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Artículos de revistas sobre el tema "Microsatellite loci"

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Publicado: 4 de junio de 2021

Última modificación: 24 de julio de 2025

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1

England, Phillip R., David A. Briscoe, and Richard Frankham. "Microsatellite polymorphisms in a wild population of Drosophila melanogaster." Genetical Research 67, no. 3 (1996): 285–90. http://dx.doi.org/10.1017/s0016672300033760.

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SummaryHighly variable DNA polymorphisms called microsatellites are rapidly becoming the marker of choice in population genetic studies. Until now, microsatellites have not been utilized for Drosophila studies. We have identified eight polymorphic microsatellite loci in Drosophila melanogaster and used them to characterize the genetic variation in a wild population from the Tyrrell's winery in Australia. Microsatellites were isolated from a partial genomic DNA library. All microsatellites consist of (AC)n repeats ranging from n = 2 to n = 24. Six loci were assigned to chromosomal location by g

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2

Yu, Kangfu, Soon J. Park, and Vaino Poysa. "Abundance and variation of microsatellite DNA sequences in beans (Phaseolus andVigna)." Genome 42, no. 1 (1999): 27–34. http://dx.doi.org/10.1139/g98-100.

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Microsatellites or simple sequence repeats (SSRs) have been demonstrated to be abundant and hypervariable in some eukaryotic genomes. Although the presence of microsatellites is very well documented in many plant species, no information on microsatellites in beans (Phaseolus andVigna) is available. To assess the abundance and usefulness of bean microsatellites as genetic markers, 326 DNA sequences from the GenBank databases were searched. Sixty-one simple repetitive DNA sequences with 23 different types of repetitive DNA motifs were identified as potential microsatellites. Among these were 49

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3

Hale, M. L., A. M. Borland, and K. Wolff. "High degree of conservation of nuclear microsatellite loci in the genus Clusia." Genome 48, no. 5 (2005): 946–50. http://dx.doi.org/10.1139/g05-048.

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In plants, microsatellites and their flanking DNA are rarely conserved across a whole genus, let alone other genera in the same family. Therefore, the possibility of using microsatellite primers developed for a species across a large number of plant species in the same genus is often limited. Remarkably, dinucleotide nuclear microsatellites developed for Clusia minor and for Clusia nemorosa amplified homologous microsatellites in species across the whole genus Clusia. In this present study, we report on the DNA sequence variation across the genus of 3 microsatellite loci with varying levels of

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4

Röder, Marion S., Victor Korzun, Bikram S. Gill, and Martin W. Ganal. "The physical mapping of microsatellite markers in wheat." Genome 41, no. 2 (1998): 278–83. http://dx.doi.org/10.1139/g98-009.

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Microsatellite markers represent a new class of genetic markers in plants. Such markers reveal a high level of polymorphism even in species with a narrow genetic base, such as hexaploid wheat (Triticum aestivum L.). We used a large set of such markers and 25 deletion stocks of 'Chinese Spring' in a deletion-mapping experiment to study the physical distribution of dinucleotide microsatellite markers in homoeologous group 2 chromosomes of hexaploid wheat. Thirty-one microsatellite markers identified 14 loci in chromosome 2A, 9 loci in chromosome 2B, and 10 loci in chromosome 2D. The microsatelli

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5

Colson, Isabelle, and David B. Goldstein. "Evidence for Complex Mutations at Microsatellite Loci in Drosophila." Genetics 152, no. 2 (1999): 617–27. http://dx.doi.org/10.1093/genetics/152.2.617.

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Abstract Fifteen lines each of Drosophila melanogaster, D. simulans, and D. sechellia were scored for 19 microsatellite loci. One to four alleles of each locus in each species were sequenced, and microsatellite variability was compared with sequence structure. Only 7 loci had their size variation among species consistent with the occurrence of strictly stepwise mutations in the repeat array, the others showing extensive variability in the flanking region compared to that within the microsatellite itself. Polymorphisms apparently resulting from complex nonstepwise mutations involving the micros

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6

Kushny, James E. E., John W. Coffin, and Curtis Strobeck. "Genetic survey of caribou populations using microsatellite DNA." Rangifer 16, no. 4 (1996): 351. http://dx.doi.org/10.7557/2.16.4.1277.

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Microsatellite loci are highly variable regions of eukaryotic DNA that consist of tandemly repeated sequences of one to six nucleotides in length. The use of microsatellites and the Polymerase Chain Reaction (PCR) are powerful tools for quantifying genetic variation within and among individual populations. Recently, we have developed primers for caribou that amplify 4 microsatellite loci. These microsatellite loci were used to survey the genetic variation in populations of Barren-ground caribou (Rangifer tarandus groenlandicus), Peary caribou (R.t. pearyi) and Woodland caribou (R.t. caribou) o

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7

Long, Dustin R., Adam Waalkes, Varun P. Panicker, Ronald J. Hause, and Stephen J. Salipante. "Identifying Optimal Loci for the Molecular Diagnosis of Microsatellite Instability." Clinical Chemistry 66, no. 10 (2020): 1310–18. http://dx.doi.org/10.1093/clinchem/hvaa177.

