A genome-enabled, high-throughput, and multiplexed fingerprinting platform for strawberry (Fragaria L.)

Chambers, Alan H.; Carle, Scott; Njuguna, Wambui; Chamala, Srikar; Bassil, Nahla V.; Whitaker, Vance M.; Barbazuk, W. Brad; Folta, Kevin M.

doi:10.1007/s11032-012-9819-3

Cited by 21 publications

(22 citation statements)

References 40 publications

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“…Genotyping was performed using 16 SSR markers that were developed by three independent research groups (Chambers et al, 2013;Govan et al, 2008;Isobe et al, 2013). PCR products were analyzed using a MultiNA microchip electrophoresis system (MCE-202 MultiNA, Dongil Shimadzu).…”

Section: Ssr Analysismentioning

confidence: 99%

“…To determine the optimal markers for genotyping, 16 previously developed SSRs (nine from Govan et al (2008), six from Chambers et al (2013), and one from Isobe et al (2013)) were used to test 24 of the 160 strawberry accessions (accession 1-24) ( Table 1). Of the sixteen markers, eight yielded dim or difficult to interpret fingerprints, and three were insufficiently polymorphic (Figure 1).…”

Section: Evaluation Of Diversity Markers and Genotyping Of 160 Strawbmentioning

confidence: 99%

“…Of the sixteen markers, eight yielded dim or difficult to interpret fingerprints, and three were insufficiently polymorphic (Figure 1). The remaining five markers, which were developed by Chambers et al (2013), revealed clear fragments that were highly polymorphic between accessions (Figure 1). These five markers were chosen for genotyping from all 160 accessions.…”

Section: Evaluation Of Diversity Markers and Genotyping Of 160 Strawbmentioning

confidence: 99%

“…However, such methods are unsuitable for cultivated strawberries as genetic and phenotypic variations between cultivars are minimal. As a consequence, DNA markers were developed to facilitate analysis of genetic diversity, linkage mapping, and identification of cultivars (Chambers et al, 2013;Congiu et al, 2000;Degani et al, 2001;Garcia et al, 2002;Govan et al, 2008;Isobe et al, 2013;Kunihisa et al, 2003;Tyrka et al, 2002). SSR markers for strawberry were first developed using primer pairs that amplified characterized regions such as expressed sequence tags (ESTs) or genomic libraries, in contrast to other primer pairs that amplified anonymous DNA fragments (Ashley et al, 2003;Bassil et al, 2006;Gil-Ariza et al, 2006;James et al, 2003;Lewers et al, 2005;Monfort et al, 2006;Sargent et al, 2003).…”

Section: Introductionmentioning

confidence: 99%

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The genetic diversity among strawberry breeding resources based on SSRs

Lim

Lee

et al. 2017

Sci. agric. (Piracicaba, Braz.)

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Cultivated strawberry (Fragaria × ananassa Duch.) is a high value horticultural crop.In this study, the genetic diversity of 160 strawberry accessions was determined using five highly polymorphic simple sequence repeat (SSR) markers. Sixty different alleles were identified, with allele frequencies in the range of 0.006 to1. Similarity scores were in the range of 0.034 to 0.963 (average: 0.507). The accessions were categorized into five groups. Group 1 contained two diploid Fragaria vesca species and one unknown accession. Group 2 contained one accession (F. × ananassa). Group 3 contained 20 F. × ananassa accessions and six unknown accessions. Group 4 contained 48 F. × ananassa accessions, one octaploid Fragaria chiloensis species, and six unknown accessions while Group 5 contained 69 F. × ananassa accessions and six unknown accessions. Accessions within a pedigree were frequently grouped together. A total of 30 novel accessions were categorized alongside existing accessions. These results will allow breeders to develop strategies which incorporate more genetic diversity into new cultivars.

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Section: Ssr Analysismentioning

confidence: 99%

Section: Evaluation Of Diversity Markers and Genotyping Of 160 Strawbmentioning

confidence: 99%

Section: Evaluation Of Diversity Markers and Genotyping Of 160 Strawbmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

The genetic diversity among strawberry breeding resources based on SSRs

Lim

Lee

et al. 2017

Sci. agric. (Piracicaba, Braz.)

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“…영국에서도 딸기 60개 품종을 microsatellite 마커에 의해 분석한 결과를 보고 한 바 있으며 (Govan et al, 2008), 최근 미국에서는 219개의 딸기 유전자원 및 품종을 대상으로 8개의 microsatellite 마 커를 활용하여 분석한 결과를 보고한 바 있다 (Chambers et al, 2013). 우리나라의 경우는 amplified fragment length polymorphism(AFLP) 및 microsatellite 마커를 이용한 50개 의 딸기 유전자원 및 품종의 유전적 다양성 분석 (Cho et al, 2007), CAPS 마커를 이용한 국내 및 일본에서 육성된 19품 종의 판별 체계 구축에 대한 연구결과가 보고되고 있다 (Cho et al, 2008) (Anderson et al, 1993).…”

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Construction of DNA Profile Data Base of Strawberry Cultivars Using Microsatellite Markers

Hong¹,

Choi²,

Kwon³

2014

HST

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This study was carried out to construct a DNA profile database of 100 strawberry cultivars using microsatellite markers. Two hundred seventy four microsatellite primer pairs were screened with a set of 21 strawberry cultivars with different morphological traits. Twenty five primer pairs were selected because they produced reliable and reproducible fingerprints. These primer pairs were used to develop DNA profiles of 100 strawberry cultivars. Three to thirteen alleles were detected by each marker with an average of 7.50. The average polymorphism information content varied from 0.331 to 841 (average 0.706). Cluster analysis showed that the 100 cultivars were divided into 7 major groups reflecting geographic origin and pedigree information. Moreover, most of the cultivars could be discriminated by marker genotypes. These markers will be useful as a tool for the protection of plant breeders' intellectual property rights in addition to providing the means to intervene seed disputes relating to variety authentication.

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SSR‐based DNA fingerprinting of fruit crops

et al. 2023

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The DNA fingerprinting of fruit crops, based on DNA microsatellite markers that are considered to be the key markers for the molecular analysis of germplasm collections, is reviewed. Simple sequence repeats (SSRs) remain the markers of choice for fingerprinting in humans, animals, plants, and other living organisms. This review, that considers 44 fruit species, provides a set of markers that are suitable for profiling accessions and that should make the databases produced in different laboratories more comparable. Every effort has been made to select SSR markers that are robust and easily scorable considering that such analyses are sometimes used in legal cases. The review first describes the basic protocols, procedures, and methods of data analyses; it then describes the fingerprinting of individual species or groups of species, providing a set of SSR markers and appropriate guidance based on the revised literature and on the authors' experience.

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A genome-enabled, high-throughput, and multiplexed fingerprinting platform for strawberry (Fragaria L.)

Cited by 21 publications

References 40 publications

The genetic diversity among strawberry breeding resources based on SSRs

The genetic diversity among strawberry breeding resources based on SSRs

Construction of DNA Profile Data Base of Strawberry Cultivars Using Microsatellite Markers

SSR‐based DNA fingerprinting of fruit crops

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