Microsatellites 1998 analysis tandem repeat sequences. Medical search. Frequent questions

Thus, the mutation rate at microsatellite loci is expected to differ from other mutation rates, such as base substitution rates. (wikipedia.org)
The mutation rate at microsatellite loci depends on the repeat motif sequence, the number of repeated motif units and the purity of the canonical repeated sequence. (wikipedia.org)
Microsatellite typing of 6 short tandem repeat loci demonstrated identical patterns for 2 of the 3 azole-resistant isolates from Iran, but the TR 34 /L98H isolates from Iran did not cluster with those from the Netherlands and other European countries, indicating no close genetic relatedness ( Technical Appendix Figure ). (cdc.gov)
Seifried E, Seidl C , Grigorean R, Brude R, Jäger O, Langenbeck U, Zang K.D. A rare paternity case with PP 99,99% and exclusion at three loci derived from the 33.15 VNTR sequence. (lfa-frankfurt.de)
Seidl C , Müller S, Jäger O, Seifried E . Sequence analysis and population data of short tandem repeat polymorphisms at loci D8S639 and D11S488. (lfa-frankfurt.de)
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)
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)
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)
Loci were isolated from a genomic library enriched for AC repeats. (researchgate.net)
2004). Characterization and haplotype analysis of 10 novel Y-STR loci in Chinese Han population. (geneticsmr.com)
2009). Decreased rate of evolution in Y chromosome STR loci of increased size of the repeat unit. (geneticsmr.com)
Variation in short tandem repeat sequences - a survey of twelve microsatellite loci for use as forensic identification markers. (geneticsmr.com)
An evaluation of genetic distances for use with microsatellite loci. (academicinfluence.com)
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)

To better understand the karyotype organization in Melipona and the relationship among the subgenera, we mapped repetitive sequences and analyzed previously reported cytogenetic data with the aim to identify cytogenetic markers to be used for investigating the phylogenetic relationships and chromosome evolution in the genus. (karger.com)
The increasing availability of DNA amplification by PCR at the beginning of the 1990s triggered a large number of studies using the amplification of microsatellites as genetic markers for forensic medicine, for paternity testing, and for positional cloning to find the gene underlying a trait or disease. (wikipedia.org)
Abstract Ten polymorphic microsatellite markers are described for the Mediterranean bath sponge Spongia officinalis. (researchgate.net)
In genetic diversity studies, the most frequently used markers are microsatellites. (intechopen.com)
To assess if the behavioral difference between the family and kenneled dogs could be due to genetic divergence of these two populations and/or to lower genetic diversity of the kenneled dogs, we analyzed their genetic structure using 11 microsatellite markers. (frontiersin.org)
PCR-based markers and cytogenetic analysis with genomic in situ hybridisation were applied to identify alien chromatin in four genetically diverse populations of wheat ( Triticum aestivum ) lines incorporating chromosome segments from Thinopyrum intermedium and Secale cereale (rye). (nature.com)
The linkage map itself is based on 109 microsatellite markers, which produced ten major linkage groups ranging in size from 31.1 cM to 288.5 cM. (biomedcentral.com)
Variable numbers of tandem repeats (VNTR) or microsatellite markers, on the other hand, are codominant markers and therefore provide more information. (biomedcentral.com)
Here we report on a D. magna linkage study using microsatellite markers. (biomedcentral.com)
In the present study we assess genetic diversity of Indian goats using 17 microsatellite markers. (biomedcentral.com)
In particular, we analysed 15 previously characterised Simple Sequence Repeat (SSR) markers to estimate genetic differentiation across the genome of 278 flies collected from nine populations. (123dok.org)
In particular, Single Nucleotide Polymorphism (SNP) and Simple Sequence Repeat (SSR) markers have played an increasingly significant role in the study of genetic differentiation across species populations [15]. (123dok.org)

Microsatellites are often referred to as short tandem repeats (STRs) by forensic geneticists and in genetic genealogy, or as simple sequence repeats (SSRs) by plant geneticists. (wikipedia.org)
BES analyses identified 6,848 simple sequence repeats (SSRs), of which 3,854 had high quality flanking sequences for PCR primers design. (biomedcentral.com)

Microsatellites and their longer cousins, the minisatellites, together are classified as VNTR (variable number of tandem repeats) DNA. (wikipedia.org)

