Whole-Genome Analysis of Diversity and SNP-Major Gene Association in Peach Germplasm
Publication Date
September 09, 2015
Journal
PLOS ONE
Authors
Diego Micheletti, Maria Teresa Dettori, Sabrina Micali, Valeria Aramini, et al
Volume
10
Issue
9
Pages
e0136803
DOI
https://dx.plos.org/10.1371/journal.pone.0136803
Publisher URL
http://journals.plos.org/plosone/article?id=10.1371%2Fjournal.pone.0136803
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/26352671
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4564248
Europe PMC
http://europepmc.org/abstract/MED/26352671
Web of Science
000360932800049
Scopus
84944753710
Mendeley
http://www.mendeley.com/research/wholegenome-analysis-diversity-snpmajor-gene-association-peach-germplasm
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Mendeley | Further Information

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Figshare

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  • {"files"=>["https://ndownloader.figshare.com/files/2256693"], "description"=>"<p>Colors indicate the assignment into populations obtained by STRUCTURE analysis at K = 3. Blue: Occidental/Breeding (P1OC<sub>B</sub>); Green: Occidental/Traditional (P2OC<sub>T</sub>); Red: Oriental (P3OR); Gray: Admixture (ADM). Accession names have been replaced by numbers; correspondence between number and accession is provided in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0136803#pone.0136803.s007\" target=\"_blank\">S1 Table</a>.</p>", "links"=>[], "tags"=>["germplasm collections", "population structure", "mas", "linkage analysis", "GWAS", "POP 3OR Analysis", "Occidental varieties", "variability", "Oriental accessions", "POP 2OCT", "haplotype", "Occidental landraces", "program", "POP 1OCB", "International Peach SNP Consortium 9 K SNP peach array", "phenotypic data", "Prunus species", "ld", "variety", "Peach Germplasm Peach", "Gene pool", "monogenic traits", "Linkage disequilibrium"], "article_id"=>1538412, "categories"=>["Uncategorised"], "users"=>["Diego Micheletti", "Maria Teresa Dettori", "Sabrina Micali", "Valeria Aramini", "Igor Pacheco", "Cassia Da Silva Linge", "Stefano Foschi", "Elisa Banchi", "Teresa Barreneche", "Bénédicte Quilot-Turion", "Patrick Lambert", "Thierry Pascal", "Ignasi Iglesias", "Joaquim Carbó", "Li-rong Wang", "Rui-juan Ma", "Xiong-wei Li", "Zhong-shan Gao", "Nelson Nazzicari", "Michela Troggio", "Daniele Bassi", "Laura Rossini", "Ignazio Verde", "François Laurens", "Pere Arús", "Maria José Aranzana"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0136803.g001", "stats"=>{"downloads"=>3, "page_views"=>17, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_UPGMA_tree_for_the_1_240_accessions_/1538412", "title"=>"UPGMA tree for the 1,240 accessions.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-09-09 04:31:28"}
  • {"files"=>["https://ndownloader.figshare.com/files/2256698"], "description"=>"<p>Each Manhattan plot represents one phenotypic trait. Chromosomes are marked with a different color on the horizontal axis. The horizontal green line represents the significance threshold for the association of each character.</p>", "links"=>[], "tags"=>["germplasm collections", "population structure", "mas", "linkage analysis", "GWAS", "POP 3OR Analysis", "Occidental varieties", "variability", "Oriental accessions", "POP 2OCT", "haplotype", "Occidental landraces", "program", "POP 1OCB", "International Peach SNP Consortium 9 K SNP peach array", "phenotypic data", "Prunus species", "ld", "variety", "Peach Germplasm Peach", "Gene pool", "monogenic traits", "Linkage disequilibrium"], "article_id"=>1538417, "categories"=>["Uncategorised"], "users"=>["Diego Micheletti", "Maria Teresa Dettori", "Sabrina Micali", "Valeria Aramini", "Igor Pacheco", "Cassia Da Silva Linge", "Stefano Foschi", "Elisa Banchi", "Teresa Barreneche", "Bénédicte Quilot-Turion", "Patrick Lambert", "Thierry Pascal", "Ignasi Iglesias", "Joaquim Carbó", "Li-rong Wang", "Rui-juan Ma", "Xiong-wei Li", "Zhong-shan Gao", "Nelson Nazzicari", "Michela Troggio", "Daniele Bassi", "Laura Rossini", "Ignazio Verde", "François Laurens", "Pere Arús", "Maria José Aranzana"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0136803.g004", "stats"=>{"downloads"=>2, "page_views"=>14, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Genome_wide_association_results_for_seven_qualitatively_inherited_characters_in_peach_/1538417", "title"=>"Genome wide association results for seven qualitatively inherited characters in peach.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-09-09 04:31:28"}
  • {"files"=>["https://ndownloader.figshare.com/files/2256696"], "description"=>"<p>The LD (r²) was calculated for each intra-chromosomal pair of SNPs (red) and for all the inter-chromosomal (green) pairs of SNPs. The blue dotted line indicates the polynomial fitting of the intra-chromosomal comparisons and the average inter-chromosomal comparisons.