Asexual Evolution and Forest Conditions Drive Genetic Parallelism in Phytophthora ramorum.
Identifieur interne : 000296 ( Main/Exploration ); précédent : 000295; suivant : 000297Asexual Evolution and Forest Conditions Drive Genetic Parallelism in Phytophthora ramorum.
Auteurs : Jennifer David Yuzon [États-Unis] ; Renaud Travadon [États-Unis] ; Mathu Malar C [Inde] ; Sucheta Tripathy [Inde] ; Nathan Rank [États-Unis] ; Heather K. Mehl [États-Unis] ; David M. Rizzo [États-Unis] ; Richard Cobb [États-Unis] ; Corinn Small [États-Unis] ; Tiffany Tang [États-Unis] ; Haley E. Mccown [États-Unis] ; Matteo Garbelotto [États-Unis] ; Takao Kasuga [États-Unis]Source :
- Microorganisms [ 2076-2607 ] ; 2020.
Abstract
It is commonly assumed that asexual lineages are short-lived evolutionarily, yet many asexual organisms can generate genetic and phenotypic variation, providing an avenue for further evolution. Previous work on the asexual plant pathogen Phytophthora ramorum NA1 revealed considerable genetic variation in the form of Structural Variants (SVs). To better understand how SVs arise and their significance to the California NA1 population, we studied the evolutionary histories of SVs and the forest conditions associated with their emergence. Ancestral state reconstruction suggests that SVs arose by somatic mutations among multiple independent lineages, rather than by recombination. We asked if this unusual phenomenon of parallel evolution between isolated populations is transmitted to extant lineages and found that SVs persist longer in a population if their genetic background had a lower mutation load. Genetic parallelism was also found in geographically distant demes where forest conditions such as host density, solar radiation, and temperature, were similar. Parallel SVs overlap with genes involved in pathogenicity such as RXLRs and have the potential to change the course of an epidemic. By combining genomics and environmental data, we identified an unexpected pattern of repeated evolution in an asexual population and identified environmental factors potentially driving this phenomenon.
DOI: 10.3390/microorganisms8060940
PubMed: 32580470
PubMed Central: PMC7357085
Affiliations:
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Mehl</name><affiliation wicri:level="2"><nlm:affiliation>Department of Plant Pathology, University of California, Davis, CA 95616, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Plant Pathology, University of California, Davis, CA 95616</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Rizzo, David M" sort="Rizzo, David M" uniqKey="Rizzo D" first="David M" last="Rizzo">David M. Rizzo</name><affiliation wicri:level="2"><nlm:affiliation>Department of Plant Pathology, University of California, Davis, CA 95616, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Plant Pathology, University of California, Davis, CA 95616</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Cobb, Richard" sort="Cobb, Richard" uniqKey="Cobb R" first="Richard" last="Cobb">Richard Cobb</name><affiliation wicri:level="2"><nlm:affiliation>Department of Natural Resources and Environmental Science, California Polytechnic State University, San Luis Obispo, CA 93407.</nlm:affiliation><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>Department of Natural Resources and Environmental Science, California Polytechnic State University, San Luis Obispo</wicri:cityArea></affiliation></author><author><name sortKey="Small, Corinn" sort="Small, Corinn" uniqKey="Small C" first="Corinn" last="Small">Corinn Small</name><affiliation wicri:level="2"><nlm:affiliation>Department of Plant Pathology, University of California, Davis, CA 95616, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Plant Pathology, University of California, Davis, CA 95616</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Tang, Tiffany" sort="Tang, Tiffany" uniqKey="Tang T" first="Tiffany" last="Tang">Tiffany Tang</name><affiliation wicri:level="2"><nlm:affiliation>Department of Plant Pathology, University of California, Davis, CA 95616, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Plant Pathology, University of California, Davis, CA 95616</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Mccown, Haley E" sort="Mccown, Haley E" uniqKey="Mccown H" first="Haley E" last="Mccown">Haley E. Mccown</name><affiliation wicri:level="2"><nlm:affiliation>Department of Plant Pathology, University of California, Davis, CA 95616, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Plant Pathology, University of California, Davis, CA 95616</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Garbelotto, Matteo" sort="Garbelotto, Matteo" uniqKey="Garbelotto M" first="Matteo" last="Garbelotto">Matteo Garbelotto</name><affiliation wicri:level="2"><nlm:affiliation>Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Kasuga, Takao" sort="Kasuga, Takao" uniqKey="Kasuga T" first="Takao" last="Kasuga">Takao Kasuga</name><affiliation wicri:level="2"><nlm:affiliation>Crops Pathology and Genetics Research Unit, USDA Agricultural Research Service, Davis, CA 95616, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Crops Pathology and Genetics Research Unit, USDA Agricultural Research Service, Davis, CA 95616</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author></analytic><series><title level="j">Microorganisms</title><idno type="ISSN">2076-2607</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">It is commonly assumed that asexual lineages are short-lived evolutionarily, yet many asexual organisms can generate genetic and phenotypic variation, providing an avenue for further evolution. Previous work on the asexual plant pathogen <i>Phytophthora ramorum</i> NA1 revealed considerable genetic variation in the form of Structural Variants (SVs). To better understand how SVs arise and their significance to the California NA1 population, we studied the evolutionary histories of SVs and the forest conditions associated with their emergence. Ancestral state reconstruction suggests that SVs arose by somatic mutations among multiple independent lineages, rather than by recombination. We asked if this unusual phenomenon of parallel evolution between isolated populations is transmitted to extant lineages and found that SVs persist longer in a population if their genetic background had a lower mutation load. Genetic parallelism was also found in geographically distant demes where forest conditions such as host density, solar radiation, and temperature, were similar. Parallel SVs overlap with genes involved in pathogenicity such as RXLRs and have the potential to change the course of an epidemic. By combining genomics and environmental data, we identified an unexpected pattern of repeated evolution in an asexual population and identified environmental factors potentially driving this phenomenon.