Suitability of mapped sequence tagged microsatellite site markers for establishing distinctness, uniformity and stability in aromatic rice

Singh, Rajendra; Sharma, Richa; Singh, Anand Kumar; Singh, V. P.; Singh, Nagendra; Tiwari, S. P.; Mohapatra, Trilochan

doi:10.1023/b:euph.0000014905.10397.08

Cited by 83 publications

(69 citation statements)

References 18 publications

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“…The PIC values observed in this study were comparable to those reported in some studies Saini et al 2004;Siwach et al 2004;Lu et al 2005;Jayamani et al 2007; Thomson et al 2007), but higher than those reported by Singh et al (2004) and Joshi and Behera (2006). However, this study report lower PIC values compared to those described by Xu et al (2004) and Brondani et al (2006), who observed an average PIC value of 0.73 and 0.74 for the world collection and traditional varieties of Brazilian rice, respectively.…”

Section: Agronomic Traits and Locations Levels Accessionssupporting

confidence: 89%

“…However, the average numbers of alleles detected here were significantly higher than those reported in Indian aromatic rice varieties by some researchers (Nagaraju et al 2002;Singh et al 2004;Joshi and Behera 2006). This could be due to inclusion of several landraces of diverse origin, in this study.…”

Section: Agronomic Traits and Locations Levels Accessionscontrasting

confidence: 78%

“…In rice, SSR markers have been effectively utilized for many purposes including (i) genome mapping (Temnykh et al 2000;McCouch et al 2002); (ii) assessment of the genetic diversity and relatedness among various cultivars including both aromatic and non-aromatic rice (Ravi et al 2003;Jain et al 2004;Saini et al 2004;Siwach et al 2004;Ghneim Herrera et al 2008); (iii) identification and purity testing of varieties (Coburn et al 2002;Nagaraju et al 2002; Singh et al 2004;Joshi and Behera 2006) and (iv) determination of the genetic relationship between several sub-species (Ni et al 2002). In most of these studies, basmati types clustered into a separate group distinct from that of indica and japonica rice varieties (Aggarwal et al 2002;Nagaraju et al 2002;Jain et al 2004).…”

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confidence: 99%

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Genetic diversity associated with agronomic traits using microsatellite markers in Pakistani rice landraces

Pervaiz¹,

Rabbani²,

Khaliq³

et al. 2010

Electron. J. Biotechnol.

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Genetic diversity underlies the improvement of crops by plant breeding. Land races of rice (Oryza sativa L.) can contain some valuable alleles not common in modern germplasm. The aim here was to measure genetic diversity and its effect on agronomic traits among rice land-race genotypes grown in Pakistan. Diversity was measured using thirty-five microsatellite markers and seventy-five genotypes. Among the markers used a total of 142 alleles were detected at 32 polymorphic SSR loci, while three loci were monomorphic in Pakistani rice landraces. The number of alleles identified by each marker ranged from 2 to 13 with a mean of 4.4. Size differences between the smallest and largest alleles varied from 11bp to 71bp. Polymorphism information content ranged from 0.124 to 0.836, with an average of 0.569. At nine microsatellite loci, basmati-type landraces amplified more different alleles than those in the coarse-type. DNA markers RM70 and RM72 divided the rice landraces on the basis of days to flowering. A dendrogram based on total microsatellite polymorphism grouped 75 genotypes into four major clusters at 0.40 similarity coefficient, differentiating tall, late maturing and slender aromatic types from the *Corresponding author short, early and bold non-aromatic ones. It inferred that Pakistani landraces have diverse genetic bases and can be utilized in future breeding programs. The DNA markers developed will assist in genotype identification, purity testing and plant variety protection.

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Section: Agronomic Traits and Locations Levels Accessionssupporting

confidence: 89%

Section: Agronomic Traits and Locations Levels Accessionscontrasting

confidence: 78%

mentioning

confidence: 99%

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Genetic diversity associated with agronomic traits using microsatellite markers in Pakistani rice landraces

Pervaiz¹,

Rabbani²,

Khaliq³

et al. 2010

Electron. J. Biotechnol.

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“…However, the level of polymorphism for morphological characteristics in elite germplasm is sometimes too limited and inadequate to allow for variety/genotype discrimination (Geleta et al, 2005). The traditional method of distinctness, uniformity and stability (DUS) testing is time-consuming and expensive, requiring large areas of land and skilled personnel, and is often subjective due to environmental influences (Singh et al, 2004). Further, taxonomy of the genus Capsicum is confusing and sometimes it is difficult to identify an accession using only subjective morpho-agronomic data (Costa et al, 2006).…”

Section: Introductionmentioning

confidence: 99%

Molecular characterization and diversity analysis in chilli pepper using simple sequence repeats (SSR) markers

Dhaliwal¹,

Yadav²,

Jindal³

2014

Afr. J. Biotechnol.

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India is considered to be the secondary center of diversity of chilli pepper, especially of Capsicum annuum. Simple sequence repeats (SSRs) are the most widely used marker system for plant variety characterization and diversity analysis especially in cultivated species which have low levels of polymorphism. The diversity analysis of 64 chilli pepper accessions, mostly of Indian origin, was performed using 50 SSR markers. Twenty seven (27) Using the given set of primers, it was possible to characterize all but two pairs of accessions from each other. The analysis allowed grouping of the test germplasm into nine clusters. Based on diversity analysis, genotypes were identified for developing mapping populations, produce heterotic F 1 hybrids and attempt crosses for genetic improvement of the crop.

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“…These include cost and technical problems (DellaVecchia et al, 1998), as well as other more basic genetic considerations. The level of genetic diversity detected using DNA markers is usually higher than the phenotypic diversity, and reflects polymorphism in non-coding sequences that do not influence the phenotype (Singh et al, 2004). In addition, the levels of genetic diversity detected using DNA markers can be high, particularly in out-crossing species, which can complicate analysis and discriminative power (Roldán-Ruiz et al, 2000).…”

Section: Introductionmentioning

confidence: 99%

Use of DNA markers for cereal line uniformity assessment

Ruņģis¹,

Gaile²,

Veinberga³

et al. 2012

Proceedings of the Latvian Academy of Sciences. Section B. Natural, Exact, and Applied Sciences.

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Use of DNA markers for cereal line uniformity assessment Prior to the registration of a new variety, it is required to undergo Distinctness, Uniformity and Stability (DUS) testing. Preparing a newly developed variety to meet the requirements of DUS testing is a lengthy process, particularly regarding aspects of uniformity and stability. Field testing of a large number of lines is time and resource intensive. In addition, the expression of certain traits may be influenced by environmental conditions. The use of DNA markers may allow rapid assessment of the level of genetic diversity within a particular line or variety, and to remove individuals that are genetically differentiated, thus accelerating the homogenisation of a newly developed variety. In this study, we utilised AFLP and the iPBS marker techniques to assess genetic variation within advanced breeding lines of several cereal species (triticale, wheat, barley). The combined use of molecular and morphological selection over three years of analysis and selection resulted in the reduction of genetic diversity within breeding lines.

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Suitability of mapped sequence tagged microsatellite site markers for establishing distinctness, uniformity and stability in aromatic rice

Cited by 83 publications

References 18 publications

Genetic diversity associated with agronomic traits using microsatellite markers in Pakistani rice landraces

Genetic diversity associated with agronomic traits using microsatellite markers in Pakistani rice landraces

Molecular characterization and diversity analysis in chilli pepper using simple sequence repeats (SSR) markers

Use of DNA markers for cereal line uniformity assessment

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