TY - CHAP
T1 - Development of EST-SSR markers derived from diospyros kaki
AU - Tsujimoto, T.
AU - Akagi, T.
AU - Yonemori, K.
AU - Kanzaki, S.
PY - 2013
Y1 - 2013
N2 - For genetic analysis of persimmon (Diospyros kaki) and its relatives, we investigated the development of SSR markers with expression sequence tags (ESTs). Of 9475 EST data from the NCBI database which had isolated from D. kaki, 746 sequences contained SSRs which had more than four (tetranucleotide) or five (dinucleotide and trinucleotide) repeats. Tested on two species, D. kaki and D. lotus (a diploid relative of D. kaki), of primer pairs based on 65 SSR-containing EST sequences, 52 primer pairs resulted in proper PCR products. Some of these candidate EST-SSR markers showed polymorphism among cultivars and seedlings of D. kaki and D. lotus. Among tested seven clones of D. lotus, 32 of 52 candidate EST-SSR markers showed polymorphism. For molecular phylogenetic analysis, linkage mapping and whole genome mapping of Diospyros species, EST-SSR markers appear to be as useful as genomic SSR markers. In addition, development of EST-SSR markers seems to be easy and cost-effective when compared with genomic SSR markers.
AB - For genetic analysis of persimmon (Diospyros kaki) and its relatives, we investigated the development of SSR markers with expression sequence tags (ESTs). Of 9475 EST data from the NCBI database which had isolated from D. kaki, 746 sequences contained SSRs which had more than four (tetranucleotide) or five (dinucleotide and trinucleotide) repeats. Tested on two species, D. kaki and D. lotus (a diploid relative of D. kaki), of primer pairs based on 65 SSR-containing EST sequences, 52 primer pairs resulted in proper PCR products. Some of these candidate EST-SSR markers showed polymorphism among cultivars and seedlings of D. kaki and D. lotus. Among tested seven clones of D. lotus, 32 of 52 candidate EST-SSR markers showed polymorphism. For molecular phylogenetic analysis, linkage mapping and whole genome mapping of Diospyros species, EST-SSR markers appear to be as useful as genomic SSR markers. In addition, development of EST-SSR markers seems to be easy and cost-effective when compared with genomic SSR markers.
KW - Diospyros lotus
KW - Expression sequence tag
KW - Genetic analysis
KW - Microsatellite
KW - Persimmon
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U2 - 10.17660/actahortic.2013.996.16
DO - 10.17660/actahortic.2013.996.16
M3 - Chapter
AN - SCOPUS:84880441457
SN - 9789066055469
T3 - Acta Horticulturae
SP - 133
EP - 138
BT - V International Symposium on Persimmon
PB - International Society for Horticultural Science
ER -