数字农科院2.0

Genetic Diversity and Selection Signatures in Synthetic-Derived Wheats and Modern Spring Wheat

文献类型： 外文期刊

作者： Mohsin Ali;Shan Danting;Jiankang Wang;Hafsa Sadiq;Awais Rasheed;Zhonghu He;Huihui Li

作者机构：

关键词： bread wheat;EigenGWAS;gene annotation;genetic diversity;genotyping-by-sequencing;selection signatures

期刊名称： Frontiers in Plant Science

ISSN： 1664-462X

年卷期： 2022 年 13 卷

页码：

收录情况： SCIE（2022版）

摘要： Synthetic hexaploid wheats and their derived advanced lines were subject to empirical selection in developing genetically superior cultivars. To investigate genetic diversity, patterns of nucleotide diversity, population structure, and selection signatures during wheat breeding, we tested 422 wheat accessions, including 145 synthetic-derived wheats, 128 spring wheat cultivars, and 149 advanced breeding lines from Pakistan. A total of 18,589 high-quality GBS-SNPs were identified that were distributed across the A (40%), B (49%), and D (11%) genomes. Values of population diversity parameters were estimated across chromosomes and genomes. Genome-wide average values of genetic diversity and polymorphic information content were estimated to be 0.30 and 0.25, respectively. Neighbor-joining (NJ) tree, principal component analysis (PCA), and kinship analyses revealed that synthetic-derived wheats and advanced breeding lines were genetically diverse. The 422 accessions were not separated into distinct groups by NJ analysis and confirmed using the PCA. This conclusion was validated with both relative kinship and Rogers' genetic distance analyses. EigenGWAS analysis revealed that 32 unique genome regions had undergone selection. We found that 50% of the selected regions were located in the B-genome, 29% in the D-genome, and 21% in the A-genome. Previously known functional genes or QTL were found within the selection regions associated with phenology-related traits such as vernalization, adaptability, disease resistance, and yield-related traits. The selection signatures identified in the present investigation will be useful for understanding the targets of modern wheat breeding in Pakistan.

分类号：

  • 相关文献

[1]Genome Divergence and Dynamics in the Thin-Tailed Desert Sheep From Sudan. Adam Abied,Abulgasim M. Ahbara,Haile Berihulay,Lingyang Xu,Rabiul Islam,Faisal M. El-Hag,Mourad Rekik,Aynalem Haile,Jian Lin Han,Yuehui Ma,Qianjun Zhao,Joram M. Mwacharo. 2021

[2]Genetic Diversity, Selection Signatures, and Genome-Wide Association Study Identify Candidate Genes Related to Litter Size in Hu Sheep. Jingjing Bao,Jinke Xiong,Jupeng Huang,Peifu Yang,Mingyu Shang,Li Zhang. 2024

[3]Genomic Inbreeding and Runs of Homozygosity Analysis of Cashmere Goat. Qian Zhao,Chang Huang,Qian Chen,Yingxiao Su,Yanjun Zhang,Ruijun Wang,Rui Su,Huijuan Xu,Shucai Liu,Yuehui Ma,Qianjun Zhao,Shaohui Ye. 2024

[4]Population sequencing of cherry accessions unravels the evolution of Cerasus species and the selection of genetic characteristics in edible cherries. Lei, Yahui,Jiu, Songtao,Xu, Yan,Chen, Baozheng,Dong, Xiao,Lv, Zhengxin,Bernard, Anthony,Liu, Xunju,Wang, Lei,Wang, Li,Wang, Jiyuan,Zhang, Zhuo,Cai, Yuliang,Zheng, Wei,Zhang, Xu,Li, Fangdong,Li, Hongwen,Liu, Congli,Li, Ming,Wang, Jing,Zhu, Jijun,Peng, Lei,Barreneche, Teresa,Yu, Fei,Wang, Shiping,Dong, Yang,Elisabeth, Dirlewanger,Duan, Shengchang,Zhang, Caixi. 2025

[5]Population Genetic Analysis of a Bread Wheat Panel from Northern and Huang-Huai Agro-Ecological Regions in China. Xiaojie Jin,Huimin Gao,Qian Liu,Yun Zhao,Wenchuang He,Guijuan Wang,Yu Zhou,Zheng Song,Xiaobin Zhao,Xifeng Ren,Yanchun Peng,Yingjun Zhang. 2023

[6]Stripe rust resistance and its association with yield contributing traits in wheat (Triticum aestivum L.) genotypes. Khan, Mueen Alam,Ahmad, Rafiq,Alam, Beena,Iqbal, Rashid,Aghayeva, Saltanat,Ahmed, Hafiz Ghulam Muhu Din,Ahmad, Ajaz. 2025

