数字农科院2.0

Dynamics of Verticillium dahliae race 1 population under managed agricultural ecosystems

文献类型： 外文期刊

作者： Jie Yin Chen;Dan Dan Zhang;Jin Qun Huang;Ran Li;Dan Wang;Jian Song;Krishna D. Puri;Lin Yang;Zhi Qiang Kong;Bang Zhuo Tong;Jun Jiao Li;Yu Shan Huang;Ivan Simko;Steven J. Klosterman;Xiao Feng Dai;Krishna V. Subbarao

作者机构：

关键词： Genetic selection;Local adaptation;Managed agricultural ecosystems;Signal transduction;Transcriptional regulation;Transposon enrichment;Verticillium dahliae

期刊名称： BMC Biology

ISSN： 1741-7007

年卷期： 2021 年 19.0 卷 1.0 期

页码：

收录情况： JCR（2021版）

摘要： Background: Plant pathogens and their hosts undergo adaptive changes in managed agricultural ecosystems, by overcoming host resistance, but the underlying genetic adaptations are difficult to determine in natural settings. Verticillium dahliae is a fungal pathogen that causes Verticillium wilt on many economically important crops including lettuce. We assessed the dynamics of changes in the V. dahliae genome under selection in a long-term field experiment. Results: In this study, a field was fumigated before the Verticillium dahliae race 1 strain (VdLs.16) was introduced. A derivative 145-strain population was collected over a 6-year period from this field in which a seggregating population of lettuce derived from Vr1/vr1 parents were evaluated. We de novo sequenced the parental genome of VdLs.16 strain and resequenced the derivative strains to analyze the genetic variations that accumulate over time in the field cropped with lettuce. Population genomics analyses identified 2769 single-nucleotide polymorphisms (SNPs) and 750 insertion/deletions (In-Dels) in the 145 isolates compared with the parental genome. Sequence divergence was identified in the coding sequence regions of 378 genes and in the putative promoter regions of 604 genes. Five-hundred and nine SNPs/In-Dels were identified as fixed. The SNPs and In-Dels were significantly enriched in the transposon-rich, gene-sparse regions, and in those genes with functional roles in signaling and transcriptional regulation. Conclusions: Under the managed ecosystem continuously cropped to lettuce, the local adaptation of V. dahliae evolves at a whole genome scale to accumulate SNPs/In-Dels nonrandomly in hypervariable regions that encode components of signal transduction and transcriptional regulation.

分类号：

  • 相关文献

[1]Emerging Mechanisms of Plant Responses to Abiotic Stress. Wan Zhao,Xiaojie Chen,Jiahuan Wang,Zhongjie Cheng,Xuhui Ma,Qi Zheng,Zhaoshi Xu,Fuyan Zhang. 2025

[2]Whole-Genome Resequencing of Worldwide Wild and Domestic Sheep Elucidates Genetic Diversity, Introgression, and Agronomically Important Loci. Feng Hua Lv,Yin Hong Cao,Guang Jian Liu,Ling Yun Luo,Ran Lu,Ming Jun Liu,Wen Rong Li,Ping Zhou,Xin Hua Wang,Min Shen,Lei Gao,Jing Quan Yang,Hua Yang,Yong Lin Yang,Chang Bin Liu,Peng Cheng Wan,Yun Sheng Zhang,Wen Hui Pi,Yan Ling Ren,Zhi Qiang Shen,Feng Wang,Yu Tao Wang,Jin Quan Li,Hosein Salehian-Dehkordi,Eer Hehua,Yong Gang Liu,Jian Fei Chen,Jian Kui Wang,Xue Mei Deng,Ali Esmailizadeh,Mostafa Dehghani-Qanatqestani,Hadi Charati,Maryam Nosrati,Ondřej Štěpánek,Hossam E. Rushdi,Ingrid Olsaker,Ino Curik,Neena A. Gorkhali,Samuel R. Paiva,Alexandre R. Caetano,Elena Ciani,Marcel Amills,Christina Weimann,Georg Erhardt,Agraw Amane,Joram M. Mwacharo,Jian Lin Han,Olivier Hanotte,Kathiravan Periasamy,Anna M. Johansson,Jón H. Hallsson,Juha Kantanen,David W. Coltman,Michael W. Bruford,Johannes A. Lenstra,Meng Hua Li. 2022

[3]Editorial: Multi-omics strategies to analyze complex agronomic traits in plants. Lin Chen,Guo Fei Tan. 2023

[4]A Feature Engineering Method for Whole-Genome DNA Sequence with Nucleotide Resolution. Ting Wang,Yunpeng Cui,Tan Sun,Huan Li,Chao Wang,Ying Hou,Mo Wang,Li Chen,Jinming Wu. 2025

[5]African Suid Genomes Provide Insights into the Local Adaptation to Diverse African Environments. Hai Bing Xie,Chen Yan,Adeniyi C. Adeola,Kun Wang,Cui Ping Huang,Ming Min Xu,Qiang Qiu,Xue Yin,Chen Yu Fan,Yun Fei Ma,Ting Ting Yin,Yun Gao,Jia Kun Deng,Agboola O. Okeyoyin,Olufunke O. Oluwole,Oladipo Omotosho,Victor M.O. Okoro,Ofelia G. Omitogun,Philip M. Dawuda,Sunday C. Olaogun,Lotanna M. Nneji,Adeola O. Ayoola,Oscar J. Sanke,Pam D. Luka,Edward Okoth,Isaac Lekolool,Dominic Mijele,Richard P. Bishop,Jianlin Han,Wen Wang,Min Sheng Peng,Ya Ping Zhang. 2022

