Development of cDNA-derived SSR markers and their efficiency in diversity assessment of Cymbidium accessions

Cymbidium spp. are popular ﬂowering plants. Assessment of the genetic diversity in cultivated Cymbidium facilitates conservation of germplasm and subsequent cultivar improvement. Thus, it is important to develop more efficient polymorphic DNA markers. Although more motifs (403) were ident...

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Autores principales:	Moe,Kyaw Thu, Hong,Woo-Ju, Kwon,Soon-Wook, Park,Yong-Jin
Lenguaje:	English
Publicado:	Pontificia Universidad Católica de Valparaíso 2012
Materias:	cDNA library Cymbidium enriched library molecular diversity SSR
Acceso en línea:	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582012000200004
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spelling	oai:scielo:S0717-345820120002000042012-06-06Development of cDNA-derived SSR markers and their efficiency in diversity assessment of Cymbidium accessionsMoe,Kyaw ThuHong,Woo-JuKwon,Soon-WookPark,Yong-Jin cDNA library Cymbidium enriched library molecular diversity SSR Cymbidium spp. are popular ﬂowering plants. Assessment of the genetic diversity in cultivated Cymbidium facilitates conservation of germplasm and subsequent cultivar improvement. Thus, it is important to develop more efficient polymorphic DNA markers. Although more motifs (403) were identified and more primers (206) were designed in the genomic library compared to the cDNA library, a larger number of successful primers were obtained from the cDNA library (59.9%) than from genomic DNA library (51.1%). However, higher PIC and gene diversity were identified in genomic SSRs. The average allele number per locus was also higher in genomic SSRs (7.3) than EST-SSRs (5.2), among the 24 evaluated Cymbidium accessions. AT/TA was comparatively high in EST-SSRs, while this motif was not as common in genomic SSRs. The CTT/AAG/TCT/AGA/TTC/GAA and TGC/GCA/GCT/AGC/CTG/CAG motifs were the most abundant tri-nucleotide sequences in EST-SSRs, while GTT/AAC/TGT/ACA/TTG/CAA was the most frequent in genomic SSRs. The number of repeats ranged from 3 to 12 in EST-SSRs. Currently, 52 novel polymorphic SSR markers have been evaluated, which will be useful for germplasm assessments, core set construction, evaluation of genetic diversity, and marker assisted selection (MAS) based Cymbidium breeding.info:eu-repo/semantics/openAccessPontificia Universidad Católica de ValparaísoElectronic Journal of Biotechnology v.15 n.2 20122012-03-01text/htmlhttp://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582012000200004en
institution	Scielo Chile
collection	Scielo Chile
language	English
topic	cDNA library Cymbidium enriched library molecular diversity SSR
spellingShingle	cDNA library Cymbidium enriched library molecular diversity SSR Moe,Kyaw Thu Hong,Woo-Ju Kwon,Soon-Wook Park,Yong-Jin Development of cDNA-derived SSR markers and their efficiency in diversity assessment of Cymbidium accessions
description	Cymbidium spp. are popular ﬂowering plants. Assessment of the genetic diversity in cultivated Cymbidium facilitates conservation of germplasm and subsequent cultivar improvement. Thus, it is important to develop more efficient polymorphic DNA markers. Although more motifs (403) were identified and more primers (206) were designed in the genomic library compared to the cDNA library, a larger number of successful primers were obtained from the cDNA library (59.9%) than from genomic DNA library (51.1%). However, higher PIC and gene diversity were identified in genomic SSRs. The average allele number per locus was also higher in genomic SSRs (7.3) than EST-SSRs (5.2), among the 24 evaluated Cymbidium accessions. AT/TA was comparatively high in EST-SSRs, while this motif was not as common in genomic SSRs. The CTT/AAG/TCT/AGA/TTC/GAA and TGC/GCA/GCT/AGC/CTG/CAG motifs were the most abundant tri-nucleotide sequences in EST-SSRs, while GTT/AAC/TGT/ACA/TTG/CAA was the most frequent in genomic SSRs. The number of repeats ranged from 3 to 12 in EST-SSRs. Currently, 52 novel polymorphic SSR markers have been evaluated, which will be useful for germplasm assessments, core set construction, evaluation of genetic diversity, and marker assisted selection (MAS) based Cymbidium breeding.
author	Moe,Kyaw Thu Hong,Woo-Ju Kwon,Soon-Wook Park,Yong-Jin
author_facet	Moe,Kyaw Thu Hong,Woo-Ju Kwon,Soon-Wook Park,Yong-Jin
author_sort	Moe,Kyaw Thu
title	Development of cDNA-derived SSR markers and their efficiency in diversity assessment of Cymbidium accessions
title_short	Development of cDNA-derived SSR markers and their efficiency in diversity assessment of Cymbidium accessions
title_full	Development of cDNA-derived SSR markers and their efficiency in diversity assessment of Cymbidium accessions
title_fullStr	Development of cDNA-derived SSR markers and their efficiency in diversity assessment of Cymbidium accessions
title_full_unstemmed	Development of cDNA-derived SSR markers and their efficiency in diversity assessment of Cymbidium accessions
title_sort	development of cdna-derived ssr markers and their efficiency in diversity assessment of cymbidium accessions
publisher	Pontificia Universidad Católica de Valparaíso
publishDate	2012
url	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582012000200004
work_keys_str_mv	AT moekyawthu developmentofcdnaderivedssrmarkersandtheirefficiencyindiversityassessmentofcymbidiumaccessions AT hongwooju developmentofcdnaderivedssrmarkersandtheirefficiencyindiversityassessmentofcymbidiumaccessions AT kwonsoonwook developmentofcdnaderivedssrmarkersandtheirefficiencyindiversityassessmentofcymbidiumaccessions AT parkyongjin developmentofcdnaderivedssrmarkersandtheirefficiencyindiversityassessmentofcymbidiumaccessions
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Development of cDNA-derived SSR markers and their efficiency in diversity assessment of Cymbidium accessions

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