Microsatellites are polymorphic dna loci microsatellite repeats. Medical search. Frequent questions

Microsatellite markers, or short tandem repeats (STR), are polymorphic DNA loci containing repeated nucleotide sequences, typically from 2 to 7 nucleotides per unit. (igbiosystems.com)
The vast amount of data emerging for thousands of microsatellite markers across organisms makes microsatellite analysis a widely accepted tool for linkage and association studies, and also for identifying individual organisms (i.e., human identification or HID). (igbiosystems.com)
We used next generation sequencing (Roche 454 pyrosequencing) to identify microsatellite markers from the genomic DNA of M. gilvus. (eurekamag.com)
This study also has effectively demonstrated the use of 454 pyrosequencing for the rapid development of informative microsatellite markers from a termite genome. (eurekamag.com)
This project aimed to isolate microsatellite markers from Cypripedium passerinum, a native North American terrestrial orchid at risk of extinction. (macewan.ca)
We designed nine polymorphic markers for the squirrel glider (Petaurus norfolcensis), an arboreal marsupial in eastern Australia. (researchgate.net)
microsatellite markers are available for the species (Bro wn et al. (researchgate.net)
Nine microsatellite markers were used to genotype juveniles and potential parents, with assignment completed using CERVUS 2.0. (sun.ac.za)
They are co-dominant and highly polymorphic markers, thus are the markers of choice in population genetics and forensic analyses. (qiime.com)
A search for the putative disease-associated TNF/LT alleles depends on the informative genetic markers at the TNF locus. (ox.ac.uk)
To localize and define additional polymorphic markers, we probed the collection of genomic clones with synthetic tandemly repeated dinucleotides, corresponding to the sequences known as microsatellites. (ox.ac.uk)
We propose a nomenclature for microsatellite tagged LT/TNF alleles based on their size and variability, which could also be extended to include RFLP and other not yet identified polymorphic markers. (ox.ac.uk)
The EST database provided an excellent source of new, highly polymorphic microsatellite markers that can be used by geneticists and plant pathologists for high-throughput genetic analyses of this important plant pathogen and its close relatives. (usda.gov)
The EST database provided an excellent source of new, highly polymorphic microsatellite markers that can be multiplexed for high-throughput genetic analyses of this important plant pathogen. (usda.gov)
This field of genetics emerged from the availability of several studies with classical molecular markers, such as isozymes, RAPD, AFLP, and microsatellites. (intechopen.com)
This review gives a brief summary on the development of genetic markers including both the classical genetic markers and more advanced DNA-based molecular markers. (biomedcentral.com)
By the 1980s, many different types of DNA molecular markers had been explored, e.g. (biomedcentral.com)
All of these DNA-based markers contain specific advantages and have played significant roles in the evaluation of genetic diversity in farm animals. (biomedcentral.com)
In addition, 30 polymorphic EST-SSR markers were further used to assess the genetic diversity and the population structure of 192 cultivated S. oblata individuals. (biomedcentral.com)
To date, highly variable markers such as microsatellites have only been developed for the photobionts of two lichen species, namely Lobaria pulmonaria (L.) Hoffm. (bioone.org)
Seventeen Egyptian bread wheat varieties used in this study with a set of sixteen wheat microsatellite markers to examine their utility in detecting DNA polymorphism, estimating genetic diversity and identifying genotypes. (potravinarstvo.com)
The results proved the microsatellite markers utility in detecting polymorphism due to the discrimination of cultivars and estimating genetic diversity. (potravinarstvo.com)
Population structure and genetic diversity among Indian wheat varieties using microsatellite (SSR) markers. (potravinarstvo.com)
In the present study genetic diversity in 19 commercial varieties and 29 landraces of cluster bean belonging to Gujarat, Rajasthan, Haryana and Delhi regions of India were analyzed using 13 RAPD (Randomly Amplified Polymorphic DNA) and 7 1SSR (Inter Simple Sequence Repeat) markers. (iitr.ac.in)
Seven ISSR markers used in the study produced 64 bands out of which 50 were polymorphic. (iitr.ac.in)
In this study, a set of 30 novel polymorphic microsatellite markers for E. sinensis was developed from EST databases. (biomedcentral.com)
These informative microsatellite markers will be useful in studies of genetics, genomics and marker-assisted selection breeding in E. sinensis . (biomedcentral.com)
Microsatellite markers provide a powerful tool in genome researches due to their wide distribution, codominant inheritance and high polymorphism. (biomedcentral.com)
In this study, we describe a new set of 30 EST-derived microsatellite markers which would aid in characterizing population structure, genetic diversity and constructing linkage map in E. sinensis . (biomedcentral.com)
Twelve polymorphic microsatellite markers were isolated from the razor clam using a partial genomic library enriched for tandem repeat sequences of (CA) 16 , (GA) 16 . (geneticsmr.com)
In this study, 20 representative accessions of peach germplasm from the National Germplasm Repository of Peach in China were used to select a set of 18 simple sequence repeat (SSR) markers for accurate species discrimination. (ashs.org)
Pseudomolecules as well as unmapped scaffolds were used for the bulk mining of SSR markers and for the construction of the first globe artichoke microsatellite marker database. (researchgate.net)
scolymus) has been used to catalog the genome's content of simple sequence repeat (SSR) markers. (researchgate.net)

