LociMarkersDinucleotideMotifsExpansionsSSRsSingle-nucleotide variantsPolymorphicChromosomeSignificantly enrichedTetranucleotideTandem repeatsGenomicNucleotideNucleotidesMutationsGenomeAllelesMutationalGenomesDiseasesImperfectAbundantMutationSequenceCopiesExpansionDisorderGeneticsWheatRegionDataBaseTypes
Loci9
- 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)
- Since population genetics and species-specific molecular tools remain unknown for all members of the Curimatidae family, this study developed a set of microsatellite loci and studied the population genetics of C. mivartii in the lower section of the Colombian Magdalena-Cauca basin. (peerj.com)
- Such a mutational bias predicts an increase in mean repeat size at all microsatellite loci. (ox.ac.uk)
- We present an analysis of repeats at two fragile site loci, FRAXE and FRAXF, and a novel CGG repeat in Xq28, in five different human populations, which suggests that these loci may also be subject to the same mutation process. (ox.ac.uk)
- In an attempt to replicate this finding, we screened RAD1 and another microsatellite marker at the D16S265 loci, which is located near the rad locus, with a radioactive polymerase chain reaction method in 290 unrelated Finnish NIDDM patients and 270 control subjects and related the findings to measures of insulin sensitivity. (diabetesjournals.org)
- 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)
- 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 final consensus maps are based on 1578 microsatellite loci and these maps have a cumulative length of approximately 1400 cM after adjustment for recombination frequencies of RI strains. (nervenet.org)
Markers12
- 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)
- This track displays regions that are likely to be useful as microsatellite markers. (wustl.edu)
- 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)
- Using microsatellite markers, we show the evolution of a new species of brown macroalga ( Fucus radicans ) in the Baltic Sea in the last 400 years, well after the formation of this brackish water body ~8-10 thousand years ago. (biomedcentral.com)
- In wheat, microsatellite markers show a higher level of polymorphism than RFLP or RAPD markers. (usda.gov)
- Our objectives were to determine the abundance of trinucleotide microsatellites and the rate at which they can be developed into informative markers. (usda.gov)
- Preliminary results indicate that high quality trinucleotide microsatellite markers can be developed in wheat. (usda.gov)
- 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)
- microsatellite markers are available for the species (Bro wn et al. (researchgate.net)
- In this study we have increased the density of microsatellite markers 2- to 5-fold in each of several major RI sets that share C57BL/6 as a parental strain (AXB, BXA, BXD, BXH, and CXB). (nervenet.org)
Dinucleotide3
- The white shark transcriptome also contained 8,404 microsatellites (dinucleotide, trinucleotide, or tetranucleotide motifs ≥ five perfect repeats). (sharkyear.com)
- To examine the role of island populations in the generation and distribution of adaptive genetic variation, I used 14 neutral microsatellites and a dinucleotide repeat within a gene linked to mammalian body size, IGF-1, and found that both genetic drift and natural selection influence the observed genetic diversity of insular lynx. (trentu.ca)
- As expected, the trinucleotide class of repeats was the most abundant, and the (AG)n motif was the most common among the dinucleotide repeats. (usp.br)
Motifs3
- Short tandem repeats (STRs), or microsatellites, are 1-6 base pair (bp) motifs of repeating units of DNA. (biomedcentral.com)
- In broader comparisons, SSRs vary among genomes in terms of abundance and length and most contain repeat motifs based on A and T nucleotides. (biomedcentral.com)
- SSRs occur less frequently than predicted and, although the majority of the repeat motifs do include A and T nucleotides, the A+T bias in SSRs is less than that predicted from the underlying genomic nucleotide composition. (biomedcentral.com)
Expansions2
