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

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Abstract

The TGW6 gene encodes a novel indole-3-acetic acid-glucose hydrolase and plays a significant role in improving thousand grain weight (TGW) and yield in rice. In the current study, a TGW6 ortholog from bread wheat chromosome 3AL was isolated and designated as TaTGW6-A1. Sequencing and alignment analysis showed that the cloned TaTGW6-A1 consists of a 987-bp intronless open reading frame. Three single-nucleotide polymorphisms (SNPs) were identified between cultivars with higher and lower TGW, forming two haplotypes, TaTGW6-A1a and TaTGW6-A1b. A derived cleaved amplified polymorphic sequence marker, TaTGW6-A1-CAPS, was developed to differentiate the two haplotypes. Linkage analysis using the wheat 90K iSelect SNP array mapped TaTGW6-A1-CAPS at 18 cM from BobWhite_c47304_56 in a RIL population derived from Zhou 8425B/Chinese Spring. A QTL for yield at the TaTGW6-A1 locus explained 17.4 % of the phenotypic variance in average yield over four environments. Association analysis on 242 Chinese and foreign cultivars indicated that TaTGW6-A1 was significantly associated with TGW. The cumulative frequency of the TaTGW6-A1a allele associated with higher TGW was approximately 80 %, indicating that the TaTGW6-A1a allele was positively selected in wheat breeding. In conclusion, TaTGW6-A1 in conjunction with its molecular marker may contribute as a valuable gene in improving yield potential in wheat.

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Acknowledgments

This work was supported by Beijing Municipal Science and Technology Project (D151100004415003), National Natural Science Foundation of China (31161140346, 31461143021 and 31571663) and The National High Technology Research and Development Program of China (2012AA101105).

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Authors and Affiliations

  1. Institute of Crop Science, National Wheat Improvement Center, Chinese Academy of Agricultural Sciences (CAAS), 12 Zhongguancun South Street, Beijing, 100081, China

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

  2. Keshan Agricultural Research Institute, Heilongjiang Academy of Agricultural Sciences, Keshan, 161600, China

    Fengmei Gao

  3. International Maize and Wheat Improvement Center (CIMMYT), c/o CAAS, 12 Zhongguancun South Street, Beijing, 100081, China

    Awais Rasheed & Zhonghu He

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  1. Mamoona Hanif
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  2. Fengmei Gao
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  3. Jindong Liu
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  4. Weie Wen
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  5. Yingjun Zhang
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  6. Awais Rasheed
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  7. Xianchun Xia
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  8. Zhonghu He
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  9. Shuanghe Cao
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Corresponding authors

Correspondence to Zhonghu He or Shuanghe Cao.

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Fig. S1

Alignment of cloned sequences for TaTGW6-A1, TaTGW6-B1, TaTGW6-D1 and AeTGW6. AeTGW 6 is the TGW6 ortholog from Aegilops tauschii. The premature stop codon in TaTGW6-D1 is boxed (PNG 140 kb)

Fig. S2

Alignment for amino acid sequences predicted from OsTGW6 and the cloned TaTGW6 genes with putative complete ORFs. Location of the premature stop codon in TaTGW6-D1 is shown by an arrow. The putative complete ORFs of TaTGW6 genes were predicted based on joining cloned sequences and their online reference sequences, IWGSC_CSS_3AL_scaff_4318491, IWGSC_CSS_3B_scaff_10632757 and Aegilops tauschii scaffold 4428 (3D), respectively (ENA: http://www.ebi.ac.uk/ena) (PNG 107 kb)

Fig. S3

PCR amplification of CS nulli-tetrasomic lines with the primer set TaTGW6-A1-CAPS-F1, TaTGW6-A1-CAPS-R1. No amplification was observed in CSN3A-T3B and CSN3A-T3D, but other nulli-tetrasomics generated the expected fragment, indicating that the functional marker was located on wheat chromosome 3A. M: DL2000; 1: CSN3A-T3B; 2: CSN3A-T3D; 3: CSN5A-T5B; 4: CSN5A-T5D; 5: CSN1B-T1A; 6: CSN1B-T1D; 7: CSN4B-T4D (PNG 60 kb)

Fig. S4

LOD contours obtained by inclusive composite interval mapping for a yield QTL in the Zhou 8425B/Chinese Spring RIL population (PNG 151 kb)

Table S1

Supplementary material 5 (DOC 539 kb)

Table S2

Supplementary material 6 (DOC 17 kb)

Table S3

Supplementary material 7 (DOC 40 kb)

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Hanif, M., Gao, F., Liu, J. et al. TaTGW6-A1, an ortholog of rice TGW6, is associated with grain weight and yield in bread wheat. Mol Breeding 36, 1 (2016). https://doi.org/10.1007/s11032-015-0425-z

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