Whole-genome resequencing of 445 Lactuca accessions reveals the domestication history of cultivated lettuce

Tong Wei; Rob Van Treuren; Xinjiang Liu; Zhaowu Zhang; Jiongjiong Chen; Yang Liu; Shanshan Dong; Peinan Sun; Ting Yang; Tianming Lan; Xiaogang Wang; Zhouquan Xiong; Yaqiong Liu; Jinpu Wei; Haorong Lu; Shengping Han; Jason C. Chen; Xuemei Ni; Jian Wang; Huanming Yang; Xun Xu; Hanhui Kuang; Theo Van Hintum; Xin Liu; Huan Liu

doi:10.1038/s41588-021-00831-0

Whole-genome resequencing of 445 Lactuca accessions reveals the domestication history of cultivated lettuce

Tong Wei, Rob Van Treuren^*, Xinjiang Liu, Zhaowu Zhang, Jiongjiong Chen, Yang Liu, Shanshan Dong, Peinan Sun, Ting Yang, Tianming Lan, Xiaogang Wang, Zhouquan Xiong, Yaqiong Liu, Jinpu Wei, Haorong Lu, Shengping Han, Jason C. Chen, Xuemei Ni, Jian Wang, Huanming YangXun Xu, Hanhui Kuang, Theo Van Hintum, Xin Liu^*, Huan Liu^*

^*Corresponding author for this work

WOT CGN

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

99 Citations (Scopus)

Abstract

Lettuce (Lactuca sativa) is an important vegetable crop worldwide. Cultivated lettuce is believed to be domesticated from L. serriola; however, its origins and domestication history remain to be elucidated. Here, we sequenced a total of 445 Lactuca accessions, including major lettuce crop types and wild relative species, and generated a comprehensive map of lettuce genome variations. In-depth analyses of population structure and demography revealed that lettuce was first domesticated near the Caucasus, which was marked by loss of seed shattering. We also identified the genetic architecture of other domestication traits and wild introgressions in major resistance clusters in the lettuce genome. This study provides valuable genomic resources for crop breeding and sheds light on the domestication history of cultivated lettuce.

Original language	English
Pages (from-to)	752-760
Journal	Nature Genetics
Volume	53
Issue number	5
Early online date	12 Apr 2021
DOIs	https://doi.org/10.1038/s41588-021-00831-0
Publication status	Published - 2021

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10.1038/s41588-021-00831-0Licence: Other

Lactuca population sequencing
Wei, T. (Creator), Van Treuren, R. (Creator), Liu, X. (Creator), Zhang, Z. (Creator), Chen, J. (Creator), Liu, Y. (Creator), Dong, S. (Creator), Sun, P. (Creator), Yang, T. (Creator), Lan, T. (Creator), Wang, X. (Creator), Xiong, Z. (Creator), Liu, Y. (Creator), Wei, J. (Creator), Lu, H. (Creator), Han, S. (Creator), Chen, J. C. (Creator), Ni, X. (Creator), Wang, J. (Creator), Yang, H. (Creator), Xu, X. (Creator), Kuang, H. (Creator), Van Hintum, T. (Creator), Liu, X. (Creator) & Liu, H. (Creator), Beijing Genome Institute (BGI), 21 Jan 2021
https://www.ncbi.nlm.nih.gov/bioproject/693894
Dataset

From Weed to Vegetable: Study reveal Caucasian descent
van Treuren, R. & van Hintum, T.
31/12/21
1 Media contribution
Press/Media: Research › Professional

1 Finished
1 Active

Kennisbasis gewassen (KB-56-003-001, KB-34-013-001, KB-21-004-001, KB-12-005.03-003)
Wijnker, E. (Project Leader)
1/01/13 → 31/12/26
Project: LVVN project
Innovaties in gewascollectie management (WOT-03-002-065)
van Hintum, T. (Project Leader)
1/01/15 → 31/12/21
Project: LVVN project

Cite this

Wei, T., Van Treuren, R., Liu, X., Zhang, Z., Chen, J., Liu, Y., Dong, S., Sun, P., Yang, T., Lan, T., Wang, X., Xiong, Z., Liu, Y., Wei, J., Lu, H., Han, S., Chen, J. C., Ni, X., Wang, J., ... Liu, H. (2021). Whole-genome resequencing of 445 Lactuca accessions reveals the domestication history of cultivated lettuce. Nature Genetics, 53(5), 752-760. https://doi.org/10.1038/s41588-021-00831-0

