A Chromosome-Scale Genome Assembly for the Fusarium oxysporum Strain Fo5176 To Establish a Model Arabidopsis-Fungal Pathosystem.
Identifieur interne : 000242 ( Main/Exploration ); précédent : 000241; suivant : 000243A Chromosome-Scale Genome Assembly for the Fusarium oxysporum Strain Fo5176 To Establish a Model Arabidopsis-Fungal Pathosystem.
Auteurs : Like Fokkens [Pays-Bas] ; Li Guo [République populaire de Chine] ; Susanne Dora [Suisse] ; Bo Wang [République populaire de Chine] ; Kai Ye [République populaire de Chine] ; Clara Sánchez-Rodríguez [République populaire de Chine] ; Daniel Croll [République populaire de Chine]Source :
- G3 (Bethesda, Md.) [ 2160-1836 ] ; 2020.
Abstract
Plant pathogens cause widespread yield losses in agriculture. Understanding the drivers of plant-pathogen interactions requires decoding the molecular dialog leading to either resistance or disease. However, progress in deciphering pathogenicity genes has been severely hampered by suitable model systems and incomplete fungal genome assemblies. Here, we report a significant improvement of the assembly and annotation of the genome of the Fusarium oxysporum (Fo) strain Fo5176. Fo comprises a large number of serious plant pathogens on dozens of plant species with largely unresolved pathogenicity factors. The strain Fo5176 infects Arabidopsis thaliana and, hence, constitutes a highly promising model system. We use high-coverage Pacific Biosciences Sequel long-read and Hi-C sequencing data to assemble the genome into 19 chromosomes and a total genome size of 67.98 Mb. The genome has a N50 of 4 Mb and a 99.1% complete BUSCO score. Phylogenomic analyses based on single-copy orthologs clearly place the Fo5176 strain in the Fo f sp. conglutinans clade as expected. We generated RNAseq data from culture medium and plant infections to train gene predictions and identified ∼18,000 genes including ten effector genes known from other Fo clades. We show that Fo5176 is able to infect cabbage and Brussel sprouts of the Brassica oleracea, expanding the usefulness of the Fo5176 model pathosystem. Finally, we performed large-scale comparative genomics analyses comparing the Fo5176 to 103 additional Fo genomes to define core and accessory genomic regions. In conjunction with the molecular tool sets available for A. thaliana, the Fo5176 genome and annotation provides a crucial step toward the establishment of a highly promising pathosystem.
DOI: 10.1534/g3.120.401375
PubMed: 32843521
PubMed Central: PMC7534451
Affiliations:
- Pays-Bas, République populaire de Chine, Suisse
- Hollande-Septentrionale
- Amsterdam
- Université d'Amsterdam
Links toward previous steps (curation, corpus...)
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">A Chromosome-Scale Genome Assembly for the <i>Fusarium oxysporum</i> Strain Fo5176 To Establish a Model <i>Arabidopsis</i>-Fungal Pathosystem.</title><author><name sortKey="Fokkens, Like" sort="Fokkens, Like" uniqKey="Fokkens L" first="Like" last="Fokkens">Like Fokkens</name><affiliation wicri:level="4"><nlm:affiliation>Molecular Plant Pathology, University of Amsterdam, The Netherlands.</nlm:affiliation><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>Molecular Plant Pathology, University of Amsterdam</wicri:regionArea><placeName><settlement type="city">Amsterdam</settlement><region>Hollande-Septentrionale</region></placeName><orgName type="university">Université d'Amsterdam</orgName></affiliation></author><author><name sortKey="Guo, Li" sort="Guo, Li" uniqKey="Guo L" first="Li" last="Guo">Li Guo</name><affiliation wicri:level="1"><nlm:affiliation>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an</wicri:regionArea><wicri:noRegion>Xi'an</wicri:noRegion></affiliation></author><author><name sortKey="Dora, Susanne" sort="Dora, Susanne" uniqKey="Dora S" first="Susanne" last="Dora">Susanne Dora</name><affiliation wicri:level="1"><nlm:affiliation>Department of Biology, ETH Zurich, Zurich, Switzerland.