Molecular analysis of the genetic diversity of Chinese Hami melon and Its Relationship to the melon germplasm from Central and South Asia

Yasheng Aierken, Yukari Akashi, Phan Thi Phuong Nhi, Yikeremu Halidan, Katsunori Tanaka, Bo Long, Hidetaka Nishida, Chunlin Long, Min Zhu Wu, Kenji Kato

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Abstract

Chinese Hami melon consists of the varieties cassaba, chandalak, ameri, and zard. To show their genetic diversity, 120 melon accessions, including 24 accessions of Hami melon, were analyzed using molecular markers of nuclear and cytoplasmic genomes. All Hami melon accessions were classified as the large-seed type with seed length longer than 9mm, like US and Spanish Inodorus melon. Conomon accessions grown in east China were all the smallseed type. Both large-and small-seed types were in landraces from Iran, Afghanistan, Pakistan, and Central Asia. Analysis of an SNP in the PS-ID region (Rpl16-Rpl14) and size polymorphism of ccSSR7 showed that the melon accessions consisted of three chloroplast genome types, that is, maternal lineages. Hami melon accessions were T/338 bp type, which differed from Spanish melon and US Honey Dew (T/333 bp type), indicating a different maternal lineage within group Inodorus. The gene diversity (D), calculated from random amplified polymorphic DNA (RAPD) and simple sequence repeat (SSR) polymorphism, was 0.476 in 120 melon accessions; the largest diversity was in Central Asian accessions (D = 0.377) but was low for Hami melon accessions (D = 0.243), even though Hami melon has diverse morphological traits, earliness, and shelf life. Reflecting such small genetic diversity, Hami melon accessions of vars. ameri and zard were grouped into cluster II, except for one accession, by the unweighted pair group method and the arithmetic mean (UPGMA) cluster analysis. Variety chandalak with distinct characters, such as early maturing and poor shelf life, was assigned to clusters IV and VI, indicating inter-varietal genetic differentiation within Hami melon. Three accessions from Turkmenistan and Afghanistan, with large seeds and T/338 bp type of chloroplast genome, were classified as cluster II with Hami melon accessions of vars. ameri and zard. We therefore concluded that Hami melon may have been transmitted from the west. The small-seed type melon of group Conomon grown in east China may have been introduced into China independently of Hami melon, because it had the A/338 bp type of the chloroplast genome and was clustered distantly from Hamimelon according to nuclear genome analysis. JSHS

Original languageEnglish
Pages (from-to)52-65
Number of pages14
JournalJournal of the Japanese Society for Horticultural Science
Volume80
Issue number1
Publication statusPublished - 2011

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South Asia
Central Asia
melons
germplasm
genetic variation
maternal lineage
Afghanistan
seeds
China
shelf life
genetic polymorphism
Turkmenistan
random amplified polymorphic DNA technique

Keywords

  • Chloroplast genome
  • Cucumis melo
  • Genetic diversity
  • Hami melon
  • SSR

ASJC Scopus subject areas

  • Horticulture

Cite this

Molecular analysis of the genetic diversity of Chinese Hami melon and Its Relationship to the melon germplasm from Central and South Asia. / Aierken, Yasheng; Akashi, Yukari; Nhi, Phan Thi Phuong; Halidan, Yikeremu; Tanaka, Katsunori; Long, Bo; Nishida, Hidetaka; Long, Chunlin; Wu, Min Zhu; Kato, Kenji.

In: Journal of the Japanese Society for Horticultural Science, Vol. 80, No. 1, 2011, p. 52-65.

Research output: Contribution to journalArticle

Aierken, Yasheng ; Akashi, Yukari ; Nhi, Phan Thi Phuong ; Halidan, Yikeremu ; Tanaka, Katsunori ; Long, Bo ; Nishida, Hidetaka ; Long, Chunlin ; Wu, Min Zhu ; Kato, Kenji. / Molecular analysis of the genetic diversity of Chinese Hami melon and Its Relationship to the melon germplasm from Central and South Asia. In: Journal of the Japanese Society for Horticultural Science. 2011 ; Vol. 80, No. 1. pp. 52-65.
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AU - Akashi, Yukari

