Development and characterization of SSR markers in Chinese jujube (Ziziphus jujuba Mill.) and its related species

2011 ◽  
Vol 129 (4) ◽  
pp. 597-602 ◽  
Author(s):  
Q.H. Ma ◽  
G.X. Wang ◽  
L.S. Liang
Keyword(s):  
Ssr Markers ◽  
Related Species ◽  
Chinese Jujube ◽  
Ziziphus Jujuba

scholarly journals Characterization of SSR genomic abundance and identification of SSR markers for population genetics in Chinese jujube (Ziziphus jujubaMill.)

PeerJ ◽  
2016 ◽  
Vol 4 ◽  
pp. e1735 ◽  
Author(s):  
Peng-cheng Fu ◽  
Yan-Zhao Zhang ◽  
Hui-yuan Ya ◽  
Qing-bo Gao
Keyword(s):  
Ssr Markers ◽  
Chinese Jujube ◽  
Base Pairs ◽  
Fruit Crop ◽  
Dried Fruit ◽  
Null Allele Frequency ◽  
History Of ◽  
Hardy Weinberg Equilibrium ◽  
Ziziphus Jujuba

Chinese jujube (Ziziphus jujubaMill. [Rhamnaceae]), native to China, is a major dried fruit crop in Asia. Although many simple sequence repeat (SSR) markers are available for phylogenetic analysis of jujube cultivars, few of these are validated on the level of jujube populations. In this study, we first examined the abundance of jujube SSRs with repeated unit lengths of 1–6 base pairs, and compared their distribution with those inArabidopsis thaliana. We identified 280,596 SSRs in the assembled genome of jujube. The density of SSRs in jujube was 872.60 loci/Mb, which was much higher than inA. thaliana(221.78 loci/Mb). (A+ T)-rich repeats were dominant in the jujube genome. We then randomly selected 100 SSRs in the jujube genome with long repeats and used them to successfully design 70 primer pairs. After screening using a series of criteria, a set of 20 fluorescently labeled primer pairs was further selected and screened for polymorphisms among three jujube populations. The average number of alleles per locus was 12.8. Among the three populations, mean observed and expected heterozygosities ranged from 0.858 to 0.967 and 0.578 to 0.844, respectively. After testing in three populations, all SSRs loci were in Hardy-Weinberg equilibrium (HWE) in at least one population. Finally, removing high null allele frequency loci and linked loci, a set of 17 unlinked loci was in HWE. These markers will facilitate the study of jujube genetic structure and help elucidate the evolutionary history of this important fruit crop.

Development and characterization of EST-SSR markers from Jatropha curcas EST database and their transferability across jatropha-related species/genus

Biologia ◽  
2013 ◽  
Vol 68 (1) ◽  
Author(s):  
Kularb Laosatit ◽  
Patcharin Tanya ◽  
Chatree Saensuk ◽  
Peerasak Srinives
Keyword(s):  
Ssr Markers ◽  
Jatropha Curcas ◽  
Related Species ◽  
High Efficiency ◽  
Genetic Relatedness ◽  
Ricinus Communis ◽  
Raw Material ◽  
Breeding Programs ◽  
New Varieties

AbstractJatropha curcas (jatropha) is a multipurpose plant with potential as a raw material for biofuel. In the present study, a total of 43,349 expressed sequence tags (ESTs) from J. curcas were searched for type and frequency of simple sequence repeat (SSR) markers. Five thousand one hundred and seventy-five sequences were indentified to contain 6,108 SSRs with 90.8% simple and 9.2% compound repeat motifs. One hundred and sixty-three EST-SSRs were developed and used to evaluate the transferability and genetic relatedness among 4 accessions of J. curcas from China, Mexico, Thailand and Vietnam; 5 accessions of congeneric species, viz. J. gossypiifolia, dwarf J. integerrima, normal J. integerrima, J. multifida, J. podagrica; and Ricinus communis. The polymorphic markers showed 75.56–85.19% transferability among four species of Jatropha and 26.67% transferability across genera in Ricinus communis. Investigation of genetic relatedness showed that J. curcas and J. integerrima are closely related. EST-SSRs used in this study demonstrate a high efficiency of cross species/genera amplification and are useful for identifying genetic diversity of jatropha and its close taxa and to choose the desired related species for wide crossing to improve new varieties of jatropha. The markers can also be further exploited for genetic resource management and genetic improvement of related species/genera through marker-assisted breeding programs.

scholarly journals Development and Characterization of Genic SSR Markers from Indian Mulberry Transcriptome and Their Transferability to Related Species of Moraceae

PLoS ONE ◽  
2016 ◽  
Vol 11 (9) ◽  
pp. e0162909 ◽  
Author(s):  
B. Mathi Thumilan ◽  
R. S. Sajeevan ◽  
Jyoti Biradar ◽  
T. Madhuri ◽  
Karaba N. Nataraja ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Related Species ◽  
Genic Ssr ◽  
Indian Mulberry

scholarly journals Characterization of 23 Polymorphic SSR Markers in Salix humboldtiana (Salicaceae) Using Next-Generation Sequencing and Cross-Amplification from Related Species

2015 ◽  
Vol 3 (4) ◽  
pp. 1400120 ◽  
Author(s):  
Jorge A. Bozzi ◽  
Sascha Liepelt ◽  
Sebastian Ohneiser ◽  
Leonardo A. Gallo ◽  
Paula Marchelli ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Ssr Markers ◽  
Related Species ◽  
Next Generation ◽  
Cross Amplification ◽  
Generation Sequencing

Characterization of cAMP as an anti-allergic functional factor in Chinese jujube (Ziziphus jujuba Mill.)

2019 ◽  
Vol 60 ◽  
pp. 103414 ◽  
Author(s):  
Tianyi Jiang ◽  
Feng He ◽  
Shiwen Han ◽  
Cheng Chen ◽  
Yani Zhang ◽  
...  
Keyword(s):  
Chinese Jujube ◽  
Ziziphus Jujuba ◽  
Functional Factor
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