Development and characterization of microsatellite markers in Indian sesame (Sesamum indicum L.)

Malathi, S.; Yepuri, Vijay; Vemireddy, Lakshminarayana R.; Anuradha, G.; Siddiq, E. A.

doi:10.1007/s11032-014-0109-0

Cited by 15 publications

(13 citation statements)

References 22 publications

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“…Therefore, SSR markers would be one of the useful molecular markers in sesame genetic diversity analyses and in marker assisted breeding programs. Our study showed congruence with the previous studies by Surapaneni et al (2014) and Zhang et al (2010). Zhang et al (2010) reported that SSR markers are appropriate for evaluation of genetic diversities in sesame and also concluded that extensive genetic divergence existed among indigenous and exotic collections of sesame.…”

Section: Discussionsupporting

confidence: 90%

“…CL-I has four subclusters (CL-IA-CL-ID) and cluster II also has four subclusters (CL-IIA-CL-IID) the study by Kim et al (2002) where clustering of genotypes did not indicate any clear division based on their geographical origin. In a similar study Surapaneni et al (2014) did not observ any differentiation of sesame genotypes according to geographical origin. Powell et al (1996) reported that SSR markers gave a good discrimination between closely related individuals in some cases even when only a few loci were applied.…”

Section: Discussionmentioning

confidence: 78%

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Morphological and genetic diversity assessment of sesame (Sesamum indicum L.) accessions differing in origin

Pandey

Das

Rai

et al. 2015

Physiol Mol Biol Plants

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Sesame is an important ancient oilseed crop of high medicinal value. In the present study, 37 characters including both quantitative and qualitative traits of sixty genotypes were characterized following IPGRI morphological descriptors for sesame. Multivariate analysis was computed to distinguish the varieties into different groups. Though thirty six microsatellite markers including genomic and Est-SSR markers were initially selected, but, finally, the accessions were genotyped by eight polymorphic primers. Altogether, 27 alleles were detected among the 60 genotypes, with an average of 3.37 alleles per locus. The number of alleles ranged from 2 to 6 alleles. From data of microsatellite markers, dissimilarity coefficients between varieties were computed following Jaccard's coefficient method. Principal co-ordinate analysis was used to represent the varieties in bi-directional space. Dendrogram was constructed using NJ method based on dissimilarity matrix. Cluster analysis based on morphological and molecular marker classified sesame genotypes into two major groups. Mantel test showed an insignificant correlation between phenotypic and molecular marker information. The genotypes belonging to the same geographical area did not always occupy the same cluster. The results confirmed that both genetic and phenotypic diversity in a combined way could efficiently evaluate the variation present in different sesame accessions in any breeding program.

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Section: Discussionsupporting

confidence: 90%

Section: Discussionmentioning

confidence: 78%

Morphological and genetic diversity assessment of sesame (Sesamum indicum L.) accessions differing in origin

Pandey

Das

Rai

et al. 2015

Physiol Mol Biol Plants

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“…The first class of molecular markers including Random Amplified Polymorphic DNA (RAPD; Bhat et al, 1999) and Amplified Fragment Length Polymorphism (AFLP; Laurentin and Karlovsky, 2006) were designed and employed mainly for genetic diversity studies. The second class of markers involved basically Simple Sequence Repeat (SSR) types such as Inter-Simple Sequence Repeats (ISSR; Kim et al, 2002), Expressed Sequence Tags-SSR (EST-SSR; Wei et al, 2008, 2011; Badri et al, 2014; Sehr et al, 2016), cDNA-SSR (Spandana et al, 2012; Wang et al, 2012b; Zhang H. et al, 2012; Surapaneni et al, 2014; Wu et al, 2014b), Genome sequence-SSR (gSSR; Dixit et al, 2005; Wei X. et al, 2014; Uncu et al, 2015; Dossa, 2016; Yu et al, 2016), Chloroplast SSR (cpSSR, Sehr et al, 2016). By compiling all developed SSR marker resources, there are in total more than 7,000 validated and 100,000 non-validated SSR markers available for sesame research.…”

