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The starting point for this project was the formation a small core collection (n = 102) of reference accessions contributed by each of the ten participating breeding programs, the CAP Core.
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In order to discover SNPs and analyze the distribution of polymorphisms in the tomato genome, we have re-sequenced the whole genomes of eight lines corresponding to the smallest core collection composed of four cherry-type and four cultivated accessions.
To "unlock" the genetic potential of these large collections, a general proposal is to construct smaller "core-collections", i.e. sub-samples of accessions chosen to represent the bulk of the genetic diversity contained in the larger collection.
Thus, it is desirable to select a small, highly diverse core collection.
Even the smallest nested core collections were more efficient in capturing allelic diversity than the M-core with its 141 accessions.
The Shannon's diversity index for the phenotypic descriptors decreased in the mini core, but the average drop from the core to the mini core collection was very small.
We also applied KeyPoint to investigate germplasm diversity in a small subset of the tomato EU-SOL core collection as a pilot project.
The resulting thematic core collection potentially reflects the maximum allele richness with the smallest sample size from a larger thematic collection.
Higher proportions of retained alleles (in a core collection of equal size) or similar proportions of retained alleles (in a core collection of smaller size) were detected in the two methods based on the M strategy compared to the proposed methodology.
There's a profitable core in there, but it might be a very small core.
By contrast, the Tate, whose core collection numbers just 65,437 works, lent 1,109 objects last year.
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CEO of Professional Science Editing for Scientists @ prosciediting.com