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Abstract Background Microsatellite instability (MSI) predicts oncological response to checkpoint blockade immunotherapies. Although microsatellite mutation is pathognomonic for the condition, loci have unequal diagnostic value for predicting MSI within and across cancer types. Methods To better inform molecular diagnosis of MSI, we examined 9438 tumor-normal exome pairs and 901 whole genome sequence pairs from 32 different cancer types and cataloged genome-wide microsatellite instability events. Using a statistical framework, we identified microsatellite mutations that were predictive of MSI w

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8

Gobily, Eman, Shimaa Kandel, Hadeer Auoda, Radwa Ahmed, and Mostafa Helal. "Whole-Genome Characterization and Analysis of Microsatellites in Turkey (Meleagris gallopavo) through in silico Approach." Biotecnia 27 (February 28, 2025): e2455. https://doi.org/10.18633/biotecnia.v27.2455.

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Turkey (Meleagris gallopavo) is the second largest contributor in poultry meat production after chickens. The study of microsatellite organization and distribution is of highly important in genomics and evolutionary students. The in silico mining for microsatellites leverages the power of computational biology to streamline and enhance the discovery of microsatellite markers, and reduce the cost of microsatellite detection. This study aimed at in silico mining microsatellite loci in the genome of domestic turkey. Reference sequences of the different chromosome obtained from NBCI and analyzed u

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9

Safaa, Hosam M., Mostafa Helal, Seif Yasser, et al. "Genome-Wide In Silico Analysis of Microsatellite Loci in Rabbits." Animals 14, no. 24 (2024): 3659. https://doi.org/10.3390/ani14243659.

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This study aimed to characterize microsatellites in the rabbit genome using an in silico approach and to develop and validate microsatellite markers. Blood samples were collected from 15 Baladi rabbits and 18 New Zealand White (NZW rabbits). The GMATA software was used to define SSRs in the extracted sequences. Twelve primer pairs were used to validate the loci identified and the primers developed. The total number of the detected microsatellite loci overall chromosomes was 1,136,253. The di-nucleotide microsatellite repeats dominated and exceeded 88% of the detected microsatellites in all chr

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10

McConnell, Stewart K., Patrick O'Reilly, Lorraine Hamilton, Jonathan M. Wright, and Paul Bentzen. "Polymorphic microsatellite loci from Atlantic salmon (Salmo salar): genetic differentiation of North American and European populations." Canadian Journal of Fisheries and Aquatic Sciences 52, no. 9 (1995): 1863–72. http://dx.doi.org/10.1139/f95-779.

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Atlantic salmon populations show low levels of genetic differentiation relative to other salmonid species, when surveyed by allozymes, and with mitochondrial DNA and nuclear ribosomal DNA markers. Here we report the application of three novel microsatellite VNTR loci to population differentiation in Atlantic salmon. A total of 232 microsatellites, cloned from Atlantic salmon, were classified as perfect, imperfect, and compound repeats. Microsatellite length, as in other teleosts, was significantly larger than published mammalian microsatellites. Primers for PCR amplification of three salmon mi

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11

Ling, Chen, Wu Lixia, Hou Rong, et al. "Comparative analysis of microsatellite and SNP markers for parentage testing in the golden snub-nosed monkey (Rhinopithecus roxellana)." Conservation Genetics Resources 12, no. 4 (2020): 611–20. http://dx.doi.org/10.1007/s12686-020-01147-7.

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Abstract Microsatellite markers are popular for assigning parentage, but single-nucleotide polymorphisms (SNPs) have only been applied in this area recently. To evaluate these two markers which have been previously studied in golden snub-nosed monkeys, we genotyped 12 individuals using 37 microsatellite loci and 37 SNP markers. The data showed that 32 of 37 microsatellite loci were polymorphic, and most microsatellite loci were high informative (mean PIC = 0.599). Meanwhile, 24 of 37 SNP markers were polymorphic and most were low informative (mean PIC = 0.244). For microsatellites, the combine

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12

Rossetto, M., F. C. L. Harriss, A. Mclauchlan, R. J. Henry, P. R. Baverstock, and L. S. Lee. "Interspecific amplification of tea tree (Melaleuca alternifolia-Myrtaceae) microsatellite loci-potential implications for conservation studies." Australian Journal of Botany 48, no. 3 (2000): 367. http://dx.doi.org/10.1071/bt98084.

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This study investigated the interspecific amplification of 35 microsatellite loci developed for M. alternifolia across seven other species within the Myrtaceae. All the primers used gave successful amplification of loci in at least one of the species tested. The level of success varied between species; 88.6% of primers gave amplification products for Melaleuca spp., 74.3% for Callistemon salignus, 45.7% for Eucalyptus spp. and 25.7% for Backhousia citriodora. Sequencing of a number of amplification products confirmed the presence of microsatellites in those loci. This study shows that the deve

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13

Wang, Ying, Ming Kang, and Hongwen Huang. "Microsatellite Loci Transferability in Chestnut." Journal of the American Society for Horticultural Science 133, no. 5 (2008): 692–700. http://dx.doi.org/10.21273/jashs.133.5.692.

