A reference genome for pea provides insight into legume genome evolution

Jonathan Kreplak; Mohammed Amin Madoui; Petr Cápal; Petr Novák; Karine Labadie; Grégoire Aubert; Philipp E. Bayer; Krishna K. Gali; Robert A. Syme; Dorrie Main; Anthony Klein; Aurélie Bérard; Iva Vrbová; Cyril Fournier; Leo d’Agata; Caroline Belser; Wahiba Berrabah; Helena Toegelová; Zbyněk Milec; Jan Vrána; Huey Tyng Lee; Ayité Kougbeadjo; Morgane Térézol; Cécile Huneau; Chala J. Turo; Nacer Mohellibi; Pavel Neumann; Matthieu Falque; Karine Gallardo; Rebecca McGee; Bunyamin Tar’an; Abdelhafid Bendahmane; Jean Marc Aury; Jacqueline Batley; Marie Christine Le Paslier; Noel Ellis; Thomas D. Warkentin; Clarice J. Coyne; Jérome Salse; David Edwards; Judith Lichtenzveig; Jiří Macas; Jaroslav Doležel; Patrick Wincker; Judith Burstin

doi:10.1038/s41588-019-0480-1

A reference genome for pea provides insight into legume genome evolution

Jonathan Kreplak, Mohammed Amin Madoui, Petr Cápal, Petr Novák, Karine Labadie, Grégoire Aubert, Philipp E. Bayer, Krishna K. Gali, Robert A. Syme, Dorrie Main, Anthony Klein, Aurélie Bérard, Iva Vrbová, Cyril Fournier, Leo d’Agata, Caroline Belser, Wahiba Berrabah, Helena Toegelová, Zbyněk Milec, Jan VránaHuey Tyng Lee, Ayité Kougbeadjo, Morgane Térézol, Cécile Huneau, Chala J. Turo, Nacer Mohellibi, Pavel Neumann, Matthieu Falque, Karine Gallardo, Rebecca McGee, Bunyamin Tar’an, Abdelhafid Bendahmane, Jean Marc Aury, Jacqueline Batley, Marie Christine Le Paslier, Noel Ellis, Thomas D. Warkentin, Clarice J. Coyne, Jérome Salse, David Edwards, Judith Lichtenzveig, Jiří Macas, Jaroslav Doležel, Patrick Wincker, Judith Burstin

Research output: Contribution to journal › Article › peer-review

351 Citations (Scopus)

Abstract

We report the first annotated chromosome-level reference genome assembly for pea, Gregor Mendel’s original genetic model. Phylogenetics and paleogenomics show genomic rearrangements across legumes and suggest a major role for repetitive elements in pea genome evolution. Compared to other sequenced Leguminosae genomes, the pea genome shows intense gene dynamics, most likely associated with genome size expansion when the Fabeae diverged from its sister tribes. During Pisum evolution, translocation and transposition differentially occurred across lineages. This reference sequence will accelerate our understanding of the molecular basis of agronomically important traits and support crop improvement.

Original language	English
Pages (from-to)	1411-1422
Number of pages	12
Journal	Nature Genetics
Volume	51
Issue number	9
DOIs	https://doi.org/10.1038/s41588-019-0480-1
Publication status	Published - 2 Sept 2019

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Kreplak, J., Madoui, M. A., Cápal, P., Novák, P., Labadie, K., Aubert, G., Bayer, P. E., Gali, K. K., Syme, R. A., Main, D., Klein, A., Bérard, A., Vrbová, I., Fournier, C., d’Agata, L., Belser, C., Berrabah, W., Toegelová, H., Milec, Z., ... Burstin, J. (2019). A reference genome for pea provides insight into legume genome evolution. Nature Genetics, 51(9), 1411-1422. https://doi.org/10.1038/s41588-019-0480-1

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title = "A reference genome for pea provides insight into legume genome evolution",

abstract = "We report the first annotated chromosome-level reference genome assembly for pea, Gregor Mendel{\textquoteright}s original genetic model. Phylogenetics and paleogenomics show genomic rearrangements across legumes and suggest a major role for repetitive elements in pea genome evolution. Compared to other sequenced Leguminosae genomes, the pea genome shows intense gene dynamics, most likely associated with genome size expansion when the Fabeae diverged from its sister tribes. During Pisum evolution, translocation and transposition differentially occurred across lineages. This reference sequence will accelerate our understanding of the molecular basis of agronomically important traits and support crop improvement.",

