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Microsatellite RepeatsMicrosatellite InstabilityGenetic MarkersDNA, PlantDinucleotide RepeatsPolymorphism, GeneticGenetic VariationAllelesGenetic LociDNA, SatelliteChromosome MappingExpressed Sequence TagsGenetics, PopulationGenome, PlantLoss of HeterozygosityGenotypeGenetic LinkageMinisatellite RepeatsPolymerase Chain ReactionSequence Analysis, DNAMutS Homolog 2 ProteinEndangered SpeciesHeterozygoteDNA PrimersDNA, NeoplasmBase SequenceGene FrequencyBase Pair MismatchPhylogenyColorectal NeoplasmsGene FlowDNA Mismatch RepairColorectal Neoplasms, Hereditary NonpolyposisMolecular Sequence DataSpecies SpecificityPedigreeHaplotypesDNA Sequence, UnstableGeographyMutationFrameshift MutationAmplified Fragment Length Polymorphism AnalysisLod ScoreArachis hypogaeaEvolution, MolecularNucleotide MotifsChromosomes, Artificial, BacterialPrunusMolecular Sequence AnnotationChromosomes, PlantRepetitive Sequences, Nucleic AcidTrinucleotide RepeatsChromosomes, Human, Pair 3Genotyping TechniquesAdaptor Proteins, Signal TransducingModels, GeneticBreedingGenomic LibraryPhenotypePaternityLinkage DisequilibriumUntranslated RegionsQuantitative Trait LociGossypiumPhysical Chromosome MappingCucumis meloGenes, PlantDNA Mutational AnalysisGenetic StructuresCrosses, GeneticGenomic InstabilityDNA, ChloroplastTranscriptomePhylogeographyContig MappingSolanum melongenaChromosomes, Human, Pair 9MyricaInbreedingNuclear ProteinsRosaceaeCluster AnalysisDNA RepairCitrusGenomeGenetic DriftDNA MethylationSesamumPolyploidyChromosomes, InsectDNA, MitochondrialChromosomes, Human, Pair 1Germ-Line MutationAllelic ImbalanceNeoplasm ProteinsGene LibraryGenome SizeINDEL MutationGenome, InsectBrassica rapa
LociGenomeRepeatsSequencesPrimersSNPsGenomesGenomicPolymorphicGenomicsMarkerSequenceSpeciesMotifsIntronsAllelesCultivarsESTsChromosomalGenesGeneticsVarietiesMotifPopulationNuclearResearchersClinicalAssessGenetic studiesMolecular markersTotalCellularProvideDiseasesShortRegionsCommonLengthTypesStudies
Loci6
  • We also review the variety of techniques currently used for identifying microsatellite loci and developing primers, with a particular focus on those that make use of next-generation sequencing (NGS). (pacb.com)
  • Here we describe a new set of novel polymorphic microsatellite loci to facilitate the investigation of genetic structure and artificial breeding. (biomedcentral.com)
  • Eighty-five microsatellite loci were selected for microsatellite marker optimization. (biomedcentral.com)
  • We designed seven novel microsatellite markers and used four cross-amplified loci to determine the basic genetic structure of T. recurvata . (researchsquare.com)
  • A prerequisite of such comparative studies is therefore to find microsatellite loci that are conserved between different species. (canterbury.ac.nz)
  • One hundred and fifteen unrelated Mangalarga Marchador horses were sampled from three geographically distinct regions of Minas Gerais State, Brazil (South, Southeast, and Northeast) and tested for 10 microsatellite loci. (geneticsmr.com)
Genome14
  • The most common microsatellite in humans is a dinucleotide repeat of the nucleotides C and A, which occurs tens of thousands of times across the genome. (wikipedia.org)
  • Microsatellites make up approximately three percent of the human genome, or more than one million fragments of DNA. (wikipedia.org)
  • Microsatellite density increases with genome size and is seen twice as much at the ends of chromosome arms than in the chromosome bodies. (wikipedia.org)
  • More than 177,000 perfect SSRs were revealed, equivalent to an overall density across the genome of 244.5 SSRs/Mbp, but some 224,000 imperfect SSRs were also identified. (researchgate.net)
  • Microsatellite markers provide a powerful tool in genome researches due to their wide distribution, codominant inheritance and high polymorphism. (biomedcentral.com)
  • Genetic mapping: Microsatellite DNA can be used to map the location of genes in the genome. (vajiramandravi.com)
  • The chromosomal locations of 36 microsatellites were associated with 14 chromosomes and/or 13 chromosome arms of the cotton genome by hypoaneuploid deficiency analysis, enabling us to assign genetic linkage groups (LG) to specific chromosomes. (scite.ai)
  • Drawing on new data from genome projects, I review in Chapter 1 the concept of a microsatellite life cycle, which hypothesizes that microsatellites follow a life cycle from birth, through expansion, contraction, death and potentially resurrection. (canterbury.ac.nz)
  • Using the multiple-alignment of the human genome against those of 11 mammalian and five non-mammalian vertebrates, I examine the genomewide conservation of microsatellites, and challenge the general assumption that microsatellites are too labile to be maintained in distant species. (canterbury.ac.nz)