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Cross-species amplification of 55 microsatellite loci developed in european chestnut (Castanea sativa Mill.) and japanese chestnut (C. crenata Sieb & Zucc.) was tested in three chestnut species from China [C. mollissima Blume, C. seguinii Dode, and C. henryi (Skan.) Rehder & Wilson]. Among all the tested loci, 47 (85.5%), 47 (85.5%), and 44 (80%) were successfully amplified in each of the three Chinese species, respectively. All microsatellite loci tested from C. crenata successfully amplified in the Chinese species, while only 80.5%, 80.5%, and 73.2% of the loci originating from C. sa

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14

Feng, Xiaochuan, Stephen M. Rich, Donna Akiyoshi, et al. "Extensive Polymorphism in Cryptosporidium parvumIdentified by Multilocus Microsatellite Analysis." Applied and Environmental Microbiology 66, no. 8 (2000): 3344–49. http://dx.doi.org/10.1128/aem.66.8.3344-3349.2000.

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ABSTRACT Restriction fragment length polymorphism and DNA sequence analysis discern two main types of Cryptosporidium parvum. We present a survey of length polymorphism at several microsatellite loci for type 1 and type 2 isolates. A total of 14 microsatellite loci were identified from C. parvum DNA sequences deposited in public databases. All repeats were mono-, di-, and trinucleotide repeats of A, AT, and AAT, reflecting the high AT content of the C. parvum genome. Several of these loci showed significant length polymorphism, with as many as seven alleles identified for a single locus. Diffe

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15

Gouin, Nicolas, Scott J. Westenberger, Susan M. Mahaney, Peter Lindley, John L. VandeBerg, and Paul B. Samollow. "Development, inheritance, and linkage-group assignment of 60 novel microsatellite markers for the gray, short-tailed opossum Monodelphis domestica." Genome 48, no. 6 (2005): 1019–27. http://dx.doi.org/10.1139/g05-059.

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Short-tandem-repeat (SSR) or microsatellite polymorphisms are some of the most extensively employed genetic markers in contemporary linkage mapping studies. To date, only a limited number of microsatellites have been isolated in the gray, short-tailed opossum Monodelphis domestica, a South American marsupial widely used for comparative biological and biomedical research. To increase the number of potentially useful mapping markers, we screened 2 microsatellite-enriched genomic libraries containing alternatively (CA)n or (GA)n repeats. A total of 184 clones were sequenced, from which 60 polymor

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16

Thiéry, M., and D. Mugniéry. "Microsatellite loci in the phytoparasitic nematode Globodera." Genome 43, no. 1 (2000): 160–65. http://dx.doi.org/10.1139/g99-106.

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A Globodera pallida genomic library, population Guiclan (Pa2/3), was screened for TG and TC microsatellite motifs. Screening of 50 000 clones revealed 48 positive matches. After sequencing, primers were designed to amplify 14 microsatellite loci. The specificity of the loci was tested with DNA templates of other populations of G. pallida, and also on other species of Globodera. Appearance of amplification products on several of these DNA templates showed that the microsatellite flanking regions are relatively conserved between G. pallida populations as well as between Globodera species. Eviden

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17

Tanck, M. WT, A. P. Palstra, M. van de Weerd, et al. "Segregation of microsatellite alleles and residual heterozygosity at single loci in homozygous androgenetic common carp (Cyprinus carpio L.)." Genome 44, no. 5 (2001): 743–51. http://dx.doi.org/10.1139/g01-072.

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Thirty-three androgenetic progeny groups of common carp were analysed using 11 microsatellite markers to (i) verify the homozygous status of the 566 androgenetic individuals, (ii) analyse the microsatellite allele segregation, and (iii) study the possible association of microsatellite alleles with phenotypic traits. In total, 92% of the androgenetic individuals proved to be homozygous at all 11 loci. Forty-three of the 47 heterozygous individuals were heterozygous at a single locus only. This heterozygosity was probably due to DNA fragments caused by UV irradiation of the eggs, although the ma

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18

Rahman, Muhammad H., S. Dayanandan, and Om P. Rajora. "Microsatellite DNA markers in Populus tremuloides." Genome 43, no. 2 (2000): 293–97. http://dx.doi.org/10.1139/g99-134.

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Markers for eight new microsatellite DNA or simple sequence repeat (SSR) loci were developed and characterized in trembling aspen (Populus tremuloides) from a partial genomic library. Informativeness of these microsatellite DNA markers was examined by determining polymorphisms in 38 P. tremuloides individuals. Inheritance of selected markers was tested in progenies of controlled crosses. Six characterized SSR loci were of dinucleotide repeats (two perfect and four imperfect), and one each of trinucleotide and tetranucleotide repeats. The monomorphic SSR locus (PTR15) was of a compound imperfec

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19

WILDER, J. A., T. DIAZ, R. J. W. O'NEILL, J. KENNEY, and H. HOLLOCHER. "Characterization and isolation of novel microsatellites from the Drosophila dunni subgroup." Genetical Research 80, no. 3 (2002): 177–85. http://dx.doi.org/10.1017/s0016672302005864.

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We have isolated and characterized 77 novel microsatellites from two species, Drosophila dunni and Drosophila nigrodunni, which are closely related Caribbean-island endemics from the Drosophila cardini species group. These species are very distantly related to all other Drosophila from which microsatellites have previously been characterized. We find that the average length of microsatellites isolated in these species is quite small, with an overall mean length of 9·8 repeat units for dinucleotide microsatellites in the two study species. The nucleotide composition of dinucleotides differs bet

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20

Zhang, Li-Fang, Shan-Geng He, and Xiao-Long Li. "The Characteristics of Microsatellites and Development of SSR Markers in the Genome of Periplaneta americana." Journal of Biobased Materials and Bioenergy 18, no. 5 (2024): 956–66. http://dx.doi.org/10.1166/jbmb.2024.2444.

