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738 results for “Microsatellite”
Microsatellite genotypes for adult and seedlings of the temperate seagrass (ribbon weed), Posidonia australis, from four meadows at Rottnest Island, Western Australia
<p>Adult shoots and seedings of the ribbon weed (<em>Posidonia australis</em> Hook.f.), a widespread temperate seagrass, were sampled from four meadows around Rottnest Island, Western Australia. The data set contains multilocus genotypes for adult shoots from four meadows and seedlings from three meadows over two consecutive years. The metadata file contains: Pop number (1 – 10), Sample site, Latitude (S), Longitude (E), individual sample code, year of sampling, life stage (adult shoot or seedling), genotypes (2 columns per locus). The seven polymorphic microsatellite loci are: <em>Pa</em>A1, <em>Pa</em>A105, <em>Pa</em>A120, <em>Pa</em>B6, <em>Pa</em>B8, <em>Pa</em>B112, <em>Pa</em>D113. Most genotypes are diploid, however, 3N genotypes are included.</p>
Raw data containing microsatellite genotypes and otolith microchemistry data for Lutjanus argentiventris individuals from Galapagos (Ecuador) and the Gulf of California (Mexico)
<p>The dataset contains the raw microsatellite genotypes and otolith microchemistry data for yellow snapper (Lutjanus argentiventris) individuals from Galapagos (Ecuador) and the Gulf of California (Mexico), described in the journal publication:</p> <p>Cavole LM, Munguia-Vega A, Miller JA, Salinas-de-Leon P, Marin Jarrin JR, Johnson AF, Laplane ER, Giron-Nava A, Aburto-Oropeza O (2023) Combining otolith chemistry and genetics to infer the population structure of yellow snapper <em>Lutjanus argentiventris. </em>Ecosphere.</p> <p> </p> <p> </p>
Macrocystis pyrifera before (2008) and after (2018-19) microsatellite data in Structure format
<p>Given the impacts of climate change and other anthropogenic stressors on marine systems, there is a need to accurately predict how species respond to changing environments and disturbance regimes. The use of genetic tools to monitor temporal trends in populations gives ecologists the ability to estimate changes in genetic diversity and effective population size that may be undetectable by traditional census methods. Although multiple studies have used temporal genetic analysis, they usually involve commercially important species, and rarely sample before and after disturbance. In this study, we run a temporal analysis of giant kelp, <em>Macrocystis pyrifera</em>, genetic diversity over the scope of 10 years (2008-2018) using the same microsatellite marker panel to assess the genetic consequences of disturbance in several populations of giant kelp (<em>Macrocystis pyrifera</em>) in the Southern California Bight. The study is a rare pre- and post-disturbance microsatellite analysis that included declines to giant kelp caused by the 2015/16 El Nino Southern Oscillation event. We used canopy biomass estimated by remote sensing (Landsat) to quantify the extent of disturbance to kelp beds, and sea surface temperature data to understand how kelp was pushed towards its temperature limits during this period. Despite prolonged periods with decreased canopy at several sites, no changes in genetic structure and allelic richness were observed. We argue that giant kelp in the region is best described as a "patchy population" system where true extinctions are rare. We discuss how deep refugia of subsurface sporophytes and cryptic microscopic life stages could have kept genetic diversity through disturbance. Given the increasing effects of climate change and uncertainty in modeling impacts of species with cryptic life history stages, we suggest further investigation to reveal the role such stages play in species resilience. Genetic monitoring studies of sites selected by remote census demographic and climate surveys should be continued in the future given the predicted impacts of climate change.</p>
Microsatellite genotypes of Japanese abies species: Insights from population genetics and SDM
