TaTGW6-A1, an ortholog of rice TGW6, is associated with grain weight and yield in bread wheat

Hanif, Mamoona; Gao, Fengjie; Liu, Jindong; Wen, Weie; Zhang, Yingjun; Rasheed, Awais; Xia, Xianchun; He, Zhonghu; Cao, Shuanghe

doi:10.1007/s11032-015-0425-z

Cited by 159 publications

(70 citation statements)

References 36 publications

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“…Therefore, the two ‘93-11’ Rf genes associated with BT-type CMS are Rf5 and Rf6 . Indeed, rice breeding experiments have revealed similarities in the restoration and maintenance relationship between BT-type CMS and HL-type CMS (Li et al 2007; Zhang et al 2016), consistent with the mapping results of this study.…”

Section: Discussionsupporting

confidence: 91%

Ability of Rf5 and Rf6 to Restore Fertility of Chinsurah Boro II-type Cytoplasmic Male Sterile Oryza Sativa (ssp. Japonica) Lines

Zhang

Jianlan

Yan

et al. 2017

Rice

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BackgroundThree-line Oryza sativa (ssp. japonica) hybrids have been developed mainly using Chinsurah Boro II (BT)-type cytoplasmic male sterility (CMS). The Rf1 gene restores the fertility of BT-type CMS lines, and is the only fertility restorer gene (Rf) that has been used to produce three-line japonica hybrids. Using more Rf genes to breed BT-type restorer lines may broaden the genetic diversity of the restorer lines, and represents a viable approach to improve the heterosis level of BT-type japonica hybrids.ResultsWe identified two major Rf genes from ‘93-11’ that are involved in restoring the fertility of BT-type CMS plants. These genes were identified from resequenced chromosome segment substitution lines derived from a cross between the japonica variety ‘Nipponbare’ and the indica variety ‘93-11’. Molecular mapping results revealed that these genes were Rf5 and Rf6, which are the Rf genes that restore fertility to Honglian-type CMS lines. The BT-type F1 hybrids with either Rf5 or Rf6 exhibited normal seed setting rates, but F1 plants carrying Rf6 showed more stable seed setting rates than those of plants carrying Rf5 under heat-stress conditions. Furthermore, the seed setting rates of F1 hybrids carrying both Rf5 and Rf6 were more stable than that of F1 plants carrying only one Rf gene.Conclusion Rf6 is an important genetic resource for the breeding of BT-type japonica restorer lines. Our findings may be useful for breeders interested in developing BT-type japonica hybrids.Electronic supplementary materialThe online version of this article (doi:10.1186/s12284-017-0142-9) contains supplementary material, which is available to authorized users.

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Section: Discussionsupporting

confidence: 91%

Ability of Rf5 and Rf6 to Restore Fertility of Chinsurah Boro II-type Cytoplasmic Male Sterile Oryza Sativa (ssp. Japonica) Lines

Zhang

Jianlan

Yan

et al. 2017

Rice

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“…This process gradually integrates superior genetic variation to protect wheat from various diseases or stresses and increases or improves wheat yield and quality (Rasheed et al , 2018; Tabbita et al , 2017). The genetic basis of high yield in modern cultivars has been revealed to be due to the pyramiding of the superior alleles of major genes, such as the vernalization response gene (Chen et al , 2013), photoperiod response gene (Würschum et al , 2018) and kernel size genes (Hanif et al , 2015; Hou et al , 2014; Ma et al , 2016; Wang et al , 2015, 2016), which have been positively selected in traditional breeding programs. However, there is little scope for the further integration of major genes by traditional breeding.…”

Section: Introductionmentioning

confidence: 99%

The Wheat 660K SNP array demonstrates great potential for marker‐assisted selection in polyploid wheat