  • Altogether, these findings provide a comprehensive framework that may help in many areas of research, including molecular ecology, genome mapping, population genetics, and genome and microsatellite evolution. (canterbury.ac.nz)
  • We analyzed a large number of expressed sequence tags (ESTs) to test the possibility of using EST-derived microsatellite markers for investigating the Gallus gallus genome. (geneticsmr.com)
  • On average, 3.8% of the G. gallus UniGene sequences could be exploited for development of EST-SSRs, indicating a good source for molecular markers as well as for functional genome analysis. (geneticsmr.com)
  • The dimer motifs were the most frequent (46.38%), followed by trimeric (38.58%), tetrameric (10.19%), pentameric (4.5%), and hexameric (G. gallus UniGene sequences could be exploited for development of EST-SSRs, indicating a good source for molecular markers as well as for functional genome analysis. (geneticsmr.com)
  • Eighteen tandem repeats and 404 microsatellites are distributed unevenly throughout the S. purpurea mt genome. (springeropen.com)
Repeats14
  • Microsatellites are also known as simple sequence repeats (SSRs). (wikipedia.org)
  • Microsatellite instability structure consists of repeated nucleotides, most often seen as GT/CA repeats. (wikipedia.org)
  • Although researchers do not agree on a specific threshold for the number of tandem repeats that constitute a microsatellite, there is a consensus around their relative size. (wikipedia.org)
  • 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)
  • Microsatellites (Short sequence repeats, SSRs, Short tandem repeats): are short (1-6bp) repeating sequences in genetic code. (flashcardmachine.com)
  • The SSRs were categorized for the numbers of repeats present, their overall length and were allocated to their linkage group. (researchgate.net)
  • Molecular markers such as single nucleotide polymorphisms (SNPs), simple sequence repeats (SSRs) or microsatellites are used to genotype segregating populations. (bioline.com)
  • Microsatellites, or simple sequence repeats (SSRs), have long played a major role in genetic studies due to their typically high polymorphism. (pacb.com)
  • They are also known as short tandem repeats (STRs) or simple sequence repeats (SSRs). (vajiramandravi.com)
  • The number of repeats at a certain microsatellite locus might vary greatly between people in a population because microsatellite DNA is highly variable. (vajiramandravi.com)
  • BES analyses identified 6,848 simple sequence repeats (SSRs), of which 3,854 had high quality flanking sequences for PCR primers design. (biomedcentral.com)
  • implementing a similar protocol, nine conserved dinucleotide repeats were genotyped in 20 unrelated individuals of 18 species (nine sister species) encompassing the mammalian phylogeny, including marsupials and monotremes, and four microsatellites were sequenced in 4 individuals per species. (canterbury.ac.nz)
  • The repeats of the six nucleotide types ranged from 5 to 746, mainly from 5 to 10, accounting for 60.9% of the total SSRs. (chinacrops.org)
  • The genetic diversity of 334 herbaceous peonies from Fennoscandia was analysed using 18 microsatellites (simple sequence repeats, SSRs). (slu.se)
Sequences7
  • Microsatellites are repeated sequences of DNA. (wikipedia.org)
  • While all researchers agree that microsatellites are repeat sequences, the lengths of the sequences remain in question. (wikipedia.org)
  • Microsatellites are small DNA sequences made up of repeating units. (vajiramandravi.com)
  • However, evolutionary and demographic inferences from microsatellite polymorphism are hampered by controversy and ambiguity in the mutational processes of microsatellite sequences. (canterbury.ac.nz)
  • The summary statistics and primer sequences are given for all EST-SSRs. (clemson.edu)
  • This is the first time that EST sequences have been mined to find chicken microsatellites. (geneticsmr.com)
  • It search for identical or similar microsatellite sequences in FishMicrosat and also generates the PCR primers sequence for the query. (nbfgr.res.in)
Primers2
  • Primers flanking microsatellite were designed using the PRIMER PREMIER 5.0 program. (biomedcentral.com)
  • The EST-SSRs primers produced highquality markers, but were least polymorphic (25%) compared to 53%for the other two sources. (cgiar.org)
SNPs4
  • Hinrichsen P. Construction of high density sweet cherry (Prunus avium L.) linkage maps using microsatellite markers and SNPs detected by genotyping-by-sequencing (GBS). (rosaceae.org)
  • Guajardo V, Solís S, Sagredo B, Gainza F, Muñoz C, Gasic K, Hinrichsen P. Construction of high density sweet cherry (Prunus avium L.) linkage maps using microsatellite markers and SNPs detected by genotyping-by-sequencing (GBS). (rosaceae.org)
  • For sweet cherry, linkage maps have been constructed using mainly microsatellite markers (SSRs) and, recently, using single nucleotide polymorphism markers (SNPs) from a cherry 6K SNP array. (rosaceae.org)