<p><span>Range shifts during the Pleistocene shaped the unique phylogeographical structures of many species. Pleistocene range shifts gave currently allopatric species opportunities to occur in sympatry, likely resulting in ancient introgressions between related taxa. In our study, we investigate the range shifts and introgression patterns of three Japanese <em>Abies </em>species (<em>A. firma, A. homolepis, and A. veitchii</em>) by employing an extensive survey of 43 populations. This survey includes comprehensive analysis of both mitochondrial (mtDNA) and nuclear (18 microsatellites) genomes, in combination with species distribution modeling (SDM). It is important to note that these two types of markers provide distinct and complementary information, as they have different modes of inheritance and mutation rates. Bayesian clustering analysis indicates that the three species were clearly separated, with the exception of the <em>A. homolepis </em>var. <em>umbellata</em> population, which is considered a natural hybrid between <em>A. homolepis</em> and <em>A. firma</em>. However, mtDNA haplotypes of the four northern populations of <em>A. firma</em> were entirely replaced by two major haplotypes of <em>A. homolepis </em>and <em>A. veitchii.</em> The results of Neighbor-net, NewHybrids, STRUCTURE analyses, and SDM suggest that historical introgression between species occurred in each geographic region, with mtDNA capture being the likely mechanism. However, contrary to these findings, the ABC coalescent analysis did not support an ancient introgression. Therefore, further validation with genome-wide level data is needed to clarify this issue. Our conclusion is that climate-induced range shifts during the Pleistocene/Holocene likely played a crucial role in the observed patterns of introgression in these species.</span></p>
Data from: genetic resources of macroalgae: development of an efficient method using microsatellite markers in non-model organisms
<p><span>Red and brown seaweeds are species with high ecological and economic importance. Here we report the feasibility of cost-effective molecular marker development in 6 species from different clades. Microsatellites markers of two brown seaweed species <em>Alaria esculenta</em>, <em>Pylaiella littoralis</em>, and of four red seaweed species <em>Calliblepharis jubata</em>, <em>Gracilaria gracilis</em>, <em>Gracilaria dura </em>and <em>Palmaria palmata</em> were identified and characterized using genomic sequences of Double-Digest Restriction site Associated DNA (ddRAD). A total of 64,623,186 reads were generated from two runs of multiplexed Illumina Miseq sequencing for which 30,636 reads containing microsatellites and 15,443 microsatellite loci with primers pairs were found. Five hundred seventy-six primers pairs were selected for amplification trials and levels of polymorphism. From the 338 that gave a positive amplification, 142 primers pairs were polymorphic. For genetic analyses two or three populations per species from 13 different geographic locations were used. A total of 28 usable polymorphic markers for <em>A. esculenta</em>, 18 for <em>P. littoralis</em>, 11 for <em>C. jubata</em>, 14 for <em>G. gracilis</em>, 21 for <em>G. dura </em>and 13 for <em>P. palmata </em>were developed. The overall number of alleles per locus ranged from 2 to 22. These 105 new microsatellite markers will be useful for further studies of population genetics, breeding programs and conservation genetics of these species. Compared with traditional approaches, our study yielded thousands of microsatellite loci in a short tim</span><span>e with affordable costs in six different species. This study based on ddRAD-sequencing for the development of microsatellite markers provides preliminary data u</span><span>sing a few individuals from two distinct populations on the genetic structure and reproduction mode of a non-model species as shown </span>with the detection of clonality for the two red algae, <em>C. jubata </em>and <em>G. dura</em> and the detection of highly genetically divergent populations corresponding probably to different cryptic species under the name of<em> P. littoralis</em>.</p>
Genotype data of Philippine native pigs, Duroc, Landrace, Large White and Berkshire, using 20 ISAG-FAO recommended microsatellite markers
