A comparative study of the RAPD and SSR markers in establishing a genetic relationship of the various types of Cucurbita

Yong Sham Kwon; Hun Ryu Tae; Chang Hoon Kim; Ho Song In; Kyung Min Kim

A comparative study of the RAPD and SSR markers in establishing a genetic relationship of the various types of Cucurbita

Yong Sham Kwon, Hun Ryu Tae, Chang Hoon Kim, Ho Song In, Kyung Min Kim

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1 Scopus citations

Abstract

The objective of this study is to assess the genetic variation among pumpkin species including C. maxima, C. moschata, and C. pepo using the RAPD and SSR markers. The 16 varieties were evaluated for polymorphism after amplification with 16 decamer primers and 6 SSR primer pairs. A total of 136 RAPD markers were produced and 88 DNA fragments were polymorphic with an average 5.5 polymorphic bands per primer. Six SSR primers were polymorphic. The average polymorphism information content (PIC) value was 0.597 and it ranged between 0.462 and 0.734. Based on this data, a UPGMA cluster analysis was conducted. Clustering was in accordance with the division of Cucurbita into three species, C. maxima, C. moschata, and C. pepo. The Mantel matrix correspondence test was used to compare similar matrices and the correlation coefficient was 0.862. The genetic information from the SSR and RAPD markers may enable discriminating of pumpkin varieties.

Original language	English
Pages (from-to)	115-122
Number of pages	8
Journal	Korean Journal of Genetics
Volume	26
Issue number	2
State	Published - Jun 2004

Keywords

Cluster analysis
Genetic similarity
Pumpkin
RAPD
SSR

Cite this

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title = "A comparative study of the RAPD and SSR markers in establishing a genetic relationship of the various types of Cucurbita",

abstract = "The objective of this study is to assess the genetic variation among pumpkin species including C. maxima, C. moschata, and C. pepo using the RAPD and SSR markers. The 16 varieties were evaluated for polymorphism after amplification with 16 decamer primers and 6 SSR primer pairs. A total of 136 RAPD markers were produced and 88 DNA fragments were polymorphic with an average 5.5 polymorphic bands per primer. Six SSR primers were polymorphic. The average polymorphism information content (PIC) value was 0.597 and it ranged between 0.462 and 0.734. Based on this data, a UPGMA cluster analysis was conducted. Clustering was in accordance with the division of Cucurbita into three species, C. maxima, C. moschata, and C. pepo. The Mantel matrix correspondence test was used to compare similar matrices and the correlation coefficient was 0.862. The genetic information from the SSR and RAPD markers may enable discriminating of pumpkin varieties.",

keywords = "Cluster analysis, Genetic similarity, Pumpkin, RAPD, SSR",

author = "Kwon, {Yong Sham} and Tae, {Hun Ryu} and Kim, {Chang Hoon} and In, {Ho Song} and Kim, {Kyung Min}",

year = "2004",

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language = "English",

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pages = "115--122",

journal = "Korean Journal of Genetics",

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T1 - A comparative study of the RAPD and SSR markers in establishing a genetic relationship of the various types of Cucurbita

AU - Kwon, Yong Sham

AU - Tae, Hun Ryu

AU - Kim, Chang Hoon

AU - In, Ho Song

AU - Kim, Kyung Min

PY - 2004/6

Y1 - 2004/6

N2 - The objective of this study is to assess the genetic variation among pumpkin species including C. maxima, C. moschata, and C. pepo using the RAPD and SSR markers. The 16 varieties were evaluated for polymorphism after amplification with 16 decamer primers and 6 SSR primer pairs. A total of 136 RAPD markers were produced and 88 DNA fragments were polymorphic with an average 5.5 polymorphic bands per primer. Six SSR primers were polymorphic. The average polymorphism information content (PIC) value was 0.597 and it ranged between 0.462 and 0.734. Based on this data, a UPGMA cluster analysis was conducted. Clustering was in accordance with the division of Cucurbita into three species, C. maxima, C. moschata, and C. pepo. The Mantel matrix correspondence test was used to compare similar matrices and the correlation coefficient was 0.862. The genetic information from the SSR and RAPD markers may enable discriminating of pumpkin varieties.

AB - The objective of this study is to assess the genetic variation among pumpkin species including C. maxima, C. moschata, and C. pepo using the RAPD and SSR markers. The 16 varieties were evaluated for polymorphism after amplification with 16 decamer primers and 6 SSR primer pairs. A total of 136 RAPD markers were produced and 88 DNA fragments were polymorphic with an average 5.5 polymorphic bands per primer. Six SSR primers were polymorphic. The average polymorphism information content (PIC) value was 0.597 and it ranged between 0.462 and 0.734. Based on this data, a UPGMA cluster analysis was conducted. Clustering was in accordance with the division of Cucurbita into three species, C. maxima, C. moschata, and C. pepo. The Mantel matrix correspondence test was used to compare similar matrices and the correlation coefficient was 0.862. The genetic information from the SSR and RAPD markers may enable discriminating of pumpkin varieties.

KW - Cluster analysis

KW - Genetic similarity

KW - Pumpkin

KW - RAPD

KW - SSR

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M3 - Article

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SN - 0254-5934

VL - 26

SP - 115

EP - 122

JO - Korean Journal of Genetics

JF - Korean Journal of Genetics

IS - 2

ER -

A comparative study of the RAPD and SSR markers in establishing a genetic relationship of the various types of Cucurbita

Abstract

Keywords

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