Genome-wide signatures of selection in Colletotrichum kahawae reveal candidate genes potentially involved in pathogenicity and aggressiveness

Detalhes bibliográficos
Autor(a) principal: Vieira, Ana
Data de Publicação: 2019
Outros Autores: Silva, Diogo Nuno, Várzea, Vitor, Paulo, Octávio S., Batista, Dora
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10400.5/18210
Resumo: Original Research
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spelling Genome-wide signatures of selection in Colletotrichum kahawae reveal candidate genes potentially involved in pathogenicity and aggressivenessgenomicscoffeehost-pathogen interactioncoffee berry diseasehost specializationRAD-seqOriginal ResearchPlants and their pathogens are engaged in continuous evolutionary battles, with pathogens evolving to circumvent plant defense mechanisms and plants responding through enhanced protection to prevent or mitigate damage induced by pathogen attack. Managed ecosystems are composed of genetically identical populations of crop plants with few changes from year to year. These environments are highly conducive to the emergence and dissemination of pathogens and they exert selective pressure for both qualitative virulence factors responsible for fungal pathogenicity, and quantitative traits linked to pathogen fitness, such as aggressiveness. In this study, we used a comparative genome-wide approach to investigate the genomic basis underlying the pathogenicity and aggressiveness of the fungal coffee pathogen Colletotrichum kahawae infecting green coffee berries. The pathogenicity was investigated by comparing genomic variation between C. kahawae and its non-pathogenic sibling species, while the aggressiveness was studied by a genome-wide association approach with groups of isolates with different phenotypic profiles. High genetic differentiation was observed between C. kahawae and the most closely related species with 5,560 diagnostic SNPs identified, in which a significant enrichment of non-synonymous mutations was detected. Functional annotation of these non-synonymous mutations revealed a significant enrichment mainly in two gene ontology categories, “oxidation– reduction process” and “integral component of membrane.” Finally, the annotation of several genes potentially under-selection revealed that C. kahawae’s pathogenicity may be a complex biological process, in which important biological functions, such as, detoxification and transport, regulation of host and pathogen gene expression, and signaling are involved. On the other hand, the genome-wide association analyses for aggressiveness were able to identify 10 SNPs and 15 SNPs of small effect in single and multi-association analysis, respectively, from which 7 were common, giving in total 18 SNPs potentially associated. The annotation of these genomic regions allowed the identification of four candidate genes encoding F-box domain-containing, nitrosoguanidine resistance, Fungal specific transcription factor domain-containing and C6 transcription factor that could be associated with aggressiveness. This study shed light, for the first time, on the genetic mechanisms of C. kahawae host specializationOriginalRaffaella Balestrini, IPSP-CNR, ItalyRepositório da Universidade de LisboaVieira, AnaSilva, Diogo NunoVárzea, VitorPaulo, Octávio S.Batista, Dora2019-08-01T13:19:02Z20192019-01-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10400.5/18210engVieira A, Silva DN, Várzea V, Paulo OS and Batista D (2019) Genome-Wide Signatures of Selection in Colletotrichum kahawae Reveal Candidate Genes Potentially Involved in Pathogenicity and Aggressiveness. Front. Microbiol. 10:137410.3389/fmicb.2019.01374info:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2023-03-06T14:47:49Zoai:www.repository.utl.pt:10400.5/18210Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T17:03:18.076781Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse
dc.title.none.fl_str_mv Genome-wide signatures of selection in Colletotrichum kahawae reveal candidate genes potentially involved in pathogenicity and aggressiveness
title Genome-wide signatures of selection in Colletotrichum kahawae reveal candidate genes potentially involved in pathogenicity and aggressiveness
spellingShingle Genome-wide signatures of selection in Colletotrichum kahawae reveal candidate genes potentially involved in pathogenicity and aggressiveness
Vieira, Ana
genomics
coffee
host-pathogen interaction
coffee berry disease
host specialization
RAD-seq
title_short Genome-wide signatures of selection in Colletotrichum kahawae reveal candidate genes potentially involved in pathogenicity and aggressiveness
title_full Genome-wide signatures of selection in Colletotrichum kahawae reveal candidate genes potentially involved in pathogenicity and aggressiveness
title_fullStr Genome-wide signatures of selection in Colletotrichum kahawae reveal candidate genes potentially involved in pathogenicity and aggressiveness
title_full_unstemmed Genome-wide signatures of selection in Colletotrichum kahawae reveal candidate genes potentially involved in pathogenicity and aggressiveness
title_sort Genome-wide signatures of selection in Colletotrichum kahawae reveal candidate genes potentially involved in pathogenicity and aggressiveness
author Vieira, Ana
author_facet Vieira, Ana
Silva, Diogo Nuno
Várzea, Vitor
Paulo, Octávio S.
Batista, Dora
author_role author
author2 Silva, Diogo Nuno
Várzea, Vitor
Paulo, Octávio S.
Batista, Dora
author2_role author
author
author
author
dc.contributor.none.fl_str_mv Repositório da Universidade de Lisboa
dc.contributor.author.fl_str_mv Vieira, Ana
Silva, Diogo Nuno
Várzea, Vitor
Paulo, Octávio S.
Batista, Dora
dc.subject.por.fl_str_mv genomics
coffee
host-pathogen interaction
coffee berry disease
host specialization
RAD-seq
topic genomics
coffee
host-pathogen interaction
coffee berry disease
host specialization
RAD-seq
description Original Research
publishDate 2019
dc.date.none.fl_str_mv 2019-08-01T13:19:02Z
2019
2019-01-01T00:00:00Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://hdl.handle.net/10400.5/18210
url http://hdl.handle.net/10400.5/18210
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Vieira A, Silva DN, Várzea V, Paulo OS and Batista D (2019) Genome-Wide Signatures of Selection in Colletotrichum kahawae Reveal Candidate Genes Potentially Involved in Pathogenicity and Aggressiveness. Front. Microbiol. 10:1374
10.3389/fmicb.2019.01374
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Raffaella Balestrini, IPSP-CNR, Italy
publisher.none.fl_str_mv Raffaella Balestrini, IPSP-CNR, Italy
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron:RCAAP
instname_str Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron_str RCAAP
institution RCAAP
reponame_str Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
collection Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
repository.name.fl_str_mv Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
repository.mail.fl_str_mv
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