PCR primers were developed using the unique sequences flanking the identified microsatellites and were evaluated for their utility. (macewan.ca)
Primers amplifying polymorphic loci can be used to assess the genetic diversity of C. passerinum populations both within the Wagner Natural Area, Alberta, Canada and elsewhere in its range of distribution. (macewan.ca)
The bioinformatic analysis identified 109 possible microsatellite loci and developed primers for 99 of them that were tested for amplification and polymorphism by polymerase chain reaction. (usda.gov)
The bioinformatics analysis identified 109 possible SSR loci and developed flanking primers for 99 of them that were tested for amplification and polymorphism on five field isolates of diverse origin, including the parents of the standard M. graminicola mapping population. (usda.gov)
Polymerase chain reaction (PCR) primers were designed from flanking sequences in 102 of the SSR clones, of which 50 primer pairs (for 10 AC-repeat microsatellites and 40 AG-repeat microsatellites) produced robust amplification products. (psu.edu)
The amplification using RAPD primers produced a total of 118 bands, out of which 103 were polymorphic and 15 monomorphic. (iitr.ac.in)
Primers flanking microsatellite were designed using the PRIMER PREMIER 5.0 program. (biomedcentral.com)

Thirty-seven loci were selected for primer development and tested for polymorphism across 22 colonies of M. gilvus. (eurekamag.com)
DNA sequence polymorphism at the human tumor necrosis factor (TNF) locus. (ox.ac.uk)
Previously, a low degree of genetic polymorphism at the human TNF locus has been reported, mostly bi-allelic RFLP. (ox.ac.uk)
Using a polymerase chain reaction-based technique, we analyzed three of these four microsatellites and observed their length of polymorphism. (ox.ac.uk)
Therefore, we describe thus far the most informative level of DNA sequence polymorphism in this part of human MHC. (ox.ac.uk)
Microsatellite tagged polymorphism described here can be used in systematic linkage studies of HLA-associated diseases. (ox.ac.uk)
Restriction Fragment Length Polymorphism (RFLP), Random Amplified Polymorphic DNA (RAPD), Amplified Fragment Length Polymorphism (AFLP), Single-Strand Conformation Polymorphism (SSCP) and Microsatellite DNA. (biomedcentral.com)