GENETICS AND GENEALOGY: Y Polymorphism and mtDNA Analyses", by Kevin F. Duerinck, Esq. (duerinck.com)
The second method is called mitochondrial DNA, or mtDNA analysis. (duerinck.com)
Now what if you had also done a mtDNA analysis? (duerinck.com)
Actually, no, because the women whom you have traced using the mtDNA analysis were not the ones married to the males you traced in the y polymorphism analysis. (duerinck.com)
1999). Sex-specific migration patterns in Central Asian populations, revealed by analysis of Y-chromosome short tandem repeats and mtDNA. (geneticsmr.com)
The divergence between D. pulex and D. magna had been estimated from mtDNA sequences to be about 200 MYA [ 10 ]. (biomedcentral.com)
Our study concludes that Indian goat populations can be classified into distinct genetic groups or breeds based on the microsatellites as well as mtDNA information. (biomedcentral.com)
Using the maternally inherited mitochondrial DNA (mtDNA) sequence information, we have demonstrated earlier the existence of all the three previously known lineages A, B, C and proposed two new lineages among Indian goat populations [ 12 ]. (biomedcentral.com)

Seidl C , Jäger O, M Kilp, Seifried E. Automated fluorescence PCR based analysis of the STR polymorphism at locus D8S639 and at the CYP19 gene. (lfa-frankfurt.de)
Seidl C , Jäger O, Seifried E . Analysis of the short tandem repeat polymorphism D21S11 in german caucasians. (lfa-frankfurt.de)
Seidl C , Jäger O, Seifried E . Population and family studies of the sequence polymorphism at short tandem repeat locus D8S639 reveals complex repeat patterns. (lfa-frankfurt.de)
Seidl C , Müller S, Kilp M, Seifried E . Fluorescence based multiplex analysis of the STR polymorphism FIBRA, VWFA31 and D18S51 in German caucasoid individuals. (lfa-frankfurt.de)
Polymorphism at the tetranucleotide repeat locus DYS389 in 10 populations reveals strong geographic clustering. (geneticsmr.com)
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)

Other microsatellites are located in regulatory flanking or intronic regions of genes, or directly in codons of genes - microsatellite mutations in such cases can lead to phenotypic changes and diseases, notably in triplet expansion diseases such as fragile X syndrome and Huntington's disease. (wikipedia.org)
The numerous microsatellites will facilitate integration of the linkage and physical maps and serve as valuable resource for fine mapping QTL and positional cloning of genes affecting aquaculture production traits. (biomedcentral.com)
Furthermore, comparative genomics through BES can be used for identifying positional candidate genes from QTL mapping studies, aid in future assembly of a reference genome sequence and elucidating sequence content and complexity in the rainbow trout genome. (biomedcentral.com)
10,200 protein-encoding genes were predicted based on the genome sequence. (springeropen.com)
The genes and proteins were predicted and annotated based on the genome sequence. (springeropen.com)
The discovery of the antioxidant response element (ARE) have led to the conclusion that the battery of genes, including glutamate-cysteine ligase (GCL), thioredoxin reductase 1 (Txnrd1), NAD(P)H-quinone oxidoreductase 1 (NQO1) and heme oxygenase-1 (HMOX1) is regulated through Nrf2 binding to this consensus binding sequence [ 3 ]. (springer.com)
Sequences of DNA in the genes that are located between the EXONS. (lookformedical.com)

Microsatellites are distributed throughout the genome. (wikipedia.org)

They are also used in genetic linkage analysis to locate a gene or a mutation responsible for a given trait or disease. (wikipedia.org)
Although the first microsatellite was characterised in 1984 at the University of Leicester by Weller, Jeffreys and colleagues as a polymorphic GGAT repeat in the human myoglobin gene, the term "microsatellite" was introduced later, in 1989, by Litt and Luty. (wikipedia.org)
We conducted strain identification, in vitro antifungal susceptibility testing, and sequence-based analysis of the Cyp51A gene, as described ( 4 ). (cdc.gov)
Sequence analysis of the CYP51A gene indicated the presence of TR 34 /L98H in 3 isolates and no mutations in the other isolate ( Table ). (cdc.gov)
genetic analysis of cinnamyl alcohol dehydrogenase in loblolly pine: single gene inheritance, molecular characterization and evolution. (liverpool.ac.uk)
While whole gene duplications and deletions are relatively well-studied, the biology of subexonic ( i.e. , within coding exon sequences), copy number variation remains elusive. (nature.com)
The salivary MUC7 gene provides an opportunity for studying such variation, as it harbors copy number variable subexonic repeat sequences that encode for densely O-glycosylated domains (PTS-repeats) with microbe-binding properties. (nature.com)
Here, we focus on the salivary mucin-7 gene ( MUC7 ) to study the evolution and functional impact of subexonic repeats. (nature.com)
These repeats can be particularly well studied in this gene because the repeats are relatively short and few in number compared to other mucins. (nature.com)
In order to clarify the biological and pharmacological mechanisms of O. sinensis , we carried out the genome sequencing of H. sinensis, anamorph of O. sinensis , for the first time, described the annotation and gene expression, and analyzed the complete sequencing data (Li et al. (springeropen.com)
We have determined the nucleotide sequence of the C gene. (shengsci.com)
By using a novel next-generation sequencing workflow, a successful targeted gene variant panel was developed for the Old Order Amish and Old Order Mennonite populations of Lancaster County, Pennsylvania. (clinicforspecialchildren.org)
Sequence homology is an indication of the genetic relatedness of different organisms and gene function. (lookformedical.com)
Nucleotide sequences, usually upstream, which are recognized by specific regulatory transcription factors, thereby causing gene response to various regulatory agents. (lookformedical.com)

