ArticleScientific reports2017
Genome-wide RAD sequencing data provide unprecedented resolution of the phylogeny of temperate bamboos (Poaceae: Bambusoideae).
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers, 1 of them a synthesis that pooled it.
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24 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Traditional System Versus DNA Barcoding in Identification of Bamboo Species: A Systematic Review.Molecular biotechnology · 2021Pooled it
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- A nuclear phylogenomic tree of grasses (Poaceae) recovers current classification despite gene tree incongruence.The New phytologist · 2025Article
- Relationships withinPlants (Basel, Switzerland) · 2024Article
- Species delimitation, discovery and conservation in a tiger beetle species complex despite discordant genetic data.Scientific reports · 2024Article
- Investigation of phylogenetic relationships withinEcology and evolution · 2023Article
- Testing complete plastomes and nuclear ribosomal DNA sequences for species identification in a taxonomically difficult bamboo genusPlant diversity · 2023Article
- A Phylogenetic and Morphological Evolution Study ofPlants (Basel, Switzerland) · 2023Article
- Phylogenomic analyses reveal reticulate evolution betweenFrontiers in plant science · 2023Article
- Hybrid enrichment of adaptive variation revealed by genotype-environment associations in montane sedges.Molecular ecology · 2022Article
- Inflorescences ofPhytoKeys · 2022Article
- Development of SNP Set for the Marker-Assisted Selection of Guar (Plants (Basel, Switzerland) · 2021Article
- Parallel ddRAD and Genome Skimming Analyses Reveal a Radiative and Reticulate Evolutionary History of the Temperate Bamboos.Systematic biology · 2021Article
- A Cautionary Note on the Use of Genotype Callers in Phylogenomics.Systematic biology · 2021Article
- A new subtribal classification of Arundinarieae (Poaceae, Bambusoideae) with the description of a new genus.Plant diversity · 2020Article
- Article
- Article
- Phylogenomic analyses reveal intractable evolutionary history of a temperate bamboo genus (Poaceae: Bambusoideae).Plant diversity · 2019Article
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6 authors.
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Abstract
The temperate bamboos (tribe Arundinarieae, Poaceae) are strongly supported as monophyly in recent molecular studies, but taxonomic delineation and phylogenetic relationships within the tribe lack resolution. Here, we sampled 39 species (36 temperate bamboos and 3 outgroups) for restriction-site associated DNA sequencing (RAD-seq) with an emphasis on Phyllostachys clade and related clades. Using the largest data matrix for the bamboos to date, we were able to infer phylogenetic relationships with unparalleled resolution. The Phyllostachys, Shibataea, and Arundinaria clades defined from plastid phylogeny, were not supported as monophyletic group. However, the RAD-seq phylogeny largely agreed with the morphology-based taxonomy, with two clades having leptomorph rhizomes strongly supported as monophyletic group. We also explored two approaches, BWA-GATK (a mapping system) and Stacks (a grouping system), for differences in SNP calling and phylogeny inference. For the same level of missing data, the BWA-GATK pipeline produced much more SNPs in comparison with Stacks. Phylogenetic analyses of the largest data matrices from both pipelines, using concatenation and coalescent methods provided similar tree topologies, despite the presence of missing data. Our study demonstrates the utility of RAD-seq data for elucidating phylogenetic relationships between genera and higher taxonomic levels in this important but phylogenetically challenging group.
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