Microsatellite Isolation and Characterization in Japanese Persimmon (Diospyros kaki)

Guo, Da‐Long; Luo, Zhengrong

doi:10.1007/s10528-008-9143-0

Cited by 14 publications

(7 citation statements)

References 11 publications

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“…Among the different molecular markers, SSRs, which are also called microsatellites, are the best-suited markers for genotyping the Diospyros genus (Luo et al, 2013). Guo and Luo (2006a, 2008, 2011 reported several SSR markers by ISSRsuppression PCR. Soriano et al (2006) developed 22 SSRs using a CT/AG-repeat-enriched library.…”

Section: Discussionmentioning

confidence: 99%

“…Recently, a set of 22 persimmon SSRs obtained from a CT/AG-repeat-enriched library was developed by Soriano et al (2006), 9 SSR primers were developed in Japanese persimmon using inter-simple sequence repeat-polymerase chain reaction (ISSR-PCR) (Guo and Luo, 2006a), and 6 SSRs were isolated using amplified fragment length polymorphisms (AFLPs) of sequences containing repeats (Guo and Luo, 2008). However, there are fewer SSR markers for persimmon than other fruit trees.…”

Section: Introductionmentioning

confidence: 99%

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Development of simple sequence repeat markers in persimmon (Diospyros L.) and their potential use in related species

Yang¹,

Jing²,

Ruan³

et al. 2015

Genet. Mol. Res.

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ABSTRACT. Persimmon (Diospyros L.) is an economically important fruit in the world, and it has been recognized as a healthy nutrient supply for human consumption. In this study, 14 microsatellite markers were developed from an AG/TC and AC/TG-enriched genomic library of Chinese persimmon Mopanshi. Twelve polymorphic markers were selected in 4 related species; these markers showed transferability to the 4 related persimmon species. In addition, 10 simple sequence repeat (SSR) markers were used to detect the genetic diversity among 51 persimmon accessions from China, Japan, and Korea. A total of 57 polymorphic bands with an average of 5.7 bands per primer pair were observed. According to cluster analysis and principal coordinate analysis, all persimmon accessions could be divided into 4 groups. species of persimmon. These new SSR markers provide tools for evaluating genetic relatedness among different persimmon species.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Development of simple sequence repeat markers in persimmon (Diospyros L.) and their potential use in related species

Yang¹,

Jing²,

Ruan³

et al. 2015

Genet. Mol. Res.

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“…Genomic DNA was extracted from seeds of 20 wild peanut species and the control cultivar Georgia-11J [ 38 ], using DNeasy Plant Mini Kit (Qiagen, Valencia, CA). A total of 288 newly developed peanut SSRs (Additional file 1 : Table S1), in addition to 92 Insertion/Deletion (InDel) markers [ 39 ] and microsatellites reported in the literature [ 21 , 40 – 44 ](Additional file 2 : Table S2), formed a list of 373 markers used for fingerprinting. Forward primers were 5’ tailed with the sequence 5’-CAGTTTTCCCAGTCACGAC-3’ [ 45 ] and reverse primers were tailed at the 5’ end with the sequence 5’-GTTT-3’ to promote non-template adenylation [ 46 ].…”

Section: Methodsmentioning

confidence: 99%

New tools to screen wild peanut species for aflatoxin accumulation and genetic fingerprinting

et al. 2018

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BackgroundAflatoxin contamination in peanut seeds is still a serious problem for the industry and human health. No stable aflatoxin resistant cultivars have yet been produced, and given the narrow genetic background of cultivated peanuts, wild species became an important source of genetic diversity. Wild peanut seeds, however, are not abundant, thus, an effective method of screening for aflatoxin accumulation using minimal seeds is highly desirable. In addition, keeping record of genetic fingerprinting of each accession would be very useful for breeding programs and for the identification of accessions within germplasm collections.ResultsIn this study, we report a method of screening for aflatoxin accumulation that is applicable to the small-size seeds of wild peanuts, increases the reliability by testing seed viability, and records the genetic fingerprinting of the samples. Aflatoxin levels observed among 20 wild peanut species varied from zero to 19000 ng.g-1 and 155 ng.g-1 of aflatoxin B1 and B2, respectively. We report the screening of 373 molecular markers, including 288 novel SSRs, tested on 20 wild peanut species. Multivariate analysis by Neighbor-Joining, Principal Component Analysis and 3D-Principal Coordinate Analysis using 134 (36 %) transferable markers, in general grouped the samples according to their reported genomes. The best 88 markers, those with high fluorescence, good scorability and transferability, are reported with BLAST results. High quality markers (total 98) that discriminated genomes are reported. A high quality marker with UPIC score 16 (16 out of 20 species discriminated) had significant hits on BLAST2GO to a pentatricopeptide-repeat protein, another marker with score 5 had hits on UDP-D-apiose synthase, and a third one with score 12 had BLASTn hits on La-RP 1B protein. Together, these three markers discriminated all 20 species tested.ConclusionsThis study provides a reliable method to screen wild species of peanut for aflatoxin resistance using minimal seeds. In addition we report 288 new SSRs for peanut, and a cost-effective combination of markers sufficient to discriminate all 20 species tested. These tools can be used for the systematic search of aflatoxin resistant germplasm keeping record of the genetic fingerprinting of the accessions tested for breeding purpose.Electronic supplementary materialThe online version of this article (10.1186/s12870-018-1355-9) contains supplementary material, which is available to authorized users.

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“…Initially, 24 SSR primer pairs developed by Guo and Luo (13,14,16) were screened to identify those that are able to amplify clear, reproducible bands. PCR amplification and electrophoresis were performed as described by Guo and Luo (13).…”

Section: Ssr Analysismentioning

confidence: 99%

“…Its field genebank means the long-lived conservation of collections can be endangered. To characterize and evaluate effectively Japanese persimmon native to China, molecular markers such as RAPD (22), ISSR (35), SSR (13,14,16), SRAP (15), REMAP, SSAP and IRAP (7), were developed. Among these markers, SSRs are highly polymorphic, informative, codominant, technically simple and reproducible, and become common in developing a core collection (8,23,37).…”

Section: Introductionmentioning

confidence: 99%

Development of Japanese Persimmon Core Collection by Genetic Distance Sampling Based on SSR Markers

Zhang

Yang

et al. 2009

Biotechnology & Biotechnological Equipment

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Microsatellite Isolation and Characterization in Japanese Persimmon (Diospyros kaki)

Cited by 14 publications

References 11 publications

Development of simple sequence repeat markers in persimmon (Diospyros L.) and their potential use in related species

Development of simple sequence repeat markers in persimmon (Diospyros L.) and their potential use in related species

New tools to screen wild peanut species for aflatoxin accumulation and genetic fingerprinting

Development of Japanese Persimmon Core Collection by Genetic Distance Sampling Based on SSR Markers

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