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The research was to analyze the number and pattern of microsatellites in Periplaneta americana’s genome, and also developed tetranucleotide SSR markers. We thoroughly scrutinized and dissected the inherent traits that govern the allocation of microsatellite sequences within the profound domain of P. americana’s genome, software MSDBv2 allowed for the utilization of 2.67 Gb. There were precisely 1,498,458 flawless microsatellite sequences, encompassed approximately 1.57%. The cumulative length of microsatellites was 45,076,707 bp, and the abundance of microsatellites was 16889.577 loci/Mb. Out

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21

Gaffney, Patrick M., Carita M. Pascal, Jeffery Barnhart, W. Stewart Grant, and James E. Seeb. "Genetic homogeneity of weathervane scallops (Patinopecten caurinus) in the northeastern Pacific." Canadian Journal of Fisheries and Aquatic Sciences 67, no. 11 (2010): 1827–39. http://dx.doi.org/10.1139/f10-096.

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We assessed genetic differentiation among populations of weathervane scallop ( Patinopecten caurinus ) in the northeastern Pacific, extending over 2500 km in the Gulf of Alaska and southeastern Bering Sea. Variability was surveyed at nuclear loci with allozyme, microsatellite, and single nucleotide polymorphism (SNP) methods, and at mitochondrial (mt)DNA loci with SNPs and nucleotide sequencing. High levels of gene diversity were detected for allozymes (H = 0.080), microsatellites (H = 0.734), and mtDNA (h = 0.781). Genotypes at nuclear loci generally fit Hardy–Weinberg proportions, except for

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22

Harr, Bettina, and Christian Schlötterer. "Long Microsatellite Alleles in Drosophila melanogaster Have a Downward Mutation Bias and Short Persistence Times, Which Cause Their Genome-Wide Underrepresentation." Genetics 155, no. 3 (2000): 1213–20. http://dx.doi.org/10.1093/genetics/155.3.1213.

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Abstract Microsatellites are short tandemly repeated DNA sequence motifs that are highly variable in most organisms. In contrast to mammals, long microsatellites (&gt;15 repeats) are extremely rare in the Drosophila melanogaster genome. To investigate this paucity of long microsatellites in Drosophila, we studied 19 loci with exceptionally long microsatellite alleles. Inter- and intraspecific analysis showed that long microsatellite alleles arose in D. melanogaster only very recently. This lack of old alleles with many repeats indicated that long microsatellite alleles have short persisten

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Boches, Peter, Lisa J. Rowland, Kim Hummer, and Nahla V. Bassil. "Microsatellite Markers Developed from `Bluecrop' Reveal Polymorphisms in the Genus Vaccinium and Are Suitable for Cultivar Fingerprinting." HortScience 40, no. 4 (2005): 1122B—1122. http://dx.doi.org/10.21273/hortsci.40.4.1122b.

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Microsatellite markers for blueberry (Vaccinium L.) were created from a preexisting blueberry expressed sequence tag (EST) library of 1305 sequences and a microsatellite-enriched genomic library of 136 clones. Microsatellite primers for 65 EST-containing simple sequence repeats (SSRs) and 29 genomic SSR were initially tested for amplification and polymorphism on agarose gels. Potential usefulness of these SSRs for estimating species relationships in the genus was assessed through cross-species transference of 45 SSR loci and cluster analysis using genetic distance values from five highly polym

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Douek, Jacob, Elad Nehoray Rachmilovitz, and Baruch Rinkevich. "New Microsatellite Markers for the Model Coral Species Stylophora pistillata from Eilat, the Red Sea." Journal of Marine Science and Engineering 11, no. 2 (2023): 244. http://dx.doi.org/10.3390/jmse11020244.

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Nineteen microsatellite loci, obtained by the whole genome sequencing approach, were developed and validated for the ‘smooth cauliflower’ coral Stylophora pistillata, a widespread Indo Pacific branching coral species. A sample size of 40 colonies collected at five reef sites along the northern Gulf of Eilat, the Red Sea, were genotyped, revealing loci reproducibly and suitable outcomes for wide applications, including population genetic studies. The 19 new microsatellite loci in this sample were composed of 4–20 alleles/locus, of which 10 microsatellites are highly polymorphic (≥10 alleles/loc

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Rivero-Hinojosa, Samuel, Nicholas Kinney, Harold R. Garner, and Brian R. Rood. "Germline microsatellite genotypes differentiate children with medulloblastoma." Neuro-Oncology 22, no. 1 (2019): 152–62. http://dx.doi.org/10.1093/neuonc/noz179.

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Abstract Background The germline genetic events underpinning medulloblastoma (MB) initiation, and therefore the ability to determine who is at risk, are still unknown for the majority of cases. Microsatellites are short repeated sequences that make up ~3% of the genome. Repeat lengths vary among individuals and are often nonrandomly associated with disease, including several cancers such as breast, glioma, lung, and ovarian. Due to their effects on gene function, they have been called the “tuning knobs of the genome.” Methods We have developed a novel approach for identifying a microsatellite-

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Reddy, K. Damodar, E. G. Abraham, and J. Nagaraju. "Microsatellites in the silkworm, Bombyx mori: Abundance, polymorphism, and strain characterization." Genome 42, no. 6 (1999): 1057–65. http://dx.doi.org/10.1139/g99-027.

