Serveur d'exploration sur les effecteurs de phytopathogènes

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Genome analysis of two newly emerged potato late blight isolates shed lights on pathogen adaptation and provides tools for disease management.

Identifieur interne : 000155 ( Main/Exploration ); précédent : 000154; suivant : 000156

Genome analysis of two newly emerged potato late blight isolates shed lights on pathogen adaptation and provides tools for disease management.

Auteurs : Fan Zhang [République populaire de Chine] ; Han Chen [République populaire de Chine] ; Xinjie Zhang [République populaire de Chine] ; Chuyun Gao [République populaire de Chine] ; Jie Huang [République populaire de Chine] ; Lv Li [Oman] ; Danyu Shen [République populaire de Chine] ; Luyao Wang [Oman] ; Chong Huang [République populaire de Chine] ; Wenwu Ye [République populaire de Chine] ; Xiaobo Zheng [États-Unis, République populaire de Chine] ; Yuanchao Wang [République populaire de Chine] ; Jack Vossen [Pays-Bas] ; Suomeng Dong [République populaire de Chine]

Source :

RBID : pubmed:33026300

Abstract

Phytophthora infestans, the causal agent of the Irish Potato Famine in the 1840s, is one of the most destructive crop pathogens that threaten global food security. Host resistance (R) genes may help to control the disease, but recognition by through the gene products can be evaded by newly emerging isolates. Such isolates are dangerous as they may cause disease outbreaks under favorable conditions. However, our lack of knowledge about adaptation in these isolates jeopardizes an apt response to resistance breakdown. Here we performed genome and transcriptome sequencing of HB1501 and HN1602, two field isolates from distinct Chinese geographic regions. We found extensive polymorphisms in these isolates, including gene copy number variations, nucleotide polymorphisms, and gene expression changes. Effector encoding genes, which contribute to virulence, show distinct expression landscapes in P. infestans isolates HB1501 and HN1602. In particular polymorphisms at multiple effectors required for recognition (Avr loci) enabled these isolates to overcome corresponding R gene based resistance. Although the isolates evolved multiple strategies to evade recognition, we experimentally verified that several R genes such as R8, RB, and Rpi-vnt1.1 remain effective against these isolates and are valuable to potato breeding in the future. In summary, rapid characterization of the adaptation in emerging field isolates through genomic tools inform rational agricultural management to prevent potential future epidemics.

DOI: 10.1094/PHYTO-05-20-0208-FI
PubMed: 33026300


Affiliations:


