Genome-wide analyses of cassava Pathogenesis-related (PR) gene families reveal core transcriptome responses to whitefly infestation, salicylic acid and jasmonic acid
Identifieur interne : 000081 ( Main/Exploration ); précédent : 000080; suivant : 000082Genome-wide analyses of cassava Pathogenesis-related (PR) gene families reveal core transcriptome responses to whitefly infestation, salicylic acid and jasmonic acid
Auteurs : Maria L. Irigoyen [États-Unis] ; Danielle C. Garceau [États-Unis] ; Adriana Bohorquez-Chaux [Colombie] ; Luis Augusto Becerra Lopez-Lavalle [Colombie] ; Laura Perez-Fons [Royaume-Uni] ; Paul D. Fraser [Royaume-Uni] ; Linda L. Walling [États-Unis]Source :
- BMC Genomics [ 1471-2164 ] ; 2020.
Abstract
Whiteflies are a threat to cassava (
The cassava genome possesses 14 of the 17 plant
This study represents the first genome-wide characterization of
Url:
DOI: 10.1186/s12864-019-6443-1
PubMed: 31996126
PubMed Central: 6990599
Affiliations:
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Irigoyen</name><affiliation wicri:level="2"><nlm:aff id="Aff1"><institution-wrap><institution-id institution-id-type="ISNI">0000 0001 2222 1582</institution-id><institution-id institution-id-type="GRID">grid.266097.c</institution-id><institution>Department of Botany and Plant Sciences and Institute of Integrative Genome Biology,</institution><institution>University of California,</institution></institution-wrap>Riverside, CA 92521 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>Riverside</wicri:cityArea></affiliation></author><author><name sortKey="Garceau, Danielle C" sort="Garceau, Danielle C" uniqKey="Garceau D" first="Danielle C." last="Garceau">Danielle C. Garceau</name><affiliation wicri:level="2"><nlm:aff id="Aff1"><institution-wrap><institution-id institution-id-type="ISNI">0000 0001 2222 1582</institution-id><institution-id institution-id-type="GRID">grid.266097.c</institution-id><institution>Department of Botany and Plant Sciences and Institute of Integrative Genome Biology,</institution><institution>University of California,</institution></institution-wrap>Riverside, CA 92521 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>Riverside</wicri:cityArea></affiliation></author><author><name sortKey="Bohorquez Chaux, Adriana" sort="Bohorquez Chaux, Adriana" uniqKey="Bohorquez Chaux A" first="Adriana" last="Bohorquez-Chaux">Adriana Bohorquez-Chaux</name><affiliation wicri:level="1"><nlm:aff id="Aff2"><institution-wrap><institution-id institution-id-type="ISNI">0000 0001 0943 556X</institution-id><institution-id institution-id-type="GRID">grid.418348.2</institution-id><institution>International Center of Tropical Agriculture (CIAT),</institution></institution-wrap>Cali, Colombia</nlm:aff><country xml:lang="fr">Colombie</country><wicri:regionArea>Cali</wicri:regionArea></affiliation></author><author><name sortKey="Lopez Lavalle, Luis Augusto Becerra" sort="Lopez Lavalle, Luis Augusto Becerra" uniqKey="Lopez Lavalle L" first="Luis Augusto Becerra" last="Lopez-Lavalle">Luis Augusto Becerra Lopez-Lavalle</name><affiliation wicri:level="1"><nlm:aff id="Aff2"><institution-wrap><institution-id institution-id-type="ISNI">0000 0001 0943 556X</institution-id><institution-id institution-id-type="GRID">grid.418348.2</institution-id><institution>International Center of Tropical Agriculture (CIAT),</institution></institution-wrap>Cali, Colombia</nlm:aff><country xml:lang="fr">Colombie</country><wicri:regionArea>Cali</wicri:regionArea></affiliation></author><author><name sortKey="Perez Fons, Laura" sort="Perez Fons, Laura" uniqKey="Perez Fons L" first="Laura" last="Perez-Fons">Laura Perez-Fons</name><affiliation wicri:level="1"><nlm:aff id="Aff3"><institution-wrap><institution-id institution-id-type="ISNI">0000 0001 2188 881X</institution-id><institution-id institution-id-type="GRID">grid.4970.a</institution-id><institution>Department of Biological Sciences,</institution><institution>Royal Holloway University of London,</institution></institution-wrap>Egham, UK</nlm:aff><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Egham</wicri:regionArea></affiliation></author><author><name