Plastome sequences help to improve the systematic position of trinerved Lindera species in the family Lauraceae

@article{Tian2019PlastomeSH,
  title={Plastome sequences help to improve the systematic position of trinerved Lindera species in the family Lauraceae},
  author={Xiangyu Tian and Jun-Wei Ye and Yu Song},
  journal={PeerJ},
  year={2019},
  volume={7}
}
Lindera is a genus (c. 100 spp.) of trees belonging to the “core Laureae” group in the family Lauraceae. It is often confused with Litsea, and the systematics of the genus is unclear. Here, total 10 complete plastomes from nine trinerved Lindera species and another species Lindera obtusiloba (sect. Palminerviae Meissn.) were sequenced. Nine highly variable regions, trnH-GUG/psbA, psbM/trnD-GUC, petA/psbL, ndhF, trnL-UAG/ndhD, and ycf1, were identified among the 10 Lindera species. In addition… 

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References

SHOWING 1-10 OF 64 REFERENCES
Comparative chloroplast genomics and phylogenetics of nine Lindera species (Lauraceae)
TLDR
The results showed that these Lindera species grouped into two or four sub-clades, and that two Litsea species and Laurus nobilis were located in the same sub-Clade as five LinderA species, which support a close relationship between the genera Laurus, Lindersa, and Litsea.
Complete plastid genome sequences of three tropical Alseodaphne trees in the family Lauraceae
TLDR
Phylogenetic analyses based on 12 complete plastomes of Lauraceae species confirm a monophyletic Persea group comprising species of Alseodaphne, Phoebe, Persea and Machilus.
Evolutionary Comparisons of the Chloroplast Genome in Lauraceae and Insights into Loss Events in the Magnoliids
TLDR
Using phylogenetic analysis and structural comparisons, different loss events occurred in different lineages of the Laurales, and fragment loss events in the IR regions have largely driven the contraction of the plastome in the Lauraceae.
Complete chloroplast genome sequence of the avocado: gene organization, comparative analysis, and phylogenetic relationships with other Lauraceae
TLDR
The complete chloroplast sequence of the avocado (Persea americana Mill.), a popular tropical fruit tree, was determined in this study and the plastomes of Lauraceae are extremely evolutionarily conservative, with only 0.32% sequence divergence, which is surprisingly low for angiosperms.
Phylogeny of Litsea and related genera (Laureae-Lauraceae) based on analysis of rpb2 gene sequences
TLDR
The phylogenetic analyses of rpb2 data resulted in better resolved tree topologies compared to those based on cpDNA or nrITS data, and revealed that the genus Lindera is not a monophyletic group.
Comparative analysis of complete chloroplast genome sequences of two subtropical trees, Phoebe sheareri and Phoebe omeiensis (Lauraceae)
Phoebe is an economically important genus from the family Lauraceae. It is widely distributed in tropical and subtropical Asia, but systematics of the genus is unclear, and currently there is no
Phylogenetic Relationships of the Litsea Complex and Core Laureae (Lauraceae) Using ITS and ETS Sequences and Morphology1
TLDR
The results suggest that the use of two- versus four-celled anthers for Laureae generic delimitation has resulted in polyphyletic or paraphyletic genera, and the character of dimerous versus trimerous flowers is of only limited phylogenetic value.
Complete chloroplast genome sequences of two endangered Phoebe (Lauraceae) species
TLDR
The analysis showed the extremely conserved structure of chloroplast genomes with surprisingly little variations at the LSC/ir and SSC/IR boundaries, suggesting an extraordinarily low level of sequence divergence.
Phylogeny and Historical Biogeography of Lauraceae: Evidence from the Chloroplast and Nuclear Genomes
TLDR
Findings support Laurasian ancestry for most extant Lauraceae, with their considerable neotropical representation primarily derived from Early Miocene radiation of the Ocotea complex upon reaching South America.
Comparative analysis of complete chloroplast genome sequences of two tropical trees Machilus yunnanensis and Machilus balansae in the family Lauraceae
TLDR
To better understand the mutation patterns in the chloroplast genome of Machilus, the complete plastomes of two species were sequenced and 297 mutation events, including one micro-inversion in the ccsA-ndhD region, were accurately located.
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