the number of repeats for a specific locus may differ, resulting in alleles of varying length. (igbiosystems.com)
Eleven loci were found to be polymorphic with 2-4 alleles per locus. (eurekamag.com)
Numerous TNF/lymphotoxin alleles tagged by two closely linked microsatellites in the upstream region of the lymphotoxin (TNF-beta) gene. (ox.ac.uk)
Using DNA samples from blood donors, two families, and three human cell lines, we detected 13 distinct alleles of the AC/GT microsatellite neighboring human TNF genes. (ox.ac.uk)
This linked TC/GA repeat showed at least five alleles, whereas the least polymorphic TC/GA repeat located in the first intron of LT (TNF-beta) gene had two alleles. (ox.ac.uk)
TNF alleles defined by microsatellites were stably inherited and segregated in the Mendelian way. (ox.ac.uk)
Seventy-seven of the 99 primer pairs generated an easily scored banding pattern and 51 were polymorphic, with up to four alleles per locus, among the isolates tested. (usda.gov)
Forty-eight of the 50 loci were polymorphic, with a mean of 7.5 alleles per locus. (psu.edu)
A total of 190 alleles were detected at 16 loci using 16 microsatellite primer pairs. (potravinarstvo.com)
The (GA) n microsatellites were the highest polymorphic (20 alleles). (potravinarstvo.com)
The number of alleles per locus ranged from three to twenty. (biomedcentral.com)
The number of alleles per locus ranged from two to six, with a mean value of 2.85 alleles per locus. (biomedcentral.com)

In total, 31 polymorphic microsatellite loci of different motifs and composition were developed. (sun.ac.za)
Short tandem repeats (STRs), or microsatellites, are 1-6 base pair (bp) motifs of repeating units of DNA. (biomedcentral.com)
The microsatellite motifs AG, AC, and ATG were found to be the most abundant in Douglas-fir (Pseudotsuga menziesii (Mirb. (psu.edu)
The parameters were set for detection of di-, tri- and tetranuclotide motifs with a minimum of six repeats, respectively. (biomedcentral.com)

Short tandem repeats (STRs), also called microsatellites, are polymorphic DNA loci present throughout the genome and used for linkage mapping studies, association studies, and identification of organisms. (igbiosystems.com)
Short tandem repeats (STRs) compose approximately 3% of the genome, and mutations at STR loci have been linked to dozens of human diseases including amyotrophic lateral sclerosis, Friedreich ataxia, Huntington disease, and fragile X syndrome. (biomedcentral.com)
Microsatellites, also known as simple sequence repeats (SSRs) or short tandem repeats (STRs), are short sections of DNA that have a repeated sequence of one to six base pairs. (qiime.com)

It is possible that each of these mechanisms contributes to the high mutation rate of STRs, but strand slippage is the mechanism proposed for generating most observed mutations in STR loci [ 19 ]. (biomedcentral.com)
Due to the repetitive structure of STRs and their high mutability, sequencing and genotyping these loci is difficult, especially using short-read sequencing data. (biomedcentral.com)
Some of these tools are designed to detect STR expansions at disease-related loci, while others detect expansions and contractions of STRs genome-wide but are constrained by sequencing read length and the STR motif size. (biomedcentral.com)

The equine microsatellite (MS) marker was first characterized by Marklund et al. (ejast.org)
Microsatellites are the marker of choice for modern genetic studies because they are highly polymorphic, very repeatable, and easily transferred among laboratories. (usda.gov)
At present, DNA molecular marker techniques are widely applied in the fields of germplasm identification, phylogenetics, and genetic structural analysis. (biomedcentral.com)
The polymorphic information content ( PIC ) and marker index ( MI ) average values were 0.8669, 0.8530 respectively. (potravinarstvo.com)
Eighty-five microsatellite loci were selected for microsatellite marker optimization. (biomedcentral.com)
A 10-bp DNA ladder (Invitrogen) was used as a reference marker for allele size determination. (biomedcentral.com)

