Development of EST-SSR for preliminary analysis of genetic diversity of Cordyceps militaris

Feng Yuan, Hong Yu, Shimei Zuo, Alison Adams

Research output: Contribution to journalArticle

2 Citations (Scopus)

Abstract

Through previous research, different populations of Cordyceps militaris were determined to have varying contents of cordyceps polysaccharides and cordycepic acid, which is involved inantioxidant activity and immune stimulation. This study aimed to exploit expressed sequence tags-simple sequence repeats (EST-SSRs) and to analyse the population genetic differentiation of C. militaris. The SSR frequency of C. militaris in ESTs was 24.3%. Mono-repeats were the most abundant motif (83.4%), and the most frequent mono-repeat was A/T (98.8%). The percentage of polymorphic bands ( PPB) of the seven populations of C. militaris ranged from 11.7% to 73.7% with a mean of 34.7%.Shannon's information index ranged from 0.0576 to 0.3021 with a mean of 0.1623. The total genetic diversity of C. militaris was 0.1907, and the genetic diversity within the population was 0.1049. The coefficient of gene differentiation was 0.4500, indicating extensive genetic differentiation of this species. The mean Nei's genetic distance among the C. militaris populations was 0.1184. The UPGMA dendrogram exhibited a low correlation between the genetic and geographic distances, which can also be confirmed by the Mantel test. The high level of diversification among populations may be due to deforestation and forest fragmentation in China.

Original languageEnglish (US)
Pages (from-to)126-131
Number of pages6
JournalBiochemical Systematics and Ecology
Volume58
DOIs
StatePublished - Feb 1 2015

Fingerprint

Cordyceps militaris
Cordyceps
Expressed Sequence Tags
expressed sequence tags
genetic differentiation
Microsatellite Repeats
microsatellite repeats
Deforestation
genetic variation
polysaccharide
population genetics
deforestation
Polysaccharides
fragmentation
Genes
Population
Acids
gene
acid
Conservation of Natural Resources

Keywords

  • Cordycpes militaris
  • Genetic differentiation
  • Mantel test
  • Microsatellites

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Biochemistry

Cite this

Development of EST-SSR for preliminary analysis of genetic diversity of Cordyceps militaris. / Yuan, Feng; Yu, Hong; Zuo, Shimei; Adams, Alison.

In: Biochemical Systematics and Ecology, Vol. 58, 01.02.2015, p. 126-131.

Research output: Contribution to journalArticle

@article{5af84af13b144a20a9208ab2968502ba,
title = "Development of EST-SSR for preliminary analysis of genetic diversity of Cordyceps militaris",
abstract = "Through previous research, different populations of Cordyceps militaris were determined to have varying contents of cordyceps polysaccharides and cordycepic acid, which is involved inantioxidant activity and immune stimulation. This study aimed to exploit expressed sequence tags-simple sequence repeats (EST-SSRs) and to analyse the population genetic differentiation of C. militaris. The SSR frequency of C. militaris in ESTs was 24.3{\%}. Mono-repeats were the most abundant motif (83.4{\%}), and the most frequent mono-repeat was A/T (98.8{\%}). The percentage of polymorphic bands ( PPB) of the seven populations of C. militaris ranged from 11.7{\%} to 73.7{\%} with a mean of 34.7{\%}.Shannon's information index ranged from 0.0576 to 0.3021 with a mean of 0.1623. The total genetic diversity of C. militaris was 0.1907, and the genetic diversity within the population was 0.1049. The coefficient of gene differentiation was 0.4500, indicating extensive genetic differentiation of this species. The mean Nei's genetic distance among the C. militaris populations was 0.1184. The UPGMA dendrogram exhibited a low correlation between the genetic and geographic distances, which can also be confirmed by the Mantel test. The high level of diversification among populations may be due to deforestation and forest fragmentation in China.",
keywords = "Cordycpes militaris, Genetic differentiation, Mantel test, Microsatellites",
author = "Feng Yuan and Hong Yu and Shimei Zuo and Alison Adams",
year = "2015",
month = "2",
day = "1",
doi = "10.1016/j.bse.2014.11.008",
language = "English (US)",
volume = "58",
pages = "126--131",
journal = "Biochemical Systematics and Ecology",
issn = "0305-1978",
publisher = "Elsevier Limited",

}

TY - JOUR

T1 - Development of EST-SSR for preliminary analysis of genetic diversity of Cordyceps militaris

AU - Yuan, Feng

AU - Yu, Hong

AU - Zuo, Shimei

AU - Adams, Alison

PY - 2015/2/1

Y1 - 2015/2/1

N2 - Through previous research, different populations of Cordyceps militaris were determined to have varying contents of cordyceps polysaccharides and cordycepic acid, which is involved inantioxidant activity and immune stimulation. This study aimed to exploit expressed sequence tags-simple sequence repeats (EST-SSRs) and to analyse the population genetic differentiation of C. militaris. The SSR frequency of C. militaris in ESTs was 24.3%. Mono-repeats were the most abundant motif (83.4%), and the most frequent mono-repeat was A/T (98.8%). The percentage of polymorphic bands ( PPB) of the seven populations of C. militaris ranged from 11.7% to 73.7% with a mean of 34.7%.Shannon's information index ranged from 0.0576 to 0.3021 with a mean of 0.1623. The total genetic diversity of C. militaris was 0.1907, and the genetic diversity within the population was 0.1049. The coefficient of gene differentiation was 0.4500, indicating extensive genetic differentiation of this species. The mean Nei's genetic distance among the C. militaris populations was 0.1184. The UPGMA dendrogram exhibited a low correlation between the genetic and geographic distances, which can also be confirmed by the Mantel test. The high level of diversification among populations may be due to deforestation and forest fragmentation in China.

AB - Through previous research, different populations of Cordyceps militaris were determined to have varying contents of cordyceps polysaccharides and cordycepic acid, which is involved inantioxidant activity and immune stimulation. This study aimed to exploit expressed sequence tags-simple sequence repeats (EST-SSRs) and to analyse the population genetic differentiation of C. militaris. The SSR frequency of C. militaris in ESTs was 24.3%. Mono-repeats were the most abundant motif (83.4%), and the most frequent mono-repeat was A/T (98.8%). The percentage of polymorphic bands ( PPB) of the seven populations of C. militaris ranged from 11.7% to 73.7% with a mean of 34.7%.Shannon's information index ranged from 0.0576 to 0.3021 with a mean of 0.1623. The total genetic diversity of C. militaris was 0.1907, and the genetic diversity within the population was 0.1049. The coefficient of gene differentiation was 0.4500, indicating extensive genetic differentiation of this species. The mean Nei's genetic distance among the C. militaris populations was 0.1184. The UPGMA dendrogram exhibited a low correlation between the genetic and geographic distances, which can also be confirmed by the Mantel test. The high level of diversification among populations may be due to deforestation and forest fragmentation in China.

KW - Cordycpes militaris

KW - Genetic differentiation

KW - Mantel test

KW - Microsatellites

UR - http://www.scopus.com/inward/record.url?scp=84912020138&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84912020138&partnerID=8YFLogxK

U2 - 10.1016/j.bse.2014.11.008

DO - 10.1016/j.bse.2014.11.008

M3 - Article

VL - 58

SP - 126

EP - 131

JO - Biochemical Systematics and Ecology

JF - Biochemical Systematics and Ecology

SN - 0305-1978

ER -