Analysis of mitochondrial genetic diversity of Ustilago maydis in Mexico

María F. Jiménez-Becerril, Sanjuana Hernández-Delgado, Myrna Solís-Oba, Juan M. González Prieto

Research output: Contribution to journalArticleResearchpeer-review

1 Citation (Scopus)

Abstract

© 2016 Informa UK Limited, trading as Taylor & Francis Group. The current understanding of the genetic diversity of the phytopathogenic fungus Ustilago maydis is limited. To determine the genetic diversity and structure of U. maydis, 48 fungal isolates were analyzed using mitochondrial simple sequence repeats (SSRs). Tumours (corn smut or ‘huitlacoche’) were collected from different Mexican states with diverse environmental conditions. Using bioinformatic tools, five microsatellites were identified within intergenic regions of the U. maydis mitochondrial genome. SSRMUM4 was the most polymorphic marker. The most common repeats were hexanucleotides. A total of 12 allelic variants were identified, with a mean of 2.4 alleles per locus. An estimate of the genetic diversity using analysis of molecular variance (AMOVA) revealed that the highest variance component is within states (84%), with moderate genetic differentiation between states (16%) (FST= 0.158). A dendrogram generated using the unweighted paired-grouping method with arithmetic averages (UPGMA) and the Bayesian analysis of population structure grouped the U. maydis isolates into two subgroups (K = 2) based on their shared SSRs.
Original languageAmerican English
Pages (from-to)1-8
Number of pages0
JournalMitochondrial DNA Part A: DNA Mapping, Sequencing, and Analysis
DOIs
StatePublished - 2 Jan 2018

Fingerprint

Ustilago
Mexico
Microsatellite Repeats
Intergenic DNA
Mitochondrial Genome
Bayes Theorem
Genetic Structures
Computational Biology
Zea mays
Analysis of Variance
Fungi
Alleles
Population
Neoplasms

Cite this

@article{4003c8dc223441f09a066eb06a690b64,
title = "Analysis of mitochondrial genetic diversity of Ustilago maydis in Mexico",
abstract = "{\circledC} 2016 Informa UK Limited, trading as Taylor & Francis Group. The current understanding of the genetic diversity of the phytopathogenic fungus Ustilago maydis is limited. To determine the genetic diversity and structure of U. maydis, 48 fungal isolates were analyzed using mitochondrial simple sequence repeats (SSRs). Tumours (corn smut or ‘huitlacoche’) were collected from different Mexican states with diverse environmental conditions. Using bioinformatic tools, five microsatellites were identified within intergenic regions of the U. maydis mitochondrial genome. SSRMUM4 was the most polymorphic marker. The most common repeats were hexanucleotides. A total of 12 allelic variants were identified, with a mean of 2.4 alleles per locus. An estimate of the genetic diversity using analysis of molecular variance (AMOVA) revealed that the highest variance component is within states (84{\%}), with moderate genetic differentiation between states (16{\%}) (FST= 0.158). A dendrogram generated using the unweighted paired-grouping method with arithmetic averages (UPGMA) and the Bayesian analysis of population structure grouped the U. maydis isolates into two subgroups (K = 2) based on their shared SSRs.",
author = "Jim{\'e}nez-Becerril, {Mar{\'i}a F.} and Sanjuana Hern{\'a}ndez-Delgado and Myrna Sol{\'i}s-Oba and {Gonz{\'a}lez Prieto}, {Juan M.}",
year = "2018",
month = "1",
day = "2",
doi = "10.1080/24701394.2016.1229776",
language = "American English",
pages = "1--8",
journal = "Mitochondrial DNA Part A: DNA Mapping, Sequencing, and Analysis",
issn = "2470-1394",
publisher = "Taylor and Francis Ltd.",

}

Analysis of mitochondrial genetic diversity of Ustilago maydis in Mexico. / Jiménez-Becerril, María F.; Hernández-Delgado, Sanjuana; Solís-Oba, Myrna; González Prieto, Juan M.

In: Mitochondrial DNA Part A: DNA Mapping, Sequencing, and Analysis, 02.01.2018, p. 1-8.

Research output: Contribution to journalArticleResearchpeer-review

TY - JOUR

T1 - Analysis of mitochondrial genetic diversity of Ustilago maydis in Mexico

AU - Jiménez-Becerril, María F.

AU - Hernández-Delgado, Sanjuana

AU - Solís-Oba, Myrna

AU - González Prieto, Juan M.

PY - 2018/1/2

Y1 - 2018/1/2

N2 - © 2016 Informa UK Limited, trading as Taylor & Francis Group. The current understanding of the genetic diversity of the phytopathogenic fungus Ustilago maydis is limited. To determine the genetic diversity and structure of U. maydis, 48 fungal isolates were analyzed using mitochondrial simple sequence repeats (SSRs). Tumours (corn smut or ‘huitlacoche’) were collected from different Mexican states with diverse environmental conditions. Using bioinformatic tools, five microsatellites were identified within intergenic regions of the U. maydis mitochondrial genome. SSRMUM4 was the most polymorphic marker. The most common repeats were hexanucleotides. A total of 12 allelic variants were identified, with a mean of 2.4 alleles per locus. An estimate of the genetic diversity using analysis of molecular variance (AMOVA) revealed that the highest variance component is within states (84%), with moderate genetic differentiation between states (16%) (FST= 0.158). A dendrogram generated using the unweighted paired-grouping method with arithmetic averages (UPGMA) and the Bayesian analysis of population structure grouped the U. maydis isolates into two subgroups (K = 2) based on their shared SSRs.

AB - © 2016 Informa UK Limited, trading as Taylor & Francis Group. The current understanding of the genetic diversity of the phytopathogenic fungus Ustilago maydis is limited. To determine the genetic diversity and structure of U. maydis, 48 fungal isolates were analyzed using mitochondrial simple sequence repeats (SSRs). Tumours (corn smut or ‘huitlacoche’) were collected from different Mexican states with diverse environmental conditions. Using bioinformatic tools, five microsatellites were identified within intergenic regions of the U. maydis mitochondrial genome. SSRMUM4 was the most polymorphic marker. The most common repeats were hexanucleotides. A total of 12 allelic variants were identified, with a mean of 2.4 alleles per locus. An estimate of the genetic diversity using analysis of molecular variance (AMOVA) revealed that the highest variance component is within states (84%), with moderate genetic differentiation between states (16%) (FST= 0.158). A dendrogram generated using the unweighted paired-grouping method with arithmetic averages (UPGMA) and the Bayesian analysis of population structure grouped the U. maydis isolates into two subgroups (K = 2) based on their shared SSRs.

UR - https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84990924583&origin=inward

UR - https://www.scopus.com/inward/citedby.uri?partnerID=HzOxMe3b&scp=84990924583&origin=inward

U2 - 10.1080/24701394.2016.1229776

DO - 10.1080/24701394.2016.1229776

M3 - Article

SP - 1

EP - 8

JO - Mitochondrial DNA Part A: DNA Mapping, Sequencing, and Analysis

JF - Mitochondrial DNA Part A: DNA Mapping, Sequencing, and Analysis

SN - 2470-1394

ER -