[6]Variations in Flavonoid Metabolites Along Altitudinal Gradient in a Desert Medicinal Plant Agriophyllum squarrosum. Shanshan Zhou,Xia Yan,Jian Yang,Chaoju Qian,Xiaoyue Yin,Xingke Fan,Tingzhou Fang,Yuan Gao,Yuxiao Chang,Weimin Liu,Xiao Fei Ma. 2021

[7]A novel TF molecular switch-mechanism found in two contrasting ecotypes of a psammophyte, Agriophyllum squarrosum, in regulating transcriptional drought memory. Tingzhou Fang,Chaoju Qian,Bachir Goudia Daoura,Xia Yan,Xingke Fan,Pengshu Zhao,Yuqiu Liao,Liang Shi,Yuxiao Chang,Xiao Fei Ma. 2023

[8]Population genomics of Agrotis segetum provide insights into the local adaptive evolution of agricultural pests. Wang P.,Jin M.,Wu C.,Peng Y.,He Y.,Wang H.,Xiao Y.. 2024

[9]Evolutionary genomics of climatic adaptation and resilience to climate change in alfalfa. Fan Zhang,Ruicai Long,Zhiyao Ma,Hua Xiao,Xiaodong Xu,Zhongjie Liu,Chunxue Wei,Yiwen Wang,Yanling Peng,Xuanwen Yang,Xiaoya Shi,Shuo Cao,Mingna Li,Ming Xu,Fei He,Xueqian Jiang,Tiejun Zhang,Zhen Wang,Xianran Li,Long Xi Yu,Junmei Kang,Zhiwu Zhang,Yongfeng Zhou,Qingchuan Yang. 2024

[10]Observe natural selection by evolutionary experiments in crops. Wu, Tian,Cheng, Shifeng. 2025

[11]Genomic vulnerability and local adaptation of an arid tolerant tree species on the Qinghai-Tibet Plateau. Tang, Jieshi,Ruhsam, Markus,Feng, Shuo,Milne, Richard,Yang, Heng,Kuang, Jingge,Tao, Wenjing,Wang, Yi,Li, Jialiang,Bakhtiyorov, Zulfiyor,Oimahmad, Rahmonov,Mao, Kangshan. 2025

[12]Whole-genome sequencing identifies functional genes for environmental adaptation in Chinese sheep. Niu, Yinan,Li, Yefang,Zhao, Yuhetian,He, Xiaohong,Zhao, Qianjun,Pu, Yabin,Ma, Yuehui,Jiang, Lin. 2024

[13]Landscape of structural variants reveals insights for local adaptations in the Asian corn borer. Yan Peng,Kaikai Mao,Zhuting Zhang,Junfen Ping,Minghui Jin,Xinye Liu,Chao Wu,Chongjun Zhao,Peng Wang,Xueqing Duan,Songmiao Yu,Zhimin Li,Jimin Liu,Hongran Li,Alexander Yesaya,Lin Chen,Hongru Wang,Kenneth Wilson,Yutao Xiao. 2024

[14]Integrative genome-wide association and haplotype-based analyses reveal genetic structure and local adaptation in Korean landrace soybeans. Eun Gyeong Kim,Myoung Jae Shin,Xiaohan Wang,Yu Mi Choi,Gi An Lee,Eunae Yoo,Jae Eun Lee,Sookyeong Lee,Kebede Taye Desta,Me Sun Kim,Hyeonseok Oh,Jungyoon Yi. 2025

[15]Integrating whole-genome resequencing data reveals adaptive selection signatures in sheep populations under extreme environments. Zhixu Pang,Pengkun Yang,Ke Cai,Wannian Wang,Ayoola Ebenezer Afe,Yangyang Pan,Liying Qiao,Wenzhong Liu. 2025

[16]Adaptive Challenges of Past and Future Invasion of Drosophila suzukii: Insights From Novel Genomic Resources and Statistical Methods Combining Individual and Pool Sequencing Data. Camus, Louise,Rode, Nicolas O.,Serga, Svitlana,Loiseau, Anne,Chen, Xiao,Iampietro, Carole,Kenis, Marc,Marande, William,Mensch, Julian,Parinello, Hugues,Savic Veselinovic, Marija,Valiere, Sophie,Zhang, Jinping,Estoup, Arnaud,Boitard, Simon,Gautier, Mathieu. 2025

[17]Genomic insights into the evolutionary history and conservation of the living fossil Tetracentron sinense. Jing, Zhao-Yang,Zhang, Ren-Gang,Liu, Yang,Cheng, Ke-Guang,Liu, De-Tuan,Shu, Heng,Kong, Jiali,Liu, Zhong-Hua,Ma, Yong-Peng,Liu, Ping-Li. 2025

[18]Proteomic analysis of PEG-simulated drought stress-responsive proteins of rice leaves using a pyramiding rice line at the seedling stage. Xiong, Jian-Hua,Li, Yang-Sheng,Xiong, Jian-Hua,Fu, Bin-Ying,Xu, Hua-Xue.

[19]Morphological characters, inheritance and response to exogenous hormones of a cotton super-dwarf mutant of Gossypium hirsutum. Sun, J. -L.,Jia, Y. -H.,Wang, J.,Du, X. -M.,Zhang, C.,Xu, Z. -J..

[20]Constitutive expression of a rice GTPase-activating protein induces defense responses. Cheung, Ming-Yan,Zeng, Nai-Yan,Tong, Suk-Wah,Li, Wing-Yen Francisca,Sun, Samuel Sai-Ming,Lam, Hon-Ming,Cheung, Ming-Yan,Tong, Suk-Wah,Li, Wing-Yen Francisca,Xue, Yan,Sun, Samuel Sai-Ming,Lam, Hon-Ming,Zhao, Kai-Jun,Wang, Chunlian,Zhang, Qi,Fu, Yaping,Sun, Zongxiu.

作者其他论文 更多>>