<p>Microsatellite genotyping is a cost-effective method for the genetic diversity analysis of under-studied populations, such as the Philippine native pigs. We genotyped <em>n</em> = 196 pigs representing 7 Philippine native pig populations (<em>n </em>= 20 to 27 for each population) and 4 commercial transboundary breeds (<em>n</em> = 9 to 11 for each population). Twenty microsatellite markers, recommended by the International Society of Animal Genetics (ISAG)-FAO, were used to generate the dataset for population analysis (S0005, S0155, S0026, S0355, Sw830, Sw2410, Swr1941, Sw632, Sw24, S0228, Sw936, S0097, Sw857, Sw122, Sw2406, IGF1, Sw240, S0090, S0226, Sw72). S0218 was used as a sex marker (data not shown). All loci, except Sw24, did not deviate from Hardy Weinberg equilibrium. Each marker showed an average <em>PIC </em>of 0.779. A total of 260 alleles of length 86 to 272 bp were obtained. Using this dataset, we determined population structure and conservation priorities in the Philippine native pigs. This dataset contains both the raw files (.fsa) and the processed file (.txt). This dataset can be used by colleagues to increase their research coverage and achieve multi-population and multi-country comparisons, especially among Asian indigenous pigs.</p>
Study of Binimetinib + Nivolumab Plus or Minus Ipilimumab in Patients With Previously Treated Microsatellite-stable (MSS) Metastatic Colorectal Cancer With RAS Mutation
ClinicalTrials.gov study NCT03271047. IPD Sharing: YES. Countries: 5. Publications: 1.
Combined PD-1 and CCR5 Inhibition for the Treatment of Refractory Microsatellite Stable mCRC
ClinicalTrials.gov study NCT03274804. IPD Sharing: NO. Countries: 1. Publications: 1.
M7824 in Patients With Metastatic Colorectal Cancer or With Advanced Solid Tumors With Microsatellite Instability
ClinicalTrials.gov study NCT03436563. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Study of MK-3475 in Patients With Microsatellite Unstable (MSI) Tumors (Cohorts A, B and C)
ClinicalTrials.gov study NCT01876511. IPD Sharing: NO. Countries: 1. Publications: 2.
A Phase II Trial Assessing Nivolumab in Class II Expressing Microsatellite Stable Colorectal Cancer
ClinicalTrials.gov study NCT03981146. IPD Sharing: NO. Countries: 1. Publications: 0.
Tyrosine Kinase Inhibitor (TKI) + Anti-PD-1 Antibody in TKI-responded Microsatellite Stability/Proficient Mismatch Repair (MSS/pMMR) Metastatic Colorectal Adenocarcinoma.
ClinicalTrials.gov study NCT04483219. IPD Sharing: YES. Countries: 1. Publications: 1.
Study of Pembrolizumab Following Surgery in Patients With Microsatellite Instability High (MSI-H) Solid Tumors
ClinicalTrials.gov study NCT03832569. IPD Sharing: YES. Countries: 1. Publications: 2.
Safety and Efficacy of Vicriviroc (MK-7690) in Combination With Pembrolizumab (MK-3475) in Participants With Advanced/Metastatic Microsatellite Stable (MSS) Colorectal Cancer (CRC) (MK-7690-046)
ClinicalTrials.gov study NCT03631407. IPD Sharing: YES. Countries: 2. Publications: 1.
Evaluation of Co-formulated Pembrolizumab/Quavonlimab (MK-1308A) Versus Other Treatments in Participants With Microsatellite Instability-High (MSI-H) or Mismatch Repair Deficient (dMMR) Stage IV Color
ClinicalTrials.gov study NCT04895722. IPD Sharing: YES. Countries: 22. Publications: 1.
Study of Durvalumab and Tremelimumab After Radiation for Microsatellite Stable Metastatic Colorectal Cancer Progressing on Chemotherapy
ClinicalTrials.gov study NCT03007407. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Data from: Transcriptome profiles of sunflower reveal the potential role of microsatellites in gene expression divergence
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Microsatellite genotypes of Cercidiphyllum japonicum seeds and identity numbers of the seed parents
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Amblema plicata microsatellite data from wild and hatchery produced populations
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Population genetic structure of Nephrops norvegicus from the Adriatic Sea inferred using microsatellite loci
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.