Use of SSR- markers for detection of stability of soy to cercosporosis

2021 ◽  
Author(s):  
O. N. Tarasova ◽  
Keyword(s):  
Microsatellite Markers ◽  
Ssr Markers ◽  
Selection Of

As part of the development of the methodology for identifying alleles of microsatellite markers Satt244 and Satt547 associated with resistance to cercosporosis in two selected soybean varieties of the selection of the FSBSI FRC ARSRIS, an allele of Satt244-154 characterizing resistance to C. sojina was identified.

scholarly journals Genetic variability for coloured caryopses in common wheat varieties determined by microsatellite markers

2013 ◽  
Vol 49 (No. 3) ◽  
pp. 116-122 ◽  
Author(s):  
M. Musilová ◽  
V. Trojan ◽  
T. Vyhnánek ◽  
L. Havel
Keyword(s):  
Microsatellite Markers ◽  
Ssr Markers ◽  
Polymorphic Information Content ◽  
Wheat Breeding ◽  
Wheat Varieties ◽  
Breeding Programmes ◽  
New Gene ◽  
Yellow Coloration ◽  
Selection Of

Products made from wheat are the most important components of the human diet, and could also become a source of functional foods and feed ingredients, e.g. minerals, vitamins and/or phytochemicals. The caryopses of certain wheat genotypes contain antioxidants, i.e. anthocyanins or carotenoids, which cause purple, blue or yellow coloration. The first step before the introduction of these traits into individual wheat cultivars is the characterization of relationships and the possibility of new gene combinations. In this study, relationships among 24 genotypes with different types of caryopsis colour were investigated by means of microsatellite markers. Using 44 SSR (Simple Sequence Repeat) markers it was possible to detect a total of 184 alleles; on average, approximately 4 alleles were detected at a microsatellite locus. Using a set of 5 SSR markers (Xgwm636, Xbarc077, Xwmc262, Xgwm397 and Xwmc219) with PIC (polymorphic information content) values higher than 0.70, it was possible to differentiate among all the genotypes analysed. A dendrogram was created on the basis of all SSR markers, and showed that the genotypes were divided into two groups. Three, and one genotype with purple and blue caryopsis, respectively, belonged to one cluster, while the remaining twenty formed the second, greater cluster, which was subdivided into 2 sub-clusters: one of them involved genotypes with blue caryopses, and the other those with yellow and red caryopses. The genotype of tall wheatgrass (Thinopyrum ponticum), as a possible donor of genes responsible for blue caryopses, was also classified. These results can be used in wheat breeding programmes aimed at the selection of functional foodstuffs.

scholarly journals Polymorphism of microsatellite markers on chromosomes 3H and 7H in barley genotypes resistant and susceptible to Rhynchosporium secalis

2009 ◽  
Vol 57 (2) ◽  
pp. 69-78
Author(s):  
Hana Nevimová ◽  
Jan Bednář ◽  
Tomáš Vyhnánek
Keyword(s):  
Microsatellite Markers ◽  
Ssr Markers ◽  
Agricultural Research ◽  
Diversity Index ◽  
Rhynchosporium Secalis ◽  
Agricultural Research Institute ◽  
The Individual ◽  
Statistical Indicators ◽  
Barley Genotypes ◽  
Selection Of

