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10 results for “germplasm collections”
Linked collectors and determiners for: GPasS - Germplasm Collection of Pasture Species (ISPAAM-CNR-GPASS).
Natural history specimen data linked to collectors and determiners held within, "GPasS - Germplasm Collection of Pasture Species (ISPAAM-CNR-GPASS)". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/7c6aab56-4724-4f07-abf2-01146b7ae8f8">https://bionomia.net/dataset/7c6aab56-4724-4f07-abf2-01146b7ae8f8</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/7c6aab56-4724-4f07-abf2-01146b7ae8f8">https://gbif.org/dataset/7c6aab56-4724-4f07-abf2-01146b7ae8f8</a>. Formatted as a Frictionless Data package.
Additional Files for "Assessing the potential of germplasm collections for the management of genetic diversity: the case of the French National Cryobank"
<p>Additional files for the article entitled "Assessing the potential of germplasm collections for managing genetic diversity: the case of the French National Cryobank".</p> <p><strong>Additional file 1: Table S1</strong></p> <p><strong>Title:</strong> Report on the output of material since the creation of the French National Cryobank</p> <p><strong>Additional file 2: Figure S1</strong></p> <p><strong>Title:</strong> Summary of material outputs from the French National Cryobank since 1999</p> <p><strong>Additional file 3: Table S2</strong></p> <p><strong>Title:</strong> Descriptors from the French National Cryobank data for six species</p> <p><strong>Additional file 4: Figure S2</strong></p> <p><strong>Title:</strong> Distribution of data and definition of intervals regarding breed diffusion (A), donor birth-year classes (B), and classes of donor’s age at 1<sup>st</sup> collection (C)</p> <p><strong>Additional file 5: Table S3</strong></p> <p><strong>Title:</strong> Statistics of the number of effective donors (De) according to species</p> <p><strong>Additional file 6: Table S4</strong></p> <p><strong>Title:</strong> Distribution of donors and doses across breeds</p> <p><strong>Description:</strong> In green, the breeds for which the FNC collections meet FAO conditions for reconstitution of an extinct breed. In blue, the breeds for which the collections of the FNC do not yet meet FAO conditions for reconstitution of an extinct breed. In gray, FAO recommendations not available. Based on the 2012 FAO report, with 100 founder females for ruminants and horses, or 30 founder females for pigs (with a pregnancy rate of 0.6).</p> <p><strong>Additional file 7: Figure S3</strong></p> <p><strong>Title:</strong> Evolution of genetic contributions of sires and their production of direct descendants in the French National Cryobank over the period 2011–2020 for three livestock species</p> <p><strong>Description:</strong> Two breeds of pigs are represented in pink (a, b), three breeds of sheep are represented in blue (c, d, e), and five breeds of cattle are represented in ochre (f, g, h, i, j).</p> <p><strong>Additional file 8: Figure S4</strong></p> <p><strong>Title:</strong> Distribution of individual IDIs of cryopreserved sires for the 17 breeds analyzed</p> <p><strong>Description:</strong> Pig breeds are represented in pink, sheep breeds are represented in blue, and cattle breeds are represented in ochre.</p> <p><strong>Additional file 9: Figure S5</strong></p> <p><strong>Title:</strong> Correlation between IDI values and the year of birth of donors</p> <p><strong>Additional file 10: Figure S6</strong></p> <p><strong>Title:</strong> Prediction of IDI values based on donor’s year of birth and the motivation for entry into collection</p> <p><strong>Description:</strong> Type I (for endangered breeds) is represented in purple and type III (for representative individuals of a breed over a period) is represented in orange.</p>
Data from: Genetic diversity of Chamaecrista fasciculata (Fabaceae) from the USDA germplasm collection
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Data from: Multi-objective optimization for plant germplasm collection conservation of genetic resources based on molecular variability
Germplasm collections play a significant role among strategies for conservation of diversity. It is common to select a core collection to represent the genetic diversity of a germplasm collection, in order to minimize the cost of conservation, while ensuring the maximization of genetic variation. We aimed to solve two main problems: (1) to select a set of individuals, from an in situ data set, that is genetically complementary to an existing germplasm collection, and (2) to define a core collection for a germplasm collection. We proposed a new multi-objective optimization (MOO) approach based on principles of systematic conservation planning (SCP) incorporating heterozygosity information; therefore, optimization takes genotypic diversity and variability patterns into account as well. As a case study, we used Dipteryx alata microsatellite loci information from two sources, an ex situ germplasm collection located at the Agronomy School of the Federal University of Goiás (UFG-AS), and an in situ data set composed of 642 sampled individual trees. We were able to identify within a population of several individuals, the exact accessions/samples that should be chosen in order to preserve the species diversity. We found that material from nine in situ individual trees are enough to complement the UFG-AS germplasm collection as it is, and that it is possible to define a core collection of 20 individual trees representing all studied genetic diversity. Moreover, we defined a method (a protocol) to deal with large amounts of accessions in the context of MOO. The proposed approach can be used to help constructing collections with maximal allelic richness and can also be extended to the in situ conservation. As far as we know, this is the first time that principles of SCP and the MOO approach are applied to the problem of complementing a germplasm collection and of finding a core collection for a germplasm collection.
Data from: Molecular characterization and population structure of the macaw palm, Acrocomia aculeata (Arecaceae), ex situ germplasm collection using microsatellites markers
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Data from: Multi-objective optimization for plant germplasm collection conservation of genetic resources based on molecular variability
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Strategies for the utilization of USDA mungbean germplasm collection for breeding outcomes
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Data from: High-throughput genotyping for species identification and diversity assessment in germplasm collections
Germplasm collections provide an extremely valuable resource for breeders and researchers. However, misclassification of accessions by species often hinders the effective use of these collections. We propose that use of high-throughput genotyping tools can provide a fast, efficient and cost-effective way of confirming species in germplasm collections, as well as providing valuable genetic diversity data. We genotyped 180 Brassicaceae samples sourced from the Australian Grains Genebank across the recently released Illumina Infinium Brassica 60K SNP array. Of these, 76 were provided on the basis of suspected misclassification and another 104 were sourced independently from the germplasm collection. Presence of the A- and C-genomes combined with principle components analysis clearly separated Brassica rapa, B. oleracea, B. napus, B. carinata and B. juncea samples into distinct species groups. Several lines were further validated using chromosome counts. Overall, 18% of samples (32/180) were misclassified on the basis of species. Within these 180 samples, 23/76 (30%) supplied on the basis of suspected misclassification were misclassified, and 9/105 (9%) of the samples randomly sourced from the Australian Grains Genebank were misclassified. Surprisingly, several individuals were also found to be the product of interspecific hybridization events. The SNP (single nucleotide polymorphism) array proved effective at confirming species, and provided useful information related to genetic diversity. As similar genomic resources become available for different crops, high-throughput molecular genotyping will offer an efficient and cost-effective method to screen germplasm collections worldwide, facilitating more effective use of these valuable resources by breeders and researchers.
Data and scripts for "Assessing the potential of germplasm collections for the management of genetic diversity: the case of the French National Cryobank"
<p>Data and scripts for the article entitled "Assessing the potential of germplasm collections for the management of genetic diversity: the case of the French National Cryobank".</p> <p>Data_Arbre_rpart_FINAL.csv is the data file containing informations from the French National Cryobank (<a href="https://www.cryobanque.org/">https://www.cryobanque.org/</a>). <br> The other files are the scripts for the different analysis presented in the article.</p>
Data from: High-throughput genotyping for species identification and diversity assessment in germplasm collections
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