Nuclear phylogenomics of the palm subfamily Arecoideae (Arecaceae).

@article{Comer2016NuclearPO,
  title={Nuclear phylogenomics of the palm subfamily Arecoideae (Arecaceae).},
  author={Jason Ray Comer and Wendy B. Zomlefer and Craig F. Barrett and Dennis Wm. Stevenson and Karolina Heyduk and James H. Leebens-Mack},
  journal={Molecular phylogenetics and evolution},
  year={2016},
  volume={97},
  pages={
          32-42
        }
}
View on PubMed
doi.org
25 Citations
Background Citations
8
Methods Citations
4
Results Citations
1

Figures from this paper

25 Citations

A plastid phylogenomic framework for the palm family (Arecaceae)

This comprehensive plastid genome dataset complements a growing body of nuclear genomic data and forms a novel phylogenomic baseline for the palms and an increasingly robust framework for future comparative biological studies of this exceptionally important plant family.

Phylogenomics and generic limits of Dypsidinae (Arecaceae), the largest palm radiation in Madagascar

This is the first comprehensively sampled species-level phylogeny of Dypsidinae, including 157 described species (88% of the subtribe) as well as 10 samples of uncertain taxonomic identity (potentially new to science) based on target sequence capture data for 161 nuclear DNA loci.

Cytogenetics, Typification, Molecular Phylogeny and Biogeography of Bentinckia (Arecoideae, Arecaceae), an Unplaced Indian Endemic Palm from Areceae

The present article constructed the molecular phylogeny of Areceae based on an appropriate combination of chloroplast and nuclear loci that satisfactorily depicts the phylogenetic positions of all species from areceae.

A robust phylogenomic framework for the calamoid palms.

Phylogenomics within the Anthonotha clade (Detarioideae, Leguminosae) reveals a high diversity in floral trait shifts and a general trend towards organ number reduction

The phylogenetic analyses recovered congruent topologies using ML and Bayesian methods and indicate that the seven characters in the Anthonotha clade are evolving independently in these lineages.

Targeted Capture of Hundreds of Nuclear Genes Unravels Phylogenetic Relationships of the Diverse Neotropical Palm Tribe Geonomateae

This study lays the groundwork not only for detailed macro- and micro-evolutionary studies within the tribe Geonomateae, but also sets a workflow for understanding other species complexes across the tree of life.

Phylogenomics, biogeography, and evolution in the American palm genus Brahea

The findings have implications for the complex biogeographic history in Central America and Mexico, suggesting that sympatric speciation and dispersal are the predominant processes of species diversification.

Plastome structure, phylogenomic analyses and molecular dating of Arecaceae

A comprehensive analysis of the structural features of the chloroplast genome of Arecaceae, compare the variability of gene sequences, infer phylogenetic relationships, estimate species divergence times, and reconstruct ancestral morphological traits are performed.

Phylogeny, historical biogeography and diversification rates in an economically important group of Neotropical palms: Tribe Euterpeae.

Phylogenomics of the Major Tropical Plant Family Annonaceae Using Targeted Enrichment of Nuclear Genes

The baiting kit is useful for reconstructing well supported phylogenetic relationships within Annonaceae at different taxonomic levels and it is found that substitution rate heterogeneity between the two subfamilies is also found within the nuclear compartment, and not just plastomes and ribosomal DNA as previously shown.

References

SHOWING 1-10 OF 84 REFERENCES

Resolving relationships within the palm subfamily Arecoideae (Arecaceae) using plastid sequences derived from next-generation sequencing.

The plastome phylogeny recovered here provides robust resolution of previously ambiguous studies and new insights into palm evolution.

Phylogeny and historical biogeography of the cocosoid palms (Arecaceae, Arecoideae, Cocoseae) inferred from sequences of six WRKY gene family loci

Evaluated together, the supermatrix and species tree analyses presented in this paper provide the most accurate picture of the evolutionary history of the Cocoseae to date, with more congruence than incongruence among the various methodologies.

A new subfamily classification of the palm family (Arecaceae): evidence from plastid DNA phylogeny

A new subfamilial classification of the palms is established, in which five subfamilies are recognized, rather than the six that were included in the previous classification, and critical basal nodes are now fully resolved and, in most cases, strongly supported.

Phylogenetic relationships among arecoid palms (Arecaceae: Arecoideae).

New data sources are required to elucidate ambiguities that remain in phylogenetic relationships among and within the major groups of Arecoideae, as well as within the Areceae, the largest tribe in the palm family.

Phylogenetic Analysis of Seven WRKY Genes across the Palm Subtribe Attaleinae (Arecaceae) Identifies Syagrus as Sister Group of the Coconut

A well-resolved and supported phylogeny of the Cocoseae subtribe is presented that robustly indicates a sister relationship between Cocos and Syagrus, and suggests that WRKY loci are informative markers for investigating the phylogenetic relationships of the palm family.

Low-copy nuclear DNA, phylogeny and the evolution of dichogamy in the betel nut palms and their relatives (Arecinae; Arecaceae).

Chloroplast DNA evolves slowly in the palm family (Arecaceae).

A survey of cpDNA restriction-site variation for 22 species representing five of the six subfamilies of the palm family was conducted. Phylogenetic reconstructions based on the restriction-site data…

Resolving ancient radiations: can complete plastid gene sets elucidate deep relationships among the tropical gingers (Zingiberales)?

Plastid coding regions are insufficient to resolve and support the earliest divergences among families of Zingiberales, adding to a growing body of literature suggesting that they may not provide enough character information for resolving ancient, rapid radiations.

Assembling the Tree of the Monocotyledons: Plastome Sequence Phylogeny and Evolution of Poales1

The results of an initial project by the Monocot AToL (Angiosperm Tree of Life) team on phylogeny and evolution in Poales are presented, using sequence data for 81 plastid genes from 83 species of angiosperms and recovered highly concordant relationships using maximum likelihood (ML) and maximum parsimony (MP).

Phylogenomic analyses of species relationships in the genus Sabal (Arecaceae) using targeted sequence capture

A sequence capture methodology was used to collect data for analyses of diversification within Sabal, a palm genus native to the south-eastern USA, Caribbean, Bermuda and Central America, validating a high-throughput methodology for generating a large number of genes for coalescence-based phylogenetic analyses in plant lineages.
...