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

  title={Phylogenetic utility of the nuclear rDNA ITS region in subfamilyIxoroideae (Rubiaceae): Comparisons with cpDNArbcL sequence data},
  author={Katarina Andreasen and Bruce G. Baldwin and Birgitta Bremer},
  journal={Plant Systematics and Evolution},
ITS of the nrDNA were sequenced for 21 taxa inIxoroideae and outgroups (Rubiaceae) and compared with sequences of the cp-generbcL. Separate and combined analyses were performed. ITS-variation was extensive and, because of alignment ambiguities, some sites were excluded from the analyses. Several topologies from therbcL analysis that conflicted with earlier classifications are corroborated by the ITS data: 1)Posoqueria should be excluded fromGardenieae. 2) The disputed genusBertiera, previously… 

Nuclear rDNA ITS sequence data used to construct the first phylogeny of Vanguerieae (Rubiaceae)

Results from this first phylogenetic analysis of the tribe Vanguerieae clearly demonstrate a need for new circumscriptions of several genera, among which three new informal groups are discussed, i.e. the Vangueria group, the Fadogia-Rytigynia group and the Spiny group.

Phylogeny and classification of Naucleeae s.l. (Rubiaceae) inferred from molecular (ITS, rBCL, and tRNT-F) and morphological data.

The study supports the monophyly of the subtribes Anthocephalidae, Mitragynae, Uncariae all sensu Haviland and Naucleinae sensu Ridsdale and results were inconclusive for assessing the relationships among Adina, Adinauclea, Metadina, and Pertusadina.

Recent origin and phylogenetic utility of divergent ITS putative pseudogenes: a case study from Naucleeae (Rubiaceae).

These studies clearly show that ITS polymorphism may not necessarily mislead phylogenetic inference and, therefore, divergent putative pseudogenes can be useful for phylogenetic analyses, especially when no sequences of their functional counterparts are available.

Evolutionary Trends, Major Lineages, and New Generic Limits in the Dioecious Group of the Tribe Vanguerieae (Rubiaceae): Insights into the Evolution of Functional Dioecy1

The results seem to point to a single origin of functional dioecy followed by subsequent reversals back to the hermaphroditic conditions at least within the Cyclophyllum–Canthium confertum clade and Pyrostria s.l., as the Comorean and Malagasy Canthium species are shown for the first time to be closely related to Peponidium.

Molecular phylogenetic analysis of the tribe Alberteae (Rubiaceae), with description of a new genus, Razafimandimbisonia

The genus Alberta is found to be paraphyletic as presently circumscribed and the new genus Razafimandimbisonia Kainul is proposed by C. & B. Bremer to accommodate the Malagasy species.

A trnL-F cpDNA sequence study of the Condamineeae-Rondeletieae-Sipaneeae complex with implications on the phylogeny of the Rubiaceae.

DNA sequences from the chloroplast trnL-F region of 154 Rubiaceae and 11 outgroup taxa were analyzed cladistically. An emphasis was placed on the tribes Rondeletieae, Sipaneeae, and Condamineeae.

Phylogenetic analysis of Sesuvioideae (Aizoaceae) inferred from nrDNA internal transcribed spacer (ITS) sequences and morphological data

The phylogeny of the four genera of Aizoaceae subfamily Sesuvioideae (Sesuvium, Cypselea, Trianthema and Zaleya) is elucidated employing internal transcribed spacer sequences and 23 morphological characters and a combined molecular-morphological analysis provides largely congruent results.

A Molecular Phylogenetic Study of Arnica (Asteraceae): Low Chloroplast DNA Variation and Problematic Subgeneric Classification

The analyses revealed that A. nevadensis is most closely related to A. dealbata and A. mallotopus forms a strongly supported clade with A. unalaschcensis, and earlier biogeographical hypotheses that suggested an arctic origin and southward spread of the genus are not supported.

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.



Comparisons of phylogenetic hypotheses among different data sets in dwarf dandelions (Krigia, Asteraceae): Additional information from internal transcribed spacer sequences of nuclear ribosomal DNA

The results from Krigia and theLactuceae suggest that nrDNA data may have limited utility in phylogenetic studies of plants, especially in groups which exhibit high levels of sequence divergence.

Discordance Between ITS and Chloroplast Topologies in the Boykinia Group (Saxifragaceae)

To assess whether discord exists between nuclear- and chloroplast-based phylogenetic trees within the Boykinia group (Saxifragaceae), we compared topologies obtained from analyses of ITS sequences

a molecular phylogeny of apiaceae subfamily Apioideae: evidence from nuclear ribosomal DNA internal transcribed spacer sequences

IT sequences are useful for phylogenetic inference among closely related members of Apioideae but, owing to high rates of nucleotide substitution, are less useful in resolving relationships among the more ancestral nodes of the phylogeny.

ITS sequence variation within and among populations of Lomatium grayi and L. laevigatum (Umbelliferae).

ITS-1 sequences in Lomatium are less variable than either allozymes or chloroplast DNA and do not appear to provide a valuable source of intraspecific markers for population-level studies.


Comparison of relationships based on cpDNA and ITS sequences for the Heuchera group underscores the need for caution in the use of organellar variation for retrieving phylogeny at lower taxonomic levels, particularly in groups noted for hybridization.

Chloroplast DNA phylogeny, reticulate evolution, and biogeography of Paeonia (Paeoniaceae).

A refined hypothesis of species phylogeny of section Paeonia was proposed by considering the discordance between the nuclear and cpDNA phylogenies to be results of hybrid speciation followed by inheritance of cpDNA of one parent and fixation of ITS sequences of another parent.

Documentation of reticulate evolution in peonies (Paeonia) using internal transcribed spacer sequences of nuclear ribosomal DNA: implications for biogeography and concerted evolution.

Reconstruction of reticulate evolution with sequence data provides gene records for distributional histories of some of the parental species and demonstrates that the sequence data could be highly informative and accurate for detecting hybridization.

Phylogeny of the Gardenieae (Rubiaceae)

Abstract The phylogeny of Gardenieae (Rubiaceae) is evaluated using 70 morphological and anatomical characters and 81 terminal taxa. After successive reweighting of the characters and modified

Phylogeny, diversity, and distribution inExostema (Rubiaceae): Implications of morphological and molecular analyses

Morphological evolution in Exostema involves many specializations for xeric habitats, reflecting repeated ecological shifts from moist forest to exposed, seasonally dry environments during the diversification of the genus.