The objective of the present study was to explore the polymorphism of microsatellite markers localised on chromosomes 3H and 7H in 15 genotypes of barley (Hordeum vulgareL.), spring form (2n = 2x = 14 chromosomes, genome HVHV) from the collection of genetic resources of the Agricultural Research Institute Kroměříž, Ltd. showing various degrees of susceptibility toRhynchosporium secalis. The selection of SSR markers was based on hitherto achieved knowledge according to which the greatest amount of resistance genes againstRhynchosporium secalisis localised on chromosomes 3H and 7H of barley. We selected 33 SSR markers for the analyses; 17 were localised on chromosome 3H of barley and 16 on chromosome 7H. Out of the total 33 SSR markers, 32 were polymorphous and one mar­ker (Bmac0282) was monomorphic. In total we detected 172 alleles ranging between 101 and 235 bp; the average number of alleles per locus was 5.21. In terms of the polymorphism of the SSR markers localised on chromosomes 3H and 7H the highest polymorphism (60%) was detected in theBmag0006andBmag0021SSR markers; the lowest in theBmag0877andEBmac0713markers, i.e. 20% and 13.3%, respectively. The average polymorphism based on analyses of 17 SSR markers on chromosome 3H was 37.6% and of 16 SSR markers on chromosome 7H was 31.3%. We also calculated the statistical indicators of the variability rate characteristics of the individual microsatellite markers: diversity index (DI) which ranged between 0.000 and 0.907 (on average 0.704); polymorphous information content (PIC) ranging between 0.000 and 0.906 (on average 0.679); and probability identity (PI) ranging between 0.006 and 1.000 (on average 0.137). On the basis of constructed dendrograms for SSR markers of both chromosomes together it was possible to divide the analysed set into cluster I of genotypes resistant and cluster II of genotypes susceptible and moderately susceptible toRhynchosporium secalis, and was not possible in dendrograms of individual chromosomes.

Microsatellite Marker: Importance and Implications of Cross-genome Analysis for Finger Millet (Eleusine coracana (L.) Gaertn)

2020 ◽  
Vol 9 (3) ◽  
pp. 160-170
Author(s):  
Thumadath P.A. Krishna ◽  
Maharajan Theivanayagam ◽  
Gurusunathan V. Roch ◽  
Veeramuthu Duraipandiyan ◽  
Savarimuthu Ignacimuthu
Keyword(s):  
Molecular Marker ◽  
Microsatellite Markers ◽  
Ssr Markers ◽  
Genome Analysis ◽  
Related Species ◽  
Finger Millet ◽  
Crop Improvement ◽  
Human Beings ◽  
Closely Related Species ◽  
Genome Amplification

Finger millet is a superior staple food for human beings. Microsatellite or Simple Sequence Repeat (SSR) marker is a powerful tool for genetic mapping, diversity analysis and plant breeding. In finger millet, microsatellites show a higher level of polymorphism than other molecular marker systems. The identification and development of microsatellite markers are extremely expensive and time-consuming. Only less than 50% of SSR markers have been developed from microsatellite sequences for finger millet. Therefore, it is important to transfer SSR markers developed for related species/genus to finger millet. Cross-genome transferability is the easiest and cheapest method to develop SSR markers. Many comparative mapping studies using microsatellite markers clearly revealed the presence of synteny within the genomes of closely related species/ genus. Sufficient homology exists among several crop plant genomes in the sequences flanking the SSR loci. Thus, the SSR markers are beneficial to amplify the target regions in the finger millet genome. Many SSR markers were used for the analysis of cross-genome amplification in various plants such as Setaria italica, Pennisetum glaucum, Oryza sativa, Triticum aestivum, Zea mays and Hordeum vulgare. However, there is very little information available about cross-genome amplification of these markers in finger millet. The only limited report is available for the utilization of cross-genome amplified microsatellite markers in genetic analysis, gene mapping and other applications in finger millet. This review highlights the importance and implication of microsatellite markers such as genomic SSR (gSSR) and Expressed Sequence Tag (EST)-SSR in cross-genome analysis in finger millet. Nowadays, crop improvement has been one of the major priority areas of research in agriculture. The genome assisted breeding and genetic engineering plays a very crucial role in enhancing crop productivity. The rapid advance in molecular marker technology is helpful for crop improvement. Therefore, this review will be very helpful to the researchers for understanding the importance and implication of SSR markers in closely related species.

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 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.

Target and Non–target site Mechanisms Confer Resistance to Glyphosate in Canadian Accessions ofConyza canadensis

Weed Science ◽  
2017 ◽  
Vol 66 (2) ◽  
pp. 234-245 ◽  
Author(s):  
Eric R. Page ◽  
Christopher M. Grainger ◽  
Martin Laforest ◽  
Robert E. Nurse ◽  
Istvan Rajcan ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Resistance Mechanisms ◽  
Target Site ◽  
Conyza Canadensis ◽  
Weed Species ◽  
Target Site Resistance ◽  
Selection For ◽  
Simple Sequence ◽  
Growing Region ◽  
Selection Of