[7]Genome-wide analyses reveal footprints of divergent selection and popping-related traits in CIMMYT's maize inbred lines. Li J.,Li D.,Espinosa C.Z.,Pastor V.T.,Rasheed A.,Rojas N.P.,Wang J.,Varela A.S.,Carolina De Almeida Silva N.,Schnable P.S.,Costich D.E.,Li H.. 2021

[8]Genome-wide analyses reveal footprints of divergent selection and popping-related traits in CIMMYT’s maize inbred lines. . 2020

[9]Genome-wide association study of eigenvectors provides genetic insights into selective breeding for tomato metabolites. Yang, Junwei,Liang, Bin,Zhang, Yuemei,Liu, Yun,Wang, Shengyuan,Yang, Qinqin,Geng, Xiaolin,Liu, Simiao,Wu, Yaoyao,Zhu, Yingfang,Lin, Tao. 2022

[10]Genome-wide association for grain yield under rainfed conditions in historical wheat cultivars from Pakistan. Ain, Qurat-ul,Anwar, Alia,Mahmood, Tariq,Quraishi, Umar M.,Rasheed, Awais,Xia, Xianchun,He, Zhonghu,Rasheed, Awais,He, Zhonghu,Mahmood, Tariq,Imtiaz, Muhammad. 2015

[11]Genome-wide detection of selective signatures in Simmental cattle. Fan, Huizhong,Wu, Yang,Qi, Xin,Zhang, Jingjing,Li, Juan,Gao, Xue,Zhang, Lupei,Li, Junya,Gao, HuiJiang,Zhang, Jingjing.

[12]Molecular Characterization of a New Moniliformis sp. From a Plateau Zokor (Eospalax fontanierii baileyi) in China. Guo Dong Dai,Hong Bin Yan,Li Li,Lin Sheng Zhang,Zhan Long Liu,Sheng Zhi Gao,John Asekhaen Ohiolei,Yao Dong Wu,Ai Min Guo,Bao Quan Fu,Wan Zhong Jia. 2022

[13]Improved genome annotation of Brassica oleracea highlights the importance of alternative splicing. Yang, Yinqing,Zhang, Lei,Tang, Qi,Zhang, Lingkui,Li, Xing,Chen, Shumin,Zhang, Kang,Li, Ying,Hou, Xilin,Cheng, Feng. 2024

[14]Genotyping-by-sequencing-based genome-wide association studies on Verticillium wilt resistance in autotetraploid alfalfa (Medicago sativa L.). Yu, Long-Xi,Zhang, Tiejun,Zheng, Ping,Main, Dorrie,Rodringuez, Jonas,Zhang, Tiejun.

[15]Population genetics of Setaria viridis, a new model system. Huang, Pu,Feldman, Maximilian,Kellogg, Elizabeth A.,Schroder, Stephan,Bahri, Bochra A.,Devos, Katrien M.,Bahri, Bochra A.,Diao, Xianmin,Zhi, Hui,Estep, Matt,Baxter, Ivan.

[16]A Saturated Genetic Linkage Map of Autotetraploid Alfalfa (Medicago sativa L.) Developed Using Genotyping-by-Sequencing Is Highly Syntenous with the Medicago truncatula Genome. Li, Xuehui,Wei, Yanling,Acharya, Ananta,Jiang, Qingzhen,Kang, Junmei,Brummer, E. Charles,Brummer, E. Charles. 2014

[17]Genome-wide association study of grain yield and related traits using a collection of advanced indica rice breeding lines for irrigated ecosystems. Zhou, Meixue,McNeil, David,Liang, Shanshan,Zhao, Xiangqian,Ye, Guoyou,Wu, Liwen,Wu, Liwen,Ren, Guangjun.

[18]Major QTLs and Potential Candidate Genes for Heat Stress Tolerance Identified in Chickpea (Cicer arietinum L.). Uday Chand Jha,Harsh Nayyar,Ramesh Palakurthi,Rintu Jha,Vinod Valluri,Prasad Bajaj,Annapurna Chitikineni,Narendra P. Singh,Rajeev K. Varshney,Mahendar Thudi. 2021

[19]Construction Of High-Density Linkage Maps And Identification Of Quantitative Trait Loci Associated With Verticillium Wilt Resistance In Autotetraploid Alfalfa (Medicago Sativa L.). Yu, LX, Zhang, F, Culma, CM, Lin, S, Niu, Y, Zhang, TJ, Yang, QC, Smith, M, Hu, JG. 2020

[20]Marker-trait association analysis for easy fruit destemming and mechanical harvestability traits in New Mexican chile pepper (Capsicum annuum L.). Ehtisham S. Khokhar,Dennis Nicuh Lozada,Mohsin Ali,Muhammad Ibrar Khan,Seyed Shahabeddin Nourbakhsh,Stephanie Walker. 2024

作者其他论文 更多>>