Plastid trnL intron polymorphisms among Phalaenopsis species used for identifying the plastid genome type of Phalaenopsis hybrids

2012 ◽  
Vol 142 ◽  
pp. 84-91 ◽  
Author(s):  
Chi-Chu Tsai ◽  
Yu-Chung Chiang ◽  
Yu-Shium Lin ◽  
Wen-Lin Liu ◽  
Chang-Hung Chou
Keyword(s):  
Plastid Genome ◽  
Trnl Intron ◽  
Genome Type

scholarly journals Uncovering dynamic evolution in the plastid genome of seven Ligusticum species provides insights into species discrimination and phylogenetic implications

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Can Yuan ◽  
Xiufen Sha ◽  
Miao Xiong ◽  
Wenjuan Zhong ◽  
Yu Wei ◽  
...  
Keyword(s):  
Plastid Genome ◽  
Species Discrimination ◽  
Chloroplast Genomes ◽  
Genomic Arrangement ◽  
Phylogenetic Implications ◽  
Solid Foundation ◽  
Conserved Gene ◽  
Fine Resolution ◽  
Genome Scale ◽  
First Time

AbstractLigusticum L., one of the largest members in Apiaceae, encompasses medicinally important plants, the taxonomic statuses of which have been proved to be difficult to resolve. In the current study, the complete chloroplast genomes of seven crucial plants of the best-known herbs in Ligusticum were presented. The seven genomes ranged from 148,275 to 148,564 bp in length with a highly conserved gene content, gene order and genomic arrangement. A shared dramatic decrease in genome size resulted from a lineage-specific inverted repeat (IR) contraction, which could potentially be a promising diagnostic character for taxonomic investigation of Ligusticum, was discovered, without affecting the synonymous rate. Although a higher variability was uncovered in hotspot divergence regions that were unevenly distributed across the chloroplast genome, a concatenated strategy for rapid species identification was proposed because separate fragments inadequately provided variation for fine resolution. Phylogenetic inference using plastid genome-scale data produced a concordant topology receiving a robust support value, which revealed that L. chuanxiong had a closer relationship with L. jeholense than L. sinense, and L. sinense cv. Fuxiong had a closer relationship to L. sinense than L. chuanxiong, for the first time. Our results not only furnish concrete evidence for clarifying Ligusticum taxonomy but also provide a solid foundation for further pharmaphylogenetic investigation.

scholarly journals The complete plastid genome of Thrixspermum centipeda (Orchidaceae, Aeridinae)

2021 ◽  
Vol 6 (3) ◽  
pp. 1245-1246
Author(s):  
Meng-Wei Chi ◽  
Ding-Kun Liu ◽  
Cheng-Yuan Zhou ◽  
Ming-He Li ◽  
Si-Ren Lan
Keyword(s):  
Plastid Genome

scholarly journals The complete plastid genome sequence of Quercus acuta (Fagaceae), an evergreen broad-leaved oak endemic to East Asia

2021 ◽  
Vol 6 (2) ◽  
pp. 320-322
Author(s):  
Won-Bum Cho ◽  
Eun-Kyeong Han ◽  
In-Su Choi ◽  
Myounghai Kwak ◽  
Jung-Hyun Kim ◽  
...  
Keyword(s):  
East Asia ◽  
Genome Sequence ◽  
Plastid Genome ◽  
Quercus Acuta

Relationships of North American members of Rhodiola (Crassulaceae)

Botany ◽  
2014 ◽  
Vol 92 (12) ◽  
pp. 901-910 ◽  
Author(s):  
Joel P. Olfelt ◽  
William A. Freyman
Keyword(s):  
Dna Sequences ◽  
North American ◽  
Phylogenetic Analyses ◽  
Black Hills ◽  
Trnl Intron ◽  
The North ◽  
Alpine Habitats ◽  
Rare And Endangered ◽  
Chloroplast Dna Sequences ◽  
Rhodiola Integrifolia

Taxa of Rhodiola L. (Crassulaceae) generally grow in arctic or alpine habitats. Some Rhodiola species are used medicinally, one taxon, Rhodiola integrifolia Raf. subsp. leedyi (Rosend. & J.W.Moore) Moran, (Leedy’s roseroot), is rare and endangered, and the group’s biogeography in North America is intriguing because of distributional disjunctions and the possibility that Rhodiola rhodantha (A.Gray) H.Jacobsen (2n = 7II) and Rhodiola rosea L. (2n = 11II) hybridized to form Rhodiola integrifolia Raf. (2n = 18II). Recent studies of the North American Rhodiola suggest that the group’s current taxonomy is misleading. We analyzed nuclear and chloroplast DNA sequences (internal transcribed spacer (ITS), trnL intron, trnL–trnF spacer, trnS–trnG spacer) from the North American Rhodiola taxa. We combined our data with GenBank sequences from Asian Rhodiola species, performed parsimony, maximum likelihood (ML), and Bayesian phylogenetic analyses, and applied a Bayesian clock model to the ITS data. Our analyses reveal two major Rhodiola clades, suggest that hybridization between R. rhodantha and R. rosea lineages was possible, show two distinct clades within R. integrifolia, and demonstrate that a Black Hills, South Dakota, Rhodiola population should be reclassified as Leedy’s roseroot. We recommend that R. integrifolia be revised, and that the Black Hills Leedy’s roseroot population be managed as part of that rare and endangered taxon.

scholarly journals Complete plastid genome sequence of Neolitsea aciculata (Laurales: Lauraceae), an evergreen broad-leaved tree endemic to East Asia

2021 ◽  
Vol 6 (9) ◽  
pp. 2553-2555
Author(s):  
Eun-Kyeong Han ◽  
Gantsetseg Amarsanaa ◽  
Jung-Hyun Kim ◽  
Soonku So ◽  
In-Su Choi ◽  
...  
Keyword(s):  
East Asia ◽  
Genome Sequence ◽  
Plastid Genome

scholarly journals Characterization of the complete plastid genome of lop-sided onion Allium obliquum L. (Amaryllidaceae)

2018 ◽  
Vol 3 (1) ◽  
pp. 393-394 ◽  
Author(s):  
Mikhail A. Filyushin ◽  
Alexey V. Beletsky ◽  
Alexander M. Mazur ◽  
Elena Z. Kochieva
Keyword(s):  
Plastid Genome
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