Complete chloroplast genome of <i>Dendrobium thyrsiflorum</i> (Orchidaceae)

Pan, Yun-Yun; Li, Ting-Zhang; Chen, Jianbing; Huang, Jie; Rao, Wen-Hui

doi:10.1080/23802359.2019.1667918

Cited by 6 publications

(4 citation statements)

References 8 publications

(9 reference statements)

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“…The cp genome encodes 133 genes, consisting of 131 unique genes (79 protein-coding genes, 30 tRNAs, and 4 rRNAs). The gene order and organization of the D. wattii are consistent with those of other species in Dendrobium (Yan et al 2016;Huang et al 2019;Pan et al 2019).…”

Section: Dendrobium Wattii; Chloroplast Genome; Phylogeny; Orchidaceaesupporting

confidence: 75%

The complete chloroplast genome of Dendrobium wattii (Orchidaceae)

Wang

Luo

et al. 2020

Mitochondrial DNA Part B

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Dendrobium wattii is a rare and ornamental orchid that is placed in Sect. Formosae of Dendrobium. The complete chloroplast (cp) genome sequence and the genome features of D. wattii were reported for new data on the phylogeny of Dendrobium. The complete cp genome sequence of D. wattii is 159,366 bp in length, including a large single-copy region (LSC, 87,192 bp), a small single-copy region (SSC, 18,422 bp), and two inverted repeat sequences (IRs, 26,876 bp, each). The total content of GC is 37.2%. The cp genome contains 133 genes, consisting of 131 unique genes (79 protein-coding genes, 30 tRNAs, and 4 rRNAs). The phylogenetic analysis suggested that D. wattii be closely related to other species of Dendrobium.

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Section: Dendrobium Wattii; Chloroplast Genome; Phylogeny; Orchidaceaesupporting

confidence: 75%

The complete chloroplast genome of Dendrobium wattii (Orchidaceae)

Wang

Luo

et al. 2020

Mitochondrial DNA Part B

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“…The GC content ranged from 33.9% (C. formosanum) to 37.8% (C. macranthos) [32][33][34], and the number of genes was mostly around 130. Currently, the published plastids of Dendrobium members range from 148,431 bp (D. zhenghuoense) [35] to 160,123 bp (D. thyrsiflorum) [36]. In this study, we obtained the plastome sequences of 10 species of Dendrobium using next-generation sequencing technology.…”

Section: The Plastome Characteristicsmentioning

confidence: 99%

Chloroplast Genome Comparison and Evolution Analysis of Dendrobium (Orchidaceae) among Multiple Photosynthetic Pathways

Lin,

Zhang,

Duan

et al. 2023

Preprint

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Dendrobium Sw have multiple photosynthetic pathways but due to the lack of identification, the influence of CAM pathway on the plastid genomic evolution of Dendrobium and the origin of CAM pathway are still poorly understood. In this study, based on the results of δ13C, net photosynthetic rates (Pn) and titratable acid value, we identified Dendrobium species into three photosynthetic pathways. Then the chloroplast whole genome characteristics of 10 Dendrobium species were analyzed with next-generation sequencing technology. The quadripartite-structure plastomes ranged from 151,673 bp to 160,375 bp and included 127 to 132 genes. Five noncoding mutational hotspots (rbcL-accD, atpB-rbcL, rbcL, trnLUAA, accD, Pi &gt; 0.10) were identified. A total of 41–60 SSRs were recognized, the average trinucleotide content was only about 4%, which is probably due to a more conserved SSR. Among multiple photosynthetic pathways, the apparent differences in IR junctions of SSC/IRB junctions (JSBs) were measured within chloroplast genomes, and the chloroplast genome size of constitutive CAM plants is shorter because of their ndh gene loss or pseudogenization, and this phenomenon accounts for a decreasing proportion of constitutive CAM, facultative CAM, and obligate C3 plants, so that the loss of the ndh gene may be speculated to be closely related to the CAM pathway. Phylogenetic analyses showed that there are multiple independent CAM origins in selected Dendrobium species, and the ancestral Dendrobium plastome possessed full ORFs for all ndh genes. The study aims to clarify the chloroplast genomic features of different photosynthetic pathways, enrich the genomic data of CAM plants, and provide genetic information from different perspectives for further systematic study of Dendrobium.

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“…The last records came from Thailand (Phueakkhlai et al 2018) and China (Yunnan) (Jin and Li 2006;Li et al 2009). Considering that cp genome played an important role in revealing the origin of the evolution and phylogeny of Dendrobium (Pan et al 2019;Wang et al 2020), the complete cp genome of D. chrysocrepis was assembled in this paper.…”

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confidence: 99%

The complete chloroplast genome sequence of Dendrobium chrysocrepis (Orchidaceae)

Zhang

Luo

et al. 2020

Mitochondrial DNA Part B

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Dendrobium chrysocrepis is an endangered and rare species belonging to the family Orchidaceae. Here, we report the complete chloroplast (cp) genome sequence and the cp genome features of D. chrysocrepis. The complete cp genome sequence of D. chrysocrepis was 154,155 bp in length and presented a typical quadripartite structure including one large single-copy region (LSC, 86,372 bp), one small singlecopy region (SSC, 15,463 bp), and two inverted repeat regions (IR, 26,160 bp). The cp genome encoded 130 genes, of which 115 were unique genes. The phylogenetic relationships indicated that D. chrysocrepis was closely related to other species in Dendrobium.

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Complete chloroplast genome of Dendrobium thyrsiflorum (Orchidaceae)

Cited by 6 publications

References 8 publications

The complete chloroplast genome of Dendrobium wattii (Orchidaceae)

The complete chloroplast genome of Dendrobium wattii (Orchidaceae)

Chloroplast Genome Comparison and Evolution Analysis of Dendrobium (Orchidaceae) among Multiple Photosynthetic Pathways

The complete chloroplast genome sequence of Dendrobium chrysocrepis (Orchidaceae)

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