Microsatellites, highly polymorphic repetitive DNA sequences in the genome of all organisms, have proven to be a valuable tool in the assessment of genetic diversity. (macewan.ca)
Fast Isolation by AFLP of Sequences Containing Repeats (FIASCO) was employed to generate a genomic DNA library enriched for AT, AC, and AAG microsatellites. (macewan.ca)
Since this method captures the epigenetic changes and DNA sequences simultaneously, there is no need of special sample preparation. (qiime.com)
To rectify this situation, a database of 30,137 Expressed Sequence Tag (EST) sequences from M. graminicola was scanned with an automated software pipeline for di- and trinucleotide microsatellites. (usda.gov)
A database of 30,137 EST sequences from Mycosphaerella graminicola, the septoria tritici blotch fungus of wheat, was scanned for di- and trinucleotide units repeated tandemly six or more times, with an automated software pipeline. (usda.gov)
In this study, a total of 10,988 SSRs were obtained from 9864 unigene sequences with an average of one SSR per 8.13 kb, of which di-nucleotide repeats were the dominant type (32.86%, 3611). (biomedcentral.com)

Eighteen tandem repeats and 404 microsatellites are distributed unevenly throughout the S. purpurea mt genome. (springeropen.com)

Inter simple sequence repeat (ISSR) analysis is a technique commonly used for identifying individuals, commonly in plant species. (igbiosystems.com)

Franco) and several other conifer tree species among di-, tri-, and tetra-nucleotide simple sequence repeats (SSR). (psu.edu)

Clones were selected from the libraries and bidirectionally sequenced to identify those which contain microsatellites. (macewan.ca)
For the microsatellite development, 50% of positive recombinant clones contained inserts. (sun.ac.za)
Sequencing of these clones produced 16% perfect repeats and 47% imperfect repeats for which 52 primer sets were designed and tested. (sun.ac.za)
Sixty-one percent of sequenced clones were deemed redundant and pre-screening for both uniqueness and the presence of microsatellites would reduce unnecessary sequencing thus improving the efficiency of the FIASCO method and reducing costs. (sun.ac.za)

Perfect repeats mutate about 2 × more often than imperfect repeats. (biomedcentral.com)

To estimate the genome-wide pattern of mutations at STR loci, we analyze blood-derived whole-genome sequencing data for 544 individuals from 29 three-generation CEPH pedigrees. (biomedcentral.com)
In addition, with biotechnological and computer innovations, novel strategies such as whole-genome SNP chips and DNA Barcoding have emerged. (biomedcentral.com)
2015 ), have been successfully assembled through a combination approach using shotgun and paired-end NGS sequencing from non-enriched whole genome DNA libraries. (springeropen.com)

Most (66%) of the primer pairs also amplified bands in the closely related barley pathogen Septoria passerinii, but only six were polymorphic among four isolates tested. (usda.gov)
A subset of the primer pairs also was tested successfully with DNA from the related banana pathogen M. fijiensis. (usda.gov)
Most of the Douglas-fir primer pairs also amplified SSR-containing loci in other conifer species. (psu.edu)
A set of 2042 primer pairs were validated, out of which 932 (45.7%) exhibited successful amplifications, and 248 (12.1%) were polymorphic in eight S. oblata individuals. (biomedcentral.com)

Allele frequencies for the 48 polymorphic loci varied from 0.017 to 0.906 with mean allele frequency of 0.250. (psu.edu)
The number of allele per locus ranged from 8 to 20, with an average of 11.875. (potravinarstvo.com)

Epigenetics is the study of heritable phenotypic changes in organisms caused by alteration in gene expression rather than change in original DNA sequence. (qiime.com)
Approximately 10 µg of total DNA from the algal culture (ITS sequence GenBank JF831923) was used to construct a library (sheared DNA fragments were of 500 bp length) for 100 bp × 100 bp paired-end sequencing using an Illumina GAIIx and standard Illumina protocols (Illumina, San Diego, California, USA). (bioone.org)
An applied fingerprinting system for cultivated potato using simple sequence repeats. (potravinarstvo.com)

The SSRs were categorized for the numbers of repeats present, their overall length and were allocated to their linkage group. (researchgate.net)

Microsatellite instability (MSI) is a form of genomic instability arising from reduced fidelity during the replication of repetitive DNA that often occurs in tumor cells. (igbiosystems.com)

