Genetic characterization of Japanese plum cultivars (Prunus salicina) using SSR and ISSR molecular markers

The genetic characterization of 29 elite Japanese plum cultivars (Prunus salicina) and 4 Prunus cultivars was carried out by analyzing 97 Simple Sequence Repeat (SSR) alleles and 232 binary Inter Simple Sequence Repeat (ISSR) loci. A high level of genetic variability was found for these two molecula...

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Autores principales:	Carrasco,Basilio, Díaz,Carole, Moya,Mario, Gebauer,Marlene, García-González,Rolando
Lenguaje:	English
Publicado:	Pontificia Universidad Católica de Chile. Facultad de Agronomía e Ingeniería Forestal 2012
Materias:	AMOVA Bayesian analysis genetic distance PCA plum structure
Acceso en línea:	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0718-16202012000300012
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spelling	oai:scielo:S0718-162020120003000122014-03-10Genetic characterization of Japanese plum cultivars (Prunus salicina) using SSR and ISSR molecular markersCarrasco,BasilioDíaz,CaroleMoya,MarioGebauer,MarleneGarcía-González,Rolando AMOVA Bayesian analysis genetic distance PCA plum structure The genetic characterization of 29 elite Japanese plum cultivars (Prunus salicina) and 4 Prunus cultivars was carried out by analyzing 97 Simple Sequence Repeat (SSR) alleles and 232 binary Inter Simple Sequence Repeat (ISSR) loci. A high level of genetic variability was found for these two molecular markers among the Japanese plum cultivars compared to other Prunus species. On average, the variability found by analyzing the SSR alleles were Na = 12.1, Ne = 5.2, Ho = 0.9, He = 0.8 and F= -0.127, whereas ISSR yielded values of h = 0.15 and I = 0.27. The genetic relationship among cultivars was estimated with Principal Coordinate Analysis (PCA) and a Bayesian clustering approach using the software program Structure. This program identified two subgroups (k=2). The first group included cultivars of four Prunus species: P. salicina, P. armeniaca, P. domestica and P. ceracifera, whose memberships ranged between 0.74 and 1.0. The second group included 19 Japanese plum cultivars and one plumcot cultivar, with memberships between 0.57 and 0.99. With some exceptions, similar relationships among cultivars were foundPCA. The level of genetic differentiation between two groups was low (Gst =0.055 and ΦST =0.04), and a low level of linkage disequilibrium (LD) was observed for all allele combinations. These results suggest that the high level of genetic variability, the low level of LD and the scarce degree of differentiation detected by Structure between the two genetic groups can be explained by the self-incompatibility mechanism that favors the exchange between genetically distant Prunus cultivars and by the intra- and interspecific hybridization strategies frequently used in plum breeding programs.info:eu-repo/semantics/openAccessPontificia Universidad Católica de Chile. Facultad de Agronomía e Ingeniería ForestalCiencia e investigación agraria v.39 n.3 20122012-12-01text/htmlhttp://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0718-16202012000300012en10.4067/S0718-16202012000300012
institution	Scielo Chile
collection	Scielo Chile
language	English
topic	AMOVA Bayesian analysis genetic distance PCA plum structure
spellingShingle	AMOVA Bayesian analysis genetic distance PCA plum structure Carrasco,Basilio Díaz,Carole Moya,Mario Gebauer,Marlene García-González,Rolando Genetic characterization of Japanese plum cultivars (Prunus salicina) using SSR and ISSR molecular markers
description	The genetic characterization of 29 elite Japanese plum cultivars (Prunus salicina) and 4 Prunus cultivars was carried out by analyzing 97 Simple Sequence Repeat (SSR) alleles and 232 binary Inter Simple Sequence Repeat (ISSR) loci. A high level of genetic variability was found for these two molecular markers among the Japanese plum cultivars compared to other Prunus species. On average, the variability found by analyzing the SSR alleles were Na = 12.1, Ne = 5.2, Ho = 0.9, He = 0.8 and F= -0.127, whereas ISSR yielded values of h = 0.15 and I = 0.27. The genetic relationship among cultivars was estimated with Principal Coordinate Analysis (PCA) and a Bayesian clustering approach using the software program Structure. This program identified two subgroups (k=2). The first group included cultivars of four Prunus species: P. salicina, P. armeniaca, P. domestica and P. ceracifera, whose memberships ranged between 0.74 and 1.0. The second group included 19 Japanese plum cultivars and one plumcot cultivar, with memberships between 0.57 and 0.99. With some exceptions, similar relationships among cultivars were foundPCA. The level of genetic differentiation between two groups was low (Gst =0.055 and ΦST =0.04), and a low level of linkage disequilibrium (LD) was observed for all allele combinations. These results suggest that the high level of genetic variability, the low level of LD and the scarce degree of differentiation detected by Structure between the two genetic groups can be explained by the self-incompatibility mechanism that favors the exchange between genetically distant Prunus cultivars and by the intra- and interspecific hybridization strategies frequently used in plum breeding programs.
author	Carrasco,Basilio Díaz,Carole Moya,Mario Gebauer,Marlene García-González,Rolando
author_facet	Carrasco,Basilio Díaz,Carole Moya,Mario Gebauer,Marlene García-González,Rolando
author_sort	Carrasco,Basilio
title	Genetic characterization of Japanese plum cultivars (Prunus salicina) using SSR and ISSR molecular markers
title_short	Genetic characterization of Japanese plum cultivars (Prunus salicina) using SSR and ISSR molecular markers
title_full	Genetic characterization of Japanese plum cultivars (Prunus salicina) using SSR and ISSR molecular markers
title_fullStr	Genetic characterization of Japanese plum cultivars (Prunus salicina) using SSR and ISSR molecular markers
title_full_unstemmed	Genetic characterization of Japanese plum cultivars (Prunus salicina) using SSR and ISSR molecular markers
title_sort	genetic characterization of japanese plum cultivars (prunus salicina) using ssr and issr molecular markers
publisher	Pontificia Universidad Católica de Chile. Facultad de Agronomía e Ingeniería Forestal
publishDate	2012
url	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0718-16202012000300012
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Genetic characterization of Japanese plum cultivars (Prunus salicina) using SSR and ISSR molecular markers

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