scholarly journals Keragaman Genetik 96 Aksesi Plasma Nutfah Padi Berdasarkan 30 Marka SSR Terpaut Gen Pengatur Waktu Pembungaan (HD Genes)

2016 ◽  
Vol 7 (2) ◽  
pp. 76
Author(s):  
Dwinita Wikan Utami ◽  
Sutoro Sutoro ◽  
Nurul Hidayatun ◽  
Andari Risliawati ◽  
Ida Hanarida
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Ssr Markers ◽  
Heading Date ◽  
Germplasm Collection ◽  
Dna Fingerprint ◽  
Early Maturity ◽  
Plant Variety ◽  
Variety Protection ◽  
Genetic Analyzer

<p>Genetic Diversity of 96 Accession of Rice Germplasm<br />Using 30 SSR Markers Linked to Heading Date Genes (HD<br />Genes). Dwinita W. Utami, Sutoro, Nurul Hidayatun,<br />Andari Risliawati, and Ida Hanarida. Rice with early<br />maturity is one of an important genetic resources in rice<br />germplasm collection. Characterization and identification of<br />genetic diversity is an important issue for plant variety protection.<br />Molecular identification by microsatellite markers<br />using Genetic Analyzer enables resolve of this issue. The<br />objective of this research is to identify the genetic diversity of<br />96 rice accessions based on their specific DNA fingerprint<br />using microsatellite markers. A total of 96 accessions consisting<br />of a diverse variety of maturity classification were<br />genotyped with 30 SSR markers linked to HD genes which<br />spread out in 12 chromosomes of rice geneome. The total<br />297 alleles were detected indicated the level of marker<br />informativeness. RM5607 generated 7 allele with the size<br />range from 103 to 197 and the highest PIC at 0.90. RM3571<br />(linked to HD12 gene) has a significant value associated with<br />varieties which have early maturity trait. Clustering analysis<br />showed the cluster based on Sub Species genome background<br />and on early maturity trait.</p>

scholarly journals Marka Mikrosatelit sebagai Alternatif Uji BUSS dalam Perlindungan Varietas Tanamam Padi

2016 ◽  
Vol 16 (1) ◽  
pp. 1
Author(s):  
Sugiono Moeljopawiro
Keyword(s):  
Genetic Variability ◽  
Ssr Markers ◽  
Ssr Marker ◽  
Rice Variety ◽  
Neighbor Joining ◽  
Plant Variety ◽  
Dus Testing ◽  
Variety Protection ◽  
Genetic Analyzer ◽  
Degree Of Heterogeneity

<p>This study was conducted at the<br />Indonesian Center for Agricultural Biotechnology and Genetic<br />Resources Research and Development to seek the feasibility of<br />using SSR markers for DUS testing in rice variety. Released<br />variety Fatmawati together with seven other reference varieties<br />were analyzed using genetic analyzer for their variability, ten<br />SSR markers were used. Hundred and twenty five alleles<br />located on chromosomes 1, 2, 5, 6, 7, 10, and 11 were detected<br />in eight varieties studied, where the number of alleles ranging<br />from 6 (BPC) to 33 (Fatmawati), with the predominant<br />markers such as RM11 on Fatmawati, Maros, Barumun,<br />Gilirang, and Memberamo varieties, RM237 on Cisadane and<br />BP630 varieties, and RM133 and RM287 markers on BPC<br />variety. The genetic distance-based results in the unrooted<br />neighbor-joining tree revealed that the eight varieties as well as<br />their populations clustered separately. Genetic variability<br />within each variety indicated that these varieties were still in<br />higher degree of heterogeneity. This demonstrated the power<br />of SSR marker in differentiating varieties as well as population<br />within variety, which, therefore, SSR marker could be<br />recommended in plant variety protection.</p>

scholarly journals Assessment of the Genetic Diversity of Rice Germplasms Characterized by Black-Purple and Red Pericarp Color Using Simple Sequence Repeat Markers

Plants ◽  
2019 ◽  
Vol 8 (11) ◽  
pp. 471
Author(s):  
Jae-Ryoung Park ◽  
Won-Tae Yang ◽  
Yong-Sham Kwon ◽  
Hyeon-Nam Kim ◽  
Kyung-Min Kim ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Simple Sequence Repeat ◽  
Germplasm Collection ◽  
Group Method ◽  
Sequence Repeat ◽  
Rice Varieties ◽  
Red Pericarp ◽  
Simple Sequence ◽  
Colored Rice