sortKey="Fraser, Paul D" sort="Fraser, Paul D" uniqKey="Fraser P" first="Paul D." last="Fraser">Paul D. Fraser</name><affiliation wicri:level="1"><nlm:aff id="Aff3"><institution-wrap><institution-id institution-id-type="ISNI">0000 0001 2188 881X</institution-id><institution-id institution-id-type="GRID">grid.4970.a</institution-id><institution>Department of Biological Sciences,</institution><institution>Royal Holloway University of London,</institution></institution-wrap>Egham, UK</nlm:aff><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Egham</wicri:regionArea></affiliation></author><author><name sortKey="Walling, Linda L" sort="Walling, Linda L" uniqKey="Walling L" first="Linda L." last="Walling">Linda L. Walling</name><affiliation wicri:level="2"><nlm:aff id="Aff1"><institution-wrap><institution-id institution-id-type="ISNI">0000 0001 2222 1582</institution-id><institution-id institution-id-type="GRID">grid.266097.c</institution-id><institution>Department of Botany and Plant Sciences and Institute of Integrative Genome Biology,</institution><institution>University of California,</institution></institution-wrap>Riverside, CA 92521 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>Riverside</wicri:cityArea></affiliation></author></analytic><series><title level="j">BMC Genomics</title><idno type="eISSN">1471-2164</idno><imprint><date when="2020">2020</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p id="Par1">Whiteflies are a threat to cassava (<italic>Manihot esculenta</italic>), an important staple food in many tropical/subtropical regions. Understanding the molecular mechanisms regulating cassava’s responses against this pest is crucial for developing control strategies. Pathogenesis-related (PR) protein families are an integral part of plant immunity. With the availability of whole genome sequences, the annotation and expression programs of the full complement of <italic>PR</italic> genes in an organism can now be achieved. An understanding of the responses of the entire complement of <italic>PR</italic> genes during biotic stress and to the defense hormones, salicylic acid (SA) and jasmonic acid (JA), is lacking. Here, we analyze the responses of cassava <italic>PR</italic> genes to whiteflies, SA, JA, and other biotic aggressors.</p></sec><sec><title>Results</title><p id="Par2">The cassava genome possesses 14 of the 17 plant <italic>PR</italic> families, with a total of 447 <italic>PR</italic> genes. A cassava <italic>PR</italic> gene nomenclature is proposed. Phylogenetic relatedness of cassava PR proteins to each other and to homologs in poplar, rice and Arabidopsis identified cassava-specific <italic>PR</italic> gene family expansions. The temporal programs of <italic>PR</italic> gene expression in response to the whitefly (<italic>Aleurotrachelus socialis</italic>) in four whitefly-susceptible cassava genotypes showed that 167 of the 447 <italic>PR</italic> genes were regulated after whitefly infestation. While the timing of <italic>PR</italic> gene expression varied, over 37% of whitefly-regulated <italic>PR</italic> genes were downregulated in all four genotypes. Notably, whitefly-responsive <italic>PR</italic> genes were largely coordinately regulated by SA and JA. The analysis of cassava <italic>PR</italic> gene expression in response to five other biotic stresses revealed a strong positive correlation between whitefly and <italic>Xanthomonas axonopodis</italic> and <italic>Cassava Brown Streak Virus</italic> responses and negative correlations between whitefly and <italic>Cassava Mosaic Virus</italic> responses<italic>.</italic> Finally, certain associations between <italic>PR</italic> genes in cassava expansions and response to biotic stresses were observed among <italic>PR</italic> families.