Cargando…

Species diversity and molecular characterization of Alternaria section Alternaria isolates collected mainly from cereal crops in Canada

Alternaria is often one on the most abundant fungal genera recovered from a wide array of plant hosts and environmental substrates. Many species within the sub-generic Alternaria section Alternaria are common plant pathogens that cause pre-harvest losses due to reduced productivity and post-harvest...

Descripción completa

Detalles Bibliográficos
Autores principales: Dettman, Jeremy R., Eggertson, Quinn A., Kim, Natalie E.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10249498/
https://www.ncbi.nlm.nih.gov/pubmed/37303811
http://dx.doi.org/10.3389/fmicb.2023.1194911
_version_ 1785055572409712640
author Dettman, Jeremy R.
Eggertson, Quinn A.
Kim, Natalie E.
author_facet Dettman, Jeremy R.
Eggertson, Quinn A.
Kim, Natalie E.
author_sort Dettman, Jeremy R.
collection PubMed
description Alternaria is often one on the most abundant fungal genera recovered from a wide array of plant hosts and environmental substrates. Many species within the sub-generic Alternaria section Alternaria are common plant pathogens that cause pre-harvest losses due to reduced productivity and post-harvest losses due to spoilage and contamination with mycotoxins. As certain species of Alternaria may have distinct mycotoxin profiles, and very broad host ranges, understanding the distribution of species by geography and host is critical for disease prediction, toxicological risk assessment, and guiding regulatory decisions. In two previous reports, we performed phylogenomic analyses to identify highly informative molecular markers for Alternaria section Alternaria, and validated their diagnostic ability. Here, we perform molecular characterization of 558 section Alternaria strains, collected from 64 host genera in 12 countries, using two of these section-specific loci (ASA-10 and ASA-19) along with the RNA polymerase II second largest subunit (rpb2) gene. The majority of strains (57.4%) originated from various cereal crops in Canada, which formed the main focus of our study. Phylogenetic analyses were used to classify strains into section Alternaria species/lineages, demonstrating that the most common species on Canadian cereal crops are Alternaria alternata and A. arborescens. Further population genetic analyses were consistent with A. alternata being a widely distributed species with relatively low levels of geographic isolation (i.e., Canadian isolates did not form distinct clades when compared to other regions). Our expanded sampling of A. arborescens has greatly increased the known diversity of this group, with A. arborescens isolates forming at least three distinct phylogenetic lineages. Proportionally, A. arborescens is more prevalent in Eastern Canada than in Western Canada. Sequence analyses, putative hybrids, and mating-type distributions provided some evidence for recombination events, both within and between species. There was little evidence for associations between hosts and genetic haplotypes of A. alternata or A. arborescens.
format Online
Article
Text
id pubmed-10249498
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher Frontiers Media S.A.
record_format MEDLINE/PubMed
spelling pubmed-102494982023-06-09 Species diversity and molecular characterization of Alternaria section Alternaria isolates collected mainly from cereal crops in Canada Dettman, Jeremy R. Eggertson, Quinn A. Kim, Natalie E. Front Microbiol Microbiology Alternaria is often one on the most abundant fungal genera recovered from a wide array of plant hosts and environmental substrates. Many species within the sub-generic Alternaria section Alternaria are common plant pathogens that cause pre-harvest losses due to reduced productivity and post-harvest losses due to spoilage and contamination with mycotoxins. As certain species of Alternaria may have distinct mycotoxin profiles, and very broad host ranges, understanding the distribution of species by geography and host is critical for disease prediction, toxicological risk assessment, and guiding regulatory decisions. In two previous reports, we performed phylogenomic analyses to identify highly informative molecular markers for Alternaria section Alternaria, and validated their diagnostic ability. Here, we perform molecular characterization of 558 section Alternaria strains, collected from 64 host genera in 12 countries, using two of these section-specific loci (ASA-10 and ASA-19) along with the RNA polymerase II second largest subunit (rpb2) gene. The majority of strains (57.4%) originated from various cereal crops in Canada, which formed the main focus of our study. Phylogenetic analyses were used to classify strains into section Alternaria species/lineages, demonstrating that the most common species on Canadian cereal crops are Alternaria alternata and A. arborescens. Further population genetic analyses were consistent with A. alternata being a widely distributed species with relatively low levels of geographic isolation (i.e., Canadian isolates did not form distinct clades when compared to other regions). Our expanded sampling of A. arborescens has greatly increased the known diversity of this group, with A. arborescens isolates forming at least three distinct phylogenetic lineages. Proportionally, A. arborescens is more prevalent in Eastern Canada than in Western Canada. Sequence analyses, putative hybrids, and mating-type distributions provided some evidence for recombination events, both within and between species. There was little evidence for associations between hosts and genetic haplotypes of A. alternata or A. arborescens. Frontiers Media S.A. 2023-05-25 /pmc/articles/PMC10249498/ /pubmed/37303811 http://dx.doi.org/10.3389/fmicb.2023.1194911 Text en Copyright © 2023 His Majesty the King in Right of Canada, as represented by the Minister of Agriculture and Agri-Food Canada for the contribution of Jeremy R. Dettman, Quinn Eggertson, and Natalie E. Kim. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Microbiology
Dettman, Jeremy R.
Eggertson, Quinn A.
Kim, Natalie E.
Species diversity and molecular characterization of Alternaria section Alternaria isolates collected mainly from cereal crops in Canada
title Species diversity and molecular characterization of Alternaria section Alternaria isolates collected mainly from cereal crops in Canada
title_full Species diversity and molecular characterization of Alternaria section Alternaria isolates collected mainly from cereal crops in Canada
title_fullStr Species diversity and molecular characterization of Alternaria section Alternaria isolates collected mainly from cereal crops in Canada
title_full_unstemmed Species diversity and molecular characterization of Alternaria section Alternaria isolates collected mainly from cereal crops in Canada
title_short Species diversity and molecular characterization of Alternaria section Alternaria isolates collected mainly from cereal crops in Canada
title_sort species diversity and molecular characterization of alternaria section alternaria isolates collected mainly from cereal crops in canada
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10249498/
https://www.ncbi.nlm.nih.gov/pubmed/37303811
http://dx.doi.org/10.3389/fmicb.2023.1194911
work_keys_str_mv AT dettmanjeremyr speciesdiversityandmolecularcharacterizationofalternariasectionalternariaisolatescollectedmainlyfromcerealcropsincanada
AT eggertsonquinna speciesdiversityandmolecularcharacterizationofalternariasectionalternariaisolatescollectedmainlyfromcerealcropsincanada
AT kimnataliee speciesdiversityandmolecularcharacterizationofalternariasectionalternariaisolatescollectedmainlyfromcerealcropsincanada