Polymerase chain reaction (PCR) amplifications were performed in 10-μL volumes containing 0.25 U Taq DNA polymerase (Takara), 1× PCR buffer, 0.2 mM dNTP mix, 1 μ M of each primer set, 1.5 mM MgCl 2 and about 100 ng template DNA. (biomedcentral.com)

Although the number of described loci is relatively high, much more works is still needed because of the large diploid chromosome number of E. sinensis (2 n = 146) [ 9 ]. (biomedcentral.com)

African populations have the largest number of population specific autosomal, X-chromosomal and mitochondrial DNA haplotypes with non-African populations having only a subset of the genetic diversity present in Africa [ 1 ]. (biomedcentral.com)
Estimates of F ST (the classic measure of population subdivision) from mitochondrial DNA are much higher in Africa than other populations, as summarized by Tishkoff et al [ 1 ]. (biomedcentral.com)

Carcinogenesis is a multi-stage phenomenon, which involves a series of genetic alterations that begin with genomic instability provoked by certain factors such as inflammation and DNA damage and end with the development of cancer. (geneticsmr.com)

Colonies containing AG, AC, and ATG repeats were selected from enriched genomic libraries of Douglas-fir, and 603 were sequenced. (psu.edu)

The variability was further increased by simultaneous analysis of the second linked microsatellite. (ox.ac.uk)

Here we describe a new set of novel polymorphic microsatellite loci to facilitate the investigation of genetic structure and artificial breeding. (biomedcentral.com)

Among these 51 loci, 23 were polymorphic between the parents of the mapping population. (usda.gov)
Within the context of the Africa America Diabetes Mellitus (AADM) Study (a genetic epidemiologic study of type 2 diabetes mellitus in West Africa), we have investigated population structure or stratification in four ethnic groups in two countries ( Akan and Gaa-Adangbe from Ghana, Yoruba and Igbo from Nigeria) using data from 372 autosomal microsatellite loci typed in 493 unrelated persons (986 chromosomes). (biomedcentral.com)

Among these 51 loci, 21 plus two previously published microsatellite loci were integrated into the existing genetic map on 12 of the 22 linkage groups. (usda.gov)
Twenty-one of these as well as two previously published microsatellite loci were integrated into the existing genetic map on 12 of the 22 linkage groups. (usda.gov)

The use of semi-automated fluorescent microsatellite analysis for tomato cultivar identification. (potravinarstvo.com)

Typically, only 13 loci are needed to have high statistical power to distinguish among individuals [ 17 ]. (biomedcentral.com)

Detection of epigenetics changes helps to understand its effects on various biological processes, such as DNA damage and repair, host-pathogen interactions, gene expression, and environmental response. (qiime.com)

1997 ). The comparative analysis of plant mt genomes enhances our understanding of genome rearrangement and DNA transfer mechanisms, and of phylogenetic diversity. (springeropen.com)

6 ], who isolated (CA) n repeat sets and demonstrated that they are highly polymorphic in horses. (ejast.org)

A total of 158 microsatellite loci were identified, of which 83% were perfect microsatellites. (macewan.ca)
A total of 90 day 0 and day of failure samples were individually sequenced, while 508 day 0 samples from participants without recurrent parasitemia were pooled after DNA extraction into 61 pools. (cdc.gov)

DNA analysis offers several potential advantages over conventional paternity testing systems because of its accuracy and specificity [ 7 , 8 ]. (ejast.org)

Verskeie onafhanklike fokus-spesifieke studies is geinisieer, insluitend die totstandkoming van „n groeiprestasie aantekenstelsel, soos gebruik in hierdie studie, en wat noodsaaklik is om die aaneenlopende prestasie van individue te moniteer soos daar beweeg word van massa seleksie tot merker bemiddelde seleksie. (sun.ac.za)

Analyzing approximately 1.6 million STR loci, we estimate the empirical de novo STR mutation rate to be 5.24 × 10 −5 mutations per locus per generation. (biomedcentral.com)

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