</p>", "links"=>[], "tags"=>["germplasm collections", "population structure", "mas", "linkage analysis", "GWAS", "POP 3OR Analysis", "Occidental varieties", "variability", "Oriental accessions", "POP 2OCT", "haplotype", "Occidental landraces", "program", "POP 1OCB", "International Peach SNP Consortium 9 K SNP peach array", "phenotypic data", "Prunus species", "ld", "variety", "Peach Germplasm Peach", "Gene pool", "monogenic traits", "Linkage disequilibrium"], "article_id"=>1538415, "categories"=>["Uncategorised"], "users"=>["Diego Micheletti", "Maria Teresa Dettori", "Sabrina Micali", "Valeria Aramini", "Igor Pacheco", "Cassia Da Silva Linge", "Stefano Foschi", "Elisa Banchi", "Teresa Barreneche", "Bénédicte Quilot-Turion", "Patrick Lambert", "Thierry Pascal", "Ignasi Iglesias", "Joaquim Carbó", "Li-rong Wang", "Rui-juan Ma", "Xiong-wei Li", "Zhong-shan Gao", "Nelson Nazzicari", "Michela Troggio", "Daniele Bassi", "Laura Rossini", "Ignazio Verde", "François Laurens", "Pere Arús", "Maria José Aranzana"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0136803.g003", "stats"=>{"downloads"=>3, "page_views"=>16, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Decay_of_linkage_disequilibrium_in_a_collection_of_1_240_peach_accessions_/1538415", "title"=>"Decay of linkage disequilibrium in a collection of 1,240 peach accessions.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-09-09 04:31:28"}
  • {"files"=>["https://ndownloader.figshare.com/files/2256695"], "description"=>"<p>Occidental and Oriental accessions are represented with blue and red colors, respectively. Black symbols indicate accessions with unknown origin.</p>", "links"=>[], "tags"=>["germplasm collections", "population structure", "mas", "linkage analysis", "GWAS", "POP 3OR Analysis", "Occidental varieties", "variability", "Oriental accessions", "POP 2OCT", "haplotype", "Occidental landraces", "program", "POP 1OCB", "International Peach SNP Consortium 9 K SNP peach array", "phenotypic data", "Prunus species", "ld", "variety", "Peach Germplasm Peach", "Gene pool", "monogenic traits", "Linkage disequilibrium"], "article_id"=>1538414, "categories"=>["Uncategorised"], "users"=>["Diego Micheletti", "Maria Teresa Dettori", "Sabrina Micali", "Valeria Aramini", "Igor Pacheco", "Cassia Da Silva Linge", "Stefano Foschi", "Elisa Banchi", "Teresa Barreneche", "Bénédicte Quilot-Turion", "Patrick Lambert", "Thierry Pascal", "Ignasi Iglesias", "Joaquim Carbó", "Li-rong Wang", "Rui-juan Ma", "Xiong-wei Li", "Zhong-shan Gao", "Nelson Nazzicari", "Michela Troggio", "Daniele Bassi", "Laura Rossini", "Ignazio Verde", "François Laurens", "Pere Arús", "Maria José Aranzana"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0136803.g002", "stats"=>{"downloads"=>2, "page_views"=>16, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Principal_component_analysis_of_the_4_271_positively_genotyped_SNPs_in_the_1_240_unique_peach_accessions_/1538414", "title"=>"Principal component analysis of the 4,271 positively genotyped SNPs in the 1,240 unique peach accessions.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-09-09 04:31:28"}
  • {"files"=>["https://ndownloader.figshare.com/files/2256699"], "description"=>"<p>Number of SNPs per class of the IPSC 9K array in a collection of 1,580 <i>Prunus</i> accessions.</p>", "links"=>[], "tags"=>["germplasm collections", "population structure", "mas", "linkage analysis", "GWAS", "POP 3OR Analysis", "Occidental varieties", "variability", "Oriental accessions", "POP 2OCT", "haplotype", "Occidental landraces", "program", "POP 1OCB", "International Peach SNP Consortium 9 K SNP peach array", "phenotypic data", "Prunus species", "ld", "variety", "Peach Germplasm Peach", "Gene pool", "monogenic traits", "Linkage disequilibrium"], "article_id"=>1538418, "categories"=>["Uncategorised"], "users"=>["Diego Micheletti", "Maria Teresa Dettori", "Sabrina Micali", "Valeria Aramini", "Igor Pacheco", "Cassia Da Silva Linge", "Stefano Foschi", "Elisa Banchi", "Teresa Barreneche", "Bénédicte Quilot-Turion", "Patrick Lambert", "Thierry Pascal", "Ignasi Iglesias", "Joaquim Carbó", "Li-rong Wang", "Rui-juan Ma", "Xiong-wei Li", "Zhong-shan Gao", "Nelson Nazzicari", "Michela Troggio", "Daniele Bassi", "Laura Rossini", "Ignazio Verde", "François Laurens", "Pere Arús", "Maria José Aranzana"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0136803.t001", "stats"=>{"downloads"=>0, "page_views"=>17, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Number_of_SNPs_per_class_of_the_IPSC_9K_array_in_a_collection_of_1_580_Prunus_accessions_/1538418", "title"=>"Number of SNPs per class of the IPSC 9K array in a collection of 1,580 <i>Prunus</i> accessions.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-09-09 04:31:28"}

PMC Usage Stats | Further Information

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  • {"unique-ip"=>"10", "full-text"=>"6", "pdf"=>"5", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"10"}
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  • {"unique-ip"=>"7", "full-text"=>"5", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"2"}
  • {"unique-ip"=>"9", "full-text"=>"9", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"3"}
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  • {"unique-ip"=>"7", "full-text"=>"3", "pdf"=>"3", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"3", "supp-data"=>"6", "cited-by"=>"0", "year"=>"2019", "month"=>"9"}
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  • {"unique-ip"=>"16", "full-text"=>"15", "pdf"=>"5", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"2", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"12"}
  • {"unique-ip"=>"11", "full-text"=>"12", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"2"}
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Relative Metric

{"start_date"=>"2015-01-01T00:00:00Z", "end_date"=>"2015-12-31T00:00:00Z", "subject_areas"=>[]}
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