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Acta Agronomica Sinica ›› 2023, Vol. 49 ›› Issue (4): 906-916.doi: 10.3724/SP.J.1006.2023.21029

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• CROP GENETICS & BREEDING · GERMPLASM RESOURCES · MOLECULAR GENETICS • Previous Articles     Next Articles

Transcription factor TaMYB5-3B is associated with plant height and 1000- grain weight in wheat

ZHU Zhi1,2(), LI Long2, LI Chao-Nan2, MAO Xin-Guo2, HAO Chen-Yang2, ZHU Ting2, WANG Jing-Yi2,*(), CHANG Jian-Zhong1,*(), JING Rui-Lian2   

  1. 1Shanxi Institute of Organic Dryland Farming, Shanxi Key Laboratory of Organic Dry Farming, State Key Laboratory of Integrative Sustainable Dryland Agriculture (in Preparation), Shanxi Agricultural University, Taiyuan 030031, Shanxi, China
    2Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
  • Received:2022-04-21 Accepted:2022-07-21 Online:2023-04-12 Published:2022-08-29
  • Contact: *E-mail: cjzyfx@163.com;E-mail: wangjingyi@caas.cn
  • Supported by:
    State Key Laboratory of Integrative Sustainable Dryland Agriculture, the Shanxi Agricultural University(202105D121008-2-7);China Agriculture Research System of MOF and MARA(Wheat, CARS-03)

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Abstract:

MYB transcription factor plays an important role in plant growth and development. In this study, we cloned TaMYB5-3B gene on chromosome 3B in wheat. The full-length genome sequence is 3005 bp, including 2112 bp promoter region and 893 bp coding region. TaMYB5-3B coding region consists of two exons and one intron, which encodes a R2R3-MYB protein. The polymorphism of TaMYB5-3B was analyzed by sequencing 32 wheat accessions with wide variations. A total of eight SNPs were detected at -2048, -1632, -1178, -1156, -504, -461, -433, and 61 bp, respectively. They were eight SNPs linked by G/A conversion, G/A conversion, G/A conversion, T/C conversion, C/T conversion, A deletion, T deletion and T/A inversion, respectively. A pair of molecular markers were developed based on the promoter region SNP-1632 to detect the genotypes of wheat natural population. The association analysis of genotype and phenotypic traits showed that TaMYB5-3B was significantly associated with plant height (PH), peduncle length (PLE), and 1000-grain weight (TGW). Two haplotypes (Hap-3B-1 and Hap-3B-2) were detected in the population, in which Hap-3B-2 was an excellent haplotype with short PH and high TGW. Hap-3B-2 had been positively selected in the breeding, and its frequency in modern cultivars gradually increased with the advance of breeding years in China. Therefore, TaMYB5-3B could be used to further understand the mechanism of wheat plant height and grain yield formation, and its molecular markers may contribute to ideal plant architecture and grain yield breeding of wheat.

Key words: molecular markers, plant height, 1000-grain weight, haplotype, association analysis, wheat

Table 1

Information of 32 highly diverse wheat accessions"

序号
Number		 材料
Accession name		 来源
Origin
1 安85中124-1 An 85 Zhong 124-1 中国北京Beijing, China
2 北京10号 Beijing 10 中国北京Beijing, China
3 北京14号 Beijing 14 中国北京Beijing, China
4 北京8686 Beijing 8686 中国北京Beijing, China
5 单R8093 Dan R8093 中国北京Beijing, China
6 丰抗13 Fengkang 13 中国北京Beijing, China
7 京411 Jing 411 中国北京Beijing, China
8 京核8922 Jinghe 8922 中国北京Beijing, China
9 京品10号 Jingpin 10 中国北京Beijing, China
10 04-030 中国北京Beijing, China
11 04-044 中国北京Beijing, China
12 晋2148-7 Jin 2148-7 中国福建Fujian, China
13 白齐麦 Baiqimai 中国甘肃Gansu, China
14 霸王鞭 Bawangbian 中国河北Hebei, China
15 沧州小麦 Cangzhouxiaomai 中国河北Hebei, China
16 冀麦6号 Jimai 6 中国河北Hebei, China
17 冀麦41 Jimai 41 中国河北Hebei, China
18 白糙麦 Baicaomai 中国河南Henan, China
19 内乡188 Neixiang 188 中国河南Henan, China
20 偃展1号 Yanzhan 1 中国河南Henan, China
21 紫杆白芒先 Ziganbaimangxian 中国河南Henan, China
22 昌乐5号 Changle 5 中国山东Shandong, China
23 长6878 Chang 6878 中国山西Shanxi, China
24 红和尚 Hongheshang 中国山西Shanxi, China
25 临抗5108 Linkang 5108 中国山西Shanxi, China
26 长武131 Changwu 131 中国陕西Shaanxi, China
27 大荔1号 Dali 1 中国陕西Shaanxi, China
28 中国春 Chinese Spring 中国四川Sichuan, China
29 9th-5-1 国际玉米小麦改良中心CIMMYT
30 9th-25 国际玉米小麦改良中心CIMMYT
31 9th-50-1 国际玉米小麦改良中心CIMMYT
32 PANDAS 意大利Italy

Table 2

Primers used in this study"

