Phylogenetic and population genetic analysis of Ceratocystis radicicola infecting date palms

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

A study was conducted to investigate the genetic diversity of C. radicicola from different regions of Oman and its relationship to populations of C. radicicola from other parts in the Arabian peninsula and the USA. A total of 32 C. radicicola isolates from Oman (23), the United Arab Emirates (UAE) (2), Kuwait (1) and the USA (6) were analyzed using sequences of the internal transcribed spacer region of the ribosomal DNA (ITS rDNA) and amplified fragment length polymorphism (AFLP). AFLP analysis of the 32 isolates produced 32 different genotypes and 999 polymorphic alleles (100% polymorphism). The Omani population of C. radicicola was found to be more genetically diverse (H = 0.274) than the USA population (H = 0.186), which may suggest a longer history of C. radicicola in Oman. UPGMA analysis based on Nei's genetic distance as well as phylogenetic analysis based on ITS rDNA sequences separated the USA isolates from those from Oman, UAE and Kuwait with a very high bootstrap support. This was supported by low to moderate levels of genetic differentiation between populations of C. radicicola within the Arabian peninsula (FST = -0.0297-0.1341) as compared with high levels of genetic differentiation (FST = 0.2939-0.3913) of the population from the USA. These findings may imply that populations of C. radicicola from the USA and the Arabian peninsula have been evolving independently for a considerably long period of time as opposite to constant gene flow between regions in the Arabian peninsula. Analysis of molecular variance (AMOVA) showed that genetic variation is more associated with geographical regions (FST = 0.1807, P <0.0001) than hosts (FST = 0.0307, P = 0.1681), which may imply the lack of host "cultivar" specialization in C. radicicola.

Original languageEnglish
Pages (from-to)49-57
Number of pages9
JournalJournal of Plant Pathology
Volume95
Issue number1
Publication statusPublished - Mar 2013

Fingerprint

Ceratocystis
Phoenix dactylifera
genetic techniques and protocols
population genetics
Oman
phylogeny
United Arab Emirates
Kuwait
genetic variation
ribosomal DNA
internal transcribed spacers
amplified fragment length polymorphism
genetic distance
gene flow
genetic polymorphism
alleles
nucleotide sequences
genotype
cultivars

Keywords

  • AFLP fingerprinting
  • Genotypic diversity
  • Phoenix dactylifera

ASJC Scopus subject areas

  • Plant Science

Cite this

Phylogenetic and population genetic analysis of Ceratocystis radicicola infecting date palms. / Al-Sadi, A. M.

In: Journal of Plant Pathology, Vol. 95, No. 1, 03.2013, p. 49-57.

Research output: Contribution to journalArticle

@article{459e1a0850f342d5839d90ec927741f0,
title = "Phylogenetic and population genetic analysis of Ceratocystis radicicola infecting date palms",
abstract = "A study was conducted to investigate the genetic diversity of C. radicicola from different regions of Oman and its relationship to populations of C. radicicola from other parts in the Arabian peninsula and the USA. A total of 32 C. radicicola isolates from Oman (23), the United Arab Emirates (UAE) (2), Kuwait (1) and the USA (6) were analyzed using sequences of the internal transcribed spacer region of the ribosomal DNA (ITS rDNA) and amplified fragment length polymorphism (AFLP). AFLP analysis of the 32 isolates produced 32 different genotypes and 999 polymorphic alleles (100{\%} polymorphism). The Omani population of C. radicicola was found to be more genetically diverse (H = 0.274) than the USA population (H = 0.186), which may suggest a longer history of C. radicicola in Oman. UPGMA analysis based on Nei's genetic distance as well as phylogenetic analysis based on ITS rDNA sequences separated the USA isolates from those from Oman, UAE and Kuwait with a very high bootstrap support. This was supported by low to moderate levels of genetic differentiation between populations of C. radicicola within the Arabian peninsula (FST = -0.0297-0.1341) as compared with high levels of genetic differentiation (FST = 0.2939-0.3913) of the population from the USA. These findings may imply that populations of C. radicicola from the USA and the Arabian peninsula have been evolving independently for a considerably long period of time as opposite to constant gene flow between regions in the Arabian peninsula. Analysis of molecular variance (AMOVA) showed that genetic variation is more associated with geographical regions (FST = 0.1807, P <0.0001) than hosts (FST = 0.0307, P = 0.1681), which may imply the lack of host {"}cultivar{"} specialization in C. radicicola.",
keywords = "AFLP fingerprinting, Genotypic diversity, Phoenix dactylifera",
author = "Al-Sadi, {A. M.}",
year = "2013",
month = "3",
language = "English",
volume = "95",
pages = "49--57",
journal = "Journal of Plant Pathology",
issn = "1125-4653",
publisher = "Edizioni E.T.S.",
number = "1",

