High genome heterozygosity and endemic genetic recombination in the wheat stripe rust fungus

Wenming Zheng, Lili Huang, Jinqun Huang, Xiaojie Wang, Xianming Chen, Jie Zhao, Jun Guo, Hua Zhuang, Chuangzhao Qiu, Jie Liu, Huiquan Liu, Xueling Huang, Guoliang Pei, Gangming Zhan, Chunlei Tang, Yulin Cheng, Minjie Liu, Jinshan Zhang, Zhongtao Zhao, Shijie Zhang, Qingmei Han, Dejun Han, Hongchang Zhang, Jing Zhao, Xiaoning Gao, Jianfeng Wang, Peixiang Ni, Wei Dong, Linfeng Yang, Huanming Yang, Jin-Rong Xu (), Gengyun Zhang () and Zhensheng Kang ()
Additional contact information
Wenming Zheng: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Lili Huang: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Jinqun Huang: State Key Laboratory of Agricultural Genomics, BGI-Shenzhen
Xiaojie Wang: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Xianming Chen: Washington State University
Jie Zhao: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Jun Guo: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Hua Zhuang: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Chuangzhao Qiu: State Key Laboratory of Agricultural Genomics, BGI-Shenzhen
Jie Liu: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Huiquan Liu: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Xueling Huang: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Guoliang Pei: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Gangming Zhan: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Chunlei Tang: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Yulin Cheng: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Minjie Liu: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Jinshan Zhang: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Zhongtao Zhao: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Shijie Zhang: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Qingmei Han: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Dejun Han: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Hongchang Zhang: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Jing Zhao: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Xiaoning Gao: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Jianfeng Wang: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
Peixiang Ni: State Key Laboratory of Agricultural Genomics, BGI-Shenzhen
Wei Dong: State Key Laboratory of Agricultural Genomics, BGI-Shenzhen
Linfeng Yang: State Key Laboratory of Agricultural Genomics, BGI-Shenzhen
Huanming Yang: State Key Laboratory of Agricultural Genomics, BGI-Shenzhen
Jin-Rong Xu: Purdue University
Gengyun Zhang: State Key Laboratory of Agricultural Genomics, BGI-Shenzhen
Zhensheng Kang: State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University

Nature Communications, 2013, vol. 4, issue 1, 1-11

Abstract: Abstract Stripe rust, caused by Puccinia striiformis f. sp. tritici (Pst), is one of the most destructive diseases of wheat. Here we report a 110-Mb draft sequence of Pst isolate CY32, obtained using a ‘fosmid-to-fosmid’ strategy, to better understand its race evolution and pathogenesis. The Pst genome is highly heterozygous and contains 25,288 protein-coding genes. Compared with non-obligate fungal pathogens, Pst has a more diverse gene composition and more genes encoding secreted proteins. Re-sequencing analysis indicates significant genetic variation among six isolates collected from different continents. Approximately 35% of SNPs are in the coding sequence regions, and half of them are non-synonymous. High genetic diversity in Pst suggests that sexual reproduction has an important role in the origin of different regional races. Our results show the effectiveness of the ‘fosmid-to-fosmid’ strategy for sequencing dikaryotic genomes and the feasibility of genome analysis to understand race evolution in Pst and other obligate pathogens.

Date: 2013
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DOI: 10.1038/ncomms3673

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