scholarly journals Characterization of Genetic Diversity of Rice Genotypes Showing Resistance to Rice Leaf Folder, Cnapholocrocis medinalis Using SSR Markers

2017 ◽  
Vol 6 (8) ◽  
pp. 2171-2178
Author(s):  
N. Kamakshi ◽  
P. Rajasekhar ◽  
G. Ramachandra Rao ◽  
P. Anil Kumar ◽  
P.N. Harathi
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Rice Leaf ◽  
Rice Leaf Folder ◽  
Rice Genotypes

scholarly journals Genetic Diversity of Selected Rice Genotypes under Water Stress Conditions

Plants ◽  
2020 ◽  
Vol 10 (1) ◽  
pp. 27
Author(s):  
Mahmoud M. Gaballah ◽  
Azza M. Metwally ◽  
Milan Skalicky ◽  
Mohamed M. Hassan ◽  
Marian Brestic ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Water Stress ◽  
Drought Stress ◽  
Drought Tolerance ◽  
Ssr Markers ◽  
Similarity Index ◽  
Stress Conditions ◽  
Yield Potential ◽  
Drought Tolerant ◽  
Rice Genotypes

Drought is the most challenging abiotic stress for rice production in the world. Thus, developing new rice genotype tolerance to water scarcity is one of the best strategies to achieve and maximize high yield potential with water savings. The study aims to characterize 16 rice genotypes for grain and agronomic parameters under normal and drought stress conditions, and genetic differentiation, by determining specific DNA markers related to drought tolerance using Simple Sequence Repeats (SSR) markers and grouping cultivars, establishing their genetic relationship for different traits. The experiment was conducted under irrigated (normal) and water stress conditions. Mean squares due to genotype × environment interactions were highly significant for major traits. For the number of panicles/plants, the genotypes Giza179, IET1444, Hybrid1, and Hybrid2 showed the maximum mean values. The required sterility percentage values were produced by genotypes IET1444, Giza178, Hybrid2, and Giza179, while, Sakha101, Giza179, Hybrid1, and Hybrid2 achieved the highest values of grain yield/plant. The genotypes Giza178, Giza179, Hybrid1, and Hybrid2, produced maximum values for water use efficiency. The effective number of alleles per locus ranged from 1.20 alleles to 3.0 alleles with an average of 1.28 alleles, and the He values for all SSR markers used varied from 0.94 to 1.00 with an average of 0.98. The polymorphic information content (PIC) values for the SSR were varied from 0.83 to 0.99, with an average of 0.95 along with a highly significant correlation between PIC values and the number of amplified alleles detected per locus. The highest similarity coefficient between Giza181 and Giza182 (Indica type) was observed and are susceptible to drought stress. High similarity percentage between the genotypes (japonica type; Sakha104 with Sakha102 and Sakha106 (0.45), Sakha101 with Sakha102 and Sakha106 (0.40), Sakha105 with Hybrid1 (0.40), Hybrid1 with Giza178 (0.40) and GZ1368-S-5-4 with Giza181 (0.40)) was also observed, which are also susceptible to drought stress. All genotypes are grouped into two major clusters in the dendrogram at 66% similarity based on Jaccard’s similarity index. The first cluster (A) was divided into two minor groups A1 and A2, in which A1 had two groups A1-1 and A1-2, containing drought-tolerant genotypes like IET1444, GZ1386-S-5-4 and Hybrid1. On the other hand, the A1-2 cluster divided into A1-2-1 containing Hybrid2 genotype and A1-2-2 containing Giza179 and Giza178 at coefficient 0.91, showing moderate tolerance to drought stress. The genotypes GZ1368-S-5-4, IET1444, Giza 178, and Giza179, could be included as appropriate materials for developing a drought-tolerant variety breeding program. Genetic diversity to grow new rice cultivars that combine drought tolerance with high grain yields is essential to maintaining food security.

Assessment of the genetic diversity and population structure of rice genotypes using SSR markers

2019 ◽  
Vol 70 (1) ◽  
pp. 76-86 ◽  
Author(s):  
William Titus Suvi ◽  
Hussein Shimelis ◽  
Mark Laing ◽  
Isack Mathew ◽  
Admire Isaac Tichafa Shayanowako
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Ssr Markers ◽  
Rice Genotypes

scholarly journals Genetic diversity assessment of Rice (Oryza sativa L.) germplasm using ssr markers

2015 ◽  
Vol 1 (1) ◽  
pp. 37-46 ◽  
Author(s):  
Ahasanul Hoque ◽  
Shamsun Nahar Begum ◽  
Lutful Hassan
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Oryza Sativa L ◽  
Growth Duration ◽  
Breeding Programs ◽  
Diversity Assessment ◽  
Days To Heading ◽  
Early Maturing ◽  
Rice Genotypes ◽  
Selection Of

