Assessment of genetic diversity in sesame (Sesamum indicum L.) genotypes, using EST-derived SSR markers

Yepuri, Vijay; Malathi, S.; Kola, Vijaya Sudhakara Rao; Vemireddy, Lakshminarayana R.; Jyothi, B. L.; Dineshkumar, V.; Anuradha, G.; Siddiq, E. A.

doi:10.1007/s12892-012-0116-9

Cited by 18 publications

(11 citation statements)

References 22 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The genetic similarity coefficient observed in our study (0.510–0.885 in case of RAPD; 0.167–0.867 in case of SSR; and 0.503–0.853 in case of pooled data of RAPD and SSR) was comparable with earlier reports (Bhat et al 1999; Kumar and Sharma 2009; Yepuri et al 2013). It is a general practice to use a dominant (RAPD) and a codominant (SSR) markers for diversity studies.…”

Section: Discussionsupporting

confidence: 92%

“…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%

See 1 more Smart Citation

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

et al. 2017

View full text Add to dashboard Cite

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.

show abstract

Section: Discussionsupporting

confidence: 92%

Section: Introductionmentioning

confidence: 99%

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

et al. 2017

View full text Add to dashboard Cite

show abstract

“…The trend also applied for trinucleotide SSRs with a predominance of AT-rich repeats, similar to our findings. Whether or not mononucleotide repeats are included in SSR surveys, all reports on genic SSR development in sesame indicate dinucleotide repeats as the predominant SSR type in coding sequences (Wei et al, 2008;Wei et al, 2011;Zhang et al, 2012;Yepuri et al, 2013;Wu et al, 2014). In addition, AG/CT was consistently found as the predominant motif in sesame genic SSRs.…”

Section: Simple Sequence Repeat Development and Validationmentioning

confidence: 99%

“…Simple sequence repeats are widely used in plant molecular genetic studies because they are hypervariable, reproducible, relatively abundant, and provide extensive genome coverage (Powell et al, 1996). Reports on SSR marker development in sesame are limited and most work involved the development of genic SSRs, either from expressed sequence tag (EST) sequences in public databases (Wei et al, 2008;Yepuri et al, 2013) or transcriptome sequencing (Wei et al, 2011;Zhang et al, 2012;Wu et al, 2014). Fewer authors described genomic SSRs in sesame (Dixit et al, 2005;Spandana et al, 2012;Wei et al, 2014;Surapaneni et al, 2014).…”

mentioning

confidence: 99%

Genomic Simple Sequence Repeat Markers Reveal Patterns of Genetic Relatedness and Diversity in Sesame

et al. 2015

View full text Add to dashboard Cite

Sesame (Sesamum indicum L. syn. Sesamum orientale L.) is an orphan crop species with most molecular genetic research work done in the last decade. In this study, we used a pyrosequencing approach for the development of genomic simple-sequence repeat (SSR) markers in sesame. Our approach proved successful in identifying 19,816 nonredundant SSRs, 5727 of which were identified in a contig assembly that covers 19.29% of the sesame genome. Mononucleotide repeats were the most abundant SSR type identified in the sesame genome (48.5% of all SSRs), followed by dinucleotide SSRs (45.0%). Adenine-thymine-rich motifs were predominant, representing 81.7, 51.7, 66.5, and 22.1% of the mononucleotide, dinucleotide, trinucleotide, and tetranucleotide SSRs, respectively. As a result of this work, we introduce 933 experimentally validated sesame specific markers, 849 of which are also applicable in Sesamum mulayanum (syn. Sesamum orientale var. malabaricum Nar.), the wild progenitor of cultivated sesame. Using a subset of the newly identified SSR markers, we analyzed molecular genetic diversity and population structure of a collection of world accessions. Results of the two analyses almost overlapped and suggested correlation between genetic similarity and geographical proximity. Indeed, a pattern of gene flow among sesame diversity centers was apparent, with levels of variability in some regions similar to that seen in the domestication origin of the crop. Taken together with the high rate of genomic marker transferability detected between S. indicum and S. mulayanum, our results represent additional molecular genetic evidence for designating the two taxa as cultivated and wild forms of the same species.

show abstract

“…However, morphological markers have limitations in their ability to estimate genetic diversity because of strong influence from environmental factors, which make them highly dependent on the cultivation conditions. Molecular marker mediated diversity analysis is considered ideal due to its abundance, hyper-variability, multi-allelic and codominant nature (Sharma et al, 2009;Yepuri et al, 2013;Wu et al, 2014;Sehr et al, 2016). Since the studies on genetic diversity analysis combining morphological and molecular markers are limited in Indian sesame germplasm, the present study was carried out to compare the genetic diversity in sesame genotypes using morphological traits and SSR markers.…”

Section: Issn: 2319-7706 Volume 7 Number 06 (2018)mentioning

confidence: 99%

Assessment of Genetic Diversity in Indigenous Sesame Genotypes

Singh¹,

Sarma²

2018

Int.J.Curr.Microbiol.App.Sci

View full text Add to dashboard Cite

Assessment of genetic diversity in sesame (Sesamum indicum L.) genotypes, using EST-derived SSR markers

Cited by 18 publications

References 22 publications

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

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

Genomic Simple Sequence Repeat Markers Reveal Patterns of Genetic Relatedness and Diversity in Sesame

Assessment of Genetic Diversity in Indigenous Sesame Genotypes

Contact Info

Product

Resources

About