The assessment of the genetic diversity within germplasm collections can be accomplished using simple sequence repeat (SSR) markers and association mapping techniques. The present study was conducted to evaluate the genetic diversity of a colored rice germplasm collection containing 376 black-purple rice samples and 172 red pericarp samples, conserved by Dong-A University. There were 600 pairs of SSR primers screened against 11 rice varieties. Sixteen informative primer pairs were selected, having high polymorphism information content (PIC) values, which were then used to assess the genetic diversity within the collection. A total of 409 polymorphic amplified fragments were obtained using the 16 SSR markers. The number of alleles per locus ranged from 11 to 47, with an average of 25.6. The average PIC value was 0.913, ranging from 0.855 to 0.964. Four hundred and nine SSR loci were used to calculate Jaccard’s distance coefficients, using the unweighted pair-group method with arithmetic mean cluster analysis. These accessions were separated into several distinctive groups corresponding to their morphology. The results provided valuable information for the colored rice breeding program and showed the importance of protecting germplasm resources and the molecular markers that can be derived from them.

scholarly journals Study of the gene pool of the winter rye Secale cereale L. of the Republic of Belarus using microsatellite markers

2021 ◽  
Vol 66 (2) ◽  
pp. 215-222
Author(s):  
V. S. Mandrusova ◽  
I. S. Gordej ◽  
O. M. Lyusikov ◽  
V. E. Shimko ◽  
I. A. Gordej
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Ssr Markers ◽  
Gene Pool ◽  
Winter Rye ◽  
Interpopulation Variability ◽  
Content Index ◽  
Secale Cereale L ◽  
New Varieties ◽  
The Republic

In this work, the genetic diversity of the modern gene pool of the winter rye (S. cereal L.) of the Republic of Belarus from 20 actual breeding samples was investigated using 15 microsatellite (SSR) markers to develop divergent crossing combinations in breeding for heterosis. It was shown that the formed set of SSR markers is highly effective – the informational content index (PIC) varied from 0.50 to 0.83 and averaged 0.72. The most effective microsatellite markers (SCM28, SCM43, SCM101 and SCM102) were identified and can be successfully used to study the genetic diversity of rye. It has been established that the modern gene pool of the winter rye of the Republic of Belarus is generally characterized by fairly wide genetic diversity (interpopulation variability) – all collection samples are characterized by a unique allelic composition of the studied microsatellite loci. Based on investigation results, a hierarchical clustering dendrogram was constructed, which made it possible to determine the most genetically divergent combinations of crosses. The information obtained can be used for the development of an effective scheme allowing to develop new varieties and hybrids in the practical breeding of rye for heterosis.

Genetic diversity of loquat germplasm (Eriobotrya japonica (Thunb) Lindl) assessed by SSR markers

Genome ◽  
2005 ◽  
Vol 48 (1) ◽  
pp. 108-114 ◽  
Author(s):  
José Miguel Soriano ◽  
Carlos Romero ◽  
Santiago Vilanova ◽  
Gerardo Llácer ◽  
María Luisa Badenes
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Malus Domestica ◽  
Genetic Relationships ◽  
Germplasm Collection ◽  
Mean Value ◽  
Eriobotrya Japonica ◽  
Fixation Index ◽  
Group Method ◽  
Malus Domestica Borkh

Genetic relationships among 40 loquat (Eriobotrya japonica (Thunb) Lindl) accessions that originated from different countries and that are part of the germplasm collection of the Instituto Valenciano de Investigaciones Agrarias (IVIA) (Valencia, Spain) were evaluated using microsatellites. Thirty primer pairs flanking microsatellites previously identified in Malus × domestica (Borkh.) were assayed. Thirteen of them amplified polymorphic products and unambiguously distinguished 34 genotypes from the 40 accessions analyzed. Six accessions showing identical marker patterns were Spanish local varieties thought to have been derived from 'Algerie' by a mutational process very common in loquat species. A total of 39 alleles were detected in the population studied, with a mean value of 2.4 alleles per locus. The expected and observed heterozygosities were 0.46 and 51% on average, respectively, leading to a negative value of the Wright's fixation index (–0.20). The values of these parameters indicate a smaller degree of genetic diversity in the set of loquat accessions analyzed than in other members of the Rosaceae family. Unweighted pair-group method (UPGMA) cluster analysis, based on Nei's genetic distance, generally grouped genotypes according to their geographic origins and pedigrees. The high number of alleles and the high expected heterozygosity detected with SSR markers developed in Malus × domestica (Borkh.) make them a suitable tool for loquat cultivar identification, confirming microsatellite marker transportability among genera in the Rosaceae family.Key words: Eriobotrya japonica, SSR markers, microsatellites, genetic diversity.

scholarly journals Evaluation of genetic diversity of honey bee in Ukraine analyzed by the SSR-markers

2020 ◽  
Vol 26 ◽  
pp. 56-60
Author(s):  
D. I. Hryhorchuk ◽  
A. M. Rabokon ◽  
A. S. PostovoitovA ◽  
N. M. Pirko ◽  
Ya. V. Pirko ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Honey Bee ◽  
Ssr Markers ◽  
Honey Bees ◽  
Molecular Genetic ◽  
Molecular Genetic Analysis ◽  
Analysis Method ◽  
Ssr Analysis ◽  
Silver Nitrate Staining