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<name sortKey="Zhang, Fan" sort="Zhang, Fan" uniqKey="Zhang F" first="Fan" last="Zhang">Fan Zhang</name>
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<nlm:affiliation>Nanjing Agricultural University Department of Plant Pathology, 214176, Nanjing, Jiangsu, China; 2018202005@njau.edu.cn.</nlm:affiliation>
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<name sortKey="Chen, Han" sort="Chen, Han" uniqKey="Chen H" first="Han" last="Chen">Han Chen</name>
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<name sortKey="Zheng, Xiaobo" sort="Zheng, Xiaobo" uniqKey="Zheng X" first="Xiaobo" last="Zheng">Xiaobo Zheng</name>
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<nlm:affiliation>Nanjing Agricultural University, Plant Pathology Department, Nanjing, United States.</nlm:affiliation>
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<name sortKey="Wang, Yuanchao" sort="Wang, Yuanchao" uniqKey="Wang Y" first="Yuanchao" last="Wang">Yuanchao Wang</name>
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<wicri:noRegion>Jiangsu</wicri:noRegion>
</affiliation>
<affiliation wicri:level="1">
<nlm:affiliation>Key Laboratory of Plant Immunity, Nanjing Agricultural University, Nanjing, Jiangsu, China; ycwang@njau.edu.cn.</nlm:affiliation>
<country wicri:rule="url">République populaire de Chine</country>
<wicri:regionArea>Key Laboratory of Plant Immunity, Nanjing Agricultural University, Nanjing, Jiangsu</wicri:regionArea>
<wicri:noRegion>Jiangsu</wicri:noRegion>
</affiliation>
</author>
<author>
<name sortKey="Vossen, Jack" sort="Vossen, Jack" uniqKey="Vossen J" first="Jack" last="Vossen">Jack Vossen</name>
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<nlm:affiliation>Wageningen UR, Plant Breeding, Droevendaalsesteeg 1, Wageningen, Netherlands, 6708 PB; jack.vossen@wur.nl.</nlm:affiliation>
<country wicri:rule="url">Pays-Bas</country>
<wicri:regionArea>Wageningen UR, Plant Breeding, Droevendaalsesteeg 1, Wageningen, Netherlands</wicri:regionArea>
<wicri:noRegion>Netherlands</wicri:noRegion>
</affiliation>
</author>
<author>
<name sortKey="Dong, Suomeng" sort="Dong, Suomeng" uniqKey="Dong S" first="Suomeng" last="Dong">Suomeng Dong</name>
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<nlm:affiliation>Nanjing Agricultural University Department of Plant Pathology, 214176, Nanjing, Jiangsu, China.</nlm:affiliation>
<country xml:lang="fr">République populaire de Chine</country>
<wicri:regionArea>Nanjing Agricultural University Department of Plant Pathology, 214176, Nanjing, Jiangsu</wicri:regionArea>
<wicri:noRegion>Jiangsu</wicri:noRegion>
</affiliation>
<affiliation wicri:level="1">
<nlm:affiliation>Key Laboratory of Integrated Management of Crop Diseases and Pests, Nanjing, Jiangsu, China.</nlm:affiliation>
<country xml:lang="fr">République populaire de Chine</country>
<wicri:regionArea>Key Laboratory of Integrated Management of Crop Diseases and Pests, Nanjing, Jiangsu</wicri:regionArea>
<wicri:noRegion>Jiangsu</wicri:noRegion>
</affiliation>
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<nlm:affiliation>Key Laboratory of Plant Immunity, Nanjing Agricultural University, Nanjing, Jiangsu, China; smdong@njau.edu.cn.</nlm:affiliation>
<country wicri:rule="url">République populaire de Chine</country>
<wicri:regionArea>Key Laboratory of Plant Immunity, Nanjing Agricultural University, Nanjing, Jiangsu</wicri:regionArea>
<wicri:noRegion>Jiangsu</wicri:noRegion>
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<series>
<title level="j">Phytopathology</title>
<idno type="ISSN">0031-949X</idno>
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<date when="2020" type="published">2020</date>
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<div type="abstract" xml:lang="en">Phytophthora infestans, the causal agent of the Irish Potato Famine in the 1840s, is one of the most destructive crop pathogens that threaten global food security. Host resistance (R) genes may help to control the disease, but recognition by through the gene products can be evaded by newly emerging isolates. Such isolates are dangerous as they may cause disease outbreaks under favorable conditions. However, our lack of knowledge about adaptation in these isolates jeopardizes an apt response to resistance breakdown. Here we performed genome and transcriptome sequencing of HB1501 and HN1602, two field isolates from distinct Chinese geographic regions. We found extensive polymorphisms in these isolates, including gene copy number variations, nucleotide polymorphisms, and gene expression changes. Effector encoding genes, which contribute to virulence, show distinct expression landscapes in P. infestans isolates HB1501 and HN1602. In particular polymorphisms at multiple effectors required for recognition (Avr loci) enabled these isolates to overcome corresponding R gene based resistance. Although the isolates evolved multiple strategies to evade recognition, we experimentally verified that several R genes such as R8, RB, and Rpi-vnt1.1 remain effective against these isolates and are valuable to potato breeding in the future. In summary, rapid characterization of the adaptation in emerging field isolates through genomic tools inform rational agricultural management to prevent potential future epidemics.</div>
</front>
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<PMID Version="1">33026300</PMID>
<DateRevised>
<Year>2020</Year>
<Month>10</Month>
<Day>07</Day>
</DateRevised>
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<ISSN IssnType="Print">0031-949X</ISSN>
<JournalIssue CitedMedium="Print">
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<Year>2020</Year>
<Month>Oct</Month>
<Day>07</Day>
</PubDate>
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<Title>Phytopathology</Title>
<ISOAbbreviation>Phytopathology</ISOAbbreviation>
