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

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  • Wenming Zheng

    (State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University
    Key Laboratory of Physiology, Ecology and Genetic Improvement of Food Crop in Henan Province and College of Life Sciences, Henan Agricultural 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)

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.

Suggested Citation

  • 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 & Chu, 2013. "High genome heterozygosity and endemic genetic recombination in the wheat stripe rust fungus," Nature Communications, Nature, vol. 4(1), pages 1-11, December.
    • Handle: RePEc:nat:natcom:v:4:y:2013:i:1:d:10.1038_ncomms3673
    DOI: 10.1038/ncomms3673
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    Cited by:

    1. Yogesh K. Gupta & Francismar C. Marcelino-Guimarães & Cécile Lorrain & Andrew Farmer & Sajeet Haridas & Everton Geraldo Capote Ferreira & Valéria S. Lopes-Caitar & Liliane Santana Oliveira & Emmanuell, 2023. "Major proliferation of transposable elements shaped the genome of the soybean rust pathogen Phakopsora pachyrhizi," Nature Communications, Nature, vol. 14(1), pages 1-16, December.

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