1992). A microsatellite is a tract of tandemly repeated (i.e. adjacent) DNA motifs that range in length from one to six or up to ten nucleotides (the exact definition and delineation to the longer minisatellites varies from author to author), and are typically repeated 5-50 times. (wikipedia.org)

We generated 214 F2 (intercross) clonal lines as the foundation of the linkage analysis. (biomedcentral.com)
Ethnicity apparently did not introduce differential allele frequencies that may affect analysis and interpretation of linkage and association studies. (biomedcentral.com)

Short tandem repeats (STRs), or microsatellites, are 1-6 base pair (bp) motifs of repeating units of DNA. (biomedcentral.com)
2001). DNA commission of the International Society of Forensic Genetics: recommendations on forensic analysis using Y-chromosome STRs. (geneticsmr.com)
2006). DNA Commission of the International Society of Forensic Genetics (ISFG): an update of the recommendations on the use of Y-STRs in forensic analysis. (geneticsmr.com)

We can therefore amplify nucleotide sequences from infinitesimal amounts of DNA extract. (intechopen.com)
Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories. (lookformedical.com)

Seidl C , Müller S, Seifried E . Sequence analysis of the short tandem repeat polymorphisms D11S488 and D19S246 in the German caucasians. (lfa-frankfurt.de)
Single polymorphisms as well as haplotypes of the variants were tested for association with TB using statistical analyses. (biomedcentral.com)

citation needed] Unlike point mutations, which affect only a single nucleotide, microsatellite mutations lead to the gain or loss of an entire repeat unit, and sometimes two or more repeats simultaneously. (wikipedia.org)

Repeat structure of DYS389 locus. (geneticsmr.com)
In this study, we identified members of B. cereus groups in 65% of the ice cream samples analyzed, which were characterized based on multi locus variable number tandem repeats analysis (MLVA) and whole genome sequencing (WGS). (bvsalud.org)
Based on the multi locus sequence typing (MLST) scheme, the strains were classified in 27 sequence types (STs), including ST26 that causes food poisoning. (bvsalud.org)
Validation of a male-specific, 12-locus fluorescent short tandem repeat (STR) multiplex" [Forensic Sci. (unthsc.edu)

The discovery of specific repeat elements will facilitate analyses of sequence content (e.g. for SNPs discovery and for transcriptome characterization) and future genome sequence assemblies. (biomedcentral.com)

We performed microsatellite genotyping of all A. fumigatus isolates for which the MIC of itraconazole was ≥16 mg/L ( 8 ) by using a short tandem repeat A. fumigatus assay, and we compared the results with those reported for the Netherlands (20 isolates) and other European countries (24 isolates) ( Technical Appendix Figure ). (cdc.gov)
2010). US forensic Y-chromosome short tandem repeats database. (geneticsmr.com)
A total 3 short hairpin RNA (sh)‑lncRNA XIST sequences, overexpression vector (oe)‑lncRNA XIST, microRNA (miR)‑320a mimic, miR‑320a inhibitor, PIK3CA inhibitor, and their corresponding controls were transfected in hepatic carcinoma cells. (spandidos-publications.com)
Analysis of short tandem repeat genotype data for over 1,000 individuals from 52 populations is consistent with dramatic differences in population histories across human groups. (biomedcentral.com)
As indicated in the summary of short tandem repeat (STR) data by Rosenberg et al . (biomedcentral.com)
The identity of each cell line was validated prior to use by short tandem repeat genotyping at The Centre for Applied Genomics at The Hospital for Sick Children (Toronto, ON). (biomedcentral.com)