Sun

Dong

Zhao

et al. 2020

Plant Biotechnology Journal

202

109

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Keywords: wheat, marker-assisted breeding, single-nucleotide polymorphisms, Axiomâ Wheat 660K SNP array, Illumina Wheat 90K iSelect SNP genotyping array. AbstractThe rapid development and application of molecular marker assays have facilitated genomic selection and genome-wide linkage and association studies in wheat breeding. Although PCRbased markers (e.g. simple sequence repeats and functional markers) and genotyping by sequencing have contributed greatly to gene discovery and marker-assisted selection, the release of a more accurate and complete bread wheat reference genome has resulted in the design of single-nucleotide polymorphism (SNP) arrays based on different densities or application targets. Here, we evaluated seven types of wheat SNP arrays in terms of their SNP number, distribution, density, associated genes, heterozygosity and application. The results suggested that the Wheat 660K SNP array contained the highest percentage (99.05%) of genome-specific SNPs with reliable physical positions. SNP density analysis indicated that the SNPs were almost evenly distributed across the whole genome. In addition, 229 266 SNPs in the Wheat 660K SNP array were located in 66 834 annotated gene or promoter intervals. The annotated genes revealed by the Wheat 660K SNP array almost covered all genes revealed by the Wheat 35K (97.44%), 55K (99.73%), 90K (86.9%) and 820K (85.3%) SNP arrays. Therefore, the Wheat 660K SNP array could act as a substitute for other 6 arrays and shows promise for a wide range of possible applications. In summary, the Wheat 660K SNP array is reliable and cost-effective and may be the best choice for targeted genotyping and marker-assisted selection in wheat genetic improvement.1354

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“…[23] revised the ‘02–12’ reference genome assembly when they mapped clubroot resistance QTLs using genotyping-by-sequencing; new positions for 27 v-blocks and 10 s-blocks and several inversions of some alphabetically named blocks in reference genome ‘02–12’ and two mis-anchored sequence scaffolds in reference genome ‘TO1000’ were identified. In addition, Liu et al [15] found possible assembly errors in ‘02–12’ while mapping a yellow-green leaf mutant.…”

Section: Discussionmentioning

confidence: 99%

“…To date, many genes/QTLs have been mapped in Brassica oleracea using InDel markers, including the Fusarium wilt resistance gene FOC1 [12, 13], the petal color gene cpc-1 [14], the yellow-green gene ygl-1 [15], and QTLs associated with heading traits [16], head-splitting resistance [17, 18], Diamondback ( Plutella xylostella ) moth resistance [19], and resistance to diseases such as Sclerotinia sclerotiorum [20], black rot [21, 22], and clubroot [23]. …”

Section: Introductionmentioning

confidence: 99%

Genetics and fine mapping of a purple leaf gene, BoPr, in ornamental kale (Brassica oleracea L. var. acephala)

Gao

Han

et al. 2017

BMC Genomics

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BackgroundDue to its variegated and colorful leaves, ornamental kale (Brassica oleracea L. var. acephala) has become a popular ornamental plant. In this study, we report the fine mapping and analysis of a candidate purple leaf gene using a backcross population and an F2 population derived from two parental lines: W1827 (with white leaves) and P1835 (with purple leaves).ResultsGenetic analysis indicated that the purple leaf trait is controlled by a single dominant gene, which we named BoPr. Using markers developed based on the reference genome ‘02–12’, the BoPr gene was preliminarily mapped to a 280-kb interval of chromosome C09, with flanking markers M17 and BoID4714 at genetic distances of 4.3 cM and 1.5 cM, respectively. The recombination rate within this interval is almost 12 times higher than the usual level, which could be caused by assembly error for reference genome ‘02–12’ at this interval. Primers were designed based on ‘TO1000’, another B. oleracea reference genome. Among the newly designed InDel markers, BRID485 and BRID490 were found to be the closest to BoPr, flanking the gene at genetic distances of 0.1 cM and 0.2 cM, respectively; the interval between the two markers is 44.8 kb (reference genome ‘TO1000’). Seven annotated genes are located within the 44.8 kb genomic region, of which only Bo9g058630 shows high homology to AT5G42800 (dihydroflavonol reductase), which was identified as a candidate gene for BoPr. Blast analysis revealed that this 44.8 kb interval is located on an unanchored scaffold (Scaffold000035_P2) of ‘02–12’, confirming the existence of assembly error at the interval between M17 and BoID4714 for reference genome ‘02–12’.ConclusionsThis study identified a candidate gene for BoPr and lays a foundation for the cloning and functional analysis of this gene.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-017-3613-x) contains supplementary material, which is available to authorized users.

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TaTGW6-A1, an ortholog of rice TGW6, is associated with grain weight and yield in bread wheat

Cited by 159 publications

References 36 publications

Ability of Rf5 and Rf6 to Restore Fertility of Chinsurah Boro II-type Cytoplasmic Male Sterile Oryza Sativa (ssp. Japonica) Lines

Ability of Rf5 and Rf6 to Restore Fertility of Chinsurah Boro II-type Cytoplasmic Male Sterile Oryza Sativa (ssp. Japonica) Lines

The Wheat 660K SNP array demonstrates great potential for marker‐assisted selection in polyploid wheat

Genetics and fine mapping of a purple leaf gene, BoPr, in ornamental kale (Brassica oleracea L. var. acephala)

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