Sequencing wild and cultivated cassava and related species reveals extensive interspecific hybridization and genetic diversity
Cassava (Manihot esculenta) provides calories and nutrition for more than half a billion people. It was domesticated by native Amazonian peoples through cultivation of the wild progenitor M. esculenta ssp. flabellifolia and is now grown in tropical regions worldwide. Here we provide a high-quality genome assembly for cassava with improved contiguity, linkage, and completeness; almost 97% of genes are anchored to chromosomes. We find that paleotetraploidy in cassava is shared with the related rubber tree Hevea, providing a resource for comparative studies. We also sequence a global collection of 58 Manihot accessions, including cultivated and wild cassava accessions and related species such as Ceará or India rubber (M. glaziovii), and genotype 268 African cassava varieties. We find widespread interspecific admixture, and detect the genetic signature of past cassava breeding programs. As a clonally propagated crop, cassava is especially vulnerable to pathogens and abiotic stresses. This genomic resource will inform future genome-enabled breeding efforts to improve this staple crop.
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dig-cirad-fr-5803162024-01-28T23:27:04Z http://agritrop.cirad.fr/580316/ http://agritrop.cirad.fr/580316/ Sequencing wild and cultivated cassava and related species reveals extensive interspecific hybridization and genetic diversity. Bredeson Jessen V., Lyons Jessica B., Prochnik Simon, Wu Guohong Albert, Ha Cindy M., Edsinger-Gonzales Eric, Grimwood Jane, Schmutz Jeremy, Rabbi Ismail Y., Egesi Chiedozie, Nauluvula Poasa, Lebot Vincent, Ndunguru Joseph, Mkamilo Geoffrey, Bart Rebecca, Setter Tim, Gleadow Roslyn M., Kulakow Peter, Ferguson Morag E., Rounsley Steve, Rokhsar Daniel S.. 2016. Nature Biotechnology, 34 (5) : 562-570.https://doi.org/10.1038/nbt.3535 <https://doi.org/10.1038/nbt.3535> Sequencing wild and cultivated cassava and related species reveals extensive interspecific hybridization and genetic diversity Bredeson, Jessen V. Lyons, Jessica B. Prochnik, Simon Wu, Guohong Albert Ha, Cindy M. Edsinger-Gonzales, Eric Grimwood, Jane Schmutz, Jeremy Rabbi, Ismail Y. Egesi, Chiedozie Nauluvula, Poasa Lebot, Vincent Ndunguru, Joseph Mkamilo, Geoffrey Bart, Rebecca Setter, Tim Gleadow, Roslyn M. Kulakow, Peter Ferguson, Morag E. Rounsley, Steve Rokhsar, Daniel S. eng 2016 Nature Biotechnology F30 - Génétique et amélioration des plantes F70 - Taxonomie végétale et phytogéographie Manihot esculenta Manihot glaziovii variation génétique hybridation interspécifique séquence d'adn génome plante de culture plante sauvage variété indigène variété tétraploïdie amélioration des plantes http://aims.fao.org/aos/agrovoc/c_4579 http://aims.fao.org/aos/agrovoc/c_4580 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_26794 http://aims.fao.org/aos/agrovoc/c_27812 http://aims.fao.org/aos/agrovoc/c_3224 http://aims.fao.org/aos/agrovoc/c_1972 http://aims.fao.org/aos/agrovoc/c_24126 http://aims.fao.org/aos/agrovoc/c_32886 http://aims.fao.org/aos/agrovoc/c_8157 http://aims.fao.org/aos/agrovoc/c_7690 http://aims.fao.org/aos/agrovoc/c_5956 Brésil Colombie Ouganda Kenya Nigéria République-Unie de Tanzanie Afrique occidentale Vanuatu Fidji Thaïlande Chine Australie http://aims.fao.org/aos/agrovoc/c_1070 http://aims.fao.org/aos/agrovoc/c_1767 http://aims.fao.org/aos/agrovoc/c_8038 http://aims.fao.org/aos/agrovoc/c_4086 http://aims.fao.org/aos/agrovoc/c_5182 http://aims.fao.org/aos/agrovoc/c_7608 http://aims.fao.org/aos/agrovoc/c_8355 http://aims.fao.org/aos/agrovoc/c_5159 http://aims.fao.org/aos/agrovoc/c_2895 