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We have isolated and characterized microsatellites (simple sequence repeat (SSR) loci) from the silkworm genome. The screening of a partial genomic library by the conventional hybridization method led to the isolation of 28 microsatellites harbouring clones. The abundance of (CA)n repeats in the silkworm genome was akin to those reported in the other organisms such as honey bee, pig, and human, but the (CT)n repeat motif is less common compared to bumble bee and honey bee genomes. Detailed analysis of 13 diverse silkworm strains with a representative of 15 microsatellite loci revealed a number

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Korom, E., K. Bakos, G. Veress, et al. "Isolation of 11 new polymorphic microsatellites from CA enriched turkey genomic libraries (Short communication)." Archives Animal Breeding 53, no. 5 (2010): 618–22. http://dx.doi.org/10.5194/aab-53-618-2010.

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Abstract. Microsatellite loci from the ancient Hungarian variety of the Broad Breasted Bronze Turkey (Meleagris gallopavo) were isolated. CA-repeat enriched libraries were constructed from DNA of randomly collected samples. Libraries were screened for repeat-containing clones by PIMA (PCR Isolation of Microsatellite Arrays) and the DNA-sequence of 167 positive clones was determined. A total of 136 microsatellite repeat-containing sequences were found, 59 sequences were unique. Comparing these with the genomic databases, we found 7 previously annotated microsatellite sequences. The newly isolat

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Smith, S., T. Joss, and A. Stow. "Successful development of microsatellite markers in a challenging species: the horizontal borer Austroplatypus incompertus (Coleoptera: Curculionidae)." Bulletin of Entomological Research 101, no. 5 (2011): 551–55. http://dx.doi.org/10.1017/s0007485311000137.

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AbstractThe analysis of microsatellite loci has allowed significant advances in evolutionary biology and pest management. However, until very recently, the potential benefits have been compromised by the high costs of developing these neutral markers. High-throughput sequencing provides a solution to this problem. We describe the development of 13 microsatellite markers for the eusocial ambrosia beetle, Austroplatypus incompertus, a significant pest of forests in southeast Australia. The frequency of microsatellite repeats in the genome of A. incompertus was determined to be low, and previous

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Harker, N., L. R. Rampling, M. R. Shariflou, et al. "Microsatellites as markers for Australian wheat improvement." Australian Journal of Agricultural Research 52, no. 12 (2001): 1121. http://dx.doi.org/10.1071/ar01025.

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Microsatellite markers have been shown to be highly polymorphic and simple to use in hexaploid wheat. This study aimed to establish microsatellites as informative markers for Australian wheat improvement. By screening microsatellites developed as part of the Wheat Microsatellite Consortium and other available microsatellite sources, 257 informative microsatellites for Australian wheat varieties were identified and reported in the Australian National Wheat Molecular Marker Program microsatellite database (http://www.scu.edu.au/research/cpcg/). Of these, 151 microsatellites identifying 172 loci

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Horreo, Jose Luis, Maria Luisa Peláez, Teresa Suárez, Benoit Heulin, and Patrick Stefan Fitze. "Development of thirty-four new microsatellite loci and multiplexing of seven existing loci for Zootoca vivipara (Squamata: Lacertidae)." Phyllomedusa: Journal of Herpetology 16, no. 1 (2017): 89. http://dx.doi.org/10.11606/issn.2316-9079.v16i1p89-96.

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Few microsatellite loci exist for the European common lizard, Zootoca vivipara, a common model species in studies of population dynamics, sexual selection, population genetics, parity evolution, and physiology. The existing primers did not amplify in all lineages, and multiplexes were not optimized. A total of 34 new polymorphic microsatellite markers have been developed for this species and tested in 64 specimens belonging to oviparous and viviparous clades (B and D). The microsatellites were combined into seven different multiplexes. Results showed that all but one loci successfully amplifie

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Akiyama, S., T. Grant, N. J. Gemmell, J. A. Marshall-Graves, and N. D. Murray. "Microsatellite Loci and Population Structure in the Platypus." Australian Mammalogy 20, no. 2 (1998): 299. http://dx.doi.org/10.1071/am98298.

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To investigate the genetic relationships within and between platypus populations, molecular genetic methods employing DNA analysis are very effective, and microsatellite variation has been shown to be the most effective for population studies. Microsatellites are segments of DNA with tandem repeats of short sequence motifs, usually 1-6 base pairs of nucleotides, and they are highly variable and easy to score. Several microsatellite loci have been detected and sequenced, and PCR primers have been constructed and used to identify several polymorphic microsatellite variants. In the main breeding

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White, E., R. Sahota, and S. Edes. "Rapid microsatellite analysis using discontinuous polyacrylamide gel electrophoresis." Genome 45, no. 6 (2002): 1107–9. http://dx.doi.org/10.1139/g02-084.

