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Unraveling the Complex Hybrid Ancestry and Domestication History of Cultivated Strawberry

Cultivated strawberry (Fragaria × ananassa) is one of our youngest domesticates, originating in early eighteenth-century Europe from spontaneous hybrids between wild allo-octoploid species (Fragaria chiloensis and Fragaria virginiana). The improvement of horticultural traits by 300 years of breeding...

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Autores principales: Hardigan, Michael A, Lorant, Anne, Pincot, Dominique D A, Feldmann, Mitchell J, Famula, Randi A, Acharya, Charlotte B, Lee, Seonghee, Verma, Sujeet, Whitaker, Vance M, Bassil, Nahla, Zurn, Jason, Cole, Glenn S, Bird, Kevin, Edger, Patrick P, Knapp, Steven J
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8136507/
https://www.ncbi.nlm.nih.gov/pubmed/33507311
http://dx.doi.org/10.1093/molbev/msab024
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author Hardigan, Michael A
Lorant, Anne
Pincot, Dominique D A
Feldmann, Mitchell J
Famula, Randi A
Acharya, Charlotte B
Lee, Seonghee
Verma, Sujeet
Whitaker, Vance M
Bassil, Nahla
Zurn, Jason
Cole, Glenn S
Bird, Kevin
Edger, Patrick P
Knapp, Steven J
author_facet Hardigan, Michael A
Lorant, Anne
Pincot, Dominique D A
Feldmann, Mitchell J
Famula, Randi A
Acharya, Charlotte B
Lee, Seonghee
Verma, Sujeet
Whitaker, Vance M
Bassil, Nahla
Zurn, Jason
Cole, Glenn S
Bird, Kevin
Edger, Patrick P
Knapp, Steven J
author_sort Hardigan, Michael A
collection PubMed
description Cultivated strawberry (Fragaria × ananassa) is one of our youngest domesticates, originating in early eighteenth-century Europe from spontaneous hybrids between wild allo-octoploid species (Fragaria chiloensis and Fragaria virginiana). The improvement of horticultural traits by 300 years of breeding has enabled the global expansion of strawberry production. Here, we describe the genomic history of strawberry domestication from the earliest hybrids to modern cultivars. We observed a significant increase in heterozygosity among interspecific hybrids and a decrease in heterozygosity among domesticated descendants of those hybrids. Selective sweeps were found across the genome in early and modern phases of domestication—59–76% of the selectively swept genes originated in the three less dominant ancestral subgenomes. Contrary to the tenet that genetic diversity is limited in cultivated strawberry, we found that the octoploid species harbor massive allelic diversity and that F. × ananassa harbors as much allelic diversity as either wild founder. We identified 41.8 M subgenome-specific DNA variants among resequenced wild and domesticated individuals. Strikingly, 98% of common alleles and 73% of total alleles were shared between wild and domesticated populations. Moreover, genome-wide estimates of nucleotide diversity were virtually identical in F. chiloensis,F. virginiana, and F. × ananassa (π = 0.0059–0.0060). We found, however, that nucleotide diversity and heterozygosity were significantly lower in modern F. × ananassa populations that have experienced significant genetic gains and have produced numerous agriculturally important cultivars.
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spelling pubmed-81365072021-05-25 Unraveling the Complex Hybrid Ancestry and Domestication History of Cultivated Strawberry Hardigan, Michael A Lorant, Anne Pincot, Dominique D A Feldmann, Mitchell J Famula, Randi A Acharya, Charlotte B Lee, Seonghee Verma, Sujeet Whitaker, Vance M Bassil, Nahla Zurn, Jason Cole, Glenn S Bird, Kevin Edger, Patrick P Knapp, Steven J Mol Biol Evol Discoveries Cultivated strawberry (Fragaria × ananassa) is one of our youngest domesticates, originating in early eighteenth-century Europe from spontaneous hybrids between wild allo-octoploid species (Fragaria chiloensis and Fragaria virginiana). The improvement of horticultural traits by 300 years of breeding has enabled the global expansion of strawberry production. Here, we describe the genomic history of strawberry domestication from the earliest hybrids to modern cultivars. We observed a significant increase in heterozygosity among interspecific hybrids and a decrease in heterozygosity among domesticated descendants of those hybrids. Selective sweeps were found across the genome in early and modern phases of domestication—59–76% of the selectively swept genes originated in the three less dominant ancestral subgenomes. Contrary to the tenet that genetic diversity is limited in cultivated strawberry, we found that the octoploid species harbor massive allelic diversity and that F. × ananassa harbors as much allelic diversity as either wild founder. We identified 41.8 M subgenome-specific DNA variants among resequenced wild and domesticated individuals. Strikingly, 98% of common alleles and 73% of total alleles were shared between wild and domesticated populations. Moreover, genome-wide estimates of nucleotide diversity were virtually identical in F. chiloensis,F. virginiana, and F. × ananassa (π = 0.0059–0.0060). We found, however, that nucleotide diversity and heterozygosity were significantly lower in modern F. × ananassa populations that have experienced significant genetic gains and have produced numerous agriculturally important cultivars. Oxford University Press 2021-01-28 /pmc/articles/PMC8136507/ /pubmed/33507311 http://dx.doi.org/10.1093/molbev/msab024 Text en © The Author(s) 2021. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/ (https://creativecommons.org/licenses/by-nc/4.0/) ), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Discoveries
Hardigan, Michael A
Lorant, Anne
Pincot, Dominique D A
Feldmann, Mitchell J
Famula, Randi A
Acharya, Charlotte B
Lee, Seonghee
Verma, Sujeet
Whitaker, Vance M
Bassil, Nahla
Zurn, Jason
Cole, Glenn S
Bird, Kevin
Edger, Patrick P
Knapp, Steven J
Unraveling the Complex Hybrid Ancestry and Domestication History of Cultivated Strawberry
title Unraveling the Complex Hybrid Ancestry and Domestication History of Cultivated Strawberry
title_full Unraveling the Complex Hybrid Ancestry and Domestication History of Cultivated Strawberry
title_fullStr Unraveling the Complex Hybrid Ancestry and Domestication History of Cultivated Strawberry
title_full_unstemmed Unraveling the Complex Hybrid Ancestry and Domestication History of Cultivated Strawberry
title_short Unraveling the Complex Hybrid Ancestry and Domestication History of Cultivated Strawberry
title_sort unraveling the complex hybrid ancestry and domestication history of cultivated strawberry
topic Discoveries
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8136507/
https://www.ncbi.nlm.nih.gov/pubmed/33507311
http://dx.doi.org/10.1093/molbev/msab024
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