Journal article
Whole‐genome assembly and resequencing reveal genomic imprint and key genes of rapid domestication in narrow‐leafed lupin
The Plant Journal, Vol.105(5), pp.1192-1210
2021
Abstract
Shifting from a livestock‐based protein diet to a plant‐based protein diet has been proposed as an essential requirement to maintain global food sustainability, which requires the increased production of protein‐rich crops for direct human consumption. Meanwhile, the lack of sufficient genetic diversity in crop varieties is an increasing concern for sustainable food supplies. Countering this concern requires a clear understanding of the domestication process and dynamics. Narrow‐leafed lupin (Lupinus angustifolius L.) has experienced rapid domestication and has become a new legume crop over the past century, with the potential to provide protein‐rich seeds. Here, using long‐read whole‐genome sequencing, we assembled the third‐generation reference genome for the narrow‐leafed lupin cultivar Tanjil, comprising 20 chromosomes with a total genome size of 615.8 Mb and contig N50 = 5.65 Mb. We characterized the original mutation and putative biological pathway resulting in low seed alkaloid level that initiated the recent domestication of narrow‐leafed lupin. We identified a 1133‐bp insertion in the cis‐regulatory region of a putative gene that may be associated with reduced pod shattering (lentus). A comparative analysis of genomic diversity in cultivars and wild types identified an apparent domestication bottleneck, as precisely predicted by the original model of the bottleneck effect on genetic variability in populations. Our results identify the key domestication genetic loci and provide direct genomic evidence for a domestication bottleneck, and open up the possibility of knowledge‐driven de novo domestication of wild plants as an avenue to broaden crop plant diversity to enhance food security and sustainable low‐carbon emission agriculture.
Details
- Title
- Whole‐genome assembly and resequencing reveal genomic imprint and key genes of rapid domestication in narrow‐leafed lupin
- Authors/Creators
- P. Wang (Author/Creator) - Murdoch UniversityG. Zhou (Author/Creator) - Government of Western AustraliaJ. Jian (Author/Creator) - BGI Group (China)H. Yang (Author/Creator) - Government of Western AustraliaD. Renshaw (Author/Creator) - Government of Western AustraliaM.K. Aubert (Author/Creator) - Australian Grain Technologies Pty Ltd, 100 Byfield Street, Northam, WA, 6041, Australia.J. Clements (Author/Creator) - Hastings EntertainmentT. He (Author/Creator) - Murdoch UniversityM. Sweetingham (Author/Creator) - Government of Western AustraliaC. Li (Author/Creator) - Government of Western Australia
- Publication Details
- The Plant Journal, Vol.105(5), pp.1192-1210
- Publisher
- Blackwell Publishing
- Identifiers
- 991005540224407891
- Copyright
- © 2020 Society for Experimental Biology and John Wiley & Sons Ltd
- Murdoch Affiliation
- State Agricultural Biotechnology Centre; Western Crop Genetics Alliance
- Language
- English
- Resource Type
- Journal article
UN Sustainable Development Goals (SDGs)
This output has contributed to the advancement of the following goals:
Source: InCites
Metrics
91 Record Views
InCites Highlights
These are selected metrics from InCites Benchmarking & Analytics tool, related to this output
- Collaboration types
- Domestic collaboration
- International collaboration
- Citation topics
- 3 Agriculture, Environment & Ecology
- 3.4 Crop Science
- 3.4.96 QTL
- Web Of Science research areas
- Plant Sciences
- ESI research areas
- Plant & Animal Science