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A method for screening large numbers of samples for microsatellites using discontinuous, non-denaturing polyacrylamide gels and rapid fluorescent gel staining is described. Disc electrophoresis on slab gels provides high-resolution of PCR products. It is useful for collecting population data once microsatellite loci have been characterized.Key words: microsatellite, discontinuous polyacrylamide gel electrophoresis, non-denaturing

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Hempel, K., and R. Peakall. "Cross-species amplification from crop soybean Glycine max provides informative microsatellite markers for the study of inbreeding wild relatives." Genome 46, no. 3 (2003): 382–93. http://dx.doi.org/10.1139/g03-013.

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The development of microsatellite markers through transfer of primers from related species (cross-species amplification) remains a little-explored alternative to the de novo method in plants. In this study of 100 microsatellite loci from Glycine max, we examined two aspects of primer transfer. First, we tested if source locus properties can predict primer transfer and polymorphism in Glycine cyrtoloba and Glycine clandestina. We transferred 23 primers to G. cyrtoloba and 42 to G. clandestina, with 19 loci polymorphic within G. clandestina. However, we could not predict transfer or polymorphism

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Zhu, Ying, Hong-Yi Liu, Hai-Qiong Yang, Yu-Dong Li, and He-Min Zhang. "Factors affecting genotyping success in giant panda fecal samples." PeerJ 5 (May 23, 2017): e3358. http://dx.doi.org/10.7717/peerj.3358.

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Fecal samples play an important role in giant panda conservation studies. Optimal preservation conditions and choice of microsatellites for giant panda fecal samples have not been established. In this study, we evaluated the effect of four factors (namely, storage type (ethanol (EtOH), EtOH −20 °C, 2-step storage medium, DMSO/EDTA/Tris/salt buffer (DETs) and frozen at −20 °C), storage time (one, three and six months), fragment length, and repeat motif of microsatellite loci) on the success rate of microsatellite amplification, allelic dropout (ADO) and false allele (FA) rates from giant panda

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Sumathi, Murugan, and Yasodha Ramasamy. "Microsatellite allele length variations in inter-specific hybrids of Eucalyptus." Acta Botanica Croatica 76, no. 1 (2017): 103–6. http://dx.doi.org/10.1515/botcro-2016-0050.

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AbstractThe genus Eucalyptus encompasses several species of industrial importance. Many of these species have been subjected to genetic characterization using different kinds of DNA markers. More than 1000 microsatellites have been identified from the genome of eucalypts and they are highly amenable for cross species transferability. During cross amplification of microsatellites, homoplasy is reported in many species in which although the allele size might be the same, the sequences are not. Thus, it is essential to ascertain the DNA sequence homology with source and target microsatellite repe

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Rivera, R., K. J. Edwards, JHA Barker, et al. "Isolation and characterization of polymorphic microsatellites in Cocos nucifera L." Genome 42, no. 4 (1999): 668–75. http://dx.doi.org/10.1139/g98-170.

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Microsatellites or simple sequence repeats (SSRs) were isolated from coconut (Cocos nucifera) and tested for polymorphism on restricted germplasm. Sequencing of 197 clones from a cv. Tagnanan Tall-enriched genomic library showed that 75% contained a microsatellite, of which 64% were dinucleotide (GA/CT, CA/GT and GC/CG), 6% were trinucleotide, and 30% were compound repeats. Of 41 primer pairs tested on Tagnanan Tall genomic DNA, 38 gave the expected size product, two amplified two loci, and another gave a multilocus pattern. On 20 coconut samples, the 38 SSRs detected 198 alleles (average: 5.2

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O'Connell, Michael, Roy G. Danzmann, Jean-Marie Cornuet, Jonathan M. Wright, and Moira M. Ferguson. "Differentiation of rainbow trout (Oncorhynchus mykiss) populations in Lake Ontario and the evaluation of the stepwise mutation and infinite allele mutation models using microsatellite variability." Canadian Journal of Fisheries and Aquatic Sciences 54, no. 6 (1997): 1391–99. http://dx.doi.org/10.1139/f97-043.

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Microsatellites, comprising (GT)\dn6 n tandemly repeated arrays, were isolated from a size-selected genomic library of rainbow trout (Oncorhynchus mykiss) DNA. Primers were designed for five microsatellite loci, four of which were variable. Primers for two of these loci were used in conjunction with primers for three microsatellite loci from a related species, Salmo salar, to investigate patterns of differentiation in freshwater migratory populations of rainbow trout in Lake Ontario. The five loci used revealed high levels of polymorphism with heterozygosity estimates ranging from 0.740 to 0.9

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Maskur, Maskur, Tapaul Rozi, Rahmajan Rahmajan, Lalu Kasip, and M. Muhsinin. "Genetic Diversity of Bali Cattle Base on Two Microsatellite Loci - INRA032 and BM2113." Jurnal Biologi Tropis 24, no. 1b (2024): 584–90. https://doi.org/10.29303/jbt.v24i1b.8076.

