scholarly journals Assessment of genetic diversity in Thai upland rice varieties using SSR markers

2020 ◽  
pp. 597-604
Author(s):  
Somrudee Nilthong ◽  
Ekachai Chukeatirote ◽  
Rungrote Nilthong
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Simple Sequence Repeat ◽  
Genetic Resource ◽  
Upland Rice ◽  
Oryza Sativa L ◽  
Polymorphic Information Content ◽  
Rice Varieties ◽  
Simple Sequence Repeat Markers ◽  
Simple Sequence

Upland rice (Oryza sativa L.) is precious genetic resource containing some valuable alleles not common in modern germplasm. In this study, genetic diversity and population structure of 98 upland rice varieties from northern part of Thailand were examined using nine simple sequence repeat markers. Number of alleles detected by the above primers was 50 with a minimum and maximum frequency of 2 to 10 alleles per locus, respectively. The polymorphic information content (PIC) values ranged from 0.375 to 0.714 with an average of 0.605 for the primers RM164 and RM1, respectively. Dendrogram cluster analysis of the SSR data distinctly classified all genotypes into three major groups (I, II and III), which corresponded to their places of collection. Population structure divided these genotypes into two distinct subpopulations. Subpopulation 1 consisted of upland rice varieties that collected from Chiang Rai province while the majority of subpopulation 2 were collected from Phayao and Phitsanulok provinces. Analysis of molecular variance revealed 68% variance among two subpopulations and 32% variance within subpopulations, suggesting a high genetic differentiation between the two subpopulations. The huge genetic variability of upland rice in northern part of Thailand can be used to complement the gene pool of modern genotypes in rice breeding program.

scholarly journals ANALYSIS OF GENETIC DIVERSITY IN TWELVE CULTIVARS OF PEA BASED ON MORPHOLOGICAL AND SIMPLE SEQUENCE REPEAT MARKERS

2018 ◽  
Vol 19 (2) ◽  
pp. 57
Author(s):  
Brijesh Kumar Singh ◽  
Monoj Sutradhar ◽  
Amit Kumar Singh ◽  
Ajay Kumar Singh ◽  
Rajendra Prakash Vyas
Keyword(s):  
Genetic Diversity ◽  
Total Variation ◽  
Simple Sequence Repeat ◽  
Diversity Index ◽  
Polymorphic Information Content ◽  
Resolving Power ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
Simple Sequence ◽  
Number Of Seeds

<p class="abstrakinggris"><span class="judul"><span>Pea</span></span><span class="judul"><em><span>(Pisum sativum </span></em></span><span class="judul"><span>L<em>.)</em></span></span><span class="judul"><span>is the second most important legume crop worldwide after chickpea</span></span><span class="judul"><span> (</span></span><span class="judul"><em><span>Cicer arietinum </span></em></span><span class="judul"><span>L</span></span><span class="judul"><span>.) </span></span><span class="judul"><span>and valuable resources for their genetic improvement. This study aimed to analyze genetic diversity of pea cultivars through morphological and molecular markers. The present investigation was carried out with 12 pea cultivars using 28 simple sequence repeat markers. A total of 60 polymorphic bands with an average of 2.31 bands per primer were obtained. The polymorphic information content, diversity index and resolving power were ranged from 0.50 to 0.33, 0.61 to 0.86 and 0.44 to 1.0 with an average of 0.46, 0.73 and 0.76, respectively. The 12 pea cultivars were grouped into 3 clusters obtained from cluster analysis with a Jaccardd’s similarity coefficient range of 0.47-0.78, indicating the sufficient genetic divergence among these cultivars of pea. The principal component analysis showed that first three principal components explained 86.97% of the total variation, suggesting the contribution of quantitative traits in genetic variability. The contribution of 32.59% for number of seeds per plant, stem circumference, number of pods per plant and number of seeds per pod in the PC1 leads to the conclusion that these traits contribute more to the total variation observed in the 12 pea cultivars and would make a good parental stock material. Overall, this SSR analysis complements morphological characters of initial selection of these pea germplasms for future breeding program.</span></span></p>

scholarly journals Simple Sequence Repeat Markers Reveal Genetic Diversity Within and among Landrace Collections of Citron and Dessert Watermelon from South Africa

2016 ◽  
Vol 141 (6) ◽  
pp. 598-608 ◽  
Author(s):  
Jacob Mashilo ◽  
Hussein Shimelis ◽  
Alfred Odindo ◽  
Beyene Amelework
Keyword(s):  
South Africa ◽  
Genetic Diversity ◽  
Simple Sequence Repeat ◽  
Polymorphic Information Content ◽  
Citrullus Lanatus ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
The Mean ◽  
Two Populations ◽  
Simple Sequence

Genetic diversity analysis is fundamental for effective breeding and genetic conservation. The objective of this study was to determine the genetic diversity present among dessert watermelon (Citrullus lanatus var. lanatus) and citron watermelon (C. lanatus var. citroides) landraces widely grown in South Africa and to select genetically diverse and complimentary genotypes for strategic breeding or conservation. Thirty-one dessert watermelon and 34 citron watermelon landraces were genotyped using 10 polymorphic simple sequence repeat markers. The number of alleles detected per marker ranged from 2 to 23 alleles, with a mean of 13.5 alleles. A total of 135 putative alleles were amplified from sampled watermelon populations. Number of effective alleles ranged from 1.99 to 10.88 alleles with a mean of 5.83 alleles. The mean observed and expected heterozygosity were 0.50 and 0.79, respectively. The mean polymorphic information content was 0.79. Cluster and principal coordinate analyses grouped the two watermelon populations into two separate clusters. The two populations were genetically differentiated with low gene flow, suggesting the presence of high genetic differences between the two populations. Overall, the study established the existence of considerable genetic diversity among South African grown dessert and citron watermelon landraces. Unique dessert watermelon landraces such as SWM-39, SWM-24, SWM-01, SWM-40, SWM-18, SWM-36, and SWM-26; and citron watermelon genotypes including WWM-24, WWM-37, WWM-28, WWM-34, WWM-02, WWM-22, WWM-50, and WWM-36 were selected based on their high dissimilarity index. These could be useful for breeding and systematic conservation.

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