Identification of informative EST-SSR markers capable of distinguishing popular Indian rice varieties and their utilization in seed genetic purity assessments

Moorthy, K. Krishna; Sreedhar, M.; Sama, V.S.A.K.; Kumar, Praveen; Balachandran, S. M.; Sundaram, R. M.

doi:10.15258/sst.2011.39.2.02

Cited by 16 publications

(12 citation statements)

References 17 publications

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“…EST-SSR technology has been widely used in many plants, such as rice [51], sorghum [52], wheat [53], and several other plant species. However, the usefulness of EST-SSRs varies in different varieties of sugarcane, as the level of polymorphism (PIC = 0.23) was lower than that of anonymous SSR markers (PIC = 0.72) in sugarcane cultivars.…”

Section: Discussionmentioning

confidence: 99%

Genetic Diversity Analysis of Sugarcane Parents in Chinese Breeding Programmes Using gSSR Markers

You

Xu²,

Zheng³

et al. 2013

The Scientific World Journal

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Sugarcane is the most important sugar and bioenergy crop in the world. The selection and combination of parents for crossing rely on an understanding of their genetic structures and molecular diversity. In the present study, 115 sugarcane genotypes used for parental crossing were genotyped based on five genomic simple sequence repeat marker (gSSR) loci and 88 polymorphic alleles of loci (100%) as detected by capillary electrophoresis. The values of genetic diversity parameters across the populations indicate that the genetic variation intrapopulation (90.5%) was much larger than that of interpopulation (9.5%). Cluster analysis revealed that there were three groups termed as groups I, II, and III within the 115 genotypes. The genotypes released by each breeding programme showed closer genetic relationships, except the YC series released by Hainan sugarcane breeding station. Using principle component analysis (PCA), the first and second principal components accounted for a cumulative 76% of the total variances, in which 43% were for common parents and 33% were for new parents, respectively. The knowledge obtained in this study should be useful to future breeding programs for increasing genetic diversity of sugarcane varieties and cultivars to meet the demand of sugarcane cultivation for sugar and bioenergy use.

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Section: Discussionmentioning

confidence: 99%

Genetic Diversity Analysis of Sugarcane Parents in Chinese Breeding Programmes Using gSSR Markers

You

Xu²,

Zheng³

et al. 2013

The Scientific World Journal

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“…The SSR markers identified had both female and male specific bands and are useful in genetic purity testing. The use of SSR markers for genetic purity testing has already been demonstrated in maize (Daniel et al, 2012;Mrutu, 2015;Simon and Lovasz, 2016;Wu et al, 2010); rice (Bora et al, 2016;Galal et al, 2014;Moorthy et al, 2011;Sudharani et al, 2013), pearl millet (Nagawade et al, 2016), eggplant (Reddy et al, 2015), soybean (Zhang et al, 2014), cauliflower (Zhao et al, 2012) and in sunflower (Pallavi et al, 2011).…”

Section: Resultsmentioning

confidence: 99%

Utilization of SSR Markers for Seed Purity Testing in Popular Maize Hybrids

Chaudhary¹,

Yashveer²,

esh³

et al. 2018

Int.J.Curr.Microbiol.App.Sci

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“…There are great advantages for variety identification at the genome level using DNA fingerprinting. For example, the use of SSR markers for fingerprinting has the advantages of codominance, high polymorphism, good genetic stability and so on, so they could be used in DUS tests and variety identification, especially for varieties with high morphological similarity (Akkaya et al, 1992;Beyermann et al, 1992;Nandakumar et al, 2004;Moorthy et al, 2011). The use of DNA fingerprinting in the DUS test has been extensively considered by the Biochemical and Molecular Techniques (BMT) Working Group of UPOV and the Ministry of Agriculture in China (UPOV-BMT, 2002).…”

Section: Discussionmentioning

confidence: 99%

“…Few elite parental lines are used frequently in modern breeding practices. As a result, the genetic background and morphological traits become increasingly narrow and small, but it is easier to distinguish these varieties based on genomic differences using molecular markers (Weising et al, 1991;Akkaya et al, 1992;Beyermann et al, 1992) and this method is widely used in rice now (Ramakishana et al, 1995;Nandakumar et al, 2004;Moorthy et al, 2011). The DNA fingerprinting can also be used in seed purity assessment.…”

Section: Introductionmentioning

confidence: 99%

Genetic Diversity Analysis of Hybrid Rice Parental Lines and Genetic Purity Assessment of Hybrid Seeds of China

Cai¹,

Lu²,

Liu³

et al. 2020

JAS

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Thirty-five pairs of SSR primers were used for genetic diversity analysis and DNA fingerprinting of 31 hybrid rice core parental lines developed in central- and southern-China using one japonica rice line and three inbred rice lines as the check varieties. The average number of alleles (Na) per SSR locus was 4.02, with a range of two to eight, the effective number of alleles (Ne) was 83.16 with a mean of 2.38, ranging from 1.19 to 4.66. The polymorphic information content (PIC) ranged from 0.16 to 0.79, with an average number of 0.52. The results of the cluster analysis indicated that the check varieties viz., one japonica rice and three inbred rice, were clustered into two groups with similarity coefficients of 0.62 and 0.71 respectively indicating their relatedness. Thirty-one hybrid rice parental lines were clustered into 6 groups according to their different types, pedigrees and regions of development with similarity coefficients of approximately 0.76. The highest genetic similarity coefficient (0.94) was observed between Y58S and C815S, and the lowest (0.63) was observed between Quan9311A and Peiai64S. The purity of one hybrid rice cultivar was tested using characteristic marker and the field test, and it was demonstrated that the purities obtained using the two methods were similar. This research will be helpful for rice breeding, new cultivar registration and seed production.

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Identification of informative EST-SSR markers capable of distinguishing popular Indian rice varieties and their utilization in seed genetic purity assessments

Cited by 16 publications

References 17 publications

Genetic Diversity Analysis of Sugarcane Parents in Chinese Breeding Programmes Using gSSR Markers

Genetic Diversity Analysis of Sugarcane Parents in Chinese Breeding Programmes Using gSSR Markers

Utilization of SSR Markers for Seed Purity Testing in Popular Maize Hybrids

Genetic Diversity Analysis of Hybrid Rice Parental Lines and Genetic Purity Assessment of Hybrid Seeds of China

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