</nlm:affiliation><country xml:lang="fr">Suisse</country><wicri:regionArea>Department of Biology, ETH Zurich, Zurich</wicri:regionArea><wicri:noRegion>Zurich</wicri:noRegion></affiliation></author><author><name sortKey="Wang, Bo" sort="Wang, Bo" uniqKey="Wang B" first="Bo" last="Wang">Bo Wang</name><affiliation wicri:level="1"><nlm:affiliation>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an</wicri:regionArea><wicri:noRegion>Xi'an</wicri:noRegion></affiliation></author><author><name sortKey="Ye, Kai" sort="Ye, Kai" uniqKey="Ye K" first="Kai" last="Ye">Kai Ye</name><affiliation wicri:level="1"><nlm:affiliation>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, China kaiye@xjtu.edu.cn clara_sanchez@ethz.ch daniel.croll@unine.ch.</nlm:affiliation><country wicri:rule="url">République populaire de Chine</country><wicri:regionArea>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an</wicri:regionArea><wicri:noRegion>Xi'an</wicri:noRegion></affiliation></author><author><name sortKey="Sanchez Rodriguez, Clara" sort="Sanchez Rodriguez, Clara" uniqKey="Sanchez Rodriguez C" first="Clara" last="Sánchez-Rodríguez">Clara Sánchez-Rodríguez</name><affiliation wicri:level="1"><nlm:affiliation>Department of Biology, ETH Zurich, Zurich, Switzerland kaiye@xjtu.edu.cn clara_sanchez@ethz.ch daniel.croll@unine.ch.</nlm:affiliation><country wicri:rule="url">République populaire de Chine</country><wicri:regionArea>Department of Biology, ETH Zurich, Zurich</wicri:regionArea><wicri:noRegion>Zurich</wicri:noRegion></affiliation></author><author><name sortKey="Croll, Daniel" sort="Croll, Daniel" uniqKey="Croll D" first="Daniel" last="Croll">Daniel Croll</name><affiliation wicri:level="1"><nlm:affiliation>Laboratory of Evolutionary Genetics, Institute of Biology, University of Neuchâtel, Neuchâtel, Switzerland kaiye@xjtu.edu.cn clara_sanchez@ethz.ch daniel.croll@unine.ch.</nlm:affiliation><country wicri:rule="url">République populaire de Chine</country><wicri:regionArea>Laboratory of Evolutionary Genetics, Institute of Biology, University of Neuchâtel, Neuchâtel</wicri:regionArea><wicri:noRegion>Neuchâtel</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2020">2020</date><idno type="RBID">pubmed:32843521</idno><idno type="pmid">32843521</idno><idno type="doi">10.1534/g3.120.401375</idno><idno type="pmc">PMC7534451</idno><idno type="wicri:Area/Main/Corpus">000130</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">000130</idno><idno type="wicri:Area/Main/Curation">000130</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">000130</idno><idno type="wicri:Area/Main/Exploration">000130</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">A Chromosome-Scale Genome Assembly for the <i>Fusarium oxysporum</i> Strain Fo5176 To Establish a Model <i>Arabidopsis</i>-Fungal Pathosystem.</title><author><name sortKey="Fokkens, Like" sort="Fokkens, Like" uniqKey="Fokkens L" first="Like" last="Fokkens">Like Fokkens</name><affiliation wicri:level="4"><nlm:affiliation>Molecular Plant Pathology, University of Amsterdam, The Netherlands.</nlm:affiliation><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>Molecular Plant Pathology, University of Amsterdam</wicri:regionArea><placeName><settlement type="city">Amsterdam</settlement><region>Hollande-Septentrionale</region></placeName><orgName type="university">Université d'Amsterdam</orgName></affiliation></author><author><name sortKey="Guo, Li" sort="Guo, Li" uniqKey="Guo L" first="Li" last="Guo">Li Guo</name><affiliation wicri:level="1"><nlm:affiliation>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an</wicri:regionArea><wicri:noRegion>Xi'an</wicri:noRegion></affiliation></author><author><name sortKey="Dora, Susanne" sort="Dora, Susanne" uniqKey="Dora S" first="Susanne" last="Dora">Susanne Dora</name><affiliation wicri:level="1"><nlm:affiliation>Department of Biology, ETH Zurich, Zurich, Switzerland.</nlm:affiliation><country xml:lang="fr">Suisse</country><wicri:regionArea>Department of Biology, ETH Zurich, Zurich</wicri:regionArea><wicri:noRegion>Zurich</wicri:noRegion></affiliation></author><author><name sortKey="Wang, Bo" sort="Wang, Bo" uniqKey="Wang B" first="Bo" last="Wang">Bo Wang</name><affiliation wicri:level="1"><nlm:affiliation>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an</wicri:regionArea><wicri:noRegion>Xi'an</wicri:noRegion></affiliation></author><author><name sortKey="Ye, Kai" sort="Ye, Kai" uniqKey="Ye K" first="Kai" last="Ye">Kai Ye</name><affiliation wicri:level="1"><nlm:affiliation>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, China kaiye@xjtu.edu.cn clara_sanchez@ethz.ch daniel.croll@unine.ch.