</div></front></TEI><pubmed><MedlineCitation Status="PubMed-not-MEDLINE" Owner="NLM"><PMID Version="1">32580470</PMID><DateRevised><Year>2020</Year><Month>09</Month><Day>28</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Print">2076-2607</ISSN><JournalIssue CitedMedium="Print"><Volume>8</Volume><Issue>6</Issue><PubDate><Year>2020</Year><Month>Jun</Month><Day>22</Day></PubDate></JournalIssue><Title>Microorganisms</Title><ISOAbbreviation>Microorganisms</ISOAbbreviation></Journal><ArticleTitle>Asexual Evolution and Forest Conditions Drive Genetic Parallelism in <i>Phytophthora ramorum</i>.</ArticleTitle><ELocationID EIdType="pii" ValidYN="Y">E940</ELocationID><ELocationID EIdType="doi" ValidYN="Y">10.3390/microorganisms8060940</ELocationID><Abstract><AbstractText>It is commonly assumed that asexual lineages are short-lived evolutionarily, yet many asexual organisms can generate genetic and phenotypic variation, providing an avenue for further evolution. Previous work on the asexual plant pathogen <i>Phytophthora ramorum</i> NA1 revealed considerable genetic variation in the form of Structural Variants (SVs). To better understand how SVs arise and their significance to the California NA1 population, we studied the evolutionary histories of SVs and the forest conditions associated with their emergence. Ancestral state reconstruction suggests that SVs arose by somatic mutations among multiple independent lineages, rather than by recombination. We asked if this unusual phenomenon of parallel evolution between isolated populations is transmitted to extant lineages and found that SVs persist longer in a population if their genetic background had a lower mutation load. Genetic parallelism was also found in geographically distant demes where forest conditions such as host density, solar radiation, and temperature, were similar. Parallel SVs overlap with genes involved in pathogenicity such as RXLRs and have the potential to change the course of an epidemic. By combining genomics and environmental data, we identified an unexpected pattern of repeated evolution in an asexual population and identified environmental factors potentially driving this phenomenon.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Yuzon</LastName><ForeName>Jennifer David</ForeName><Initials>JD</Initials><Identifier Source="ORCID">0000-0003-1295-9385</Identifier><AffiliationInfo><Affiliation>Department of Plant Pathology, University of California, Davis, CA 95616, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Travadon</LastName><ForeName>Renaud</ForeName><Initials>R</Initials><Identifier Source="ORCID">0000-0001-6062-1755</Identifier><AffiliationInfo><Affiliation>Department of Plant Pathology, University of California, Davis, CA 95616, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Malar C</LastName><ForeName>Mathu</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>CSIR Indian Institute of Chemical Biology, Kolkata 700032, India.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Tripathy</LastName><ForeName>Sucheta</ForeName><Initials>S</Initials><Identifier Source="ORCID">0000-0003-0611-8088</Identifier><AffiliationInfo><Affiliation>CSIR Indian Institute of Chemical Biology, Kolkata 700032, India.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Rank</LastName><ForeName>Nathan</ForeName><Initials>N</Initials><AffiliationInfo><Affiliation>Department of Biology, Sonoma State University, Rohnert Park, CA 94928, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Mehl</LastName><ForeName>Heather K</ForeName><Initials>HK</Initials><AffiliationInfo><Affiliation>Department of Plant Pathology, University of California, Davis, CA 95616, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Rizzo</LastName><ForeName>David M</ForeName><Initials>DM</Initials><AffiliationInfo><Affiliation>Department of Plant Pathology, University of California, Davis, CA 95616, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Cobb</LastName><ForeName>Richard</ForeName><Initials>R</Initials><AffiliationInfo><Affiliation>Department of Natural Resources and Environmental Science, California Polytechnic State University, San Luis Obispo, CA 93407.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Small</LastName><ForeName>Corinn</ForeName><Initials>C</Initials><AffiliationInfo><Affiliation>Department of Plant Pathology, University of California, Davis, CA 95616, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Tang</LastName><ForeName>Tiffany</ForeName><Initials>T</Initials><AffiliationInfo><Affiliation>Department of Plant Pathology, University of California, Davis, CA 95616, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>McCown</LastName><ForeName>Haley E</ForeName><Initials>HE</Initials><AffiliationInfo><Affiliation>Department of Plant Pathology, University of California, Davis, CA 95616, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Garbelotto</LastName><ForeName>Matteo</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Kasuga</LastName><ForeName>Takao</ForeName><Initials>T</Initials><AffiliationInfo><Affiliation>Crops Pathology and Genetics Research Unit, USDA Agricultural Research Service, Davis, CA 95616, USA.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2020</Year><Month>06</Month><Day>22</Day></ArticleDate></Article><MedlineJournalInfo><Country>Switzerland</Country><MedlineTA>Microorganisms</MedlineTA><NlmUniqueID>101625893</NlmUniqueID><ISSNLinking>2076-2607</ISSNLinking></MedlineJournalInfo><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Phytophthora ramorum</Keyword><Keyword MajorTopicYN="N">Structural Variants</Keyword><Keyword MajorTopicYN="N">asexual reproduction</Keyword><Keyword MajorTopicYN="N">forest pathology</Keyword><Keyword MajorTopicYN="N">parallel evolution</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2020</Year><Month>05</Month><Day>22</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2020</Year><Month>06</Month><Day>15</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2020</Year><Month>06</Month><Day>18</Day></PubMedPubDate><PubMedPubDate 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