In order to enrich the genomic tools already available in this species and provide further insight on the complexity of its genome, we sequenced a large number of rainbow trout BAC-end sequences (BES) and characterized their contents. (biomedcentral.com)

However, there is no study to our knowledge that specifically investigated the evolution of copy number variable subexonic repeats from their initial emergence as functional units to the adaptive constraints and mutational properties that contributed to their extant variation in primates. (nature.com)
MUC7 provides an opportunity to assess the broader implications of subexonic repeat variation within the context of the functional evolution of the mucin functional group and primate salivary adaptation. (nature.com)

However, the lack of a reference genome sequence hampers research progress for both academic and applied purposes. (biomedcentral.com)
the complete genome sequence of Mycobacterium tuberculosis continues to provide an invaluable resource to understand tuberculosis (TB), the leading cause of global infectious disease mortality. (jci.org)
While the genome sequence was already transformative at the time, the past 25 years of progress have substantially increased its impact on TB taxonomy, drug discovery, resistance mechanisms, epidemiology, vaccine development, and pathogenesis. (jci.org)

Microsatellite genotypic analysis of A. fumigatus isolates from the Netherlands and various European countries showed that the genetic diversity of TR 34 /L98H isolates is lower than that of wild-type controls ( 8 ). (cdc.gov)

This sensation, typically known to as microsatellite lack of stability (MSI), is normally provided by duration variants in tracts of mono- or polynucleotides. (immune-source.com)

of tandem repeats within their genomes [6, 17]. (scirp.org)

A microsatellite is a tract of repetitive DNA in which certain DNA motifs (ranging in length from one to six or more base pairs) are repeated, typically 5-50 times. (wikipedia.org)
The first rainbow trout repeat elements database (INRA RT rep1.0) containing 735 putative repeat elements was developed, and identified almost 59.5% of the BES database in base-pairs as repetitive sequence. (biomedcentral.com)
Approximately 55% of the BES reads (97,846) had more than 100 base pairs of contiguous non-repetitive sequences. (biomedcentral.com)
By 2003, 99% of the chemical base pairs that make up human DNA had been sequenced to within 99.99% accuracy (with the sequencing reported to have reached 100% by 2021). (medscape.com)
Highly repeated sequences, 6K-8K base pairs in length, which contain RNA polymerase II promoters. (lookformedical.com)

Again, please understand that the molecular biology techniques used in mitochondrial DNA analysis should not be confused with DNA fingerprinting which is carried out on nuclear DNA. (duerinck.com)
The study of biological complexity is a new frontier that requires high-throughput molecular technology, high speed computer memory, new approaches to data analysis, and the integration of interdisciplinary skills. (intechopen.com)
At present, DNA molecular marker techniques are widely applied in the fields of germplasm identification, phylogenetics, and genetic structural analysis. (biomedcentral.com)
An analysis of molecular variance indicated that 6.59% of variance exists among the Indian goat breeds. (biomedcentral.com)
Analysis of molecular variance (AMOVA) showed that the between-population component of genetic variance is less than 0.1% in contrast to 99.91% for the within population component. (biomedcentral.com)

On a broader scale, our study highlights variable subexonic repeats as a primary source for modular evolutionary innovation that lead to rapid functional adaptation. (nature.com)

Most eukaryotes have microsatellites, with the notable exception of some yeast species. (wikipedia.org)
1998) made a illustrated catalogue of Korean Tortricidae containing 350 species. (koreascholar.com)

A haplotype in interleukin 12B was nominally associated with tuberculosis (p = 0.02), but after permutation testing, done to assess the significance for the entire analysis, this was not globally significant. (biomedcentral.com)

Telomeres consist of repetitive DNA, with the hexanucleotide repeat motif TTAGGG in vertebrates. (wikipedia.org)

Repeat units of four and five nucleotides are referred to as tetra- and pentanucleotide motifs, respectively. (wikipedia.org)
Similarly, insects have shorter repeat motifs in their telomeres that could arguably be considered microsatellites. (wikipedia.org)

We integrated whole-exome sequencing (WES) and chromosomal microarray analysis (CMA) into a clinical workflow to serve an endogamous, uninsured, agrarian community. (clinicforspecialchildren.org)

In this case, the basic principle is to detect specific DNA and RNA sequences via hybridization of a probe, detecting any complementary sequence on the cDNA of this bacterium. (australiaessays.com)

First, MUC7 carries subexonic repeats that are 69 bp (23 amino acids) long and are copy number variable in humans 5 . (nature.com)

Indeed, if the sequence of interest is present in the DNA extract, it is possible to selectively replicate it (we speak of amplification) in very large numbers. (intechopen.com)

