ArticlePeerJ2016
Revisiting the Zingiberales: using multiplexed exon capture to resolve ancient and recent phylogenetic splits in a charismatic plant lineage.
Article in PeerJ, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
28 citing papers in PubMed, 82 citations in OpenAlex.
- Ginger genome reveals the SMPED1 gene causing sex-phase synchrony and outcrossing in a flowering plant.Nature plants · 2025Article
- Banana breeding by genome design.Journal of integrative plant biology · 2025Review
- Complete Chloroplast Genome Sequences of ThreeCurrent issues in molecular biology · 2025Article
- Assessing Genetic Diversity in Endangered PlantInternational journal of molecular sciences · 2024Article
- Comparative Chloroplast Genomics of 21 Species in Zingiberales with Implications for Their Phylogenetic Relationships and Molecular Dating.International journal of molecular sciences · 2023Article
- A near-complete genome assembly ofFrontiers in plant science · 2023Article
- Correlation between Inflorescence Architecture and Floral Asymmetry-Evidence from Aberrant Flowers inPlants (Basel, Switzerland) · 2022Article
- distAngsd: Fast and Accurate Inference of Genetic Distances for Next-Generation Sequencing Data.Molecular biology and evolution · 2022Article
- Taxon-specific or universal? Using target capture to study the evolutionary history of rapid radiations.Molecular ecology resources · 2022Article
- Comparative genome sequence and phylogenetic analysis of chloroplast for evolutionary relationship amongSaudi journal of biological sciences · 2022Article
- Phylogenomic resolution of order- and family-level monocot relationships using 602 single-copy nuclear genes and 1375 BUSCO genes.Frontiers in plant science · 2022Article
- The genetic mechanisms underlying the convergent evolution of pollination syndromes in the Neotropical radiation ofFrontiers in plant science · 2022Article
- The banana genome hub: a community database for genomics in the Musaceae.Horticulture research · 2022Article
- Aiming off the target: recycling target capture sequencing reads for investigating repetitive DNA.Annals of botany · 2021Article
- Hybrid capture of 964 nuclear genes resolves evolutionary relationships in the mimosoid legumes and reveals the polytomous origins of a large pantropical radiation.American journal of botany · 2020Article
- Can the anatomy of abnormal flowers elucidate relationships of the androecial members in the ginger (Zingiberaceae)?EvoDevo · 2020Article
- Unraveling the Spiraling Radiation: A Phylogenomic Analysis of NeotropicalFrontiers in plant science · 2020Article
- The complete chloroplast genome ofMitochondrial DNA. Part B, Resources · 2019Article
- A customized nuclear target enrichment approach for developing a phylogenomic baseline forApplications in plant sciences · 2019Article
- Leaf Transcriptome Assembly ofGenes · 2019Article
Corrections and comments
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Authors and funding
5 authors at 3 institutions in 1 country.
Funding
Abstract
The Zingiberales are an iconic order of monocotyledonous plants comprising eight families with distinctive and diverse floral morphologies and representing an important ecological element of tropical and subtropical forests. While the eight families are demonstrated to be monophyletic, phylogenetic relationships among these families remain unresolved. Neither combined morphological and molecular studies nor recent attempts to resolve family relationships using sequence data from whole plastomes has resulted in a well-supported, family-level phylogenetic hypothesis of relationships. Here we approach this challenge by leveraging the complete genome of one member of the order, Musa acuminata, together with transcriptome information from each of the other seven families to design a set of nuclear loci that can be enriched from highly divergent taxa with a single array-based capture of indexed genomic DNA. A total of 494 exons from 418 nuclear genes were captured for 53 ingroup taxa. The entire plastid genome was also captured for the same 53 taxa. Of the total genes captured, 308 nuclear and 68 plastid genes were used for phylogenetic estimation. The concatenated plastid and nuclear dataset supports the position of Musaceae as sister to the remaining seven families. Moreover, the combined dataset recovers known intra- and inter-family phylogenetic relationships with generally high bootstrap support. This is a flexible and cost effective method that gives the broader plant biology community a tool for generating phylogenomic scale sequence data in non-model systems at varying evolutionary depths.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.