- Today I'm going to tell you about microsatellites, and trinucleotide repeat expansions diseases. (hstalks.com)
- Long expansions of transcribed trinucleotide microsatellites have been etiologically associated with some neurological diseases. (scite.ai)
SSRs3
- The SSRs were categorized for the numbers of repeats present, their overall length and were allocated to their linkage group. (researchgate.net)
- Because of this, mononucleotide repeats can get play a very essential role during the genetic type compared to the almost every other SSRs. (awakeinsurancenc.com)
- We report these two new plastid genome sequences and make comparisons (within angiosperms, seed plants, or all photosynthetic lineages) to evaluate features such as the status of ycf15 and ycf68 as protein coding genes, the distribution of simple sequence repeats (SSRs) and longer dispersed repeats (SDR), and patterns of nucleotide composition. (biomedcentral.com)
Single-nucleotide variants1
- One common type of signature describes relative frequencies of somatic single-nucleotide variants (SNV) across different trinucleotide contexts. (nature.com)
Polymorphic3
- These are sequences of at least 15 perfect di-nucleotide and tri-nucleotide repeats and tend to be highly polymorphic in the population. (wustl.edu)
- Microsatellites are the marker of choice for modern genetic studies because they are highly polymorphic, very repeatable, and easily transferred among laboratories. (usda.gov)
- We searched the expressed sequence tag databank for reiterated trinucleotides and selected EST00493 (D2S196E) with 14 tandem ACA triplets as a potentially polymorphic locus. (scite.ai)
Chromosome5
- For instance, if you've got a mutation caused by triplet repeat expansion, for instance in the Huntington's gene, where the trinucleotide repeats a CAG, you might have 17 CAGs in a normal chromosome. (hstalks.com)
- But in a diseased chromosome, you might have 40 successive copies of CAG trinucleotides in the gene. (hstalks.com)
- Throughout the eukaryotic kingdom, the overall structure of chromosome ends is conserved and is characterized by the telomeric tract - a series of short G-rich repeats. (wikipedia.org)
- The subtelomeric repeats can rescue chromosome ends when telomerase fails, buffer subtelomerically located genes against transcriptional silencing and protect the genome from deleterious rearrangements due to ectopic recombination. (wikipedia.org)
- Recently, a trinucleotide repeat polymorphism at the rad ( ras associated with diabetes) locus ( RAD1 ) on chromosome 16q was described in association with NIDDM in white Americans. (diabetesjournals.org)
Significantly enriched1
- Detailed characterization of these microsatellites showed that ORFs with trinucleotide repeats, were significantly enriched for transcription regulatory roles and that trinucleotide frequency within ORFs was lower than for a wide range of taxonomic groups including other vertebrates. (sharkyear.com)
Tetranucleotide1
- the average mutation rate estimates were 3,17 10 -3 (95% confidence interval [CI] 1,89 4,94 10 -3 ) across 8 tetranucleotide microsatellites and 2,80 10 -3 (95% CI 1,72 4,27 10 -3 ) across all 15 Y-chromosomal microsatellites studied. (chronologia.org)
Tandem repeats4
Genomic2
Nucleotide3
- Although not, hexa-nucleotide repeats have been imagined in only the fresh new cp genomes from L. siamica, L. intermedia, T. natans and you can L. salicaria. (awakeinsurancenc.com)
- It actually was previously found that mono-nucleotide repeats was in fact wealthiest during the Fritillaria, Lilium and you can Epimedium [twenty-two, 40]. (awakeinsurancenc.com)
- This de novo assembly of a red clover transcriptome from leaf material of droughted and non-droughted plants provides a rich source for gene identification, single nucleotide polymorphisms (SNP) and short sequence repeats (SSR). (biomedcentral.com)
Nucleotides2
- Depending on the length of the repeat, they are classified as either: Minisatellite: Short repeats of nucleotides. (wikipedia.org)
- Microsatellite: Very short repeats of nucleotides. (wikipedia.org)
Mutations1