The terminal regions of human chromosomes are known to contain specialised DNA sequences and may be vulnerable to rearrangements causing human genetic diseases and particularly idiopathic mental impairment. (bmj.com)

Build data systems that link various data sources and allow for automated, more efficient data analysis and visualization. (cdc.gov)
Analyses of WGS data enabled the identification of three members of the B. cereus group: B. cereus sensu stricto, B. mosaicus and B. thuringiensis. (bvsalud.org)
We managed data using MAXQDA and employed direct content analysis to derive themes. (cdc.gov)

A recent study has shown that, despite the high intrinsic mutability of subexonic repeats, the vast majority of thousands of subexonic repeats remain strongly conserved among mammals 4 . (nature.com)

They are widely used for DNA profiling in cancer diagnosis, in kinship analysis (especially paternity testing) and in forensic identification. (wikipedia.org)

Use whole genome sequencing to study how and why certain fungi spread and make people sick. (cdc.gov)
With new sequencing methods, we can now study admixture and reproductive isolation at a much finer scale than in the past. (biomedcentral.com)
In this study, we used Genotyping-by-Sequencing (GBS) to clarify the evolution of the Boechera puberula clade, whose six members are scattered across the western United States. (biomedcentral.com)

Microsatellites are also used in population genetics to measure levels of relatedness between subspecies, groups and individuals. (wikipedia.org)
2009). The effects of Asian population substructure on Y STR forensic analyses. (geneticsmr.com)
STRUCTURE, Principal Coordinate and Neighbour Joining analysis also revealed that the Sicilian population was fairly divergent compared to other Italian populations. (123dok.org)
We used a mixed-effects multilevel logistic regression analysis to explain PNC use while accounting for household, individual, and community characteristics from a regionwide population-based reproductive health survey and for distance to and adequacy of proximal health facilities from a health facility assessment. (cdc.gov)
Condemi S, 1998: The Neanderthals: A Cold-Adapted European Middle Pleistocene Population? (mzm.cz)

DNA methylation and chromatin DNaseI sensitivity were analyzed in and adjacent to D4Z4 repeat arrays, which consist of 1 to approximately 100 tandem 3.3-kb units at subtelomeric 4q and 10q. (shengsci.com)
TANDEM REPEAT SEQUENCES are copies which lie adjacent to each other, direct or inverted (INVERTED REPEAT SEQUENCES). (lookformedical.com)

Its principle is based on the use of DNA polymerase which is an in vitro replication of specific DNA sequences. (intechopen.com)

The human genome for example contains 50,000-100,000 dinucleotide microsatellites, and lesser numbers of tri-, tetra- and pentanucleotide microsatellites. (wikipedia.org)
2004). A comprehensive survey of human Y-chromosomal microsatellites. (geneticsmr.com)
DNA transposable elements include bacterial IS (insertion sequence) elements, Tn elements, the maize controlling elements Ac and Ds, Drosophila P, gypsy, and pogo elements, the human Tigger elements and the Tc and mariner elements which are found throughout the animal kingdom. (lookformedical.com)

Microsatellites occur at thousands of locations within an organism's genome. (wikipedia.org)
Sequences of DNA or RNA that occur in multiple copies. (lookformedical.com)

Epigenetics of a tandem DNA repeat: chromatin DNaseI sensitivity and opposite methylation changes in cancers. (shengsci.com)
Variations may be direct repeats, those occurring in the same direction, or inverted repeats, those opposite to each other in direction. (lookformedical.com)

DNA hybridised to the rye 1RS chromatin under high stringency conditions, indicating the presence of shared tandem repeats among the cereals. (nature.com)

Chemicals and Drugs5

Analytical, Diagnostic and Therapeutic Techniques and Equipment4

Phenomena and Processes21

Disciplines and Occupations1

Information Science4

Loci15

Markers12

Simple sequenc2

VNTR1

MtDNA8

Polymorphism6

Genes7

Distributed throughout the genome1

Gene14

Tandemly repeated1

Linkage2

STRs3

Nucleotide sequences2

Polymorphisms2

Mutations1

Locus4

Characterization1

Short6

Genomic1

Variation2

Genome sequence3

Genetic diversity1

Variants1

Genomes1

Base pairs5

Molecular5

Evolutionary1

Species2

Interleukin1

Repetitive DNA1

Motifs2

Clinical1

Hybridization1

Variable1

Amplification1

Chromosomes1

Data3

Mutability1

Forensic identification1

Study3

Population5

Adjacent2

Vitro1

Human3

Occur2

Opposite2

High1