Twenty years of plant genome sequencing: achievements and challenges

doi:10.1016/j.tplants.2021.10.006

Review

. 2022 Apr;27(4):391-401.

doi: 10.1016/j.tplants.2021.10.006. Epub 2021 Nov 12.

Twenty years of plant genome sequencing: achievements and challenges

Yanqing Sun¹, Lianguang Shang², Qian-Hao Zhu³, Longjiang Fan⁴, Longbiao Guo⁵

Affiliations

¹ Institute of Crop Science and Institute of Bioinformatics, Zhejiang University, Hangzhou, China.
² Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China.
³ CSIRO Agriculture and Food, Black Mountain Laboratories, Canberra, Australia.
⁴ Institute of Crop Science and Institute of Bioinformatics, Zhejiang University, Hangzhou, China; Zhejiang University City College School of Medicine, Hangzhou, China. Electronic address: [email protected].
⁵ State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China. Electronic address: [email protected].

PMID: 34782248
DOI: 10.1016/j.tplants.2021.10.006

Review

Twenty years of plant genome sequencing: achievements and challenges

Yanqing Sun et al. Trends Plant Sci. 2022 Apr.

. 2022 Apr;27(4):391-401.

doi: 10.1016/j.tplants.2021.10.006. Epub 2021 Nov 12.

Authors

Yanqing Sun¹, Lianguang Shang², Qian-Hao Zhu³, Longjiang Fan⁴, Longbiao Guo⁵

Affiliations

¹ Institute of Crop Science and Institute of Bioinformatics, Zhejiang University, Hangzhou, China.
² Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China.
³ CSIRO Agriculture and Food, Black Mountain Laboratories, Canberra, Australia.
⁴ Institute of Crop Science and Institute of Bioinformatics, Zhejiang University, Hangzhou, China; Zhejiang University City College School of Medicine, Hangzhou, China. Electronic address: [email protected].
⁵ State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China. Electronic address: [email protected].

PMID: 34782248
DOI: 10.1016/j.tplants.2021.10.006

Abstract

Publication of the complete genome sequence of Arabidopsis thaliana, the first plant reference genome, in December 2000 heralded the beginning of the plant genome era. Over the past 20 years reference genomes have been generated for hundreds of plant species, spanning non-vascular to flowering plants. Releasing these plant genomes has dramatically advanced studies in all disciplines of plant biology. Importantly, multiple reference-level genomes have been generated for the major crops and their progenitors, enabling the creation of pan-genomes and exploration of domestication history and natural variations that can be adopted by modern crop breeding. We summarize the progress of plant genome sequencing and the challenges of sequencing more complex plant genomes and generating pan-genomes.

Keywords: assembly; plant species; reference genome; sequencing technology.

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Conflict of interest statement

Declaration of Interests The authors have no interests to declare.

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Twenty years of plant genome sequencing: achievements and challenges

Affiliations

Twenty years of plant genome sequencing: achievements and challenges

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