Phylogenetic reconstruction of the genusBrachypodium P. Beauv. (Poaceae) from combined sequences of chloroplastndhF gene and nuclear ITS

@article{Cataln2004PhylogeneticRO,
  title={Phylogenetic reconstruction of the genusBrachypodium P. Beauv. (Poaceae) from combined sequences of chloroplastndhF gene and nuclear ITS},
  author={Pilar Catal{\'a}n and Richard G. Olmstead},
  journal={Plant Systematics and Evolution},
  year={2004},
  volume={220},
  pages={1-19}
}
A phylogenetic reconstruction of eight species of the genusBrachypodium P. Beauv. [] Key Result (Poaceae) has been obtained combining sequence data from the chloroplastndhF gene and the nuclear ITS, and using five representatives of tribes Triticeae (Secale), Poeae (Lolium), Meliceae (Melica, Glyceria) and Oryzeae (Oryza) as out-groups. Similar numbers of informative substitutions for the ingroup species were provided by both the 3′ region of the chloroplastndhF gene and the nuclear ITS region.
Duthieeae, a new tribe of grasses (Poaceae) identified among the early diverging lineages of subfamily Pooideae: molecular phylogenetics, morphological delineation, cytogenetics and biogeography
TLDR
Morphological, cytogenetic and biogeographical analyses point to warm and humid conditions as the ancestral bioclimatic niche of Phaenosperma and Duthieeae, whereas adaptation to cold and drought occurred only in a part of DuthIEeae but was obviously less successful than in the widespread and much more species-rich tribe Stipeae.
MOLECULAR PHYLOGENETICS OF BROMUS (POACEAE: POOIDEAE) BASED ON CHLOROPLAST AND NUCLEAR DNA SEQUENCE DATA
TLDR
A phylogenetic analysis to characterize relationships among Bromus and test the monophyly of five of the seven morphologically distinct groups within Bromus (Poaceae: Pooideae) that have been treated as sections, subgenera, or genera found that current classification schemes do not reflect phylogenetic relationships in Bromus.
Phylogenetic structure of the grass subfamily Pooideae based on comparison of plastid matK gene-3'trnK exon and nuclear ITS sequences
TLDR
The results do not reveal a significant role of past hybridisation, plastid lineage sorting or reticulation in the evolutionary diversification of the major lineages of the grass subfamily Pooideae and a largely well-supported pattern of divergence is results in.
Phylogeny and Evolution of the Genus Brachypodium
TLDR
The results support the early splits of the annual and short-rhizomatose lineages (B. hybridum in the Holarctic region during the early-Middle Miocene) and a profusion of rapid splits for the perennial lineages since the late Miocene to the Pleistocene in the Mediterranean and Eurasian regions.
Phylogeny of Linearia and Notata groups of Paspalum L. (Poaceae, Panicoideae, Paniceae) and related species
TLDR
This work uses a phylogenetic approach to study informal groups of Paspalum, using DNA sequences from ITS of nuclear rRNA, from chloroplast intergenic spacer psbA-trnH andchloroplast trnL intron to perform the analyses.
Phylogeny of Broad-leaved and Fine-leaved Festuca Lineages (Poaceae) based on Nuclear ITS Sequences
TLDR
A new nomenclatural combination is proposed (Festuca arundinacea Schreb + Festuca-Aulaxyper + Vulpia), which is formed by a paraphyletic assemblage of sectional groups, where sects.
Updated taxonomic descriptions, iconography, and habitat preferences of Brachypodium distachyon, B. stacei , and B. hybridum (Poaceae)
TLDR
The taxonomic descriptions of the three annual species of the genus Brachypodium (Poaceae) are updated using morphoanatomical data from specimens collected throughout their respective native circum-Mediterranean distributions as well as in other localities where they are non-autochthonous.
Are diversification rates and chromosome evolution in the temperate grasses (Pooideae) associated with major environmental changes in the Oligocene-Miocene?
TLDR
The Pooideae are a highly diverse C3 grass subfamily that includes some of the most economically important crops, nested within the highly speciose core-pooid clade, and its patterns of diversification and its chromosomal evolutionary changes in the light of past environmental transformations are assessed.
A DNA Barcoding Method to Discriminate between the Model Plant Brachypodium distachyon and Its Close Relatives B. stacei and B. hybridum (Poaceae)
TLDR
The authors' data provide an unbiased and effective barcode to differentiate these three closely-related species from one another and overcomes the taxonomic uncertainty generated from methods based on morphology or flow cytometry identifications that have resulted in some misclassifications of the model plant and its allies.
Comparative cytogenetic analysis of the genomes of the model grass Brachypodium distachyon and its close relatives.
TLDR
The increasing significance of B. distachyon as a model grass emphasizes the need to understand the evolutionary relationships in the genus Brachypodium and to ensure consistency in the biological nomenclature of its species.
...
...

