Phylogenetic split of Larix: evidence from paternally inherited cpDNA trnT-trnF region

@article{Wei2003PhylogeneticSO,
  title={Phylogenetic split of Larix: evidence from paternally inherited cpDNA trnT-trnF region},
  author={X.X. Wei and X.-Q. Wang},
  journal={Plant Systematics and Evolution},
  year={2003},
  volume={239},
  pages={67-77}
}
A molecular phylogeny of Larix comprising 12 species was constructed from the sequence analysis of the paternally inherited cpDNA trnT-trnF region of 46 individuals. The most parsimonious tree split Larix into three sister clades: one clade was composed of two North American species, the other two were short-bracted and long-bracted species of Eurasia respectively except that L. sibirica was clustered in the long-bracted clade. The difference between the present cpDNA phylogeny and previous… 

Molecular phylogeny and biogeography of Picea (Pinaceae): implications for phylogeographical studies using cytoplasmic haplotypes.

Recolonization and radiation in Larix (Pinaceae): evidence from nuclear ribosomal DNA paralogues

TLDR
This study suggests that the distribution pattern analysis of members of multiple gene family would be very useful in tracking the evolutionary history of some taxa with recent origin or rapid radiation that cannot be resolved by other molecular markers.

Species-diagnostic markers in Larix spp. based on RAPDs and nuclear, cpDNA, and mtDNA gene sequences, and their phylogenetic implications

TLDR
Genetic markers from the nuclear, chloroplast, and mitochondrial genomes were developed to distinguish unambiguously among four larch species used in intensive forestry in eastern North America, and should be useful for the certification of larch breeding materials and hybrid stocks used inintensive forestry in the northern hemisphere.

Phylogeography of Eurasian Larix species inferred from nucleotide variation in two nuclear genes.

TLDR
The results indicate that more intensive sampling especially from known refugial regions is necessary for inferring correct classification of Eurasian Larix species and inferring their postglacial migration.

Phylogeny and biogeography of Cedrus (Pinaceae) inferred from sequences of seven paternal chloroplast and maternal mitochondrial DNA regions.

TLDR
The results indicate that Cedrus could have an origin in the high latitude area of Eurasia, and its present distribution might result from vicariance of southerly migrated populations during climatic oscillations in the Tertiary and further fragmentation and dispersal of these populations.

Marked Intragenomic Heterogeneity and Geographical Differentiation of nrDNA ITS in Larixpotaninii (Pinaceae)

Nuclear ribosomal DNA (nrDNA) of gymnosperms, especially Pinaceae, is characterized by slow concerted evolution and exhibits substantial ITS-region length variation (975–3663 bp), in sharp contrast

Discordant mtDNA and cpDNA phylogenies indicate geographic speciation and reticulation as driving factors for the diversification of the genus Picea

TLDR
The results emphasize the reduced value of cpDNA to infer vertical descent and the speciation history for plants with paternal transmission and high dispersal of their chloroplast genome.

Phylogeny of the Athyriaceae : evidence from chloroplast trnL- F region sequences

TLDR
These trees reveal that: (1) the results of the trnL- F region sequence analyses and those of the rbcL gene sequence analyses are largely congruent ; (2) Neoathyrium crenulatoserrulatum (Makino) Ching & Z. Wang should be transferred to Cornopteris Nakai ; (3) Pseudocystopteris Ching and Kuniwat2 sukia Pic.

Cytoplasmic DNA variation and biogeography of Larix Mill. in Northeast Asia

TLDR
The distribution of mtDNA and cpDNA variation suggests the presence of several refugia during Pleistocene glacial intervals and weak but visible differentiation between L. gmelinii and L. cajanderi, suggesting independent glacial histories of these species.

References

SHOWING 1-10 OF 66 REFERENCES

Internal transcribed spacer region evolution in Larix and Pseudotsuga (Pinaceae).

TLDR
The phylogenetic hypothesis did not conflict with a stepping stone model of evolution for Pseudotsuga, but a basal lineage could not be inferred for either genus and a slow rate of concerted evolution among nrDNA loci was suggested.

PCR-RFLP ANALYSIS OF THE CHLOROPLAST GENE trn K IN THE PINACEAE, WITH SPECIAL REFERENCE TO THE SYSTEMATIC POSITION OF CATHAYA

ABSTRACT The molecular phylogeny of the Pinaceae represented by 13 species of 10 genera was constructed from PCR-RFLP analysis of the chloroplast gene trn K, which was approximately 2557 bp long.

Phylogeny and biogeography of the genus Lycium (Solanaceae): inferences from chloroplast DNA sequences.

TLDR
To investigate phylogenetic and biogeographic relationships of the genus with emphasis on L. sandwicense, the coding region of matK, the two intergenic spacers trnT (UGU)-trnL (UAA) and trnF (GAA), and the trnL intron of chloroplast DNA (cpDNA) were sequenced.

Patterns of nucleotide substitution in angiosperm cpDNA trnL (UAA)-trnF (GAA) regions.

TLDR
Confidence in the link between mutation bias at the polymerase level and the actual fixation of substitutions as recorded on evolutionary trees is strengthened, and base compositions between the regions were highly similar in all six groups, suggesting that the angiosperm trnL-F regions evolve in a pattern different from that generally observed for nuclear and animal mtDNA.

Phylogeny and divergence times in Pinaceae: evidence from three genomes.

TLDR
Intergeneric relationships of Pinaceae using sequences of the chloroplast matK gene, the mitochondrial nad5 gene, and the low-copy nuclear gene 4CL are studied to suggest morphology of both vegetative and reproductive organs has undergone convergent evolution within the pine family.

Molecular phytogeny of conifers using RFLP analysis of PCR-amplified specific chloroplast genes

TLDR
The molecular phylogeny of conifers using restriction endonuclease fragment length polymorphism of six polymerase chain reaction-amplified chloroplast genes indicated that Cupress Families and Taxodiaceae are closely related families and that Sciadopitys verticillata is the basal lineage of Cupressaceae and taxodiaceae.

Phylogenetic use of noncoding regions in the genus Gentiana L.: chloroplast trnL (UAA) intron versus nuclear ribosomal internal transcribed spacer sequences.

TLDR
At the intrageneric level, at least in Gentiana, ITSs (especially ITS2) sequences seem to be more appropriate in the assessment of plant phylogenies and the cpDNA trnL intron seems to be preferable at the intergeneric level.

Molecular phylogeny of extant gymnosperms and seed plant evolution: analysis of nuclear 18S rRNA sequences.

To study the evolutionary relationships among the four living gymnosperm orders and the interfamilial relationships in each order, a set of 65 nuclear 18S rRNA sequences from ferns, gymnosperms, and

Genetic relationship among Eurasian and American Larix species based on allozymes

TLDR
The resulting phylogeny indicates a clear phylogeny between American and Eurasian species, in agreement with recent palaeontological findings that suggest that gene flow between Americans and Eurasians species has been unlikely since the last glaciation.

A molecular systematic study ofCathaya, a relic genus of thePinaceae in China

TLDR
The most parsimonious Fitch tree and neighbor-joining tree showed that Cathaya was distantly related to the clade comprising Abies, Keteleeria, Pseudolarix andTsuga, and a sister group relationship betweenCathaya andPinus was weakly supported.
...