Abstract
Silene latifolia is an herbaceous plant with great invasive potential. Spread along trade routes from Europe to almost all continents, white campion became particularly widespread in North America. We sequenced the chloroplast genome of S. latifolia subsp. alba from a native range in southeast Fennoscandia. The chloroplast genome of native S. latifolia subsp. alba forms a 151,747-bp circle, has two inverted repeat regions (25,993 bp each), large single copy (82,708 bp), and small single copy (17,106 bp) regions. It contains 77 protein-coding genes, 30 tRNA genes, and four rRNA genes. SSRs and long DNA repeats were identified. Comparison of a newly sequenced plastome of S. latifolia subsp. alba with plastomes of invasive specimens of species from North America and Japan revealed a high level of single nucleotide polymorphisms (SNPs) among them. A total of 214 SNPs were found, among which 110 were identified in intergenic spacers, 74 in exons, and 30 in introns. Intraspecific shifts in inverted repeat boundaries were identified. Our research suggests that high polymorphic regions may be potential molecular markers for population studies and that high intraspecific genetic polymorphism may contribute to a species’ invasive success.
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The newly generated sequence was uploaded in NCBI GenBank, accession number MN244687.
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Acknowledgments
The authors thank Elena Krapivskaja for assistance in plant collecting, Dr. Elena Vojchehovskaya and Dr. Kiril Demchenko for access to some equipment, Dr. Anna Speranskaya for valuable advices about DNA preparation for Illumina sequencing, and Dr. Victoria Schneyer for draft corrections. The research was done using equipment of The Core Facilities Center “Cell and Molecular Technologies in Plant Science” at the Komarov Botanical Institute RAS and Center “Biobank” at the Research Park of St. Petersburg State University (St. Petersburg, Russia).
Funding
The research was supported by Russian Foundation for Basic Research (RFBR) Grant for Young Researchers # 16-34-01024 obtained by YM (all laboratory work), RFBR Grant # 18-04-01040 (field work), partially by SPbSU Grant 60256916 (bioinformatics and manuscript preparation) for AR.
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Yulia Mikhaylova and Alexander Rodionov contributed to the study conception and design. Elisaveta Punina collected plant material. Dmitrii Polev and Anna Maslova performed NGS library preparation and sequencing. Yulia Mikhaylova made chloroplast DNA enrichment, NGS data analysis and wrote the draft of the manuscript. Mikhail Gordon made a phylogenetic analysis. Alexander Rodionov edited and critically revised manuscript. All authors read and approved the final manuscript.
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Key Message
• Plastome of Silene latifolia subsp. alba collected in native range in Eastern Europe was sequenced.
• High levels of SNPs indicate high genetic plasticity of the species and contribute to its invasive success
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Mikhaylova, Y.V., Gordon, M., Maslova, A.R. et al. Chloroplast Genome of Native Silene latifolia subsp. alba from Fennoscandia Shows High Level of Differences from Invasive White Campion. Plant Mol Biol Rep 39, 226–239 (2021). https://doi.org/10.1007/s11105-020-01246-7
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DOI: https://doi.org/10.1007/s11105-020-01246-7