Evolution of complex genome architecture in gymnosperms.

Publisher: Oxford University Press Country of Publication: United States NLM ID: 101596872 Publication Model: Print Cited Medium: Internet ISSN: 2047-217X (Electronic) Linking ISSN: 2047217X NLM ISO Abbreviation: Gigascience Subsets: MEDLINE

Publication: 2017- : New York : Oxford University Press
Original Publication: London : BioMed Central

Cycadopsida*/genetics ; Genomics*/methods; Evolution, Molecular ; Genome, Plant ; Phylogeny ; Repetitive Sequences, Nucleic Acid ; Seeds/genetics

Gymnosperms represent an ancient lineage that diverged from early spermatophytes during the Devonian. The long fossil records and low diversity in living species prove their complex evolutionary history, which included ancient radiations and massive extinctions. Due to their ultra-large genome size, the whole-genome assembly of gymnosperms has only generated in the past 10 years and is now being further expanded into more taxonomic representations. Here, we provide an overview of the publicly available gymnosperm genome resources and discuss their assembly quality and recent findings in large genome architectures. In particular, we describe the genomic features most related to changes affecting the whole genome. We also highlight new realizations relative to repetitive sequence dynamics, paleopolyploidy, and long introns. Based on the results of relevant genomic studies of gymnosperms, we suggest additional efforts should be made toward exploring the genomes of medium-sized (5-15 gigabases) species. Lastly, more comparative analyses among high-quality assemblies are needed to understand the genomic shifts and the early species diversification of seed plants.
(© The Author(s) 2022. Published by Oxford University Press GigaScience.)

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Keywords: diversification; genome architecture; genomic shift; gymnosperms

Date Created: 20220810 Date Completed: 20220812 Latest Revision: 20220830

20221213

PMC9364684

10.1093/gigascience/giac078

35946987