http://aims.fao.org/aos/agrovoc/c_7701 http://aims.fao.org/aos/agrovoc/c_1556 http://aims.fao.org/aos/agrovoc/c_714 Cassava (Manihot esculenta) provides calories and nutrition for more than half a billion people. It was domesticated by native Amazonian peoples through cultivation of the wild progenitor M. esculenta ssp. flabellifolia and is now grown in tropical regions worldwide. Here we provide a high-quality genome assembly for cassava with improved contiguity, linkage, and completeness; almost 97% of genes are anchored to chromosomes. We find that paleotetraploidy in cassava is shared with the related rubber tree Hevea, providing a resource for comparative studies. We also sequence a global collection of 58 Manihot accessions, including cultivated and wild cassava accessions and related species such as Ceará or India rubber (M. glaziovii), and genotype 268 African cassava varieties. We find widespread interspecific admixture, and detect the genetic signature of past cassava breeding programs. As a clonally propagated crop, cassava is especially vulnerable to pathogens and abiotic stresses. This genomic resource will inform future genome-enabled breeding efforts to improve this staple crop. article info:eu-repo/semantics/article Journal Article info:eu-repo/semantics/publishedVersion http://agritrop.cirad.fr/580316/7/nbt.3535.pdf text Cirad license info:eu-repo/semantics/openAccess https://agritrop.cirad.fr/mention_legale.html https://doi.org/10.1038/nbt.3535 10.1038/nbt.3535 info:eu-repo/semantics/altIdentifier/doi/10.1038/nbt.3535 info:eu-repo/semantics/altIdentifier/purl/https://doi.org/10.1038/nbt.3535 |
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F30 - Génétique et amélioration des plantes F70 - Taxonomie végétale et phytogéographie Manihot esculenta Manihot glaziovii variation génétique hybridation interspécifique séquence d'adn génome plante de culture plante sauvage variété indigène variété tétraploïdie amélioration des plantes http://aims.fao.org/aos/agrovoc/c_4579 http://aims.fao.org/aos/agrovoc/c_4580 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_26794 http://aims.fao.org/aos/agrovoc/c_27812 http://aims.fao.org/aos/agrovoc/c_3224 http://aims.fao.org/aos/agrovoc/c_1972 http://aims.fao.org/aos/agrovoc/c_24126 http://aims.fao.org/aos/agrovoc/c_32886 http://aims.fao.org/aos/agrovoc/c_8157 http://aims.fao.org/aos/agrovoc/c_7690 http://aims.fao.org/aos/agrovoc/c_5956 http://aims.fao.org/aos/agrovoc/c_1070 http://aims.fao.org/aos/agrovoc/c_1767 http://aims.fao.org/aos/agrovoc/c_8038 http://aims.fao.org/aos/agrovoc/c_4086 http://aims.fao.org/aos/agrovoc/c_5182 http://aims.fao.org/aos/agrovoc/c_7608 http://aims.fao.org/aos/agrovoc/c_8355 http://aims.fao.org/aos/agrovoc/c_5159 http://aims.fao.org/aos/agrovoc/c_2895 http://aims.fao.org/aos/agrovoc/c_7701 http://aims.fao.org/aos/agrovoc/c_1556 http://aims.fao.org/aos/agrovoc/c_714 F30 - Génétique et amélioration des plantes F70 - Taxonomie végétale et phytogéographie Manihot esculenta Manihot glaziovii variation génétique hybridation interspécifique séquence d'adn génome plante de culture plante sauvage variété indigène variété tétraploïdie amélioration des plantes http://aims.fao.org/aos/agrovoc/c_4579 http://aims.fao.org/aos/agrovoc/c_4580 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_26794 http://aims.fao.org/aos/agrovoc/c_27812 http://aims.fao.org/aos/agrovoc/c_3224 http://aims.fao.org/aos/agrovoc/c_1972 http://aims.fao.org/aos/agrovoc/c_24126 http://aims.fao.org/aos/agrovoc/c_32886 http://aims.fao.org/aos/agrovoc/c_8157 http://aims.fao.org/aos/agrovoc/c_7690 http://aims.fao.org/aos/agrovoc/c_5956 http://aims.fao.org/aos/agrovoc/c_1070 http://aims.fao.org/aos/agrovoc/c_1767 http://aims.fao.org/aos/agrovoc/c_8038 http://aims.fao.org/aos/agrovoc/c_4086 http://aims.fao.org/aos/agrovoc/c_5182 http://aims.fao.org/aos/agrovoc/c_7608 http://aims.fao.org/aos/agrovoc/c_8355 http://aims.fao.org/aos/agrovoc/c_5159 http://aims.fao.org/aos/agrovoc/c_2895 http://aims.fao.org/aos/agrovoc/c_7701 http://aims.fao.org/aos/agrovoc/c_1556 http://aims.fao.org/aos/agrovoc/c_714 |
