Establishment of Molecular Linkage Maps Using SRAP Markers in Sweet Potato

Li, Aixian; Liu, Qingchang; Wang, Qingmei; Zhang, Liming; Hong, Zhai; Liu, Shuzhen

doi:10.3724/sp.j.1006.2010.01286

Cited by 12 publications

(12 citation statements)

References 6 publications

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“…Molecular markers have great potential to speed up the process of developing improved cultivars. Although several sweetpotato genetic maps have been published [2-4], the existing maps do not have sufficient markers to be highly useful for genetic studies. Thus, there is a great need for development of novel markers.…”

Section: Introductionmentioning

confidence: 99%

Characterization and development of EST-derived SSR markers in cultivated sweetpotato (Ipomoea batatas)

et al. 2011

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BackgroundCurrently there exists a limited availability of genetic marker resources in sweetpotato (Ipomoea batatas), which is hindering genetic research in this species. It is necessary to develop more molecular markers for potential use in sweetpotato genetic research. With the newly developed next generation sequencing technology, large amount of transcribed sequences of sweetpotato have been generated and are available for identifying SSR markers by data mining.ResultsIn this study, we investigated 181,615 ESTs for the identification and development of SSR markers. In total, 8,294 SSRs were identified from 7,163 SSR-containing unique ESTs. On an average, one SSR was found per 7.1 kb of EST sequence with tri-nucleotide motifs (42.9%) being the most abundant followed by di- (41.2%), tetra- (9.2%), penta- (3.7%) and hexa-nucleotide (3.1%) repeat types. The top five motifs included AG/CT (26.9%), AAG/CTT (13.5%), AT/TA (10.6%), CCG/CGG (5.8%) and AAT/ATT (4.5%). After removing possible duplicate of published EST-SSRs of sweetpotato, a total of non-repeat 7,958 SSR motifs were identified. Based on these SSR-containing sequences, 1,060 pairs of high-quality SSR primers were designed and used for validation of the amplification and assessment of the polymorphism between two parents of one mapping population (E Shu 3 Hao and Guang 2k-30) and eight accessions of cultivated sweetpotatoes. The results showed that 816 primer pairs could yield reproducible and strong amplification products, of which 195 (23.9%) and 342 (41.9%) primer pairs exhibited polymorphism between E Shu 3 Hao and Guang 2k-30 and among the 8 cultivated sweetpotatoes, respectively.ConclusionThis study gives an insight into the frequency, type and distribution of sweetpotato EST-SSRs and demonstrates successful development of EST-SSR markers in cultivated sweetpotato. These EST-SSR markers could enrich the current resource of molecular markers for the sweetpotato community and would be useful for qualitative and quantitative trait mapping, marker-assisted selection, evolution and genetic diversity studies in cultivated sweetpotato and related Ipomoea species.

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Section: Introductionmentioning

confidence: 99%

Characterization and development of EST-derived SSR markers in cultivated sweetpotato (Ipomoea batatas)

et al. 2011

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“…Two molecular marker techniques, SRAP and TRAP have been further used to detect molecular markers for YrSph to obtain more nearly direct markers. Of a total of 315 primer pairs from combinations of 15 forward and 21 reverse SRAP primers reported by Li et al (2010), and 42 combinations of six arbitrary and seven fixed TRAP primers reported by Hu and Vick (2003), respectively, screened between the resistant and susceptible DNA bulks as well as their parents. Six primer combinations that generated strong and repeatable polymorphic bands were selected to test F 2 population plants (Fig.…”

Section: Linkage Analysis and Genetic Mapmentioning

confidence: 99%

“…The primers sequences of 400 SSR markers were obtained from grain genes (website) and published by Röder et al (1998) and Pestsova et al (2000). A total of 315 primer combinations (15 forward primers in combination with 21 reverse primers) of SRAP reported by Li et al (2010), and 42 primer combinations (six fixed primers in combination with seven arbitrary primers) of TRAP reported by Hu and Vick (2003), were synthesized. All of the SSR, SRAP and TRAP primers were screened on the two parents and the resistant and susceptible bulks.…”

