ArticleApplications in plant sciences2018
Target sequence capture of nuclear-encoded genes for phylogenetic analysis in ferns.
Article in Applications in plant sciences, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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13 citing papers in PubMed.
- Phylogenetic relationships and the identification of allopolyploidy in circumpolar Silene sect. Physolychnis.American journal of botany · 2025Article
- Target capture data resolve recalcitrant relationships in the coffee family (Rubioideae, Rubiaceae).Frontiers in plant science · 2022Article
- New targets acquired: Improving locus recovery from the Angiosperms353 probe set.Applications in plant sciences · 2021Article
- A target enrichment probe set for resolving the flagellate land plant tree of life.Applications in plant sciences · 2021Article
- Patterns and Rates of Plastid rps12 Gene Evolution Inferred in a Phylogenetic Context using Plastomic Data of Ferns.Scientific reports · 2020Article
- Strategies for reducing per-sample costs in target capture sequencing for phylogenomics and population genomics in plants.Applications in plant sciences · 2020Review
- Worldwide relationships in the fern genus Pteridium (bracken) based on nuclear genome markers.American journal of botany · 2019Article
- An empirical assessment of a single family-wide hybrid capture locus set at multiple evolutionary timescales in Asteraceae.Applications in plant sciences · 2019Article
- A customized nuclear target enrichment approach for developing a phylogenomic baseline forApplications in plant sciences · 2019Article
- Target sequence capture of nuclear-encoded genes for phylogenetic analysis in ferns.Applications in plant sciences · 2018Article
- hybpiper-nf and paragone-nf: Containerization and additional options for target capture assembly and paralog resolution.Applications in plant sciencesArticle
- Compositae-ParaLoss-1272: A complementary sunflower-specific probe set reduces paralogs in phylogenomic analyses of complex systems.Applications in plant sciencesArticle
- From phylogenomics to breeding: Can universal target capture probes be used in the development of SNP markers for kinship analysis?Applications in plant sciencesArticle
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6 authors.
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Abstract
premise of the studyUntil recently, most phylogenetic studies of ferns were based on chloroplast genes. Evolutionary inferences based on these data can be incomplete because the characters are from a single linkage group and are uniparentally inherited. These limitations are particularly acute in studies of hybridization, which is prevalent in ferns; fern hybrids are common and ferns are able to hybridize across highly diverged lineages, up to 60 million years since divergence in one documented case. However, it not yet clear what effect such hybridization has on fern evolution, in part due to a paucity of available biparentally inherited (nuclear-encoded) markers.
methodsWe designed oligonucleotide baits to capture 25 targeted, low-copy nuclear markers from a sample of 24 species spanning extant fern diversity.
resultsMost loci were successfully sequenced from most accessions. Although the baits were designed from exon (transcript) data, we successfully captured intron sequences that should be useful for more focused phylogenetic studies. We present phylogenetic analyses of the new target sequence capture data and integrate these into a previous transcript-based data set. DISCUSSION: We make our bait sequences available to the community as a resource for further studies of fern phylogeny.
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