Development and Characterization of Microsatellite Markers in Sweetpotato
Open accessAbstract
To promote the implementation of genetic analyses and breeding programs, a set of microsatellite markers in sweetpotato should be developed, which cover the entire sweetpotato genome. To achieve this objective, 102 polymorphic microsatellite markers were developed using three different methods: 1) screening of a small-insert genomic library, 2) construction of a microsatellite-enriched library (51-fold enrichment) and 3) mining of EST databases. Approximately 8,000 clones of the small-insert library were screened with (GA)20 and (CA)20 probes, and 42 positive clones were identified. One hundred and twenty-two clones containing microsatellites were identified from the enriched library, which consisted of 800 clones. Thirty-two and 47 primer pairs were designed for these clones containing microsatellites from the small-insert library and enriched library, respectively. Among the sweetpotato accessions examined, 27 of these microsatellite markers showed polymorphism. Eventually, 4,153 sequences from a published expressed sequence tag (EST) databases were mined as a source for the development of microsatellite markers, and 379 sequences containing microsatellites were identified. A total of 151 primer pairs were designed and 120 scorable microsatellite markers were obtained. Seventy-five EST-SSR loci showed length polymorphisms. Of these polymorphic loci, 71 % were associated with some genes.
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Only about 300 SSR markers were developed for sweetpotato.
“In addition, to date, only about 300 SSR markers were developed for sweetpotato [4-6].”
From De novo assembly and characterization of root transcriptome using Illumina paired-end sequencing and development of cSSR markers in sweetpotato (Ipomoea batatas) (2010) · cites this paper as [5]
The Introduction (page unavailable) says that only a few useful sweetpotato microsatellite loci had been identified, supporting the claim that marker development was limited. The paper reports developing 102 polymorphic markers, but it does not give a cumulative total of about 300 sweetpotato SSR markers. (LLM, conf=0.78)
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- Authors
- Hu, J., Nakatani, M., Mizuno, K., & Fujimura, T.
- Affiliations
- University of Tsukuba (JP)
- National Institute of Crop Science (KR)
- ORCID
- Hu, Jingjie
- Venue
- Breeding Science
- Publisher
- Japanese Society of Breeding
- Published
- 2004
- Volume
- 54
- Issue
- 2
- Pages
- 177-188
- ISSN
- 0536-3683 (ISSN-L)
- 1344-7610
- 1347-3735
- OpenAlex
- W2075014516
- Cited by
- 67
- References
- 44
- Citations by year
- 2025: 2 · 2024: 2 · 2023: 1 · 2022: 1 · 2021: 10 · 2020: 13 · 2019: 4 · 2018: 2 · 2017: 5 · 2016: 2 · 2015: 3 · 2014: 2 · 2012: 3
- FWCI
- 1.07
- Type
- journal article
- Language
- en
- Open access
- diamond
- doi.org
- Locations
- Ikushugaku zasshi (publishedVersion)
- Funders
- Ministry of Agriculture, Forestry and Fisheries
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Mapping and Diversity in Plants and Animals
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic diversity and population structure
- Life Sciences › Agricultural and Biological Sciences › Horticulture › Cocoa and Sweet Potato Agronomy
- Keywords
- Ipomoea batatas, microsatellite markers, EST-SSR markers, marker development, microsatellite-enriched library, expressed sequence tags, polymorphism, genetic diversity, genetic association
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