</nlm:affiliation><country wicri:rule="url">République populaire de Chine</country><wicri:regionArea>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an</wicri:regionArea><wicri:noRegion>Xi'an</wicri:noRegion></affiliation></author><author><name sortKey="Sanchez Rodriguez, Clara" sort="Sanchez Rodriguez, Clara" uniqKey="Sanchez Rodriguez C" first="Clara" last="Sánchez-Rodríguez">Clara Sánchez-Rodríguez</name><affiliation wicri:level="1"><nlm:affiliation>Department of Biology, ETH Zurich, Zurich, Switzerland kaiye@xjtu.edu.cn clara_sanchez@ethz.ch daniel.croll@unine.ch.</nlm:affiliation><country wicri:rule="url">République populaire de Chine</country><wicri:regionArea>Department of Biology, ETH Zurich, Zurich</wicri:regionArea><wicri:noRegion>Zurich</wicri:noRegion></affiliation></author><author><name sortKey="Croll, Daniel" sort="Croll, Daniel" uniqKey="Croll D" first="Daniel" last="Croll">Daniel Croll</name><affiliation wicri:level="1"><nlm:affiliation>Laboratory of Evolutionary Genetics, Institute of Biology, University of Neuchâtel, Neuchâtel, Switzerland kaiye@xjtu.edu.cn clara_sanchez@ethz.ch daniel.croll@unine.ch.</nlm:affiliation><country wicri:rule="url">République populaire de Chine</country><wicri:regionArea>Laboratory of Evolutionary Genetics, Institute of Biology, University of Neuchâtel, Neuchâtel</wicri:regionArea><wicri:noRegion>Neuchâtel</wicri:noRegion></affiliation></author></analytic><series><title level="j">G3 (Bethesda, Md.)</title><idno type="eISSN">2160-1836</idno><imprint><date when="2020" type="published">2020</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Plant pathogens cause widespread yield losses in agriculture. Understanding the drivers of plant-pathogen interactions requires decoding the molecular dialog leading to either resistance or disease. However, progress in deciphering pathogenicity genes has been severely hampered by suitable model systems and incomplete fungal genome assemblies. Here, we report a significant improvement of the assembly and annotation of the genome of the <i>Fusarium oxysporum</i> (<i>Fo</i>) strain Fo5176. <i>Fo</i> comprises a large number of serious plant pathogens on dozens of plant species with largely unresolved pathogenicity factors. The strain Fo5176 infects <i>Arabidopsis thaliana</i> and, hence, constitutes a highly promising model system. We use high-coverage Pacific Biosciences Sequel long-read and Hi-C sequencing data to assemble the genome into 19 chromosomes and a total genome size of 67.98 Mb. The genome has a N50 of 4 Mb and a 99.1% complete BUSCO score. Phylogenomic analyses based on single-copy orthologs clearly place the Fo5176 strain in the <i>Fo</i> f sp. <i>conglutinans</i> clade as expected. We generated RNAseq data from culture medium and plant infections to train gene predictions and identified ∼18,000 genes including ten effector genes known from other <i>Fo</i> clades. We show that Fo5176 is able to infect cabbage and Brussel sprouts of the <i>Brassica oleracea</i>, expanding the usefulness of the Fo5176 model pathosystem. Finally, we performed large-scale comparative genomics analyses comparing the Fo5176 to 103 additional <i>Fo</i> genomes to define core and accessory genomic regions. In conjunction with the molecular tool sets available for <i>A. thaliana</i>, the Fo5176 genome and annotation provides a crucial step toward the establishment of a highly promising pathosystem.</div></front></TEI><pubmed><MedlineCitation Status="In-Data-Review" Owner="NLM"><PMID Version="1">32843521</PMID><DateRevised><Year>2020</Year><Month>10</Month><Day>16</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">2160-1836</ISSN><JournalIssue CitedMedium="Internet"><Volume>10</Volume><Issue>10</Issue><PubDate><Year>2020</Year><Month>Oct</Month><Day>05</Day></PubDate></JournalIssue><Title>G3 (Bethesda, Md.)</Title><ISOAbbreviation>G3 (Bethesda)</ISOAbbreviation></Journal><ArticleTitle>A Chromosome-Scale Genome Assembly for the <i>Fusarium oxysporum</i> Strain Fo5176 To Establish a Model <i>Arabidopsis</i>-Fungal Pathosystem.