Section: Molecular Markers Analyzesmentioning

confidence: 99%

“…It is easily adapted to efficiently perform high throughput data collection from thousands or even millions of individuals, which is critical to any largescale plant breeding program. It has been successfully applied in several species for different purposes (Budak et al 2004;Ferriol et al 2003;Sun et al 2007;Rahman et al 2007;Li et al 2010). The other useful PCR-based markers technique namely, target region amplification polymorphism (TRAP) which amplify intragenic polymorphism has been reported by Hu and Vick (2003).…”

Section: Introductionmentioning

confidence: 99%

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Mapping stripe rust resistance gene YrSph derived from Tritium sphaerococcum Perc. with SSR, SRAP, and TRAP markers

Chen

et al. 2011

Euphytica

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Stripe rust, caused by Puccinia striiformis f. sp. tritici, is one of the most devastating foliar diseases of common wheat (Triticum aestivum L.) worldwide. Growing resistant cultivars is the most effective approach to control the disease. To determine inheritance of stripe rust resistance and map the resistance gene in a common wheat line D31, developed from Triticum sphaerococcum Perc. (accession number AS348), F 1 , F 2 , and BC 1 progenies derived from the Taichung 29 9 D31 cross were firstly inoculated with Chinese PST race CYR32 during whole growth stages under the field conditions. Genetic analysis indicated that the resistance to CYR32 in the line D31 was conferred by one recessive gene, temporarily designated as YrSph. A total of 400 simple sequence repeat (SSR), 315 pairs of sequencerelated amplified polymorphism and 42 pairs of target region amplified polymorphism markers were screened, and four SSR markers and three TRAP markers were found to be polymorphic between the resistant and susceptible DNA bulks as well as their parents. Genetic linkage was tested on segregating F 2 population and indicated that all of the ten markers were linked to the resistance gene, two of which flanked the locus at 8.5 and 6.9 cM, respectively. The SSR markers mapped the resistance gene on chromosome arm 2AS. The results of chromosome location and pedigree analysis indicate that YrSph was probably a novel stripe rust resistance gene.

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“…Sweet potato is an important food crop with high yield, high starch content, high carotene content and resistance to infertility. Currently, several studies have reported sweet potato linkage maps or analysed the molecular marker–trait correlation (Cervantes‐Flores et al., ; Kriegner, Cervantes, Burg, Mwanga, & Zhang, ; Li et al., ; Monden et al., ; Ukoskit & Thompson, ; Zhao et al., ). The majority of these reports are based on amplified fragment length polymorphism (AFLP) analysis.…”

Section: Introductionmentioning

confidence: 99%

Development of molecular linkage maps in sweet potato (Ipomoea batatas L.) using sequence‐related amplified polymorphism markers

Qin

Hou

et al. 2018

Plant Breeding

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Sweet potato is an important food crop with high starch content. It is a hexaploid species, for which the chromosomes have not yet been well characterized. In this study, we used 856 SRAP primer pairs to analyse the 240 individuals from a mapping population, which were derived from a hybrid F1 generation of ‘Luoxushu 8’ (female) and ‘Zhengshu 20’ (male). Genetic linkage maps of the two parents were constructed. In the female parent (‘Luoxushu 8’), the linkage map consisted of 1391 markers, and the length of the linkage map was estimated to be 10,188.4 cM with an average distance of 7.17 cM between markers. In the male parent (‘Zhengshu 20’), the final linkage map consisted of 1,112 markers, and the estimated length of the map was 9,165.17 cM with an average distance of 8.40 cM between markers. Our results provide a basis for the detailed characterization of sweet potato chromosome sequences and the development of related molecular markers.

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Establishment of Molecular Linkage Maps Using SRAP Markers in Sweet Potato

Cited by 12 publications

References 6 publications

Characterization and development of EST-derived SSR markers in cultivated sweetpotato (Ipomoea batatas)

Characterization and development of EST-derived SSR markers in cultivated sweetpotato (Ipomoea batatas)

Mapping stripe rust resistance gene YrSph derived from Tritium sphaerococcum Perc. with SSR, SRAP, and TRAP markers

Development of molecular linkage maps in sweet potato (Ipomoea batatas L.) using sequence‐related amplified polymorphism markers

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