A Whole-Genome Assembly for <i>Hyaloperonospora parasitica</i>, A Pathogen Causing Downy Mildew in Cabbage (<i>Brassica oleracea</i> var. <i>capitata</i> L.)
<i>Hyaloperonospora parasitica</i> is a global pathogen that can cause leaf necrosis and seedling death, severely threatening the quality and yield of cabbage. However, the genome sequence and infection mechanisms of <i>H. parasitica</i> are still unclear. Here, we present th...
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| Format: | Article |
| Language: | English |
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MDPI AG
2023-08-01
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| Series: | Journal of Fungi |
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| Online Access: | https://www.mdpi.com/2309-608X/9/8/819 |
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| author | Yuankang Wu Bin Zhang Shaobo Liu Zhiwei Zhao Wenjing Ren Li Chen Limei Yang Mu Zhuang Honghao Lv Yong Wang Jialei Ji Fengqing Han Yangyong Zhang |
| author_facet | Yuankang Wu Bin Zhang Shaobo Liu Zhiwei Zhao Wenjing Ren Li Chen Limei Yang Mu Zhuang Honghao Lv Yong Wang Jialei Ji Fengqing Han Yangyong Zhang |
| author_sort | Yuankang Wu |
| collection | DOAJ |
| description | <i>Hyaloperonospora parasitica</i> is a global pathogen that can cause leaf necrosis and seedling death, severely threatening the quality and yield of cabbage. However, the genome sequence and infection mechanisms of <i>H. parasitica</i> are still unclear. Here, we present the first whole-genome sequence of <i>H. parasitica</i> isolate BJ2020, which causes downy mildew in cabbage. The genome contains 4631 contigs and 9991 protein-coding genes, with a size of 37.10 Mb. The function of 6128 genes has been annotated. We annotated the genome of <i>H. parasitica</i> strain BJ2020 using databases, identifying 2249 PHI-associated genes, 1538 membrane transport proteins, and 126 CAZy-related genes. Comparative analyses between <i>H. parasitica, H.arabidopsidis</i>, and <i>H. brassicae</i> revealed dramatic differences among these three Brassicaceae downy mildew pathogenic fungi. Comprehensive genome-wide clustering analysis of 20 downy mildew-causing pathogens, which infect diverse crops, elucidates the closest phylogenetic affinity between <i>H. parasitica</i> and <i>H. brassicae</i>, the causative agent of downy mildew in <i>Brassica napus</i>. These findings provide important insights into the pathogenic mechanisms and a robust foundation for further investigations into the pathogenesis of <i>H. parasitica</i> BJ2020. |
| first_indexed | 2024-03-10T23:49:45Z |
| format | Article |
| id | doaj.art-ac1b961694bf411aa44c38ad849704ce |
| institution | Directory Open Access Journal |
| issn | 2309-608X |
| language | English |
| last_indexed | 2024-03-10T23:49:45Z |
| publishDate | 2023-08-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Journal of Fungi |
| spelling | doaj.art-ac1b961694bf411aa44c38ad849704ce2023-11-19T01:47:29ZengMDPI AGJournal of Fungi2309-608X2023-08-019881910.3390/jof9080819A Whole-Genome Assembly for <i>Hyaloperonospora parasitica</i>, A Pathogen Causing Downy Mildew in Cabbage (<i>Brassica oleracea</i> var. <i>capitata</i> L.)Yuankang Wu0Bin Zhang1Shaobo Liu2Zhiwei Zhao3Wenjing Ren4Li Chen5Limei Yang6Mu Zhuang7Honghao Lv8Yong Wang9Jialei Ji10Fengqing Han11Yangyong Zhang12State Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaChina Vegetable Biotechnology (Shouguang) Co., Ltd., Shouguang 262700, ChinaChina Vegetable Biotechnology (Shouguang) Co., Ltd., Shouguang 262700, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, China<i>Hyaloperonospora parasitica</i> is a global pathogen that can cause leaf necrosis and seedling death, severely threatening the quality and yield of cabbage. However, the genome sequence and infection mechanisms of <i>H. parasitica</i> are still unclear. Here, we present the first whole-genome sequence of <i>H. parasitica</i> isolate BJ2020, which causes downy mildew in cabbage. The genome contains 4631 contigs and 9991 protein-coding genes, with a size of 37.10 Mb. The function of 6128 genes has been annotated. We annotated the genome of <i>H. parasitica</i> strain BJ2020 using databases, identifying 2249 PHI-associated genes, 1538 membrane transport proteins, and 126 CAZy-related genes. Comparative analyses between <i>H. parasitica, H.arabidopsidis</i>, and <i>H. brassicae</i> revealed dramatic differences among these three Brassicaceae downy mildew pathogenic fungi. Comprehensive genome-wide clustering analysis of 20 downy mildew-causing pathogens, which infect diverse crops, elucidates the closest phylogenetic affinity between <i>H. parasitica</i> and <i>H. brassicae</i>, the causative agent of downy mildew in <i>Brassica napus</i>. These findings provide important insights into the pathogenic mechanisms and a robust foundation for further investigations into the pathogenesis of <i>H. parasitica</i> BJ2020.https://www.mdpi.com/2309-608X/9/8/819<i>Hyaloperonospora parasitica</i>genome sequence resourcedowny mildewcabbage |
| spellingShingle | Yuankang Wu Bin Zhang Shaobo Liu Zhiwei Zhao Wenjing Ren Li Chen Limei Yang Mu Zhuang Honghao Lv Yong Wang Jialei Ji Fengqing Han Yangyong Zhang A Whole-Genome Assembly for <i>Hyaloperonospora parasitica</i>, A Pathogen Causing Downy Mildew in Cabbage (<i>Brassica oleracea</i> var. <i>capitata</i> L.) Journal of Fungi <i>Hyaloperonospora parasitica</i> genome sequence resource downy mildew cabbage |
| title | A Whole-Genome Assembly for <i>Hyaloperonospora parasitica</i>, A Pathogen Causing Downy Mildew in Cabbage (<i>Brassica oleracea</i> var. <i>capitata</i> L.) |
| title_full | A Whole-Genome Assembly for <i>Hyaloperonospora parasitica</i>, A Pathogen Causing Downy Mildew in Cabbage (<i>Brassica oleracea</i> var. <i>capitata</i> L.) |
| title_fullStr | A Whole-Genome Assembly for <i>Hyaloperonospora parasitica</i>, A Pathogen Causing Downy Mildew in Cabbage (<i>Brassica oleracea</i> var. <i>capitata</i> L.) |
| title_full_unstemmed | A Whole-Genome Assembly for <i>Hyaloperonospora parasitica</i>, A Pathogen Causing Downy Mildew in Cabbage (<i>Brassica oleracea</i> var. <i>capitata</i> L.) |
| title_short | A Whole-Genome Assembly for <i>Hyaloperonospora parasitica</i>, A Pathogen Causing Downy Mildew in Cabbage (<i>Brassica oleracea</i> var. <i>capitata</i> L.) |
| title_sort | whole genome assembly for i hyaloperonospora parasitica i a pathogen causing downy mildew in cabbage i brassica oleracea i var i capitata i l |
| topic | <i>Hyaloperonospora parasitica</i> genome sequence resource downy mildew cabbage |
| url | https://www.mdpi.com/2309-608X/9/8/819 |
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