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| Association mapping of lignin response to Verticillium wilt through an eight-way MAGIC population in Upland cotton |
TIAN Xiao-min1*, HAN Peng1*, WANG Jing2, SHAO Pan-xia1, AN Qiu-shuang1, Nurimanguli AINI1, YANG Qing-yong1, 2, YOU Chun-yuan3, LIN Hai-rong1, ZHU Long-fu1, 4#, PAN Zhen-yuan1#, NIE Xin-hui1#
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1 Key Laboratory of Oasis Eco-agricultural, Xinjiang Production and Construction Corps/Agricultural College, Shihezi University, Shihezi 832003, P.R.China
2 College of Informatics, Huazhong Agricultural University, Wuhan 430070, P.R.China
3 Cotton Research Institute, Shihezi Academy of Agricultural Sciences, Shihezi 832011, P.R.China
4 National Key Laboratory of Crop Genetic Improvement/College of Plant Sciences & Technology, Huazhong Agricultural University, Wuhan 430070, P.R.China
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摘要
木质素代谢在植物对病原菌的防御中起着关键作用，并且在抵御病原菌侵染的过程中总是起到正向作用。因此，解析植物木质素响应病原菌代谢相关抗性基因的遗传机理具有重要意义。本研究以8个陆地棉品系为材料，构建了一个多亲本高世代杂交(MAGIC)群体(n=280)，该群体表现出控制优良性状的等位基因的聚合特征。为了研究木质素对黄萎病的响应(LRVW)，本研究在4种环境下分别建立了人工病圃(ADN)和轮作苗圃(RN)。通过采集和测定棉秆的木质素含量，并将不同环境下ADN/RN木素比值作为LRVW值，结果表明，群体LRVW值表现出较丰富的变异。利用63K芯片获得了9323个高质量单核苷酸多态(SNP)标记，用于MAGIC群体的基因分型，结果显示，SNPs分布于全基因组，平均密度为4.78SNP/Mb，在染色体间的分布范围为1.14
SNP/Mb (ChrA06)~10.08 SNP/Mb (ChrD08)。利用混合线性模型(MLM)对LRVW进行全基因组关联分析，并在两个以上的环境中共同检测到3个稳定的QTL，即qLRVW-A04、qLRVW-A10和qLRVW-D05。结合分析候选基因编码序列变异、诱导表达模式和功能注释，最终在QTL区间选择了两个关键候选基因Ghi_D05G01046和Ghi_D05G01221。这两个基因在编码区都出现了非同义突变，并且都受黄萎病菌强烈诱导。Ghi_D05G01046编码一个富含亮氨酸的延伸素(LRx)蛋白，与拟南芥细胞壁的生物合成和结构有关。Ghi_D05G01221编码Jaz的转录抑制因子，它在茉莉酸(JA)信号通路中发挥作用。综上所述，本研究不仅为陆地棉抗黄萎病育种和QTL定位创造了宝贵的遗传资源，也为解析陆地棉抗黄萎病的遗传基础开辟了新的视角。
Abstract
Lignin metabolism plays a pivotal role in
plant defense against pathogens and is always positively correlated as a
response to pathogen infection. Thus,
understanding resistance genes against pathogens in plants depends on a genetic
analysis of lignin response. In the
study, eight upland cotton lines were used to construct a multi-parent advanced
generation intercross (MAGIC) population (n=280),
which exhibited peculiar characteristics from the convergence of various
alleles coding for advantageous traits. To measure the lignin response to Verticillium wilt (LRVW), artificial disease nursery (ADN) and rotation nursery (RN) were
prepared for MAGIC population planting in four environments. The stem lignin contents were collected, and
the LRVW was measured with the lignin value of ADN/RN in each environment,
which showed great variation. A total of
9323 high-quality single-nucleotide polymorphism (SNP) markers obtained from
the Cotton-SNP63K array were employed for genotyping the MAGIC population. The SNPs were distributed through the whole
genome with 4.78 SNP/Mb density, ranging from 1.14 (ChrA06) to 10.08 (ChrD08). A genome-wide association study was performed
using a mixed linear model (MLM) for LRVW, and three stable quantitative trait
loci (QTLs), qLRVW-A04, qLRVW-A10 and qLRVW-D05, were identified in more than two environments. Two key candidate genes, Ghi_D05G01046 and Ghi_D05G01221, were selected within the QTLs through the combination
of variations in the coding sequence, induced expression patterns, and function
annotations, both of which presented nonsynonymous mutations in coding regions
and were strongly induced by Verticillium dahliae. Ghi_D05G01046 encodes a leucine-rich
extensin (LRx) protein, which is involved in Arabidopsis cell wall
biosynthesis and organization. Ghi_D05G01221 encodes a transcriptional co-repressor novel interactor of jaz (NINJA), which
functions in the jasmonic acid (JA) signaling pathway. In summary, the study creates valuable genetic
resources for breeding and QTL mapping and opens up a
new perspective to uncover the genetic basis of VW resistance in upland cotton.
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Received: 14 March 2022
Accepted: 10 May 2022
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Fund: This work was financed by the National Natural Science Foundation of China (31760402 and 31771844) and the Innovation Leadership Program in Sciences and Technologies for Young and Middle-aged Scientists of Xinjiang Production and Construction Corps, China (2019CB027).
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| About author: TIAN Xiao-min, E-mail: 20192012018@stu.shzu.edu.cn; HAN Peng, E-mail: han_peng@stu.shzu.edu.cn; #Correspondence ZHU Long-fu, Tel: +86-27-87283955, E-mail: lfzhu@mail.hzau.edu.cn; PAN Zhen-yuan, Tel: +86-993-2058970, E-mail: panzhenyuandawood@163.com; NIE Xin-hui, Tel: +86-993-2058970, E-mail: xjnxh2004130@126.com
* These authors contributed equally to this study.
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Cite this article:
TIAN Xiao-min, HAN Peng, WANG Jing, SHAO Pan-xia, AN Qiu-shuang, Nurimanguli AINI, YANG Qing-yong, YOU Chun-yuan, LIN Hai-rong, ZHU Long-fu, PAN Zhen-yuan, NIE Xin-hui.
2023.
Association mapping of lignin response to Verticillium wilt through an eight-way MAGIC population in Upland cotton. Journal of Integrative Agriculture, 22(5): 1324-1337.
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