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Microsatellites are short tandem repeat (STR) sequences that consist of simple repeats and exhibit a high number of alleles at each genomic locus. The aim of this study was to examine genetic variation in Bali cattle and the population dynamics using microsatellite markers. Two microsatellite loci, INRA032 and BM2113 were amplified using PCR Total DNA samples from the genome of 60 Bali cattle, then The PCR products were analyzed through agarose gel electrophoresis, followed by staining with Ethidium Bromide (EtBr). The number and size of alleles that appeared on the gel, while the diversity an

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Dong, Zhiguo, Xugan Wu, Xiaoying Li, Qingqi Zhang, Jiale Li, and Binlun Yan. "Report of 14 novel microsatellites from the swimming crab Portunus trituberculatus (Miers, 1876) (Decapoda, Brachyura)." Crustaceana 87, no. 1 (2014): 35–40. http://dx.doi.org/10.1163/15685403-00003270.

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The swimming crab, Portunus trituberculatus (Miers, 1876) is one of the most common edible marine crabs in East Asia. In this study, a multiple mixed probes hybridization method was used to isolate microsatellites to improve experimental efficiency and streamline the procedure. The mix of biotinylated probes included microsatellite GA, CA and CAT motifs. Fourteen novel polymorphic microsatellite loci were isolated and characterized from a wild population of P. trituberculatus. The number of alleles varied between three and nine, and the observed and expected heterozygosity at population level

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FAKHAR, M., M. H. MOTAZEDIAN, D. DALY, C. D. LOWE, S. J. KEMP, and H. A. NOYES. "An integrated pipeline for the development of novel panels of mapped microsatellite markers for Leishmania donovani complex, Leishmania braziliensis and Leishmania major." Parasitology 135, no. 5 (2008): 567–74. http://dx.doi.org/10.1017/s0031182008004186.

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SUMMARYA panel of microsatellites mapped to the Leishmania genome might make it possible to find associations between specific loci and phenotypic traits. To identify such loci, a Perl programme was written that scans the sequence of a genome and writes all loci containing microsatellites to a MySQL database. The programme was applied to the sequences of the L. braziliensis, L. infantum and L. major genomes. The database is publicly available over the internet: http://www.genomics.liv.ac.uk/tryps/resources.html ‘Microsatellite Locus Extractor’, and allows the selection of mapped microsatellite

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Dermitzakis, Emmanouil T., Andrew G. Clark, Costas Batargias, Antonios Magoulas, and Eleftherios Zouros. "Negative Covariance Suggests Mutation Bias in a Two-Locus Microsatellite System in the Fish Sparus aurata." Genetics 150, no. 4 (1998): 1567–75. http://dx.doi.org/10.1093/genetics/150.4.1567.

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Abstract Constraints on microsatellite length appear to vary in a species-specific manner. We know very little about the nature of these constraints and why they should vary among species. While surveying microsatellite variation in the Mediterranean gilthead sea bream, Sparus aurata, we discovered an unusual pattern of covariation between two closely linked microsatellite loci. One- and two-locus haplotypes were scored from PCR amplification products of each locus separately and both loci together. In a sample of 211 fish, there was a strong negative covariance in repeat number between the tw

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42

Stanisic, Ljubodrag, Vladimir Dimitrijevic, Predrag Simeunovic, et al. "Assessment of 17 microsatellite loci for their use in parentage verification and individual identification in the Balkan donkey breed." Genetika 49, no. 1 (2017): 21–30. http://dx.doi.org/10.2298/gensr1701021s.

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The aim of this study was to assess a panel of 17 microsatellites for parentage verification and individual identification in the endangered Balkan donkey breed. Allele frequencies for 17 microsatellite loci (AHT4, AHT5, ASB2, ASB17, ASB23, CA425, HTG4, HTG6, HTG7, HTG10, HMS1, HMS2, HMS3, HMS6, HMS7, LEX3 and VHL20) were determined in a 77 unrelated Balkan donkeys. Three loci (ASB2, HMS1 and ASB17) proved to be unsuitable and had been excluded from the investigation. Analysis of the remaining 14 loci revealed varied levels of polymorphism (three to 12 alleles), while the total number of obser

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43

Shao, W. W., P. Y. Hua, S. Y. Zhou, S. Y. Zhang, and J. P. Chen. "Characterization of microsatellite loci in the lesser dawn bat ( Eonycteris spelaea)." Molecular Ecology Resources 8, no. 3 (2008): 695–97. https://doi.org/10.5281/zenodo.13509430.

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(Uploaded by Plazi for the Bat Literature Project) We constructed a genomic DNA library enriched for CA repeat motifs in Eonycteris spelaea. Nine microsatellite loci were isolated and tested on a population of 39 samples from Yunnan Province, China. These nine loci had three to 22 alleles per locus. Observed and expected heterozygosity values ranged from 0.079 to 0.963 and from 0.078 to 0.959. Two loci revealed significant departure from Hardy–Weinberg equilibrium and no linkage disequilibrium was found between loci pairs. These microsatellites can be a powerful molecular tool for population-l

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44

Shao, W. W., P. Y. Hua, S. Y. Zhou, S. Y. Zhang, and J. P. Chen. "Characterization of microsatellite loci in the lesser dawn bat ( Eonycteris spelaea)." Molecular Ecology Resources 8, no. 3 (2008): 695–97. https://doi.org/10.5281/zenodo.13509430.