Glyphosate-resistant populations ofConyza canadensishave been spreading at a rapid rate in Ontario, Canada, since first being documented in 2010. Determining the genetic relationship among existing Ontario populations is necessary to understand the spread and selection of the resistant biotypes. The objectives of this study were to: (1) characterize the genetic variation ofC. canadensisaccessions from the province of Ontario using simple sequence repeat (SSR) markers and (2) investigate the molecular mechanism (s) conferring resistance in these accessions. Ninety-eightC. canadensisaccessions were genotyped using 8 SSR markers. Germinable accessions were challenged with glyphosate to determine their dose response, and the sequences of 5-enolpyruvylshikimate-3-phosphate synthase genes 1 and 2 were obtained. Results indicate that a majority of glyphosate-resistant accessions from Ontario possessed a proline to serine substitution at position 106, which has previously been reported to confer glyphosate resistance in other crop and weed species. Accessions possessing this substitution demonstrated notably higher levels of resistance than non–target site resistant (NTSR) accessions from within or outside the growing region and were observed to form a subpopulation genetically distinct from geographically proximate glyphosate-susceptible and NTSR accessions. Although it is unclear whether other non–target site resistance mechanisms are contributing to the levels of resistance observed in target-site resistant accessions, these results indicate that, at a minimum, selection for Pro-106-Ser has occurred in addition to selection for non–target site resistance and has significantly enhanced the levels of resistance to glyphosate inC. canadensisaccessions from Ontario.

Analisis Keragaman Genetik 28 Nomor Koleksi Kakao (Theobroma cacao L.) Berdasarkan Marka SSR

2017 ◽  
Vol 4 (1) ◽  
pp. 13 ◽  
Author(s):  
Ilham Nur ardhi Wicaksono ◽  
Rubiyo Rubiyo ◽  
Dewi Sukma ◽  
Sudarsono Sudarsono
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Plant Molecular Biology ◽  
Average Value ◽  
Germplasm Collections ◽  
Ctab Method ◽  
Parental Lines ◽  
Biology Laboratory ◽  
Superior Clones ◽  
Selection Of

<em>Analysis of genetic diversity of cacao germplasm collections using molecular markers has an important role in the assembly of new superior clones. The availability of commercial and superior local clones could increase the success of new superior clones’ assembly. Hence, the genetic diversity analysis of these materials needs to be done. The study was aimed to analyze genetic diversity of 28 cacao collections based on SSR markers that would be useful for selection of parental lines. The research was conducted in the Integrated Laboratory, Indonesian Industrial and Beverage Crops Research Institute, Sukabumi, and Plant Molecular Biology laboratory, Bogor Agricultural University, from November 2015 to May 2016.</em> <em>Analysis of genetic diversity was conducted using 28 cacao clones (13 superior local clones and 15 commercial clones). DNA was extraction using CTAB method, which then amplified by PCR technique using 20 SSR primers. The result showed that all SSR markers used in this study were polymorphic with an average value of PIC was high (57%). Phylogenetic tree constructed using DARwin program version 6.05 is divided into 3 major groups, which placed commercial and superior local clones together in each group. Superior local clones observed herein might have close relationships with commercial clones that have long been cultivated in Indonesia. Furthermore, some cacao clones could potentially be parental lines because they had high genetic distance. The results showed that SSR markers are powerful tools to determine potential parental lines, which is expected to increase the chances of heterosis in their progenies.</em>

scholarly journals Comparative analysis of genetic diversity among the maize inbred lines (Zea mays L.) obtained by RAPD and SSR markers

2008 ◽  
Vol 51 (1) ◽  
pp. 183-192 ◽  
Author(s):  
Silvia Graciele Hülse de Souza ◽  
Valéria Carpentieri-Pípolo ◽  
Claudete de Fátima Ruas ◽  
Valdemar de Paula Carvalho ◽  
Paulo Maurício Ruas ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Zea Mays L ◽  
Inbred Lines ◽  
Pedigree Data ◽  
Dice Coefficient ◽  
Quantitative Characters ◽  
Maize Inbred Lines ◽  
Ssr Primers ◽  
Selection Of