</Journal>
<ArticleTitle>Genome analysis of two newly emerged potato late blight isolates shed lights on pathogen adaptation and provides tools for disease management.</ArticleTitle>
<ELocationID EIdType="doi" ValidYN="Y">10.1094/PHYTO-05-20-0208-FI</ELocationID>
<Abstract>
<AbstractText>Phytophthora infestans, the causal agent of the Irish Potato Famine in the 1840s, is one of the most destructive crop pathogens that threaten global food security. Host resistance (R) genes may help to control the disease, but recognition by through the gene products can be evaded by newly emerging isolates. Such isolates are dangerous as they may cause disease outbreaks under favorable conditions. However, our lack of knowledge about adaptation in these isolates jeopardizes an apt response to resistance breakdown. Here we performed genome and transcriptome sequencing of HB1501 and HN1602, two field isolates from distinct Chinese geographic regions. We found extensive polymorphisms in these isolates, including gene copy number variations, nucleotide polymorphisms, and gene expression changes. Effector encoding genes, which contribute to virulence, show distinct expression landscapes in P. infestans isolates HB1501 and HN1602. In particular polymorphisms at multiple effectors required for recognition (Avr loci) enabled these isolates to overcome corresponding R gene based resistance. Although the isolates evolved multiple strategies to evade recognition, we experimentally verified that several R genes such as R8, RB, and Rpi-vnt1.1 remain effective against these isolates and are valuable to potato breeding in the future. In summary, rapid characterization of the adaptation in emerging field isolates through genomic tools inform rational agricultural management to prevent potential future epidemics.</AbstractText>
</Abstract>
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<Author ValidYN="Y">
<LastName>Zhang</LastName>
<ForeName>Fan</ForeName>
<Initials>F</Initials>
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<Affiliation>Nanjing Agricultural University Department of Plant Pathology, 214176, Nanjing, Jiangsu, China; 2018202005@njau.edu.cn.</Affiliation>
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<LastName>Chen</LastName>
<ForeName>Han</ForeName>
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<Affiliation>Nanjing Agricultural University Department of Plant Pathology, 214176, Nanjing, Jiangsu, China.</Affiliation>
</AffiliationInfo>
<AffiliationInfo>
<Affiliation>Key Laboratory of Integrated Management of Crop Diseases and Pests, Nanjing, Jiangsu, China; hanchen@njau.edu.cn.</Affiliation>
</AffiliationInfo>
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<Author ValidYN="Y">
<LastName>Zhang</LastName>
<ForeName>Xinjie</ForeName>
<Initials>X</Initials>
<AffiliationInfo>
<Affiliation>Nanjing Agricultural University Department of Plant Pathology, 214176, Nanjing, Jiangsu, China; 2018102036@njau.edu.cn.</Affiliation>
</AffiliationInfo>
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<LastName>Gao</LastName>
<ForeName>Chuyun</ForeName>
<Initials>C</Initials>
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<Affiliation>Nanjing Agricultural University Department of Plant Pathology, 214176, Nanjing, Jiangsu, China; 2017202005@njau.edu.cn.</Affiliation>
</AffiliationInfo>
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<LastName>Huang</LastName>
<ForeName>Jie</ForeName>
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</AffiliationInfo>
<AffiliationInfo>
<Affiliation>Key Laboratory of Integrated Management of Crop Diseases and Pests, Nanjing, Jiangsu, China; jiehuang@njau.edu.cn.</Affiliation>
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<LastName>Li</LastName>
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<Affiliation>Key Laboratory of Integrated Management of Crop Diseases and Pests, Nanjing, Jiangsu, China; shendanyu@njau.edu.cn.</Affiliation>
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</AffiliationInfo>
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<LastName>Ye</LastName>
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<Affiliation>Nanjing Agricultural University Department of Plant Pathology, 214176, Nanjing, Jiangsu, China.</Affiliation>
</AffiliationInfo>
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<LastName>Zheng</LastName>
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<Affiliation>Nanjing Agricultural University, Plant Pathology Department, Nanjing, United States.</Affiliation>
</AffiliationInfo>
<AffiliationInfo>
<Affiliation>Key Laboratory of Integrated Management of Crop Diseases and Pests, Nanjing, Jiangsu, China; xbzheng@njau.edu.cn.</Affiliation>
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<Affiliation>Key Laboratory of Integrated Management of Crop Diseases and Pests, Nanjing, Jiangsu, China.</Affiliation>
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<Affiliation>Wageningen UR, Plant Breeding, Droevendaalsesteeg 1, Wageningen, Netherlands, 6708 PB; jack.vossen@wur.nl.</Affiliation>
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</AffiliationInfo>
<AffiliationInfo>
<Affiliation>Key Laboratory of Integrated Management of Crop Diseases and Pests, Nanjing, Jiangsu, China.</Affiliation>
</AffiliationInfo>
<AffiliationInfo>
<Affiliation>Key Laboratory of Plant Immunity, Nanjing Agricultural University, Nanjing, Jiangsu, China; smdong@njau.edu.cn.</Affiliation>
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<Year>2020</Year>
<Month>10</Month>
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<li>États-Unis</li>
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<name sortKey="Wang, Yuanchao" sort="Wang, Yuanchao" uniqKey="Wang Y" first="Yuanchao" last="Wang">Yuanchao Wang</name>
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