引物名称
Primer name		 引物序列
Primer sequence (5'-3')		 试验目的
Experimental purpose
TaMYB5-3B-F1 GCCAGATCCGTCAAGCAATTCATGT 克隆基因编码区 Cloning gene coding region
TaMYB5-3B-R1 GCAACGTTTCCCAACATGTGTGC 克隆基因编码区 Cloning gene coding region
TaMYB5-3B-F2 GCAAACGAGGGCTGAATACCAATCA 克隆基因启动子区 Cloning gene coding region
TaMYB5-3B-R2 ATGTTGCCGGAGCTCATCCACTA 克隆基因启动子区/测序 Cloning gene coding region
TaMYB5-3B-dCAPS-F ACCAACTACTTTGGGGGTGCAGA dCAPS分子标记 dCAPS molecular markers
TaMYB5-3B-dCAPS-R GCAACGTTTCCCAACATGTGTGC dCAPS分子标记 dCAPS molecular markers
TaMYB5-3B-cDNA-F GCCAGATCCGTCAAGCAATTCATGT 克隆cDNA/测序 Cloning cDNA/sequencing
TaMYB5-3B-cDNA-R TCTCAGTCTCAGAAAAAGCGTCCGA 克隆cDNA/测序 Cloning cDNA/sequencing
TaMYB-3B-seq-R CAACATGTGGCGTGAGTTCCTCTC 测序 Sequencing
TaMYB-3B-seq-F GAGAGGAACTCACGCCACATGTTG 测序 Sequencing

Fig. 1

Sequence alignment and relationship of TaMYB5 protein A: TaMYB5 sequence alignment. The R2 and R3 structure domains are marked with black underlines; B: phylogenetic tree of TaMYB5 proteins. TaMYB5-3B is marked with a red dot. Ta: Triticum aestivum; Td: Triticum dicoccoides; Hv: Hordeum vulgare; Bd: Brachypodium distachyon; Sb: Sorghum bicolor; Zm: Zea mays; Si: Setaria italica; Ph: Panicum hallii; Pv: Panicum virgatum; Ob: Oryza brachyantha; Os: Oryza sativa."

Fig. 2

Nucleotide polymorphism and molecular marker development of TaMYB5-3B A: the schematic diagram and polymorphism sites of TaMYB5-3B. Red letter indicates the SNP that is designed for molecular marker. B: the development of the molecular marker dCAPS-1632, red rectangle and dot represent an introduction of the Bgl II restriction site by a base mismatched (T to C), and red letters represent two haplotype base differences. C: PCR products were digested by Bgl II enzyme. M: 100 bp DNA ladder."

Table 3

Associations between dCAPS-1632 and agronomic traits in wheat"

年份
Year		 地点
Site		 处理
Treatment		 性状Trait
株高PH 穗下节长PLE 千粒重TGW
2015 顺义Shunyi WW 0.01404* 0.01882* ns
WW+HS 0.00191** 0.01511* 0.01324*
DS ns ns 0.00139**
DS+HS 0.04595* 0.02753* 0.01404*
2016 顺义Shunyi WW 0.01204* 0.01945* ns
WW+HS 0.00600** 0.02717* ns
DS 0.00661** 0.00912** 0.01480*
DS+HS 0.01621* 0.00883** ns
昌平Changping WW 0.04117* ns 0.04570*
DS 0.03954* ns 0.00178**
2017 顺义Shunyi WW 0.00621** 0.01578* 9.93E-05***
WW+HS 0.00860** 0.03151* 0.00514**
DS 0.02229* ns 0.00405**
DS+HS 0.00712** 0.00773** ns
昌平Changping WW 0.02190* 0.01346* 0.00625**
DS 0.02983* 0.02417* 0.01491*

Fig. 3

Comparison of agronomic traits between two TaMYB5-3B haplotypes A-C: PH (A), PLE (B), and TGW (C) comparisons of two TaMYB5-3B haplotypes in 16 environments; D: PH and TGW comparisons of two TaMYB5-3B haplotypes in three environments. E: environment; E1: 15-SY-WW; E2: 15-SY-WW-HS; E3: 15-SY-DS; E4: 15-SY-DS-HS; E5: 16-SY-WW; E6: 16-SY-WW-DS; E7: 16-SY-DS; E8: 16-SY-DS-HS; E9: 16-CP-WW; E10: 16-CP-DS; E11: 17-SY-WW; E12: 17-SY-WW-HS; E13: 17-SY-DS; E14: 17-SY-DS-HS; E15: 17-CP-WW; E16: 17-CP-DS. 15: 2015; 16: 2016; 17: 2017; 02: 2002; 05: 2005; 10: 2010. SY: Shunyi; CP: Changping; LY: Luoyang. WW: well-watered; DS: drought stress; HS: heat stress. Significance of data is tested by Student’s t-test. **: P < 0.01; ***: P < 0.001. Error bar: ±SE."

Fig. 4

Frequency and distribution of two haplotypes of TaMYB5-3B A-B: the distribution of two TaMYB5-3B haplotypes in 157 landraces (A) and 348 modern cultivars (B) from 10 Chinese wheat production zones. I: Northern Winter Wheat Zone; II: Yellow-Huai River Valleys Facultative Wheat Zone; III: Middle and Low Yangtze Valleys Autumn-Sown Spring Wheat Zone; IV: Southwestern Autumn-Sown Spring Wheat Zone; V: Southern Autumn-Sown Spring Wheat Zone; VI: Northeastern Spring Wheat Zone; VII: Northern Spring Wheat Zone; VIII: Northwestern Spring Wheat Zone; IX: Qinghai-Tibetan Plateau Spring-Winter Wheat Zone; X: Xinjiang Winter-Spring Wheat Zone."

Fig. 5

TaMYB5-3B haplotype frequency, PH, and TGW in 348 Chinese modern cultivars in China A: the frequency variation of Hap-3B-1 and Hap-3B-2 in Population 3 over decades; B: the changes of PH and TGW in Population 3 over decades. Error bar: ±SE. PH and TGW data are obtained from Hao et al. [23]"

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