1. bookVolume 67 (2018): Issue 1 (February 2018)
Journal Details
License
Format
Journal
eISSN
2509-8934
First Published
22 Feb 2016
Publication timeframe
1 time per year
Languages
English
Open Access

Development and characterization of chloroplast simple sequence repeat markers for Prunus taxa (eleven Japanese native taxa and two foreign taxa)

Published Online: 31 Dec 2018
Volume & Issue: Volume 67 (2018) - Issue 1 (February 2018)
Page range: 124 - 126
Journal Details
License
Format
Journal
eISSN
2509-8934
First Published
22 Feb 2016
Publication timeframe
1 time per year
Languages
English
Abstract

Japanese flowering cherry (Prunus subgenus Cerasus; Rosa­ceae) cultivars, which are characterized by beautiful flowers, have been generated through hybridization among wild Pru­nus taxa. The analysis of polymorphisms in the maternally inhe­rited chloroplast DNA is an effective complementary approach for tracing the origins of these cultivars. Thus, a set of novel chloroplast simple sequence repeat (cpSSR) markers was deve­loped for the Prunus taxa, and their utility in cross-species amp­lification was evaluated. Five markers were designed from the partial chloroplast genome sequences of thirteen Prunus taxa. In all, we found 19 haplotypes among the 311 individuals tes­ted. The number of haplotypes, haplotype richness and haplo­type diversity in each taxon ranged from 1 to 8, from 1 to 6.613 and from 0 to 0.758, respectively. The major proportion of the total diversity (HT = 0.831) was accounted for by intraspecific diversity (HS = 0.559), and the level of species subdivision, GST, was 0.327. These five cpSSR markers highly polymorphic, and they will be useful not only for tracing the origins of the culti­vars but also for studying the population structure, diversity, and phylogeography of Prunus.

Keywords

Arroyo-García R, Lefort F, de Andrés MT, Ibáñaez J, Borrego J, Jouve N, Cabello F, Martínez-Zapater JM (2002). Chloroplast microsatellite polymorphisms in Vitis species. Genome 45: 1142-1149. https://doi.org/10.1139/g02-08710.1139/g02-087Open DOISearch in Google Scholar

Goudet J (2001). FSTAT, a program to estimate and test gene diversities and fixa­tion indices (version 2.9.3). Available from http://www2.unil.ch/popgen/softwares/fstat.htmSearch in Google Scholar

Hamilton MB (1999). Four primer pairs for the amplification of chloroplast inter­genic regions with interspecific variation. Mol. Ecol. 8: 521-523.Search in Google Scholar

Kato S, Iwata H, Tsumura Y, Mukai Y (2011). Genetic structure of island popula­tions of Prunus lannesiana var. speciosa revealed by chloroplast DNA, AFLP and nuclear SSR loci analyses. J. Plant Res. 124: 11-23. https://doi.org/10.1007/s10265-010-0352-310.1007/s10265-010-0352-3Open DOISearch in Google Scholar

Kato S, Matsumoto A, Yoshimura K, Katsuki T, Iwamoto K, Tsuda Y, Ishio S, Na­kamura K, Moriwaki K, Shiroishi T, Gojobori T, Yoshimaru H (2012). Clone identification in Japanese flowering cherry (Prunus subgenus Cerasus) culti­vars using nuclear SSR markers. Breed. Sci. 62: 248-255. https://doi.org/10.1270/jsbbs.62.24810.1270/jsbbs.62.248Open DOISearch in Google Scholar

Kato S, Matsumoto A, Yoshimura K, Katsuki T, Iwamoto K, Kawahara T, Mukai Y, Tsuda Y, Ishio S, Nakamura K, Moriwaki K, Shiroishi T, Gojobori T, Yoshimaru H (2014). Origins of Japanese flowering cherry (Prunus subgenus Cerasus) cultivars revealed using nuclear SSR markers. Tree Genet. Genomes 10: 477- 487. https://doi.org/10.1007/s11295-014-0697-110.1007/s11295-014-0697-1Search in Google Scholar

Kawasaki T (1993). Flowering cherries of Japan. Yama-kei Publisher, Tokyo. (In Japanese)Search in Google Scholar

Kuitert W (1999) Japanese flowering cherries. Timber Press, Portland, Oregon, USA.Search in Google Scholar

Pervaiz T, Sun X, Zhang Y, Tao R, Zhang J, Fang J (2015). Association between Chloroplast and Mitochondrial DNA sequences in Chinese Prunus geno­types (Prunus persica, Prunus domestica, and Prunus avium). BMC Plant Biol. 15. 4. https://doi.org/10.1186/s12870-014-0402-410.1186/s12870-014-0402-4Open DOISearch in Google Scholar

Provan J, Russell JR, Booth A, Powell W (1999). Polymorphic chloroplast simple sequence repeat primers for systematic and population studies in the ge­nus Hordeum. Mol. Ecol. 8: 505-511. https://doi.org/10.1046/j.1365-294x.1999.00545.x10.1046/j.1365-294X.1999.00545.xSearch in Google Scholar

Provan J, Powell W, Hollingsworth PM (2001). Chloroplast microsatellites: new tools for studies in plant ecology and evolution. Trend. Ecol. Evol. 16: 142- 147. https://doi.org/10.1016/s0169-5347(00)02097-810.1016/s0169-5347(00)02097-8Open DOISearch in Google Scholar

Wang Z, Zeng Y, Zhang Z, Sheng S, Tian J, Wu R, Pang X (2017). Phylogeography Study of the Siberian Apricot (Prunus sibirica L.) in Northern China Assessed by Chloroplast Microsatellite and DNA Makers. Front Plant Sci. 8:1989. https://doi.org/10.3389/fpls.2017.0198910.3389/fpls.2017.01989570250929209348Search in Google Scholar

Weising K, Gardner RC (1999). A set of conserved PCR primers for the analysis of simple sequence repeat polymorphisms in chloroplast genomes of dicoty­ledonous angiosperms. Genome 42: 9-19. https://doi.org/10.1139/gen-42-1-910.1139/gen-42-1-9Open DOISearch in Google Scholar

Wheeler GL, Dorman HE, Buchanan A, Challagundla L, Wallace LE (2014). A re­view of the prevalence, utility, and caveats of using chloroplast simple se­quence repeats for studies of plant biology. Appl. Plant Sci. 2: 1400059. https://doi.org/10.3732/apps.140005910.3732/apps.1400059425945525506520Search in Google Scholar

Xuan H, Spann D, Schlottmann P, Neumüller M (2011). Approaches to determine the origin of European plum (Prunus domestica) based on DNA nucleotide sequences. Acta Hortic. 918: 261-267. https://doi.org/10.17660/actahortic.2011.918.32 .10.17660/ActaHortic.2011.918.32Search in Google Scholar

Recommended articles from Trend MD

Plan your remote conference with Sciendo