</ArticleTitle><Pagination><MedlinePgn>3549-3555</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1534/g3.120.401375</ELocationID><Abstract><AbstractText>Plant pathogens cause widespread yield losses in agriculture. Understanding the drivers of plant-pathogen interactions requires decoding the molecular dialog leading to either resistance or disease. However, progress in deciphering pathogenicity genes has been severely hampered by suitable model systems and incomplete fungal genome assemblies. Here, we report a significant improvement of the assembly and annotation of the genome of the <i>Fusarium oxysporum</i> (<i>Fo</i>) strain Fo5176. <i>Fo</i> comprises a large number of serious plant pathogens on dozens of plant species with largely unresolved pathogenicity factors. The strain Fo5176 infects <i>Arabidopsis thaliana</i> and, hence, constitutes a highly promising model system. We use high-coverage Pacific Biosciences Sequel long-read and Hi-C sequencing data to assemble the genome into 19 chromosomes and a total genome size of 67.98 Mb. The genome has a N50 of 4 Mb and a 99.1% complete BUSCO score. Phylogenomic analyses based on single-copy orthologs clearly place the Fo5176 strain in the <i>Fo</i> f sp. <i>conglutinans</i> clade as expected. We generated RNAseq data from culture medium and plant infections to train gene predictions and identified ∼18,000 genes including ten effector genes known from other <i>Fo</i> clades. We show that Fo5176 is able to infect cabbage and Brussel sprouts of the <i>Brassica oleracea</i>, expanding the usefulness of the Fo5176 model pathosystem. Finally, we performed large-scale comparative genomics analyses comparing the Fo5176 to 103 additional <i>Fo</i> genomes to define core and accessory genomic regions. In conjunction with the molecular tool sets available for <i>A. thaliana</i>, the Fo5176 genome and annotation provides a crucial step toward the establishment of a highly promising pathosystem.</AbstractText><CopyrightInformation>Copyright © 2020 Fokkens et al.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Fokkens</LastName><ForeName>Like</ForeName><Initials>L</Initials><Identifier Source="ORCID">http://orcid.org/0000-0001-6696-4409</Identifier><AffiliationInfo><Affiliation>Molecular Plant Pathology, University of Amsterdam, The Netherlands.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Guo</LastName><ForeName>Li</ForeName><Initials>L</Initials><Identifier Source="ORCID">http://orcid.org/0000-0001-6100-3481</Identifier><AffiliationInfo><Affiliation>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Dora</LastName><ForeName>Susanne</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Department of Biology, ETH Zurich, Zurich, Switzerland.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Bo</ForeName><Initials>B</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-9041-878X</Identifier><AffiliationInfo><Affiliation>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Ye</LastName><ForeName>Kai</ForeName><Initials>K</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-2851-6741</Identifier><AffiliationInfo><Affiliation>MOE Key Laboratory for Intelligent Networks & Network Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, China kaiye@xjtu.edu.cn clara_sanchez@ethz.ch daniel.croll@unine.ch.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Sánchez-Rodríguez</LastName><ForeName>Clara</ForeName><Initials>C</Initials><AffiliationInfo><Affiliation>Department of Biology, ETH Zurich, Zurich, Switzerland kaiye@xjtu.edu.cn clara_sanchez@ethz.ch daniel.croll@unine.ch.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Croll</LastName><ForeName>Daniel</ForeName><Initials>D</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-2072-380X</Identifier><AffiliationInfo><Affiliation>Laboratory of Evolutionary Genetics, Institute of Biology, University of Neuchâtel, Neuchâtel, Switzerland kaiye@xjtu.edu.cn clara_sanchez@ethz.ch daniel.croll@unine.ch.