  • In addition to the SNPs, a group of SSRs was also used for construction of linkage maps. (rosaceae.org)
Genomes6
  • Most of the other SSRs was consisting of A beneficial/T, which may have contributed to new high From the blogs coating % of the whole cp genomes in 22 Lythraceae variety (Fig. 5b). (awakeinsurancenc.com)
  • In addition, SSRs regarding the cp genomes of your own Lythraceae species had been discover mainly regarding the intergenic spacers, with on average 132. (awakeinsurancenc.com)
  • These efficiency indicate that SSRs that have higher type from inside the cp genomes enforce to understand associated variety and you can utilized in research with the phylogeny. (awakeinsurancenc.com)
  • Microsatellites are strings of short DNA motifs (≤6 bp) repeated in tandem across genomes of both prokaryotes and eukaryotes. (canterbury.ac.nz)
  • In Chapter 2, I present a new comprehensive method to find conserved microsatellites in whole genomes. (canterbury.ac.nz)
  • This enlarged dataset was ground for attempting to reconstruct a vertebrate phylogeny from the presence/absence of microsatellites in the different genomes. (canterbury.ac.nz)
Genomic1
  • We argue that microsatellites still have an important place in the genomic age as they remain effective and cost-efficient markers. (pacb.com)
Polymorphic3
  • In this study, a set of 30 novel polymorphic microsatellite markers for E. sinensis was developed from EST databases. (biomedcentral.com)
  • This studyshowed that SSRs are highly polymorphic in durum. (cgiar.org)
  • In developing a reliable method for identification of the imported potato cultivars and determining their genetic relationship, the capacity of 10 polymorphic simple sequence repeat markers (SSRs) was evaluated for the analysis of 28 commercial cultivars of potato. (ac.ir)
Genomics3
  • From La Rota and Sorrells, "Development of microsatellite markers that map across related species", BMC-Genomics, in press. (usda.gov)
  • These informative microsatellite markers will be useful in studies of genetics, genomics and marker-assisted selection breeding in E. sinensis . (biomedcentral.com)
  • Microsatellite DNA is utilised in genetic analysis, more specifically in molecular genetics and genomics. (vajiramandravi.com)
Marker1
  • 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)
Sequence2
  • With this goal in mind, genetic mapping with a new set of microsatellite markers [comprising both simple (SSR) and complex (CSR) sequence repeat markers] was performed on 183 recombinant inbred lines (RILs) developed from the progeny of the interspecific cross Gossypium hirsutum L. cv. (scite.ai)
  • The program uses a query microsatellite sequence as an input and checks for the presence of SSRs. (nbfgr.res.in)
Species2
  • Researchers can analyse the genetic structure, population dynamics, and evolutionary relationships among various species of animals by analysing microsatellite DNA. (vajiramandravi.com)
  • To document and understand this integrative concept of evolution, which could help improve current models of microsatellite evolution, there is an implicit need to study the evolution of microsatellites above the species level. (canterbury.ac.nz)
Motifs3
  • Some 73% of the SSRs were composed of dinucleotide motifs. (researchgate.net)
  • A total of 4,761 perfect and 6,583 imperfect SSRs were present in 3,781 genes (14.11% of the total), corresponding to an overall density across the gene space of 32,5 and 44,9 SSRs/Mbp for perfect and imperfect motifs, respectively. (researchgate.net)
  • The length of SSR motifs ranged from 12 bp to 20 bp, accounting for 43.19% of all SSRs. (chinacrops.org)
Introns1
  • The fresh fewest SSRs was located in the introns, with on average 37 (Fig. 5d). (awakeinsurancenc.com)
Alleles2
  • Microsatellites, in contrast, typically have numerous alleles (from 5 to 40 in maize Liu et al. (panzea.org)
  • The 18 microsatellites amplified a total of 249 alleles and were used to calculate genetic distances between samples and to build a dendrogram. (slu.se)
Cultivars4
  • The genetic characterization of 117 peach and nectarine cultivars ( Prunus persica (L.) Batsch) using microsatellite (SSR) markers is presented. (ejbiotechnology.info)
  • One hundred and two out of the 117 cultivars under study could be identified using only 7 SSRs. (ejbiotechnology.info)
  • The dendrogram derived from SSRs data clustered together Kenebek, Florida and Atlantic which are known as American potato cultivars, but Stanbuli, an old cultivar in Iran, was placed in concert with European cultivars. (ac.ir)
  • The results obtained illustrate the appropriate utility of SSRs to assess genetic relationships of potato cultivars and develop a PCR- based tool for evaluation of potato seed purity. (ac.ir)
ESTs1