</p></sec><sec><title>Conclusions</title><p id="Par3">This study represents the first genome-wide characterization of <italic>PR</italic> genes in cassava. <italic>PR</italic> gene responses to six biotic stresses and to SA and JA are demonstrably different to other angiosperms. We propose that our approach could be applied in other species to fully understand <italic>PR</italic> gene regulation by pathogens, pests and the canonical defense hormones SA and JA.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct></biblStruct><biblStruct><analytic><author><name sortKey="Ceballos, H" uniqKey="Ceballos H">H Ceballos</name></author><author><name sortKey="Ramirez, J" uniqKey="Ramirez J">J Ramirez</name></author><author><name sortKey="Bellotti, Ac" uniqKey="Bellotti A">AC Bellotti</name></author><author><name sortKey="Jarvis, A" uniqKey="Jarvis A">A Jarvis</name></author><author><name sortKey="Alvarez, E" uniqKey="Alvarez E">E Alvarez</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Jarvis, A" uniqKey="Jarvis A">A Jarvis</name></author><author><name sortKey="Ramirez Villegas, J" uniqKey="Ramirez Villegas J">J Ramirez-Villegas</name></author><author><name sortKey="Herrera Campo, Bv" uniqKey="Herrera Campo 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Hayes</name></author><author><name sortKey="Fazo, J" uniqKey="Fazo J">J Fazo</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Backman, Twh" uniqKey="Backman T">TWH Backman</name></author><author><name sortKey="Girke, T" uniqKey="Girke T">T Girke</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Gu, Z" uniqKey="Gu Z">Z Gu</name></author><author><name sortKey="Eils, R" uniqKey="Eils R">R Eils</name></author><author><name sortKey="Schlesner, M" uniqKey="Schlesner M">M Schlesner</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Oliveros, Jc" uniqKey="Oliveros J">JC Oliveros</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Wilson, Mc" uniqKey="Wilson M">MC Wilson</name></author><author><name sortKey="Mutka, Am" uniqKey="Mutka A">AM Mutka</name></author><author><name sortKey="Hummel, Aw" uniqKey="Hummel A">AW Hummel</name></author><author><name sortKey="Berry, J" uniqKey="Berry J">J Berry</name></author><author><name sortKey="Chauhan, Rd" uniqKey="Chauhan R">RD Chauhan</name></author><author><name sortKey="Vijayaraghavan, A" uniqKey="Vijayaraghavan A">A Vijayaraghavan</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Livak, Kenneth J" uniqKey="Livak K">Kenneth J. Livak</name></author><author><name sortKey="Schmittgen, Thomas D" uniqKey="Schmittgen T">Thomas D. Schmittgen</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Wickman, H" uniqKey="Wickman H">H Wickman</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Evans, Jd" uniqKey="Evans J">JD Evans</name></author></analytic></biblStruct><biblStruct></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Colombie</li><li>Royaume-Uni</li><li>États-Unis</li></country><region><li>Californie</li></region></list><tree><country name="États-Unis"><region name="Californie"><name sortKey="Irigoyen, Maria L" sort="Irigoyen, Maria L" uniqKey="Irigoyen M" first="Maria L." last="Irigoyen">Maria L. Irigoyen</name></region><name sortKey="Garceau, Danielle C" sort="Garceau, Danielle C" uniqKey="Garceau D" first="Danielle C." last="Garceau">Danielle C. Garceau</name><name sortKey="Walling, Linda L" sort="Walling, Linda L" uniqKey="Walling L" first="Linda L." last="Walling">Linda L. Walling</name></country><country name="Colombie"><noRegion><name sortKey="Bohorquez Chaux, Adriana" sort="Bohorquez Chaux, Adriana" uniqKey="Bohorquez Chaux A" first="Adriana" last="Bohorquez-Chaux">Adriana Bohorquez-Chaux</name></noRegion><name sortKey="Lopez Lavalle, Luis Augusto Becerra" sort="Lopez Lavalle, Luis Augusto Becerra" uniqKey="Lopez Lavalle L" first="Luis Augusto Becerra" last="Lopez-Lavalle">Luis Augusto Becerra Lopez-Lavalle</name></country><country name="Royaume-Uni"><noRegion><name sortKey="Perez Fons, Laura" sort="Perez Fons, Laura" uniqKey="Perez Fons L" first="Laura" last="Perez-Fons">Laura Perez-Fons</name></noRegion><name sortKey="Fraser, Paul D" sort="Fraser, Paul D" uniqKey="Fraser P" first="Paul D." last="Fraser">Paul D. Fraser</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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