References

SHOWING 1-10 OF 38 REFERENCES
Molecular phylogeny of the Pooideae (Poaceae) based on nuclear rDNA (ITS) sequences
TLDR
The phylogenetic relationships of the seven pooid tribes inferred from the ITS sequences are highly concordant with the cytogenetic evidence that the reduction in chromosome number and the increase in chromosome size evolved only once in the pooids and pre-dated the divergence of the Poeae, Aveneae, Bromeae and Triticeae.
Phylogeny of Poaceae subfamily Pooideae based on chloroplast ndhF gene sequences.
TLDR
Phylogenetic analyses of the data render a monophyletic Pooideae clade and provide an evolutionary hypothesis for all its tribes and show character changes found within the sequenced nucleotide positions of the ndhF gene to be informative at lower hierarchical levels (genus and species) for some tribes.
Molecular phylogeny of the grass genus Brachypodium P. Beauv. based on RFLP and RAPD analysis
TLDR
Molecular studies confirm Brachypodium as an isolated ancient genus best placed in its own tribe (Brachypodieae).
A Phylogeny of the Grass Family (Poaceae) Based on ndhF Sequence Data
TLDR
Results confirm that certain elements within the Bambusoideae s.l. are basal within the Poaceae and contrast with previous hypotheses that the Pooideae represent a basal or near-basal branch, and indicate that reevaluation of intrafamilial classification is necessary.
Evidence from RAPD markers in the evolution ofEchinochloa millets (Poaceae)
  • K. Hilu
  • Biology
    Plant Systematics and Evolution
  • 2004
TLDR
The variability in DNA markers observed in the domesticated species, particularly E. frumentacea, points to the feasibility of using RAPD markers in cultivar fingerprinting and breeding programs of these millets, and some disagreements on the interpretation of some of the cytogenetic information is raised.
A MOLECULAR PHYLOGENY OF ARCEUTHOBIUM (VISCACEAE) BASED ON NUCLEAR RIBOSOMAL DNA INTERNAL TRANSCRIBED SPACER SEQUENCES
TLDR
Minimum length trees support the concept of a verticillately branched subgenus Arceuthobium; however, interspecific distances indicate this group is extremely heterogeneous.
A Phylogenetic Analysis of Epilobium (Onagraceae) Based on Nuclear Ribosomal DNA Sequences
TLDR
The molecular phylogeny is compatible with some important independent characters and is useful for interpreting morphological and cytological evolution in Epilobium.
Chloroplast‐DNA restriction site analysis in the genus Bromus (Poaceae)
TLDR
The cpDNA phylogenetic hypothesis did not separate species of subgenera Stenobromus and Bromus into well-defined clades as circumscribed by morphology and cytogenetics, and values suggest that cpDNA evolution in Bromus is slow.
Comparisons of phylogenetic hypotheses among different data sets in dwarf dandelions (Krigia, Asteraceae): Additional information from internal transcribed spacer sequences of nuclear ribosomal DNA
TLDR
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.
Ribosomal DNA variation and its phylogenetic implication in the genusBrachypodium (Poaceae)
TLDR
The structure of ribosomal DNA of Brachypodium and several other grass species was investigated using a heterologous rDNA probe from wheat, finding restriction fragment length polymorphism and length variation of the repeat units have taxonomic value withinBrachyp sodium and are correlated with the classification of Brachypodium derived from other data.
...
...