Highly diverse shrub willows (Salix L.) share highly similar plastomes

0545514 - BC 2022 RIV CH eng J - Článek v odborném periodiku
Wagner, N. D. - Volf, Martin - Hörandi, E.
Highly diverse shrub willows (Salix L.) share highly similar plastomes.
Frontiers in Plant Science. Roč. 12, SEP 03 (2021), č. článku 662715. ISSN 1664-462X. E-ISSN 1664-462X
Grant CEP: GA ČR(CZ) GJ20-10543Y
Grant ostatní: AV ČR(CZ) MSM200962004
Program: Program na podporu mezinárodní spolupráce začínajících výzkumných pracovníků
Institucionální podpora: RVO:60077344
Klíčová slova: Chamaetia/Vetrix clade * Eurasia * genome skimming
Obor OECD: Plant sciences, botany
Impakt faktor: 6.627, rok: 2021
Způsob publikování: Open access
https://www.frontiersin.org/articles/10.3389/fpls.2021.662715/pdf

Plastome phylogenomics is used in a broad range of studies where single markers do not bear enough information. Phylogenetic reconstruction in the genus Salix is difficult due to the lack of informative characters and reticulate evolution. Here, we use a genome skimming approach to reconstruct 41 complete plastomes of 32 Eurasian and North American Salix species representing different lineages, different ploidy levels, and separate geographic regions. We combined our plastomes with published data from Genbank to build a comprehensive phylogeny of 61 samples (50 species) using RAxML (Randomized Axelerated Maximum Likelihood). Additionally, haplotype networks for two observed subclades were calculated, and 72 genes were tested to be under selection. The results revealed a highly conserved structure of the observed plastomes. Within the genus, we observed a variation of 1.68%, most of which separated subg. Salix from the subgeneric Chamaetia/Vetrix clade. Our data generally confirm previous plastid phylogenies, however, within Chamaetia/Vetrix phylogenetic results represented neither taxonomical classifications nor geographical regions. Non-coding DNA regions were responsible for most of the observed variation within subclades and 5.6% of the analyzed genes showed signals of diversifying selection. A comparison of nuclear restriction site associated DNA (RAD) sequencing and plastome data on a subset of 10 species showed discrepancies in topology and resolution. We assume that a combination of (i) a very low mutation rate due to efficient mechanisms preventing mutagenesis, (ii) reticulate evolution, including ancient and ongoing hybridization, and (iii) homoplasy has shaped plastome evolution in willows.
Trvalý link: http://hdl.handle.net/11104/0326476