phenotypic variation. Among them, 15 stable QTL were identified in more than three environments, including two major QTL for FLT, six for FLW, three for FLA, two for FLT and two for FLV. DH lines with positive alleles at both QTL regions had an average FLL (9.90%), FLW (32.87%), FLT (6.62%), FLA (18.47%), and FLV (20.87%) greater than lines with contrasting alleles. QFLT-2B, QFLV-2A, and QFLV-7D were co-located with yield-related traits. The 15 QTL were validated by tightly linked kompetitive allele specific PCR (KASP) markers in a recombinant inbred line (RIL) population derived from a different cross. QFLL-4A, QFLW-4B, QFLA-5D.1, QFLA-7A, QFLA-7D.1, QFLT-2B, QFLT-6A, QFLV-2A, and QFLV-7D are likely novel loci. These results provide a better understanding of the genetic basis underlying flag-leaf-related traits. Also, target regions for fine mapping and marker-assisted selection were identified and these will be valuable for breeding high yielding bread wheat.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Identification of genetic loci for flag-leaf-related traits in wheat (Triticum aestivum L.) and their effects on grain yield

et al. 2022

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“…Using public databases such as China National Knowledge Infrastructure (CNKI, https:// www.cnki.net/), National Center for Biotechnology Information (NCBI, https://www.ncbi. nlm.nih.gov/) and Google Scholar (https://scholar.google.com/), 26 papers about QTL mapping for flag leaf length, width, area, length-width ratio and angle in wheat from 2010 to PLOS ONE concerned year were collected [17][18][19][20][21][22][44][45][46][47][48][49][50][51][52][53][54][55][56][57][58][59][60][61][62][63]. The information including population type and number, molecular marker type, LOD value, contribution rate and confidence interval was summarized in Table 1.…”

Section: Collection Of Qtl For Wheat Flag Leaf Morphological Traitsmentioning

confidence: 99%

Genome-wide meta-analysis of QTL for morphological related traits of flag leaf in bread wheat

Jia²,

Islam³

et al. 2022

PLoS ONE

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Flag leaf is an important organ for photosynthesis of wheat plants, and a key factor affecting wheat yield. In this study, quantitative trait loci (QTL) for flag leaf morphological traits in wheat reported since 2010 were collected to investigate the genetic mechanism of these traits. Integration of 304 QTLs from various mapping populations into a high-density consensus map composed of various types of molecular markers as well as QTL meta-analysis discovered 55 meta-QTLs (MQTL) controlling morphological traits of flag leaves, of which 10 MQTLs were confirmed by GWAS. Four high-confidence MQTLs (MQTL-1, MQTL-11, MQTL-13, and MQTL-52) were screened out from 55 MQTLs, with an average confidence interval of 0.82 cM and a physical distance of 9.4 Mb, according to the definition of hcMQTL. Ten wheat orthologs from rice (7) and Arabidopsis (3) that regulated leaf angle, development and morphogenesis traits were identified in the hcMQTL region using comparative genomics, and were speculated to be potential candidate genes regulating flag leaf morphological traits in wheat. The results from this study provides valuable information for fine mapping and molecular markers assisted selection to improve morphological characters in wheat flag leaf.

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“…Different stages occur during the development of a flag leaf, each with its specific function. Flag leaves provide the storage organs with photosynthetic products ( Yan et al, 2020 ); hence, it becomes necessary to identify candidate genes associated with different stages of flag leaf development. The synergy of leaf development and environmental factors results in the complex trait of natural senescence ( Liu et al, 2016 ).…”

Section: Introductionmentioning

confidence: 99%

Structural and functional insights into the candidate genes associated with different developmental stages of flag leaf in bread wheat (Triticum aestivum L.)

et al. 2022

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Grain yield is one of the most important aims for combating the needs of the growing world population. The role of development and nutrient transfer in flag leaf for higher yields at the grain level is well known. It is a great challenge to properly exploit this knowledge because all the processes, starting from the emergence of the flag leaf to the grain filling stages of wheat (Triticum aestivum L.), are very complex biochemical and physiological processes to address. This study was conducted with the primary goal of functionally and structurally annotating the candidate genes associated with different developmental stages of flag leaf in a comprehensive manner using a plethora of in silico tools. Flag leaf-associated genes were analyzed for their structural and functional impacts using a set of bioinformatics tools and algorithms. The results revealed the association of 17 candidate genes with different stages of flag leaf development in wheat crop. Of these 17 candidate genes, the expression analysis results revealed the upregulation of genes such as TaSRT1-5D, TaPNH1-7B, and TaNfl1-2B and the downregulation of genes such as TaNAP1-7B, TaNOL-4D, and TaOsl2-2B can be utilized for the generation of high-yielding wheat varieties. Through MD simulation and other in silico analyses, all these proteins were found to be stable. Based on the outcome of bioinformatics and molecular analysis, the identified candidate genes were found to play principal roles in the flag leaf development process and can be utilized for higher-yield wheat production.

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Identification of genetic loci and a candidate gene related to flag leaf traits in common wheat by genome-wide association study and linkage mapping

Cited by 17 publications

References 46 publications

Identification of genetic loci for flag-leaf-related traits in wheat (Triticum aestivum L.) and their effects on grain yield

Identification of genetic loci for flag-leaf-related traits in wheat (Triticum aestivum L.) and their effects on grain yield

Genome-wide meta-analysis of QTL for morphological related traits of flag leaf in bread wheat

Structural and functional insights into the candidate genes associated with different developmental stages of flag leaf in bread wheat (Triticum aestivum L.)

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