}

TY - JOUR

T1 - Phylogenetic and population genetic analysis of Ceratocystis radicicola infecting date palms

AU - Al-Sadi, A. M.

PY - 2013/3

Y1 - 2013/3

N2 - A study was conducted to investigate the genetic diversity of C. radicicola from different regions of Oman and its relationship to populations of C. radicicola from other parts in the Arabian peninsula and the USA. A total of 32 C. radicicola isolates from Oman (23), the United Arab Emirates (UAE) (2), Kuwait (1) and the USA (6) were analyzed using sequences of the internal transcribed spacer region of the ribosomal DNA (ITS rDNA) and amplified fragment length polymorphism (AFLP). AFLP analysis of the 32 isolates produced 32 different genotypes and 999 polymorphic alleles (100% polymorphism). The Omani population of C. radicicola was found to be more genetically diverse (H = 0.274) than the USA population (H = 0.186), which may suggest a longer history of C. radicicola in Oman. UPGMA analysis based on Nei's genetic distance as well as phylogenetic analysis based on ITS rDNA sequences separated the USA isolates from those from Oman, UAE and Kuwait with a very high bootstrap support. This was supported by low to moderate levels of genetic differentiation between populations of C. radicicola within the Arabian peninsula (FST = -0.0297-0.1341) as compared with high levels of genetic differentiation (FST = 0.2939-0.3913) of the population from the USA. These findings may imply that populations of C. radicicola from the USA and the Arabian peninsula have been evolving independently for a considerably long period of time as opposite to constant gene flow between regions in the Arabian peninsula. Analysis of molecular variance (AMOVA) showed that genetic variation is more associated with geographical regions (FST = 0.1807, P <0.0001) than hosts (FST = 0.0307, P = 0.1681), which may imply the lack of host "cultivar" specialization in C. radicicola.

AB - A study was conducted to investigate the genetic diversity of C. radicicola from different regions of Oman and its relationship to populations of C. radicicola from other parts in the Arabian peninsula and the USA. A total of 32 C. radicicola isolates from Oman (23), the United Arab Emirates (UAE) (2), Kuwait (1) and the USA (6) were analyzed using sequences of the internal transcribed spacer region of the ribosomal DNA (ITS rDNA) and amplified fragment length polymorphism (AFLP). AFLP analysis of the 32 isolates produced 32 different genotypes and 999 polymorphic alleles (100% polymorphism). The Omani population of C. radicicola was found to be more genetically diverse (H = 0.274) than the USA population (H = 0.186), which may suggest a longer history of C. radicicola in Oman. UPGMA analysis based on Nei's genetic distance as well as phylogenetic analysis based on ITS rDNA sequences separated the USA isolates from those from Oman, UAE and Kuwait with a very high bootstrap support. This was supported by low to moderate levels of genetic differentiation between populations of C. radicicola within the Arabian peninsula (FST = -0.0297-0.1341) as compared with high levels of genetic differentiation (FST = 0.2939-0.3913) of the population from the USA. These findings may imply that populations of C. radicicola from the USA and the Arabian peninsula have been evolving independently for a considerably long period of time as opposite to constant gene flow between regions in the Arabian peninsula. Analysis of molecular variance (AMOVA) showed that genetic variation is more associated with geographical regions (FST = 0.1807, P <0.0001) than hosts (FST = 0.0307, P = 0.1681), which may imply the lack of host "cultivar" specialization in C. radicicola.

KW - AFLP fingerprinting

KW - Genotypic diversity

KW - Phoenix dactylifera

UR - http://www.scopus.com/inward/record.url?scp=84876131811&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84876131811&partnerID=8YFLogxK

M3 - Article

VL - 95

SP - 49

EP - 57

JO - Journal of Plant Pathology

JF - Journal of Plant Pathology

SN - 1125-4653

IS - 1

ER -