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(Uploaded by Plazi for the Bat Literature Project) We constructed a genomic DNA library enriched for CA repeat motifs in Eonycteris spelaea. Nine microsatellite loci were isolated and tested on a population of 39 samples from Yunnan Province, China. These nine loci had three to 22 alleles per locus. Observed and expected heterozygosity values ranged from 0.079 to 0.963 and from 0.078 to 0.959. Two loci revealed significant departure from Hardy–Weinberg equilibrium and no linkage disequilibrium was found between loci pairs. These microsatellites can be a powerful molecular tool for population-l

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45

Shao, W. W., P. Y. Hua, S. Y. Zhou, S. Y. Zhang, and J. P. Chen. "Characterization of microsatellite loci in the lesser dawn bat ( Eonycteris spelaea)." Molecular Ecology Resources 8, no. 3 (2008): 695–97. https://doi.org/10.5281/zenodo.13509430.

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(Uploaded by Plazi for the Bat Literature Project) We constructed a genomic DNA library enriched for CA repeat motifs in Eonycteris spelaea. Nine microsatellite loci were isolated and tested on a population of 39 samples from Yunnan Province, China. These nine loci had three to 22 alleles per locus. Observed and expected heterozygosity values ranged from 0.079 to 0.963 and from 0.078 to 0.959. Two loci revealed significant departure from Hardy–Weinberg equilibrium and no linkage disequilibrium was found between loci pairs. These microsatellites can be a powerful molecular tool for population-l

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46

Shao, W. W., P. Y. Hua, S. Y. Zhou, S. Y. Zhang, and J. P. Chen. "Characterization of microsatellite loci in the lesser dawn bat ( Eonycteris spelaea)." Molecular Ecology Resources 8, no. 3 (2008): 695–97. https://doi.org/10.5281/zenodo.13509430.

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(Uploaded by Plazi for the Bat Literature Project) We constructed a genomic DNA library enriched for CA repeat motifs in Eonycteris spelaea. Nine microsatellite loci were isolated and tested on a population of 39 samples from Yunnan Province, China. These nine loci had three to 22 alleles per locus. Observed and expected heterozygosity values ranged from 0.079 to 0.963 and from 0.078 to 0.959. Two loci revealed significant departure from Hardy–Weinberg equilibrium and no linkage disequilibrium was found between loci pairs. These microsatellites can be a powerful molecular tool for population-l

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47

Nauta, Maarten J., and Franz J. Weissing. "Constraints on Allele Size at Microsatellite Loci: Implications for Genetic Differentiation." Genetics 143, no. 2 (1996): 1021–32. http://dx.doi.org/10.1093/genetics/143.2.1021.

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Abstract Microsatellites are promising genetic markers for studying the demographic structure and phylogenetic history of populations. We present theoretical arguments indicating that the usefulness of microsatellite data for these purposes may be limited to a short time perspective and to relatively small populations. The evolution of selectively neutral markers is governed by the interaction of mutation and random genetic drift. Mutation pressure has the inherent tendency to shift different populations to the same distribution of alleles. Hence, mutation pressure is a homogenizing force, and

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48

Tian, Ruizheng, Cunhuan Zhang, Yixiao Huang, Xin Guo, and Maohua Chen. "A Novel Software and Method for the Efficient Development of Polymorphic SSR Loci Based on Transcriptome Data." Genes 10, no. 11 (2019): 917. http://dx.doi.org/10.3390/genes10110917.

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Traditional methods for developing polymorphic microsatellite loci without reference sequences are time-consuming and labor-intensive, and the polymorphisms of simple sequence repeat (SSR) loci developed from expressed sequence tag (EST) databases are generally poor. To address this issue, in this study, we developed a new software (PSSRdt) and established an effective method for directly obtaining polymorphism details of SSR loci by analyzing diverse transcriptome data. The new method includes three steps, raw data processing, PSSRdt application, and loci extraction and verification. To test

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49

Vidakovic, D. O., D. Perovic, T. V. Semilet, A. Börner, and E. K. Khlestkina. "The consensus rye microsatellite map with EST-SSRs transferred from wheat." Vavilov Journal of Genetics and Breeding 24, no. 5 (2020): 459–64. http://dx.doi.org/10.18699/vj20.48-o.

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Microsatellite (SSR) markers with known precise intrachromosomal locations are widely used for mapping genes in rye and for the investigation of wheat-rye translocation lines and triticale highly demanded for mapping economically important genes and QTL-analysis. One of the sources of novel SSR markers in rye are microsatellites transferable from the wheat genome. Broadening the list of available SSRs in rye mapped to chromosomes is still needed, since some rye chromosome maps still have just a few microsatellite loci mapped. The goal of the current study was to integrate wheat EST-SSRs into t

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Biancalana, Renata Neves, Fabio Raposo do Amaral, and Cibele Biondo. "Novel microsatellites for Cypseloides fumigatus, cross-amplifiable in Streptoprocne zonaris." Revista Brasileira de Ornitologia 27, no. 3 (2019): 207–11. http://dx.doi.org/10.1007/bf03544472.

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AbstractBased on microsatellite prospection, we isolated and characterized 21 microsatellite markers for the Sooty Swift (Cypseloides fumigatus) and tested the cross-amplification in the White-collared Swift (Streptoprocne zonaris). Both species are New World species included in the Apodidae family. From these 21, only 13 loci were polymorphic in the Sooty Swift, and their levels of polymorphism were surprisingly low compared to related species. Cross-amplification in the White-collared Swift was successful for 11 loci of the 13 polymorphic found for the Sooty Swift, but seven were monomorphic

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