| Title |
Use of modern tomato breeding germplasm for deciphering the genetic control of agronomical traits by Genome Wide Association study
|
|---|---|
| Published in |
Theoretical and Applied Genetics, February 2017
|
| DOI | 10.1007/s00122-017-2857-9 |
| Pubmed ID | |
| Authors |
Guillaume Bauchet, Stéphane Grenier, Nicolas Samson, Julien Bonnet, Laurent Grivet, Mathilde Causse |
| Abstract |
A panel of 300 tomato accessions including breeding materials was built and characterized with >11,000 SNP. A population structure in six subgroups was identified. Strong heterogeneity in linkage disequilibrium and recombination landscape among groups and chromosomes was shown. GWAS identified several associations for fruit weight, earliness and plant growth. Genome-wide association studies (GWAS) have become a method of choice in quantitative trait dissection. First limited to highly polymorphic and outcrossing species, it is now applied in horticultural crops, notably in tomato. Until now GWAS in tomato has been performed on panels of heirloom and wild accessions. Using modern breeding materials would be of direct interest for breeding purpose. To implement GWAS on a large panel of 300 tomato accessions including 168 breeding lines, this study assessed the genetic diversity and linkage disequilibrium decay and revealed the population structure and performed GWA experiment. Genetic diversity and population structure analyses were based on molecular markers (>11,000 SNP) covering the whole genome. Six genetic subgroups were revealed and associated to traits of agronomical interest, such as fruit weight and disease resistance. Estimates of linkage disequilibrium highlighted the heterogeneity of its decay among genetic subgroups. Haplotype definition allowed a fine characterization of the groups and their recombination landscape revealing the patterns of admixture along the genome. Selection footprints showed results in congruence with introgressions. Taken together, all these elements refined our knowledge of the genetic material included in this panel and allowed the identification of several associations for fruit weight, plant growth and earliness, deciphering the genetic architecture of these complex traits and identifying several new loci useful for tomato breeding. |
X Demographics
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Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United States | 8 | 15% |
| United Kingdom | 7 | 13% |
| Germany | 5 | 9% |
| Netherlands | 3 | 5% |
| Australia | 3 | 5% |
| France | 2 | 4% |
| India | 2 | 4% |
| Spain | 1 | 2% |
| Kuwait | 1 | 2% |
| Other | 4 | 7% |
| Unknown | 19 | 35% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Members of the public | 30 | 55% |
| Scientists | 23 | 42% |
| Practitioners (doctors, other healthcare professionals) | 1 | 2% |
| Science communicators (journalists, bloggers, editors) | 1 | 2% |
Mendeley readers
The data shown below were compiled from readership statistics for 101 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United States | 2 | 2% |
| Netherlands | 2 | 2% |
| United Kingdom | 1 | <1% |
| Norway | 1 | <1% |
| Unknown | 95 | 94% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Researcher | 27 | 27% |
| Student > Ph. D. Student | 18 | 18% |
| Student > Master | 13 | 13% |
| Student > Doctoral Student | 8 | 8% |
| Professor > Associate Professor | 4 | 4% |
| Other | 6 | 6% |
| Unknown | 25 | 25% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 61 | 60% |
| Biochemistry, Genetics and Molecular Biology | 6 | 6% |
| Medicine and Dentistry | 2 | 2% |
| Immunology and Microbiology | 1 | <1% |
| Business, Management and Accounting | 1 | <1% |
| Other | 0 | 0% |
| Unknown | 30 | 30% |
Attention Score in Context
This research output has an Altmetric Attention Score of 32. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 10 August 2017.
All research outputs
#1,192,431
of 24,701,594 outputs
Outputs from Theoretical and Applied Genetics
#38
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Outputs of similar age
#26,455
of 431,934 outputs
Outputs of similar age from Theoretical and Applied Genetics
#3
of 47 outputs
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