Time Tree of Rubiaceae: Phylogeny and Dating the Family, Subfamilies, and Tribes

  title={Time Tree of Rubiaceae: Phylogeny and Dating the Family, Subfamilies, and Tribes},
  author={Birgitta Bremer and Torsten Eriksson},
  journal={International Journal of Plant Sciences},
  pages={766 - 793}
  • B. BremerT. Eriksson
  • Published 1 July 2009
  • Biology, Environmental Science
  • International Journal of Plant Sciences
Rubiaceae are one of the largest families of plants, with ∼13,000 species. [] Key Result It resulted in a highly resolved tree with many strongly supported nodes. There is strong support for the three subfamilies (Cinchonoideae, Ixoroideae, Rubioideae) and most of the 44 included tribes. A scaled‐down data set of 173 Rubiaceae taxa was used with a Bayesian approach to estimate divergence times for clades classified as tribes and subfamilies. Four fossils were used as minimum age priors, one inside each…

Phylogenetic relationships and new tribal delimitations in subfamily Ixoroideae (Rubiaceae)

A revised tribal classification, including the description of five new tribes, Airospermeae, Augusteae, Scyphiphoreae, Steenisieae and Trailliaedoxeae is provided, to resolve the phylogeny and assess the tribal delimitations in the expanded Ixoroideae.

Molecular phylogenetics and generic assessment in the tribe Pavetteae (Rubiaceae)

This is the first phylogenetic study focused on the Pavetteae, one of the most species-rich and morphologically diverse tribes within the coffee family (Rubiaceae) and the largest paleotropical genus Tarenna is shown not to be monophyletic.

Target capture data resolve recalcitrant relationships in the coffee family (Rubioideae, Rubiaceae)

A robust phylogenetic hypothesis of Rubioideae is inferred with the vast majority (or all) nodes being highly supported across all analyses and datasets and few incongruences between the inferred topologies.

Paraphyly and Polyphyly in the Worldwide Tribe Rubieae (Rubiaceae): Challenges for Generic Delimitation1,2

These studies span distinctive groups throughout the tribe Rubieae, consist of a maximum parsimony analysis of plastid atpB-rbcL and rpL32-trnL DNA sequences, and are summarized in a condensed strict consensus tree that illustrates alternative hypotheses for phylogenetic relationships among all major Rubiaceae clades identified.

Molecular systematics of tribe Rubieae (Rubiaceae): Evolution of major clades, development of leaf–like whorls, and biogeography

A molecular phylogeny of the Rubieae, based on three chloroplast regions from 126 Old and New World taxa, is estimated using parsimony and Bayesian analyses, confirming previous studies that identified seven major clades with no resolution between and within clades.

Phylogenetic structure and clade circumscriptions in the Gardenieae complex (Rubiaceae)

The phylogeny of this large and diverse Rubiaceae-Gardenieae and closely related tribes Bertiereae, Coffeeae, Cremasporeae, Octotropideae, and Pavetteae is reconstructed using an extensive sampling of 108 genera and five plastid DNA regions.

Phylogeny, character evolution and spatiotemporal diversification of the species-rich and world-wide distributed tribe Rubieae (Rubiaceae)

This work analyzes sequences from two plastid spacer regions as well as morphological and biogeographic data from an extensive and evenly distributed sampling to establish a sound phylogenetic framework that serves as a basis for the investigation of the evolution of important morphological characters and the biogeographical history of the Rubieae.

Phylogenetic affinities of Myrioneuron and Cyanoneuron, generic limits of the tribe Argostemmateae and description of a new Asian tribe, Cyanoneuroneae (Rubiaceae)

A robust phylogeny of Rubioideae was reconstructed with sequence data from five plastid regions of 176 accessions and using the Bayesian Markov chain Monte Carlo and parsimony methods, and a new key to the genera of Argostemmateae is provided.

Molecular phylogenetic analysis and generic delimitations in tribe Chiococceae (Cinchonoideae, Rubiaceae)

This study presents the most comprehensive molecular phylogenetic study to date, including 27 genera and 125 species of Chiococceae, based on the phylogenetic tree generated by analysing molecular sequence data of two nuclear and two plastid regions using Bayesian and maximum likelihood methods.



Phylogeny ofRubiaceae-Rubieae inferred from the sequence of a cpDNA intergene region

A phylogenetic analysis of 25 species, representing eight genera of theRubieae tribe (Rubiaceae), has been made using the DNA sequence of the chloroplastatp B-rbc L intergene region, finding five groups are clearly separated and described as informal clades.

Phylogeny and classification of the subfamily Rubioideae (Rubiaceae)

P phylogenetic analyses of the subfamily Rubioideae (Rubiaceae) based on three different pieces of chloroplast DNA, the protein coding rbcL gene, the spacer sequence betweenatpB andrbcL, and the recently published rps16 intron data are performed.

A phylogeny of Urophylleae (Rubiaceae) based on rps16 intron data

Using sequence data from the rps16 intron to address the question where the four genera Temnopteryx, Pentaloncha, Pleiocarpidia, and Poecilocalyx belong, it is shown that there is conflict regarding the resolution among lineages in Rubioideae, which partly affects the support for relationships within Urophylleae.

Plastid rbcL Sequence Data Show Dialypetalanthus to Be a Member of Rubiaceae

Analysis of rbcL sequence data indicates that Dialypetalanthus is a member of Rubiaceae sensu stricto and falls in Ixoroideae sensu lato sensu Bremer with relatively strong bootstrap support, but this position is not well supported within the subfamily.

Searching for the relatives of Coffea (Rubiaceae, Ixoroideae): the circumscription and phylogeny of Coffeeae based on plastid sequence data and morphology.

The circumscription of Coffeeae (Rubiaceae) and phylogenetic relationships within the tribe were evaluated using sequence data from four plastid regions and a morphological data set and support an enlarged circumscription for Coffeeae, containing 11 genera.

Molecular Phylogeny of the Tribe Anthospermeae (Rubiaceae): Systematic and Biogeographic Implications

It is concluded that it is dubious whether the tribe Anthospermeae is monophyletic including Carpacoce, and that the group was spread by long-distance dispersal to north-eastern Antarctica.

Phylogenetic utility of the nuclear rDNA ITS region in subfamilyIxoroideae (Rubiaceae): Comparisons with cpDNArbcL sequence data

ITS of the nrDNA were sequenced for 21 taxa inIxoroideae and outgroups (Rubiaceae) and compared with sequences of the cp-generbcL and inconsistencies found may be caused by density of taxon sampling, different evolutionary rates, phylogenetic sorting, homoplasy caused by functional constraints, or sampling of non-orthologous ITS types.

Paraphyly of Paederieae, recognition of Putorieae and expansion of Plocama (Rubiaceae-Rubioideae)

This thesis deals with phylogenetic relationships at different taxonomic levels of the order Gentianales, which comprises about 17 200 species, based on parsimony analyses of nucleotide sequence data (DNA) from different regions in the chloroplast genome.

Combined phylogenetic analysis in the Rubiaceae-Ixoroideae: morphology, nuclear and chloroplast DNA data.

The combined analysis resulted in higher resolution compared to the separate analyses, exemplifying that combined analyses can remedy the incapability of one data set to resolve portions of a phylogeny.

Deep divergences in the coffee family and the systematic position of Acranthera

Nuclear ITS provided structured information at all phylogenetic levels, but the main gain from adding nrITS was the increased resolution and average support values also increased but were generally high also without nr ITS and the increase was not statistically significant.