- These diseases are all caused by microsatellite mutations, where a microsatellite either has three bases, four bases, five bases, or six bases, and these mutations result in excess numbers of copy of these particular units. (hstalks.com)
Genome2
- and repeated sequences that are interspersed throughout the genome. (wikipedia.org)
- In the majority of angiosperm chloroplast genomes two copies of a large inverted repeat (IR) of about 25 kb separate the remainder of the genome into two regions of unique DNA, the large (about 90 kb) and small (about 20 kb) single copy regions (LSC and SSC, respectively). (biomedcentral.com)
Alleles1
Mutational1
- Analysis of the CAG repeat at the Huntington Disease (HD) locus showed a positively skewed repeat distribution leading to the proposal that microsatellites are subject to a mutational bias toward expansion. (ox.ac.uk)
Genomes1
- Brand new comparison out of effortless succession repeats (SSR) delivery inside the 22 chloroplast genomes. (awakeinsurancenc.com)
Diseases1
- Microsatellite and trinucleotide repeat expansion diseases [electronic resource] / David C. Rubinsztein. (ac.ke)
Imperfect1
- Perfect repeats mutate about 2 × more often than imperfect repeats. (biomedcentral.com)
Abundant1
- Second, I assessed a selection of clock gene cTNRs across characterized mammals and found that these repeats are abundant and highly variable in length and purity. (trentu.ca)
Mutation2
- Coding trinucleotide repeats (cTNRs) providing high-pace adaptive capabilities via high rates of mutation are ideal targets for mitigating the decline of species at risk by characterizing adaptively significant populations. (trentu.ca)
- Indeed, mutation detection enhancement gel electrophoresis of mixed PCR products from cloned haplotypes revealed 24 distinct heteroduplex patterns for the six possible trinucleotide heterozygotes. (scite.ai)
Sequence2
- 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)
- The observation of heteroduplex patterns in non-denaturing polyacrylamide gel electrophoresis (instead of the more commonly used denaturing gels) can thus be utilized to increase the informativeness of microsatellite polymorphisms by unraveling otherwise cryptic sequence variation. (scite.ai)
Copies1
- The data shown in this track are a subset of the Simple Repeats track, selecting only those repeats of period 2 and 3, with 100% identity and no indels and with at least 15 copies of the repeat. (wustl.edu)
Expansion4
- Most of the rare folate sensitive fragile sites cloned to date arise from expansion of a CGG:CCG trinucleotide repeat array. (ox.ac.uk)
- DNA Repeat Expansion" is a descriptor in the National Library of Medicine's controlled vocabulary thesaurus, MeSH (Medical Subject Headings) . (uams.edu)
- This graph shows the total number of publications written about "DNA Repeat Expansion" by people in UAMS Profiles by year, and whether "DNA Repeat Expansion" was a major or minor topic of these publications. (uams.edu)
- Below are the most recent publications written about "DNA Repeat Expansion" by people in Profiles over the past ten years. (uams.edu)
Disorder1
- Some trinucleotide repeats are found in coding regions (see, Trinucleotide repeat disorder). (wikipedia.org)
Genetics1
- Population genetics of the FRAXE and FRAXF GCC repeats, and a novel CGG repeat, in Xq28. (ox.ac.uk)
Wheat1
- 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)
Region2
- This region is a microsatellite, but its function is more specific than a simple tandem repeat. (wikipedia.org)
- This is succeeded by an extensive subtelomeric region consisting of various types and lengths of repeats - the telomere associated sequences (TAS). (wikipedia.org)
DataBase1
- A database, called "Cynara cardunculus MicroSatellite DataBase" (CyMSatDB) was developed to provide a searchable interface to the SSR data. (researchgate.net)
Types1
- Additionally, the number of An excellent/T mononucleotide repeats for the D. grandiflora, T. natans, L. salicaria, L. intermis, P. granatum, W. fruticosa, R. rotundifolia and you will H. myrtifolia had been more thirteen Lagerstroemia types, ranging from 71 so you're able to -103. (awakeinsurancenc.com)