Diversity at molecular level among thirty rice genotypes, selected based on earliness and morphometric diversity was evaluated through five SSR markers associated with days to heading. Three primers viz., RM147, RM167 and RM215 showed polymorphism for growth duration related traits. A total of 17 alleles were detected among the 30 rice genotypes with an average of 5.66 alleles per locus. Polymorphism Information Content (PIC) ranged from 0.356 to 0.798 with an average of 0.543. A dendrogram based on total microsatellite polymorphism grouped 30 genotypes into four major clusters at 0.39 similarity coefficient differentiating early maturing genotypes from others. This information about the genetic diversity will be very useful for proper identification and selection of appropriate parents for future breeding programs, including gene mapping. The results also showed that microsatellite markers associated to genes or QTLs controlling growth duration properties are suitable tools for marker assisted selection (MAS) to select rice lines with short growth duration. DOI: http://dx.doi.org/10.3329/ralf.v1i1.22354 Res. Agric., Livest. Fish.1(1): 37-46, Dec 2014

Molecular characterization of almond accessions from the island of La Palma (Canary Islands, Spain) using SSR markers

2014 ◽  
Vol 12 (3) ◽  
pp. 323-329 ◽  
Author(s):  
Guillermo Padilla ◽  
Rafel Socias i Company ◽  
Amando Ordás
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Average Value ◽  
La Palma ◽  
Expected Heterozygosity ◽  
Commercial Cultivars ◽  
Soft Shell ◽  
Genetic Profiles ◽  
Simple Sequence

In this study, 15 simple sequence repeat (SSR) markers were used for genetic diversity analysis of 45 almond accessions, which included 25 local cultivars from La Palma Island and three other commercial cultivars. A total of 110 amplification fragments were produced, with an average value of 7.9 alleles per locus. Twelve of the SSR markers can be considered as highly informative, with values of expected heterozygosity and power of discrimination above 0.5 and 0.8, respectively. Due to cases of synonymy and homonymy, 37 different genetic profiles were obtained, with the homonymy of the soft-shell varieties known as ‘Mollar’ being the most significant. Cluster analysis identified four groups within the accessions. One of these groups exclusively consisted of the two commercial cultivars ‘Guara’ and ‘Ferraduel’. The other commercial cultivar used in the study, ‘Desmayo Largueta’, was in a cluster with three cultivars from the same locality. The analysis of molecular variance revealed that the within-localities component accounts for most of the total variation, suggesting that La Palma almond cultivars did not originate independently in different parts of the island. The results of the study reveal the genetic singularity of La Palma almond cultivars and the genetic diversity among them.

scholarly journals Assessment of diversity by using morphological, biochemical and molecular approaches of selected basmati rice (Oryza sativa L.) varieties

2016 ◽  
Vol 8 (1) ◽  
pp. 69-76 ◽  
Author(s):  
A. Mishra ◽  
Pradeep Kumar ◽  
R. S. Sengar ◽  
P. Kumar ◽  
R. Singh ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Molecular Analysis ◽  
Oryza Sativa L ◽  
Quality Parameters ◽  
Basmati Rice ◽  
Molecular Approaches ◽  
Gel Consistency ◽  
Rice Genotypes ◽  
Selection Of

The study investigates the genetic diversity among the Basmati rice genotypes. Selected nine Basmati rice genotypes were studied for twelve morphological traits, biochemical parameters and for molecular analysis with 11 SSR markers. Pusa Sugandha 5 and Basmati 370, showed strong aroma while other varieties showed medium aroma. Alkali spreading value were intermediate in Basmati 386, Vallabh Basmati 22 and Vallabh Basmati 24 while other varieties showed high values. Pusa Basmati 1 and Basmati 386 showed soft category of gel consistency while in rest varieties it was under medium category. Amylose percentage in grains were ranged from 18.02% (Taraori basmati) to 22.0% (Basmati370). Molecular analysis with 11 SSR markers showed 125 allels with an average number of allels 11.36 per locus. All the markers showed specific type of banding pattern along with 82 polymorphic allels in different genotypes. This study focuses on application of statistical methods and techniques in analysis of genetic diversity of the agronomic data, biochemical aspects related to quality parameters and at the molecular level using SSR markers for clustering procedure making dendrogram that helps the more accurate selection of the superior basmati genotypes for the further studies of the breeders and researchers.

scholarly journals Characterization of new plant type core set of rice (Oryza sativa L.) using QTL/gene-linked markers

2019 ◽  
Vol 56 (4) ◽  
pp. 352-360 ◽  
Author(s):  
Rachana B ◽  
Eswari KB ◽  
Jyothi B ◽  
Lakshmi Devi G ◽  
Jai Vidhya LRK ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Molecular Level ◽  
Oryza Sativa L ◽  
Similarity Coefficient ◽  
Functional Genes ◽  
Plant Type ◽  
Core Set ◽  
Rice Genotypes ◽  
Hybridization Programme