AU - Nhi, Phan Thi Phuong

AU - Halidan, Yikeremu

AU - Tanaka, Katsunori

AU - Long, Bo

AU - Nishida, Hidetaka

AU - Long, Chunlin

AU - Wu, Min Zhu

AU - Kato, Kenji

PY - 2011

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N2 - Chinese Hami melon consists of the varieties cassaba, chandalak, ameri, and zard. To show their genetic diversity, 120 melon accessions, including 24 accessions of Hami melon, were analyzed using molecular markers of nuclear and cytoplasmic genomes. All Hami melon accessions were classified as the large-seed type with seed length longer than 9mm, like US and Spanish Inodorus melon. Conomon accessions grown in east China were all the smallseed type. Both large-and small-seed types were in landraces from Iran, Afghanistan, Pakistan, and Central Asia. Analysis of an SNP in the PS-ID region (Rpl16-Rpl14) and size polymorphism of ccSSR7 showed that the melon accessions consisted of three chloroplast genome types, that is, maternal lineages. Hami melon accessions were T/338 bp type, which differed from Spanish melon and US Honey Dew (T/333 bp type), indicating a different maternal lineage within group Inodorus. The gene diversity (D), calculated from random amplified polymorphic DNA (RAPD) and simple sequence repeat (SSR) polymorphism, was 0.476 in 120 melon accessions; the largest diversity was in Central Asian accessions (D = 0.377) but was low for Hami melon accessions (D = 0.243), even though Hami melon has diverse morphological traits, earliness, and shelf life. Reflecting such small genetic diversity, Hami melon accessions of vars. ameri and zard were grouped into cluster II, except for one accession, by the unweighted pair group method and the arithmetic mean (UPGMA) cluster analysis. Variety chandalak with distinct characters, such as early maturing and poor shelf life, was assigned to clusters IV and VI, indicating inter-varietal genetic differentiation within Hami melon. Three accessions from Turkmenistan and Afghanistan, with large seeds and T/338 bp type of chloroplast genome, were classified as cluster II with Hami melon accessions of vars. ameri and zard. We therefore concluded that Hami melon may have been transmitted from the west. The small-seed type melon of group Conomon grown in east China may have been introduced into China independently of Hami melon, because it had the A/338 bp type of the chloroplast genome and was clustered distantly from Hamimelon according to nuclear genome analysis. JSHS

AB - Chinese Hami melon consists of the varieties cassaba, chandalak, ameri, and zard. To show their genetic diversity, 120 melon accessions, including 24 accessions of Hami melon, were analyzed using molecular markers of nuclear and cytoplasmic genomes. All Hami melon accessions were classified as the large-seed type with seed length longer than 9mm, like US and Spanish Inodorus melon. Conomon accessions grown in east China were all the smallseed type. Both large-and small-seed types were in landraces from Iran, Afghanistan, Pakistan, and Central Asia. Analysis of an SNP in the PS-ID region (Rpl16-Rpl14) and size polymorphism of ccSSR7 showed that the melon accessions consisted of three chloroplast genome types, that is, maternal lineages. Hami melon accessions were T/338 bp type, which differed from Spanish melon and US Honey Dew (T/333 bp type), indicating a different maternal lineage within group Inodorus. The gene diversity (D), calculated from random amplified polymorphic DNA (RAPD) and simple sequence repeat (SSR) polymorphism, was 0.476 in 120 melon accessions; the largest diversity was in Central Asian accessions (D = 0.377) but was low for Hami melon accessions (D = 0.243), even though Hami melon has diverse morphological traits, earliness, and shelf life. Reflecting such small genetic diversity, Hami melon accessions of vars. ameri and zard were grouped into cluster II, except for one accession, by the unweighted pair group method and the arithmetic mean (UPGMA) cluster analysis. Variety chandalak with distinct characters, such as early maturing and poor shelf life, was assigned to clusters IV and VI, indicating inter-varietal genetic differentiation within Hami melon. Three accessions from Turkmenistan and Afghanistan, with large seeds and T/338 bp type of chloroplast genome, were classified as cluster II with Hami melon accessions of vars. ameri and zard. We therefore concluded that Hami melon may have been transmitted from the west. The small-seed type melon of group Conomon grown in east China may have been introduced into China independently of Hami melon, because it had the A/338 bp type of the chloroplast genome and was clustered distantly from Hamimelon according to nuclear genome analysis. JSHS

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