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2020</Year><Month>10</Month><Day>05</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>G3 (Bethesda)</MedlineTA><NlmUniqueID>101566598</NlmUniqueID><ISSNLinking>2160-1836</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Arabidopsis thaliana</Keyword><Keyword MajorTopicYN="N">Fusarium oxysporum</Keyword><Keyword MajorTopicYN="N">comparative genomics</Keyword><Keyword MajorTopicYN="N">genome assembly</Keyword><Keyword MajorTopicYN="N">infection assays</Keyword><Keyword MajorTopicYN="N">transposable elements</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>2020</Year><Month>8</Month><Day>28</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2020</Year><Month>8</Month><Day>28</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2020</Year><Month>8</Month><Day>27</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>epublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">32843521</ArticleId><ArticleId IdType="pii">g3.120.401375</ArticleId><ArticleId IdType="doi">10.1534/g3.120.401375</ArticleId><ArticleId IdType="pmc">PMC7534451</ArticleId></ArticleIdList><ReferenceList><Reference><Citation>BMC Bioinformatics. 2005 Feb 15;6:31</Citation><ArticleIdList><ArticleId IdType="pubmed">15713233</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Protoc. 2006;1(5):2320-5</Citation><ArticleIdList><ArticleId IdType="pubmed">17406474</ArticleId></ArticleIdList></Reference><Reference><Citation>Sci Rep. 2014 Jul 07;4:5584</Citation><ArticleIdList><ArticleId IdType="pubmed">24998294</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS One. 2016 Mar 24;11(3):e0152273</Citation><ArticleIdList><ArticleId IdType="pubmed">27010418</ArticleId></ArticleIdList></Reference><Reference><Citation>Cell Syst. 2016 Jul;3(1):99-101</Citation><ArticleIdList><ArticleId IdType="pubmed">27467250</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Plant Pathol. 2020 Jun;21(6):761-776</Citation><ArticleIdList><ArticleId IdType="pubmed">32246740</ArticleId></ArticleIdList></Reference><Reference><Citation>Front Microbiol. 2019 Jun 25;10:1373</Citation><ArticleIdList><ArticleId IdType="pubmed">31293534</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Biol Evol. 2015 Jan;32(1):268-74</Citation><ArticleIdList><ArticleId IdType="pubmed">25371430</ArticleId></ArticleIdList></Reference><Reference><Citation>Elife. 2014 Dec 17;3:e03318</Citation><ArticleIdList><ArticleId IdType="pubmed">25517076</ArticleId></ArticleIdList></Reference><Reference><Citation>J Gen Appl Microbiol. 2011;57(4):207-17</Citation><ArticleIdList><ArticleId IdType="pubmed">21914969</ArticleId></ArticleIdList></Reference><Reference><Citation>Methods Mol Biol. 2019;1962:65-95</Citation><ArticleIdList><ArticleId IdType="pubmed">31020555</ArticleId></ArticleIdList></Reference><Reference><Citation>Sci Rep. 2018 Sep 10;8(1):13530</Citation><ArticleIdList><ArticleId IdType="pubmed">30202022</ArticleId></ArticleIdList></Reference><Reference><Citation>Science. 2017 Apr 7;356(6333):92-95</Citation><ArticleIdList><ArticleId IdType="pubmed">28336562</ArticleId></ArticleIdList></Reference><Reference><Citation>Cold Spring Harb Protoc. 2015 Jul 01;2015(7):649-61</Citation><ArticleIdList><ArticleId IdType="pubmed">26134906</ArticleId></ArticleIdList></Reference><Reference><Citation>Cell Syst. 2016 Jul;3(1):95-8</Citation><ArticleIdList><ArticleId IdType="pubmed">27467249</ArticleId></ArticleIdList></Reference><Reference><Citation>Phytopathology. 2019 Apr;109(4):512-530</Citation><ArticleIdList><ArticleId IdType="pubmed">30461350</ArticleId></ArticleIdList></Reference><Reference><Citation>Phytopathology. 2008 Apr;98(4):475-83</Citation><ArticleIdList><ArticleId IdType="pubmed">18944198</ArticleId></ArticleIdList></Reference><Reference><Citation>Genome Biol. 2004;5(2):R12</Citation><ArticleIdList><ArticleId IdType="pubmed">14759262</ArticleId></ArticleIdList></Reference><Reference><Citation>Bioinformatics. 2014 May 1;30(9):1236-40</Citation><ArticleIdList><ArticleId IdType="pubmed">24451626</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Methods. 2011 Sep 29;8(10):785-6</Citation><ArticleIdList><ArticleId IdType="pubmed">21959131</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Biotechnol. 