The RAPD and SSR markers were used to compare the genetic diversity among the 16 maize inbred lines. Twenty-two primers were used in the RAPD reactions, resulting in the amplification of 265 fragments, while 16 pairs of SSR primers resulted in 75 fragments. The similarity based on Dice coefficient for the RAPD ranged from 53 to 84% and for the SSR from 11 to 82%. The dendrogram obtained by the RAPD showed five groups, while dendrogram obtained by the SSR showed three groups and one isolated line. The association constructed from the markers and the principal coordinate’s analysis separated lines into two groups according to endosperm color, either orange or yellow. The RAPD were effective to validate pedigree data, while the SSR were effective to recognize the differences between the quantitative characters. Because they assess the distinct regions of the genome, the selection of one or other marker would depend on the characteristics of the material used and the objectives of the project.

scholarly journals Microsatellite markers for identification of a group of italian olive accessions

2009 ◽  
Vol 66 (5) ◽  
pp. 685-690 ◽  
Author(s):  
Innocenzo Muzzalupo ◽  
Francesca Stefanizzi ◽  
Amelia Salimonti ◽  
Rosanna Falabella ◽  
Enzo Perri
Keyword(s):  
Microsatellite Markers ◽  
Molecular Characterization ◽  
Ssr Markers ◽  
Olea Europaea ◽  
Fruit Trees ◽  
Ssr Primers ◽  
Olive Cultivars ◽  
Olea Europaéa

Cultivar characterization for fruit trees certification requires fast, efficient and reliable techniques. Microsatellite markers (SSR) were used in the molecular characterization of 23 genotypes of Olea europaea subsp europaea. The DNA from the olive cultivars was analyzed using nine pre-selected SSR primers (GAPU59, GAPU71A, GAPU71B, GAPU103A, UDO99-01, UDO99-12, UDO99-28 and UDO99-39) and revealed 29 alleles, which allowed each genotype to be identified. In the dendrogram, the nine primers allowed the 23 olive genotypes to be grouped into subgroups corresponding to the same cultivar denominations. SSR markers proved to be efficient and reliable for the molecular characterization of Italian olive cultivars.

Transferability of wheat microsatellites to diploid Aegilops species and determination of chromosomal localizations of microsatellites in the S genome

Genome ◽  
2005 ◽  
Vol 48 (6) ◽  
pp. 959-970 ◽  
Author(s):  
I G Adonina ◽  
E A Salina ◽  
E G Pestsova ◽  
M S Röder
Keyword(s):  
Triticum Aestivum ◽  
Microsatellite Markers ◽  
Ssr Markers ◽  
Phylogenetic Relationships ◽  
Diploid Species ◽  
Aegilops Speltoides ◽  
Addition Lines ◽  
Chromosome Addition ◽  
Aegilops Longissima ◽  
Chromosome Addition Lines

Overall, 253 genomic wheat (Triticum aestivum) microsatellite markers were studied for their transferability to the diploid species Aegilops speltoides, Aegilops longissima, and Aegilops searsii, representing the S genome. In total, 88% of all the analyzed primer pairs of markers derived from the B genome of hexaploid wheat amplified DNA fragments in the genomes of the studied species. The transferability of simple sequence repeat (SSR) markers of the T. aestivum A and D genomes totaled 74%. Triticum aestivum – Ae. speltoides, T. aestivum – Ae. longissima, and T. aestivum – Ae. searsii chromosome addition lines allowed us to determine the chromosomal localizations of 103 microsatellite markers in the Aegilops genomes. The majority of them were localized to homoeologous chromosomes in the genome of Aegilops. Several instances of nonhomoeologous localization of T. aestivum SSR markers in the Aegilops genome were considered to be either amplification of other loci or putative translocations. The results of microsatellite analysis were used to study phylogenetic relationships among the 3 species of the Sitopsis section (Ae. speltoides, Ae. longissima, and Ae. searsii) and T. aestivum. The dendrogram obtained generally reflects the current views on phylogenetic relationships among these species.Key words: Triticum aestivum, Aegilops speltoides, Aegilops longissima, Aegilops searsii, microsatellite, SSR, chromosome addition lines, phylogeny.

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