Fine mapping qGL2H, a major locus controlling grain length in barley (Hordeum vulgare L.)

Watt, Calum; Zhou, Gaofeng; McFawn, Lee-Anne; Li, Chengdao

doi:10.1007/s00122-020-03579-z

Cited by 19 publications

(21 citation statements)

References 52 publications

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“…Among the four identified significant QTL for GL, QGl.NaTX-2H and QGl.NaTx-3H were less affected by environments and determined a large percentage (29.8% and 21.9%, respectively) of phenotypic variation ( Table 3 ). A major QTL for GL have been reported on 2H from the cross of Vlaminh and Buloke which is located at 70-80 cM in one report ( Walker et al, 2013 ) but at 159–179 cM in another report ( Watt et al, 2019 ) which is further fine mapped to a 140.9 Kb interval ( Watt et al, 2020 ). The QTL are apparently different from our major QTL on 2H for GL which was located at 10.02 cM ( Table 3 ).…”

Section: Discussionmentioning

confidence: 99%

“…ABC transporters play critical roles in plant growth and development, especially for the development of specialized plant cells ( Do, Martinoia & Lee, 2018 ) and regulation of root cell growth ( Larsen et al, 2007 ). MYB transcription factor is also proposed to be the candidate for GL ( Watt et al, 2020 ). It is linked with cell growth and seed production through interacting with plant hormones, playing roles in sperm-cell, stamen development, cotton fibre and even stomatal cell divisions ( Lai et al, 2005 ; Rotman et al, 2005 ; Pu et al, 2008 ; Zhang et al, 2010 ).…”

Section: Discussionmentioning

confidence: 99%

“…qGL5H has been fine mapped to a 1.7 Mb interval comprising of 23 candidate genes related to grain sizes ( Watt et al, 2019 ). By employing the same material, qGL2H was fine mapped to a 140.9 Kb interval and a gene that encodes a MYB transcription factor is likely the candidate for this QTL ( Watt et al, 2020 ). Genome-wide association studies (GWAS) have also been successfully used in mapping grain size related QTL in sorghum ( Tao et al, 2020 ), rice ( Ma et al, 2019 ) and Wild Wheat Aegilops tauschii ( Arora et al, 2017 ).…”

Section: Introductionmentioning

confidence: 99%

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Identification of QTL for barley grain size

Wang

Yue

et al. 2021

PeerJ

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Background Barley grain size is one of the key factors determining storage capacity during grain filling. Large, well-filled grains also have a high malt extract potential. Grain size is a complex quantitative trait and can be easily affected by environmental factors thus the identification of genes controlling the trait and the use of molecular markers linked to the genes in breeding program is the most effective way of improving grain size. Methods Grain sizes of 188 doubled-haploid (DH) lines derived from the cross of a Japanese malting barley variety (Naso Nijo) and a Chinese feed barley variety (TX9425) were obtained from three different sites in two consecutive years. The average data were used for identifying QTL for grain size. Results A total of four significant QTL were identified for grain length (GL) and three for grain width (GW). The two major GL QTL are located at similar positions to the QTL for malt extract on 2H and uzu gene on 3H, respectively. However, the GL QTL on 2H is more likely a different one from the malt extract QTL as most of the candidate genes are located outside the fine mapped QTL region for malt extract. The GL QTL on 3H is closely linked with uzu gene but not due to a pleiotropic effect of uzu. The three QTL for grain width on 1H, 2H and 5H, respectively, were located at same position to those for GL.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Identification of QTL for barley grain size

Wang

Yue

et al. 2021

PeerJ

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“…The subsequent sequencing results showed that the same single base insertion was found in the CDS of parent GP, which revealed the identity of qGL5/qTGW5 and HvDEP1. In addition, through different populations, several major QTLs for GL have been mapped on chromosome 2, 3, 4, 5, 6, and 7H, and no major QTL was found on chromosome 1H (Walker et al, 2013;Zhou et al, 2016;Watt et al, 2019Watt et al, , 2020. So, qGL1 should be an unreported new QTL for GL.…”

Section: Discussionmentioning

confidence: 99%

A High-Density Genetic Linkage Map of SLAFs and QTL Analysis of Grain Size and Weight in Barley (Hordeum vulgare L.)