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F30 - Génétique et amélioration des plantes F70 - Taxonomie végétale et phytogéographie Manihot esculenta Manihot glaziovii variation génétique hybridation interspécifique séquence d'adn génome plante de culture plante sauvage variété indigène variété tétraploïdie amélioration des plantes http://aims.fao.org/aos/agrovoc/c_4579 http://aims.fao.org/aos/agrovoc/c_4580 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_26794 http://aims.fao.org/aos/agrovoc/c_27812 http://aims.fao.org/aos/agrovoc/c_3224 http://aims.fao.org/aos/agrovoc/c_1972 http://aims.fao.org/aos/agrovoc/c_24126 http://aims.fao.org/aos/agrovoc/c_32886 http://aims.fao.org/aos/agrovoc/c_8157 http://aims.fao.org/aos/agrovoc/c_7690 http://aims.fao.org/aos/agrovoc/c_5956 http://aims.fao.org/aos/agrovoc/c_1070 http://aims.fao.org/aos/agrovoc/c_1767 http://aims.fao.org/aos/agrovoc/c_8038 http://aims.fao.org/aos/agrovoc/c_4086 http://aims.fao.org/aos/agrovoc/c_5182 http://aims.fao.org/aos/agrovoc/c_7608 http://aims.fao.org/aos/agrovoc/c_8355 http://aims.fao.org/aos/agrovoc/c_5159 http://aims.fao.org/aos/agrovoc/c_2895 http://aims.fao.org/aos/agrovoc/c_7701 http://aims.fao.org/aos/agrovoc/c_1556 http://aims.fao.org/aos/agrovoc/c_714 F30 - Génétique et amélioration des plantes F70 - Taxonomie végétale et phytogéographie Manihot esculenta Manihot glaziovii variation génétique hybridation interspécifique séquence d'adn génome plante de culture plante sauvage variété indigène variété tétraploïdie amélioration des plantes http://aims.fao.org/aos/agrovoc/c_4579 http://aims.fao.org/aos/agrovoc/c_4580 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_26794 http://aims.fao.org/aos/agrovoc/c_27812 http://aims.fao.org/aos/agrovoc/c_3224 http://aims.fao.org/aos/agrovoc/c_1972 http://aims.fao.org/aos/agrovoc/c_24126 http://aims.fao.org/aos/agrovoc/c_32886 http://aims.fao.org/aos/agrovoc/c_8157 http://aims.fao.org/aos/agrovoc/c_7690 http://aims.fao.org/aos/agrovoc/c_5956 http://aims.fao.org/aos/agrovoc/c_1070 http://aims.fao.org/aos/agrovoc/c_1767 http://aims.fao.org/aos/agrovoc/c_8038 http://aims.fao.org/aos/agrovoc/c_4086 http://aims.fao.org/aos/agrovoc/c_5182 http://aims.fao.org/aos/agrovoc/c_7608 http://aims.fao.org/aos/agrovoc/c_8355 http://aims.fao.org/aos/agrovoc/c_5159 http://aims.fao.org/aos/agrovoc/c_2895 http://aims.fao.org/aos/agrovoc/c_7701 http://aims.fao.org/aos/agrovoc/c_1556 http://aims.fao.org/aos/agrovoc/c_714 Bredeson, Jessen V. Lyons, Jessica B. Prochnik, Simon Wu, Guohong Albert Ha, Cindy M. Edsinger-Gonzales, Eric Grimwood, Jane Schmutz, Jeremy Rabbi, Ismail Y. Egesi, Chiedozie Nauluvula, Poasa Lebot, Vincent Ndunguru, Joseph Mkamilo, Geoffrey Bart, Rebecca Setter, Tim Gleadow, Roslyn M. Kulakow, Peter Ferguson, Morag E. Rounsley, Steve Rokhsar, Daniel S. Sequencing wild and cultivated cassava and related species reveals extensive interspecific hybridization and genetic diversity |
description |