author = "Jonathan Kreplak and Madoui, {Mohammed Amin} and Petr C{\'a}pal and Petr Nov{\'a}k and Karine Labadie and Gr{\'e}goire Aubert and Bayer, {Philipp E.} and Gali, {Krishna K.} and Syme, {Robert A.} and Dorrie Main and Anthony Klein and Aur{\'e}lie B{\'e}rard and Iva Vrbov{\'a} and Cyril Fournier and Leo d{\textquoteright}Agata and Caroline Belser and Wahiba Berrabah and Helena Toegelov{\'a} and Zbyn{\v e}k Milec and Jan Vr{\'a}na and Lee, {Huey Tyng} and Ayit{\'e} Kougbeadjo and Morgane T{\'e}r{\'e}zol and C{\'e}cile Huneau and Turo, {Chala J.} and Nacer Mohellibi and Pavel Neumann and Matthieu Falque and Karine Gallardo and Rebecca McGee and Bunyamin Tar{\textquoteright}an and Abdelhafid Bendahmane and Aury, {Jean Marc} and Jacqueline Batley and {Le Paslier}, {Marie Christine} and Noel Ellis and Warkentin, {Thomas D.} and Coyne, {Clarice J.} and J{\'e}rome Salse and David Edwards and Judith Lichtenzveig and Ji{\v r}{\'i} Macas and Jaroslav Dole{\v z}el and Patrick Wincker and Judith Burstin",

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Kreplak, J, Madoui, MA, Cápal, P, Novák, P, Labadie, K, Aubert, G, Bayer, PE, Gali, KK, Syme, RA, Main, D, Klein, A, Bérard, A, Vrbová, I, Fournier, C, d’Agata, L, Belser, C, Berrabah, W, Toegelová, H, Milec, Z, Vrána, J, Lee, HT, Kougbeadjo, A, Térézol, M, Huneau, C, Turo, CJ, Mohellibi, N, Neumann, P, Falque, M, Gallardo, K, McGee, R, Tar’an, B, Bendahmane, A, Aury, JM, Batley, J, Le Paslier, MC, Ellis, N, Warkentin, TD, Coyne, CJ, Salse, J, Edwards, D , Lichtenzveig, J, Macas, J, Doležel, J, Wincker, P & Burstin, J 2019, 'A reference genome for pea provides insight into legume genome evolution', Nature Genetics, vol. 51, no. 9, pp. 1411-1422. https://doi.org/10.1038/s41588-019-0480-1

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AU - Kreplak, Jonathan

AU - Madoui, Mohammed Amin

AU - Cápal, Petr

AU - Novák, Petr

AU - Labadie, Karine

AU - Aubert, Grégoire

AU - Bayer, Philipp E.

AU - Gali, Krishna K.

AU - Syme, Robert A.

AU - Main, Dorrie

AU - Klein, Anthony

AU - Bérard, Aurélie

AU - Vrbová, Iva

AU - Fournier, Cyril

AU - d’Agata, Leo

AU - Belser, Caroline

AU - Berrabah, Wahiba

AU - Toegelová, Helena

AU - Milec, Zbyněk

AU - Vrána, Jan

AU - Lee, Huey Tyng

AU - Kougbeadjo, Ayité

AU - Térézol, Morgane

AU - Huneau, Cécile

AU - Turo, Chala J.

AU - Mohellibi, Nacer

AU - Neumann, Pavel

AU - Falque, Matthieu

AU - Gallardo, Karine

AU - McGee, Rebecca

AU - Tar’an, Bunyamin

AU - Bendahmane, Abdelhafid

AU - Aury, Jean Marc

AU - Batley, Jacqueline

AU - Le Paslier, Marie Christine

AU - Ellis, Noel

AU - Warkentin, Thomas D.

AU - Coyne, Clarice J.

AU - Salse, Jérome

AU - Edwards, David

AU - Lichtenzveig, Judith

AU - Macas, Jiří

AU - Doležel, Jaroslav

AU - Wincker, Patrick

AU - Burstin, Judith

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AB - We report the first annotated chromosome-level reference genome assembly for pea, Gregor Mendel’s original genetic model. Phylogenetics and paleogenomics show genomic rearrangements across legumes and suggest a major role for repetitive elements in pea genome evolution. Compared to other sequenced Leguminosae genomes, the pea genome shows intense gene dynamics, most likely associated with genome size expansion when the Fabeae diverged from its sister tribes. During Pisum evolution, translocation and transposition differentially occurred across lineages. This reference sequence will accelerate our understanding of the molecular basis of agronomically important traits and support crop improvement.

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A reference genome for pea provides insight into legume genome evolution

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Characterising structural variation in the canola genome

Defining the Brassica Pan-genome and Establishing Methods for Gene Conversion Based Crop Improvement

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A reference genome for pea provides insight into legume genome evolution

Abstract

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Characterising structural variation in the canola genome

Defining the Brassica Pan-genome and Establishing Methods for Gene Conversion Based Crop Improvement

Cite this