Fang

Zhang

et al. 2020

Front. Plant Sci.

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Grain size is an important agronomic trait determines yield in barley, and a high-density genetic map is helpful to accurately detect quantitative trait loci (QTLs) related to grain traits. Using specific-locus amplified fragment sequencing (SLAF-seq) technology, a high-density genetic map was constructed with a population of 134 recombinant inbred lines (RILs) deriving from a cross between Golden Promise (GP) and H602, which contained 12,635 SLAFs with 26,693 SNPs, and spanned 896.74 cM with an average interval of 0.07 cM on seven chromosomes. Based on the map, a total of 16 QTLs for grain length (GL), grain width and thousand-grain weight were detected on 1H, 2H, 4H, 5H, and 6H. Among them, a major QTL locus qGL1, accounting for the max phenotypic variance of 16.7% was located on 1H, which is a new unreported QTL affecting GL. In addition, the other two QTLs, qGL5 and qTGW5, accounting for the max phenotypic variances of 20.7 and 21.1%, respectively, were identified in the same region, and sequencing results showed they are identical to HvDep1 gene. These results indicate that it is a feasible approach to construct a high-quality genetic map for QTL mapping by using SLAF markers, and the detected major QTLs qGL1, qGL5, and qTGW5 are useful for marker-assisted selection (MAS) of grain size in barley breeding.

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“…The consistent relationship between the promotor polymorphism and grain length across environments, showing a stable influence of promoter polymorphism, indicates that grain length is much less influenced by environment than is TGW. This is unsurprising given grain length has high heritability compared with TGW, which is controlled by several interrelated factors not exclusive of grain size (Avni et al 2018;Roy and Shil 2020;Watt et al 2020). However, the positive correlations between grain length and TGW suggest that this polymorphism would still be useful for MAS improvement of TGW, and hence grain yield, which typically has much lower heritability.…”

Section: Discussionmentioning

confidence: 99%

A novel polymorphism in the 5′ UTR of HvDEP1 is associated with grain length and 1000-grain weight in barley (Hordeum vulgare)

et al. 2020

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The gene HvDEP1, on barley (Hordeum vulgare L.) chromosome 5H, encodes a γ-subunit of the heterotrimeric G-protein complex and was previously determined to be a candidate gene underlying a major quantitative trait locus for grain length. In the present study, we identified a 9 bp indel (insertion–deletion mutation) at position –84 bp from the start codon within a reported upstream open reading frame located in the 5′ UTR (untranslated region) and developed a diagnostic molecular marker. We also identified a 13 bp indel (–514 bp) in linkage disequilibrium that bridges an important regulatory motif. Using a doubled-haploid population and a barley diversity panel, we were able to show that the effects of these indels were environmentally stable and consistently delineated phenotypic groups based on grain length and 1000-grain weight. Genotypes represented by deletions at these two positions relative to the reference cv. Morex had consistently shorter grains, by 3.69–3.96%, and lower 1000-grain weight, by 2.38–4.21%, in a doubled-haploid population studied. Additionally, a diversity panel was tested but consistent differences were observed only for grain length, reinforcing literature indicating the importance of this gene for grain-length regulation. The frequency of the longer and heavier grained reference allele was higher in modern cultivars, suggesting that indirect selection for longer grain may have occurred through direct selection for grain yield via grain-weight improvement. These results indicate that grain length and 1000-grain weight in barley can be manipulated by targeting variation in gene promoters through marker-assisted selection.

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Fine mapping qGL2H, a major locus controlling grain length in barley (Hordeum vulgare L.)

Cited by 19 publications

References 52 publications

Identification of QTL for barley grain size

Identification of QTL for barley grain size

A High-Density Genetic Linkage Map of SLAFs and QTL Analysis of Grain Size and Weight in Barley (Hordeum vulgare L.)

A novel polymorphism in the 5′ UTR of HvDEP1 is associated with grain length and 1000-grain weight in barley (Hordeum vulgare)

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