Cassava (Manihot esculenta) provides calories and nutrition for more than half a billion people. It was domesticated by native Amazonian peoples through cultivation of the wild progenitor M. esculenta ssp. flabellifolia and is now grown in tropical regions worldwide. Here we provide a high-quality genome assembly for cassava with improved contiguity, linkage, and completeness; almost 97% of genes are anchored to chromosomes. We find that paleotetraploidy in cassava is shared with the related rubber tree Hevea, providing a resource for comparative studies. We also sequence a global collection of 58 Manihot accessions, including cultivated and wild cassava accessions and related species such as Ceará or India rubber (M. glaziovii), and genotype 268 African cassava varieties. We find widespread interspecific admixture, and detect the genetic signature of past cassava breeding programs. As a clonally propagated crop, cassava is especially vulnerable to pathogens and abiotic stresses. This genomic resource will inform future genome-enabled breeding efforts to improve this staple crop. |
format |
article |
topic_facet |
F30 - Génétique et amélioration des plantes F70 - Taxonomie végétale et phytogéographie Manihot esculenta Manihot glaziovii variation génétique hybridation interspécifique séquence d'adn génome plante de culture plante sauvage variété indigène variété tétraploïdie amélioration des plantes http://aims.fao.org/aos/agrovoc/c_4579 http://aims.fao.org/aos/agrovoc/c_4580 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_26794 http://aims.fao.org/aos/agrovoc/c_27812 http://aims.fao.org/aos/agrovoc/c_3224 http://aims.fao.org/aos/agrovoc/c_1972 http://aims.fao.org/aos/agrovoc/c_24126 http://aims.fao.org/aos/agrovoc/c_32886 http://aims.fao.org/aos/agrovoc/c_8157 http://aims.fao.org/aos/agrovoc/c_7690 http://aims.fao.org/aos/agrovoc/c_5956 http://aims.fao.org/aos/agrovoc/c_1070 http://aims.fao.org/aos/agrovoc/c_1767 http://aims.fao.org/aos/agrovoc/c_8038 http://aims.fao.org/aos/agrovoc/c_4086 http://aims.fao.org/aos/agrovoc/c_5182 http://aims.fao.org/aos/agrovoc/c_7608 http://aims.fao.org/aos/agrovoc/c_8355 http://aims.fao.org/aos/agrovoc/c_5159 http://aims.fao.org/aos/agrovoc/c_2895 http://aims.fao.org/aos/agrovoc/c_7701 http://aims.fao.org/aos/agrovoc/c_1556 http://aims.fao.org/aos/agrovoc/c_714 |
author |
Bredeson, Jessen V. Lyons, Jessica B. Prochnik, Simon Wu, Guohong Albert Ha, Cindy M. Edsinger-Gonzales, Eric Grimwood, Jane Schmutz, Jeremy Rabbi, Ismail Y. Egesi, Chiedozie Nauluvula, Poasa Lebot, Vincent Ndunguru, Joseph Mkamilo, Geoffrey Bart, Rebecca Setter, Tim Gleadow, Roslyn M. Kulakow, Peter Ferguson, Morag E. Rounsley, Steve Rokhsar, Daniel S. |
author_facet |
Bredeson, Jessen V. Lyons, Jessica B. Prochnik, Simon Wu, Guohong Albert Ha, Cindy M. Edsinger-Gonzales, Eric Grimwood, Jane Schmutz, Jeremy Rabbi, Ismail Y. Egesi, Chiedozie Nauluvula, Poasa Lebot, Vincent Ndunguru, Joseph Mkamilo, Geoffrey Bart, Rebecca Setter, Tim Gleadow, Roslyn M. Kulakow, Peter Ferguson, Morag E. Rounsley, Steve Rokhsar, Daniel S. |
author_sort |
Bredeson, Jessen V. |
title |
Sequencing wild and cultivated cassava and related species reveals extensive interspecific hybridization and genetic diversity |
title_short |
Sequencing wild and cultivated cassava and related species reveals extensive interspecific hybridization and genetic diversity |
title_full |
Sequencing wild and cultivated cassava and related species reveals extensive interspecific hybridization and genetic diversity |
title_fullStr |
Sequencing wild and cultivated cassava and related species reveals extensive interspecific hybridization and genetic diversity |
title_full_unstemmed |
Sequencing wild and cultivated cassava and related species reveals extensive interspecific hybridization and genetic diversity |
title_sort |
sequencing wild and cultivated cassava and related species reveals extensive interspecific hybridization and genetic diversity |
url |
http://agritrop.cirad.fr/580316/ http://agritrop.cirad.fr/580316/7/nbt.3535.pdf |
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