2019 Aug;37(8):907-915</Citation><ArticleIdList><ArticleId IdType="pubmed">31375807</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Plant Microbe Interact. 2012 Feb;25(2):180-90</Citation><ArticleIdList><ArticleId IdType="pubmed">21942452</ArticleId></ArticleIdList></Reference><Reference><Citation>BMC Genomics. 2016 Mar 05;17:191</Citation><ArticleIdList><ArticleId IdType="pubmed">26945779</ArticleId></ArticleIdList></Reference><Reference><Citation>Sci Rep. 2017 Aug 22;7(1):9042</Citation><ArticleIdList><ArticleId IdType="pubmed">28831051</ArticleId></ArticleIdList></Reference><Reference><Citation>New Phytol. 2020 Sep;227(5):1479-1492</Citation><ArticleIdList><ArticleId IdType="pubmed">32323328</ArticleId></ArticleIdList></Reference><Reference><Citation>J Mol Biol. 2001 Jan 19;305(3):567-80</Citation><ArticleIdList><ArticleId IdType="pubmed">11152613</ArticleId></ArticleIdList></Reference><Reference><Citation>Bioinformatics. 2009 Aug 1;25(15):1972-3</Citation><ArticleIdList><ArticleId IdType="pubmed">19505945</ArticleId></ArticleIdList></Reference><Reference><Citation>Plant J. 2009 Jun;58(6):927-39</Citation><ArticleIdList><ArticleId IdType="pubmed">19220788</ArticleId></ArticleIdList></Reference><Reference><Citation>Bioinformatics. 2009 Aug 15;25(16):2078-9</Citation><ArticleIdList><ArticleId IdType="pubmed">19505943</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Methods. 2013 Jun;10(6):563-9</Citation><ArticleIdList><ArticleId IdType="pubmed">23644548</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Methods. 2017 Jun;14(6):587-589</Citation><ArticleIdList><ArticleId IdType="pubmed">28481363</ArticleId></ArticleIdList></Reference><Reference><Citation>Bioinformatics. 2010 Mar 15;26(6):841-2</Citation><ArticleIdList><ArticleId IdType="pubmed">20110278</ArticleId></ArticleIdList></Reference><Reference><Citation>Nature. 2010 Mar 18;464(7287):367-73</Citation><ArticleIdList><ArticleId IdType="pubmed">20237561</ArticleId></ArticleIdList></Reference><Reference><Citation>J Mol Biol. 1990 Oct 5;215(3):403-10</Citation><ArticleIdList><ArticleId IdType="pubmed">2231712</ArticleId></ArticleIdList></Reference><Reference><Citation>Nucleic Acids Res. 2004 Mar 19;32(5):1792-7</Citation><ArticleIdList><ArticleId IdType="pubmed">15034147</ArticleId></ArticleIdList></Reference></ReferenceList></PubmedData></pubmed><affiliations><list><country><li>Pays-Bas</li><li>République populaire de Chine</li><li>Suisse</li></country><region><li>Hollande-Septentrionale</li></region><settlement><li>Amsterdam</li></settlement><orgName><li>Université d'Amsterdam</li></orgName></list><tree><country name="Pays-Bas"><region name="Hollande-Septentrionale"><name sortKey="Fokkens, Like" sort="Fokkens, Like" uniqKey="Fokkens L" first="Like" last="Fokkens">Like Fokkens</name></region></country><country name="République populaire de Chine"><noRegion><name sortKey="Guo, Li" sort="Guo, Li" uniqKey="Guo L" first="Li" last="Guo">Li Guo</name></noRegion><name sortKey="Croll, Daniel" sort="Croll, Daniel" uniqKey="Croll D" first="Daniel" last="Croll">Daniel Croll</name><name sortKey="Sanchez Rodriguez, Clara" sort="Sanchez Rodriguez, Clara" uniqKey="Sanchez Rodriguez C" first="Clara" last="Sánchez-Rodríguez">Clara Sánchez-Rodríguez</name><name sortKey="Wang, Bo" sort="Wang, Bo" uniqKey="Wang B" first="Bo" last="Wang">Bo Wang</name><name sortKey="Ye, Kai" sort="Ye, Kai" uniqKey="Ye K" first="Kai" last="Ye">Kai Ye</name></country><country name="Suisse"><noRegion><name sortKey="Dora, Susanne" sort="Dora, Susanne" uniqKey="Dora S" first="Susanne" last="Dora">Susanne Dora</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Bois/explor/PlantPathoEffV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000242 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 000242 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Bois
|area= PlantPathoEffV1
|flux= Main
|étape= Exploration
|type= RBID
|clé= pubmed:32843521
|texte= A Chromosome-Scale Genome Assembly for the Fusarium oxysporum Strain Fo5176 To Establish a Model Arabidopsis-Fungal Pathosystem.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:32843521" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a PlantPathoEffV1
| This area was generated with Dilib version V0.6.38. |  |