Section: “Omics” Resourcesmentioning

confidence: 99%

The Emerging Oilseed Crop Sesamum indicum Enters the “Omics” Era

et al. 2017

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Sesame (Sesamum indicum L.) is one of the oldest oilseed crops widely grown in Africa and Asia for its high-quality nutritional seeds. It is well adapted to harsh environments and constitutes an alternative cash crop for smallholders in developing countries. Despite its economic and nutritional importance, sesame is considered as an orphan crop because it has received very little attention from science. As a consequence, it lags behind the other major oil crops as far as genetic improvement is concerned. In recent years, the scenario has considerably changed with the decoding of the sesame nuclear genome leading to the development of various genomic resources including molecular markers, comprehensive genetic maps, high-quality transcriptome assemblies, web-based functional databases and diverse daft genome sequences. The availability of these tools in association with the discovery of candidate genes and quantitative trait locis for key agronomic traits including high oil content and quality, waterlogging and drought tolerance, disease resistance, cytoplasmic male sterility, high yield, pave the way to the development of some new strategies for sesame genetic improvement. As a result, sesame has graduated from an “orphan crop” to a “genomic resource-rich crop.” With the limited research teams working on sesame worldwide, more synergic efforts are needed to integrate these resources in sesame breeding for productivity upsurge, ensuring food security and improved livelihood in developing countries. This review retraces the evolution of sesame research by highlighting the recent advances in the “Omics” area and also critically discusses the future prospects for a further genetic improvement and a better expansion of this crop.

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“…The molecular techniques of RAPD (Bhat et al 1999; Ercan et al 2004; Kumar and Sharma 2009; Pham et al 2011; Akbar et al 2011; Mahdizadeh et al 2012), AFLP (amplified fragment length polymorphism) (Laurentin and Karlovsky 2006, 2007), ISSR (inter-simple sequence repeats) (Kim et al 2002; Parsaeian et al 2011; Kumar and Sharma 2011; Nyongesa et al 2013; Woldesenbet et al 2015), SSR (Spandana et al 2012; Dixit et al 2005; Cho et al 2011; Wang et al 2012; Yepuri et al 2013; Wei et al 2014; Surapaneni et al 2014; Uncu et al 2015; Dossa et al 2016; Sehr et al 2016), and SRAP (sequence-related amplified polymorphism) (Li and Quiros 2001; Li et al 2007; Zhang et al 2010) have been used to evaluate the genetic diversity in sesame of different origins. Morphologically, Indian collection of sesame is characterized by variable forms being cultivated in different agroclimatic zones.…”

Section: Introductionmentioning

confidence: 99%

Comparative assessment of genetic diversity in Sesamum indicum L. using RAPD and SSR markers

et al. 2017

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Sesame (Sesamum indicum L.) is an ancient oilseed crop known for its nutty seeds and high-quality edible oil. It is an unexplored crop with a great economic potential. The present study deals with assessment of genetic diversity in the crop. Twenty two RAPD and 18 SSR primers were used for analysis of the 47 different sesame accessions grown in different agroclimatic zones of India. A total of 256 bands were obtained with RAPD primers, of which 191 were polymorphic. SSR primers gave 64 DNA bands, of which all of were polymorphic. The Jaccardʼs similarity coefficient of RAPD, SSR, and pooled RAPD and SSR data ranged from 0.510 to 0.885, 0.167 to 0.867, and 0.505 to 0.853, respectively. Maximum polymorphic information content was reported with SSRs (0.194) compared to RAPDs (0.186). Higher marker index was observed with RAPDs (1.426) than with SSRs (0.621). Similarly, maximum resolving power was found with RAPD (4.012) primers than with SSRs (0.884). The RAPD primer RPI-B11 and SSR primer S16 were the most informative in terms of describing genetic variability among the varieties under study. At a molecular level, the seed coat colour was distinguishable by the presence and absence of a group of marker amplicon/s. White and brown seeded varieties clustered close to each other, while black seeded varieties remained distanced from the cluster. In the present study, we found higher variability in Sesamum indicum L. using RAPD and SSR markers and these could assist in DNA finger printing, conservation of germplasm, and crop improvement.Electronic supplementary materialThe online version of this article (doi:10.1007/s13205-016-0578-4) contains supplementary material, which is available to authorized users.

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Development and characterization of microsatellite markers in Indian sesame (Sesamum indicum L.)

Cited by 15 publications

References 22 publications

Morphological and genetic diversity assessment of sesame (Sesamum indicum L.) accessions differing in origin

Morphological and genetic diversity assessment of sesame (Sesamum indicum L.) accessions differing in origin

The Emerging Oilseed Crop Sesamum indicum Enters the “Omics” Era

Comparative assessment of genetic diversity in Sesamum indicum L. using RAPD and SSR markers

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