Aim. The aim of the work was to analyze current genetic structure of honey bee populations in Ukraine that belong to different subspecies: A. meliffera meliffera, A. meliffera carnica, A. meliffera macedonica using microsatellite markers. Methods. SSR-analysis was used for evaluation of the honey bee polymorphism. Amplified fragments were fractionated by electrophoresis in non-denaturing polyacrylamide gel. DNA bands were detected using silver nitrate staining. Results. The analysis of the sample of honey bees (workers and male-bees) collected from different regions of Ukraine was performed by using two SSR-markers (Ac011 and A007). In this sample reasonably high polymorphism was observed, especially for the SSR-marker A007. Conclusions. It was estimated that SSR-analysis method can be applied in molecular-genetic analysis of honey bees for evaluation of genetic diversity and cross-subspecies hybridization. Keywords: microsatellite markers, Apis meliffera, PIC (Polymorphism Information Content).

scholarly journals Molecular Assessment of Genetic Diversity among Egyptian Landraces of Wheat (Triticum aestivum L.) Using Microsatellite Markers

2020 ◽  
pp. 46-58 ◽  
Author(s):  
Ahmed Medhat Mohamed Al-Naggar ◽  
Mohamed Abd El-Maboud Abd El-Shafi ◽  
Mohamed Helmy El-Shal ◽  
Ali Hassan Anany
Keyword(s):  
Genetic Diversity ◽  
Triticum Aestivum ◽  
Microsatellite Markers ◽  
Ssr Markers ◽  
Triticum Aestivum L ◽  
Genetic Progress ◽  
High Genetic Diversity ◽  
Breeding Programs ◽  
High Polymorphism Information Content ◽  
Wheat Landraces

To increase the genetic progress in wheat (Triticum aestivum L.) yield, breeders search for germplasm of high genetic diversity, one of them is the landraces. The present study aimed at evaluating genetic diversity of 20 Egyptian wheat landraces and two cultivars using microsatellite markers (SSRs). Ten SSR markers amplified a total of 27 alleles in the set of 22 wheat accessions, of which 23 alleles (85.2%) were polymorphic. The majority of the markers showed high polymorphism information content (PIC) values (0.67-0.94), indicating the diverse nature of the wheat accessions and/or highly informative SSR markers used in this study. The genotyping data of the SSR markers were used to assess genetic variation in the wheat accessions by dendrogram. The highest genetic distance was found between G21 (Sakha 64; an Egyptian cultivar) and the landrace accession No. 9120 (G11). These two genotypes could be used as parents in a hybridization program followed by selection in the segregating generations, to identify some transgressive segregates of higher grain yield than both parents. The clustering assigned the wheat genotypes into four groups based on SSR markers. The results showed that the studied SSR markers, provided sufficient polymorphism and reproducible fingerprinting profiles for evaluating genetic diversity of wheat landraces. The analyzed wheat landraces showed a good level of genetic diversity at the molecular level. Molecular variation evaluated in this study of wheat landraces can be useful in traditional and molecular breeding programs.

scholarly journals Characterisation and genetic diversity analysis of selected chickpea cultivars of nine countries using simple sequence repeat (SSR) markers

2011 ◽  
Vol 62 (2) ◽  
pp. 177 ◽  
Author(s):  
Tadesse Sefera ◽  
Bekele Abebie ◽  
Pooran M. Gaur ◽  
Kebebew Assefa ◽  
Rajeev K. Varshney
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Simple Sequence Repeat ◽  
Dna Fingerprint ◽  
Pedigree Information ◽  
Sequence Repeat ◽  
Dissimilarity Matrix ◽  
Breeding Programs ◽  
Simple Sequence ◽  
Chickpea Cultivars

The genomic DNA profiles of 48 chickpea cultivars released in nine countries and of historical significance to the chickpea breeding programs at ICRISAT and in Ethiopia were evaluated using 48 simple sequence repeat (SSR) markers. Across the cultivars, a total of 504 alleles representing the 48 SSR loci were detected with frequencies ranging from three to 22 (mean 10.5) alleles per locus. The polymorphism information content (PIC) for the SSR markers varied from 0.37 to 0.91 (mean 0.77). A subset of only three highly informative SSR markers (TA176, TA2, TA180) enabled complete discrimination among all 48 chickpea cultivars tested. Hierarchical neighbour-joining UPGMA cluster analysis based on simple matching dissimilarity matrix resolved the 48 cultivars into two major clusters representing desi and kabuli types. These cluster groupings of the cultivars were consistent with the pedigree information available for the cultivars as to the phenotypic classes of chickpea types. Analysis of the temporal patterns of the SSR diversity by classifying 48 chickpea cultivars into four periods of release revealed increasing tendencies in the overall genetic diversity from 0.42 for the earliest varieties developed in the 1970s to 0.62 for those released in the 1980s, and reached a maximum and equivalent level of 0.72 for the varieties developed in the 1990s and 2000s. Overall, the study ascertained that SSRs provide powerful marker tools in revealing genetic diversity and relationships in chickpeas, thereby proving useful for selection of parents in breeding programs and also for DNA fingerprint identification of cultivars.

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