RADseq-based population genomic analysis and environmental adaptation of rare and endangered recretohalophyte Reaumuria trigyna.

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dc.citation.issue1
dc.citation.volume17
dc.contributor.authorDang Z
dc.contributor.authorLi J
dc.contributor.authorLiu Y
dc.contributor.authorSong M
dc.contributor.authorLockhart PJ
dc.contributor.authorTian Y
dc.contributor.authorNiu M
dc.contributor.authorWang Q
dc.contributor.editorVarshney R
dc.coverage.spatialUnited States
dc.date.accessioned2024-07-21T23:41:13Z
dc.date.available2024-07-21T23:41:13Z
dc.date.issued2024-03-01
dc.description.abstractGenetic diversity reflects the survival potential, history, and population dynamics of an organism. It underlies the adaptive potential of populations and their response to environmental change. Reaumuria trigyna is an endemic species in the Eastern Alxa and West Ordos desert regions in China. The species has been considered a good candidate to explore the unique survival strategies of plants that inhabit this area. In this study, we performed population genomic analyses based on restriction-site associated DNA sequencing to understand the genetic diversity, population genetic structure, and differentiation of the species. Analyses of 92,719 high-quality single-nucleotide polymorphisms (SNPs) indicated that overall genetic diversity of R. trigyna was low (HO = 0.249 and HE = 0.208). No significant genetic differentiation was observed among the investigated populations. However, a subtle population genetic structure was detected. We suggest that this might be explained by adaptive diversification reinforced by the geographical isolation of populations. Overall, 3513 outlier SNPs were located in 243 gene-coding sequences in the R. trigyna transcriptome. Potential sites under diversifying selection occurred in genes (e.g., AP2/EREBP, E3 ubiquitin-protein ligase, FLS, and 4CL) related to phytohormone regulation and synthesis of secondary metabolites which have roles in adaptation of species. Our genetic analyses provide scientific criteria for evaluating the evolutionary capacity of R. trigyna and the discovery of unique adaptions. Our findings extend knowledge of refugia, environmental adaption, and evolution of germplasm resources that survive in the Ordos area.
dc.description.confidentialfalse
dc.edition.editionMarch 2024
dc.format.paginatione20303-
dc.identifier.author-urlhttps://www.ncbi.nlm.nih.gov/pubmed/36740755
dc.identifier.citationDang Z, Li J, Liu Y, Song M, Lockhart PJ, Tian Y, Niu M, Wang Q. (2024). RADseq-based population genomic analysis and environmental adaptation of rare and endangered recretohalophyte Reaumuria trigyna.. Plant Genome. 17. 1. (pp. e20303-).
dc.identifier.doi10.1002/tpg2.20303
dc.identifier.eissn1940-3372
dc.identifier.elements-typejournal-article
dc.identifier.issn1940-3372
dc.identifier.numbere20303
dc.identifier.urihttps://mro.massey.ac.nz/handle/10179/70254
dc.languageeng
dc.publisherJohn Wiley and Sons, Inc.
dc.publisher.urihttps://acsess.onlinelibrary.wiley.com/doi/10.1002/tpg2.20303
dc.relation.isPartOfPlant Genome
dc.rights(c) 2023 The Author/s
dc.rightsCC BY-NC-ND 4.0
dc.rights.urihttps://creativecommons.org/licenses/by-nc-nd/4.0/
dc.subjectMetagenomics
dc.subjectGenomics
dc.subjectSequence Analysis, DNA
dc.subjectChina
dc.titleRADseq-based population genomic analysis and environmental adaptation of rare and endangered recretohalophyte Reaumuria trigyna.
dc.typeJournal article
pubs.elements-id459538
pubs.organisational-groupOther
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