Genetic diversity in New Plant Type core set of rice was studied at molecular level employing 52 yield related and 12 randomly chosen markers. 42 markers were polymorphic among the genotypes with a total of 84 alleles. The number of alleles per locus ranged from 2 to 4 with an average of 3.0 per locus. The PIC value ranged from 0.07 to 0.51 with an average of 0.31. Gene specific markers (SCM2-indel2, Gn1a-indel3, TGW6-1d and GS5-03SNP), functional genes (Ghd7-sel and DEP1-promoter), linked markers RM8080 and RM340 were found to be the most appropriate marker to discriminate among the rice genotypes owing to the highest PIC value of more than 0.5. The cluster analysis distinguished these accessions in to eight clusters based on the principle of Unweighted Pair Wise Method using Arithemetic Average (UPGMA) constructed by Jaccard's similarity Coefficient. The dendrogram showed that the genotypes with common phylogeny and geographical orientation tend to cluster together. The highest similarity coefficient value was observed between the IRGC 25510 and IRGC 10658 (0.67) whereas lowest value was observed for Swarnadhan (0.18) and Azucena (0.21), showing highly diverse genotypes. Thus, these accessions were genetically diverse and could be directly utilized in hybridization programme for improvement of yield and related traits.

scholarly journals Characterization of Indian Mustard Germplasm on the Basis of Morphological Traits and SSR Markers

2020 ◽  
pp. 300-311
Author(s):  
Narendra Singh Rajpoot ◽  
M. K. Tripathi ◽  
Sushma Tiwari ◽  
R. S. Tomar ◽  
V. S. Kandalkar
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Morphological Traits ◽  
Indian Mustard ◽  
Morphological Characters ◽  
High Genetic Diversity ◽  
Average Value ◽  
Seed Crops ◽  
High Degree

The genus Brassica is one of the most important oil seed crops in India with high degree of genetic diversity. In present study, genetic diversity was studied in forty germplasm lines and eight cultivars of Indian mustard using morphological traits and SSR markers. Morphological characters were taken for days to 50% flowering, days to maturity, plant height (cm), length of main raceme (cm), number of primary branches/plant, number of secondary branches/plant, number of silique per plant, number of seeds per silique, 1000 seed weight (g) and seed yield per plant (g). Total 50 SSR markers were used for characterization of these lines, out of which 7 SSR markers were highly polymorphic between all the germplasms of mustard. An UPGMA phonogram was constructed for all 48 Germplasms and the similarity coefficient ranged from 0.00 to 0.91. Number of alleles ranged from 3 to 4, genetic diversity ranged from 71% to 65% with average value of 67%, heterozygosity raged from 20 to 10% with average of 12% and PIC value for markers ranged from 0.65 to 0.59 with mean PIC value 0.61. All seven SSR primers showed PIC value above 0.5 (50%) indicating high genetic diversity in the studied plant material.

scholarly journals Discovery of miRNAs and Development of Heat-Responsive miRNA-SSR Markers for Characterization of Wheat Germplasm for Terminal Heat Tolerance Breeding

2021 ◽  
Vol 12 ◽  
Author(s):  
Pooja Sihag ◽  
Vijeta Sagwal ◽  
Anuj Kumar ◽  
Priyanka Balyan ◽  
Reyazul Rouf Mir ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Heat Stress ◽  
Ssr Markers ◽  
Heat Tolerance ◽  
Wheat Varieties ◽  
Wheat Genotypes ◽  
Wheat Germplasm ◽  
Heat Tolerant

A large proportion of the Asian population fulfills their energy requirements from wheat (Triticum aestivum L.). Wheat quality and yield are critically affected by the terminal heat stress across the globe. It affects approximately 40% of the wheat-cultivating regions of the world. Therefore, there is a critical need to develop improved terminal heat-tolerant wheat varieties. Marker-assisted breeding with genic simple sequence repeats (SSR) markers have been used for developing terminal heat-tolerant wheat varieties; however, only few studies involved the use of microRNA (miRNA)-based SSR markers (miRNA-SSRs) in wheat, which were found as key players in various abiotic stresses. In the present study, we identified 104 heat-stress-responsive miRNAs reported in various crops. Out of these, 70 miRNA-SSR markers have been validated on a set of 20 terminal heat-tolerant and heat-susceptible wheat genotypes. Among these, only 19 miRNA-SSR markers were found to be polymorphic, which were further used to study the genetic diversity and population structure. The polymorphic miRNA-SSRs amplified 61 SSR loci with an average of 2.9 alleles per locus. The polymorphic information content (PIC) value of polymorphic miRNA-SSRs ranged from 0.10 to 0.87 with a mean value of 0.48. The dendrogram constructed using unweighted neighbor-joining method and population structure analysis clustered these 20 wheat genotypes into 3 clusters. The target genes of these miRNAs are involved either directly or indirectly in providing tolerance to heat stress. Furthermore, two polymorphic markers miR159c and miR165b were declared as very promising diagnostic markers, since these markers showed specific alleles and discriminated terminal heat-tolerant genotypes from the susceptible genotypes. Thus, these identified miRNA-SSR markers will prove useful in the characterization of wheat germplasm through the study of genetic diversity and population structural analysis and in wheat molecular breeding programs aimed at terminal heat tolerance of wheat varieties.

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