Early genome duplications in conifers and other seed plants

Zheng Li, Anthony E. Baniaga, Emily B. Sessa, Moira Scascitelli, Sean W. Graham, Loren H. Rieseberg, Michael S Barker

Research output: Contribution to journalArticle

94 Citations (Scopus)

Abstract

Polyploidy is a common mode of speciation and evolution in angiosperms (flowering plants). In contrast, there is little evidence to date that whole genome duplication (WGD) has played a significant role in the evolution of their putative extant sister lineage, the gymnosperms. Recent analyses of the spruce genome, the first published conifer genome, failed to detect evidence of WGDs in gene age distributions and attributed many aspects of conifer biology to a lack of WGDs. We present evidence for three ancient genome duplications during the evolution of gymnosperms, based on phylogenomic analyses of transcriptomes from 24 gymnosperms and 3 outgroups. We use a new algorithm to place these WGD events in phylogenetic context: two in the ancestry of major conifer clades (Pinaceae and cupressophyte conifers) and one in Welwitschia (Gnetales). We also confirm that a WGD hypothesized to be restricted to seed plants is indeed not shared with ferns and relatives (monilophytes), a result that was unclear in earlier studies. Contrary to previous genomic research that reported an absence of polyploidy in the ancestry of contemporary gymnosperms, our analyses indicate that polyploidy has contributed to the evolution of conifers and other gymnosperms. As in the flowering plants, the evolution of the large genome sizes of gymnosperms involved both polyploidy and repetitive element activity.

Original languageEnglish (US)
Article number1501084
JournalScience advances
Volume1
Issue number10
DOIs
StatePublished - Nov 1 2015

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Gymnosperms
Coniferophyta
Seeds
Polyploidy
Genome
Pinaceae
Ferns
Genome Size
Angiosperms
Age Distribution
Gene Expression Profiling
Research
Genes

ASJC Scopus subject areas

  • Medicine(all)

Cite this

Li, Z., Baniaga, A. E., Sessa, E. B., Scascitelli, M., Graham, S. W., Rieseberg, L. H., & Barker, M. S. (2015). Early genome duplications in conifers and other seed plants. Science advances, 1(10), [1501084]. https://doi.org/10.1126/sciadv.1501084

Early genome duplications in conifers and other seed plants. / Li, Zheng; Baniaga, Anthony E.; Sessa, Emily B.; Scascitelli, Moira; Graham, Sean W.; Rieseberg, Loren H.; Barker, Michael S.

In: Science advances, Vol. 1, No. 10, 1501084, 01.11.2015.

Research output: Contribution to journalArticle

Li, Z, Baniaga, AE, Sessa, EB, Scascitelli, M, Graham, SW, Rieseberg, LH & Barker, MS 2015, 'Early genome duplications in conifers and other seed plants', Science advances, vol. 1, no. 10, 1501084. https://doi.org/10.1126/sciadv.1501084
Li Z, Baniaga AE, Sessa EB, Scascitelli M, Graham SW, Rieseberg LH et al. Early genome duplications in conifers and other seed plants. Science advances. 2015 Nov 1;1(10). 1501084. https://doi.org/10.1126/sciadv.1501084
Li, Zheng ; Baniaga, Anthony E. ; Sessa, Emily B. ; Scascitelli, Moira ; Graham, Sean W. ; Rieseberg, Loren H. ; Barker, Michael S. / Early genome duplications in conifers and other seed plants. In: Science advances. 2015 ; Vol. 1, No. 10.
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