  • These new PCR-based microsatellite markers derived from cotton fiber ESTs will facilitate the development of a high-resolution integrated genetic map of cotton for structural and functional study of fiber genes and MAS of genes that enhance fiber quality. (scite.ai)
Chromosomal1
  • Chromosomal locations for the majority of these SSRs were predicted. (geneticsmr.com)
Genes2
  • SSRs dispersed during the programming family genes were 2nd, that have on average 92. (awakeinsurancenc.com)
  • 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)
Genetics3
  • The NCGR Genetics Lab was the first to develop 49 such SSRs from the blueberry cultivar Bluecrop. (usda.gov)
  • Population genetics: Microsatellite DNA can be used to study the genetic diversity of populations. (vajiramandravi.com)
  • Microsatellite markers are very valuable in population genetics, conservation genetics, and phylogenetic research. (vajiramandravi.com)
Varieties2
  • In this study, 42 varieties of millet collected in four agro-ecological zones of Benin already grouped into 3 morphological classes were evaluated using 12 microsatellite markers (SSRs). (scholarsresearchlibrary.com)
  • Genotypic variation of 64 durum lines, landraces, and varieties wereinvestigated using three sources of microsatellites (SSRs). (cgiar.org)
Motif2
  • Finally, in Chapter 5, I recount the unexpected extent of structural change among mammalian orthologous microsatellites, including change of complexity, motif replacement and overall length variability. (canterbury.ac.nz)
  • A total of 215 motif types were obtained in all detected SSRs. (chinacrops.org)
Population2
  • 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)
  • My results emphasize conserved microsatellites as a new resource for genetic mapping and population studies. (canterbury.ac.nz)
Nuclear1
  • To our knowledge, this is the first comparative study of pines using nuclear EST-microsatellites (EST-SSRs). (mrizp.rs)
Researchers3
  • The report of my death was an exaggeration: A review for researchers using microsatellites in the 21st century. (pacb.com)
  • We compare SSRs and newer methods, such as genotyping by sequencing (GBS) and restriction site associated DNA sequencing (RAD-Seq), and offer recommendations for researchers considering which genetic markers to use. (pacb.com)
  • Finally, we discuss the future of microsatellites and make recommendations for researchers preparing to use microsatellites. (pacb.com)
Clinical2
  • What is the clinical significance of microsatellites? (flashcardmachine.com)
  • SSRs were used to genetically characterize 254 clinical and environmental V. vulnificus isolates ( Table 1 ), including 32 previously studied isolates ( 7 ). (cdc.gov)
Assess1
  • Additionally, we review software for microsatellite development and report on an experiment to assess the utility of currently available software for SSR development. (pacb.com)
Genetic studies1
  • Microsatellite markers can also be used for other genetic studies. (usda.gov)
Molecular markers1
  • SSRs play a critical role in-plant taxonomy and are widely applied because molecular markers [38, 39]. (awakeinsurancenc.com)
Total2
  • There were 211-332 SSRs for the for every single Lythraceae kinds you to varied out-of 8 to 16 bp in total (Fig. 5, More file 5: Dining table S5). (awakeinsurancenc.com)
  • In 2008, total world production was about 576,000 metric tons with a total export value estimated around 2.4 billions USD ( http://www.fao.org/fishery/statistics/en ). (biomedcentral.com)
Cellular1
  • We found that most of the EST-SSRs are involved in positive regulation of cellular and metabolic processes. (geneticsmr.com)
Provide1
  • A database, called "Cynara cardunculus MicroSatellite DataBase" (CyMSatDB) was developed to provide a searchable interface to the SSR data. (researchgate.net)
Diseases1
Short1
  • Short pieces of DNA called microsatellites [syn. (usda.gov)
Regions2
  • However, microsatellites that occur in coding regions often inhibit the expansion of most downstream events. (wikipedia.org)
  • SSRs were much more appear to found in the LSC countries (%) than in new IR regions (%) plus the SSC countries (%) (Fig. 5c). (awakeinsurancenc.com)
Common1
  • Discussions also broached the possibility of putting forward a project to the Council for the molecular characterisation of the olive plant material held in the Marrakech collection in 2013 via the application of a common set of microsatellites (SSRs). (internationaloliveoil.org)
Length1
  • Although the length of microsatellites can vary from person to person and contributes to the individual DNA "fingerprint", each individual has microsatellites of a set length. (wikipedia.org)
Types1
  • Half dozen types of SSRs was indeed found: mononucleotide, di-nucleotide, tri-nucleotide, tetra-nucleotide, penta-nucleotide and hexa-nucleotide. (awakeinsurancenc.com)
Studies1
  • In genetic diversity studies, the most frequently used markers are microsatellites. (intechopen.com)