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. 2024 Jan 8;5(1):100735.
doi: 10.1016/j.xplc.2023.100735. Epub 2023 Oct 20.

Pan-genome brings opportunities to revitalize the ancient crop foxtail millet

Yinpei Liang  1 , Yuanhuai Han  2
Affiliations

Pan-genome brings opportunities to revitalize the ancient crop foxtail millet

Yinpei Liang et al. Plant Commun. .
No abstract available

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Figures

Figure 1
Figure 1
Pan-genome of foxtail millet and its applications. A graph-based pan-genome is a way to store all the genetic information of a species in a graphical format in which variations in sequence and structure are shown in the form of nodes and paths. It performs phasing directly in the space of sequence graphs, without flattening them into contigs in intermediate steps. He et al. collected genome-wide resequencing data for 630 wild (S. viridis), 829 landrace, and 385 modern cultivated accessions from the Setaria genus. Wild species were classified into four subgroups (W1–W4), and cultivars were classified into three genetically differentiated subpopulations (C1–C3). The 110 high-quality genome sequences, representing accessions of both wild and cultivated types, are important resources for functional genomic analyses and precision breeding of foxtail millet. There are four main directions for the application of pan-genomics to foxtail millet breeding: (A) development of tools to access and explore these genomic resources via an online pan-genome database for foxtail millet; (B) research on the contribution of structural variants to domestication and improvement; (C) gene mapping of agricultural traits; and (D) acceleration of the breeding process. This figure was adapted from He et al. (2023).
See this image and copyright information in PMC

References

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