@article{aaad931d389042faa43b647332b89481,

title = "Whole-genome resequencing of 445 Lactuca accessions reveals the domestication history of cultivated lettuce",

abstract = "Lettuce (Lactuca sativa) is an important vegetable crop worldwide. Cultivated lettuce is believed to be domesticated from L. serriola; however, its origins and domestication history remain to be elucidated. Here, we sequenced a total of 445 Lactuca accessions, including major lettuce crop types and wild relative species, and generated a comprehensive map of lettuce genome variations. In-depth analyses of population structure and demography revealed that lettuce was first domesticated near the Caucasus, which was marked by loss of seed shattering. We also identified the genetic architecture of other domestication traits and wild introgressions in major resistance clusters in the lettuce genome. This study provides valuable genomic resources for crop breeding and sheds light on the domestication history of cultivated lettuce.",

author = "Tong Wei and {Van Treuren}, Rob and Xinjiang Liu and Zhaowu Zhang and Jiongjiong Chen and Yang Liu and Shanshan Dong and Peinan Sun and Ting Yang and Tianming Lan and Xiaogang Wang and Zhouquan Xiong and Yaqiong Liu and Jinpu Wei and Haorong Lu and Shengping Han and Chen, {Jason C.} and Xuemei Ni and Jian Wang and Huanming Yang and Xun Xu and Hanhui Kuang and {Van Hintum}, Theo and Xin Liu and Huan Liu",

year = "2021",

doi = "10.1038/s41588-021-00831-0",

language = "English",

volume = "53",

pages = "752--760",

journal = "Nature Genetics",

issn = "1061-4036",

publisher = "Nature",

number = "5",

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Wei, T, Van Treuren, R, Liu, X, Zhang, Z, Chen, J, Liu, Y, Dong, S, Sun, P, Yang, T, Lan, T, Wang, X, Xiong, Z, Liu, Y, Wei, J, Lu, H, Han, S, Chen, JC, Ni, X, Wang, J, Yang, H, Xu, X, Kuang, H, Van Hintum, T, Liu, X & Liu, H 2021, 'Whole-genome resequencing of 445 Lactuca accessions reveals the domestication history of cultivated lettuce', Nature Genetics, vol. 53, no. 5, pp. 752-760. https://doi.org/10.1038/s41588-021-00831-0

TY - JOUR

T1 - Whole-genome resequencing of 445 Lactuca accessions reveals the domestication history of cultivated lettuce

AU - Wei, Tong

AU - Van Treuren, Rob

AU - Liu, Xinjiang

AU - Zhang, Zhaowu

AU - Chen, Jiongjiong

AU - Liu, Yang

AU - Dong, Shanshan

AU - Sun, Peinan

AU - Yang, Ting

AU - Lan, Tianming

AU - Wang, Xiaogang

AU - Xiong, Zhouquan

AU - Liu, Yaqiong

AU - Wei, Jinpu

AU - Lu, Haorong

AU - Han, Shengping

AU - Chen, Jason C.

AU - Ni, Xuemei

AU - Wang, Jian

AU - Yang, Huanming

AU - Xu, Xun

AU - Kuang, Hanhui

AU - Van Hintum, Theo

AU - Liu, Xin

AU - Liu, Huan

PY - 2021

Y1 - 2021

N2 - Lettuce (Lactuca sativa) is an important vegetable crop worldwide. Cultivated lettuce is believed to be domesticated from L. serriola; however, its origins and domestication history remain to be elucidated. Here, we sequenced a total of 445 Lactuca accessions, including major lettuce crop types and wild relative species, and generated a comprehensive map of lettuce genome variations. In-depth analyses of population structure and demography revealed that lettuce was first domesticated near the Caucasus, which was marked by loss of seed shattering. We also identified the genetic architecture of other domestication traits and wild introgressions in major resistance clusters in the lettuce genome. This study provides valuable genomic resources for crop breeding and sheds light on the domestication history of cultivated lettuce.

AB - Lettuce (Lactuca sativa) is an important vegetable crop worldwide. Cultivated lettuce is believed to be domesticated from L. serriola; however, its origins and domestication history remain to be elucidated. Here, we sequenced a total of 445 Lactuca accessions, including major lettuce crop types and wild relative species, and generated a comprehensive map of lettuce genome variations. In-depth analyses of population structure and demography revealed that lettuce was first domesticated near the Caucasus, which was marked by loss of seed shattering. We also identified the genetic architecture of other domestication traits and wild introgressions in major resistance clusters in the lettuce genome. This study provides valuable genomic resources for crop breeding and sheds light on the domestication history of cultivated lettuce.

U2 - 10.1038/s41588-021-00831-0

DO - 10.1038/s41588-021-00831-0

M3 - Article

SN - 1061-4036

VL - 53

SP - 752

EP - 760

JO - Nature Genetics

JF - Nature Genetics

IS - 5

ER -

Whole-genome resequencing of 445 Lactuca accessions reveals the domestication history of cultivated lettuce

Abstract

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Datasets

Lactuca population sequencing

Press/Media

From Weed to Vegetable: Study reveal Caucasian descent

Projects

Kennisbasis gewassen (KB-56-003-001, KB-34-013-001, KB-21-004-001, KB-12-005.03-003)

Innovaties in gewascollectie management (WOT-03-002-065)

Cite this