The complete chloroplast genome sequence of an Endangered orchid species <i>Dendrobium bellatulum</i> (Orchidaceae)

Zhang, Yunjiao; Ma, Cong; Yang, Feng; Cheng, Xing; Song, Ji

doi:10.1080/23802359.2018.1437811

Cited by 3 publications

(2 citation statements)

References 11 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Long-term geographic isolation exposed Asian and South American Bulbophyllum cp genomes to varying selective pressures (Yang et al, 2022). Besides the Bulbophyllum orchids, plastid genome sequencing has been reported for a large number of Dendrobium species, which are commonly used for phylogenetic studies and variety authentication (Zhang et al, 2018;Wu X.-Y. et al, 2019;Liu et al, 2021).…”

Section: Sequencing and Evolution Of The Chloroplast Genome In Orchidmentioning

confidence: 99%

In-depth analysis of genomes and functional genomics of orchid using cutting-edge high-throughput sequencing

et al. 2022

View full text Add to dashboard Cite

High-throughput sequencing technology has been facilitated the development of new methodologies and approaches for studying the origin and evolution of plant genomes and subgenomes, population domestication, and functional genomics. Orchids have tens of thousands of members in nature. Many of them have promising application potential in the extension and conservation of the ecological chain, the horticultural use of ornamental blossoms, and the utilization of botanical medicines. However, a large-scale gene knockout mutant library and a sophisticated genetic transformation system are still lacking in the improvement of orchid germplasm resources. New gene editing tools, such as the favored CRISPR-Cas9 or some base editors, have not yet been widely applied in orchids. In addition to a large variety of orchid cultivars, the high-precision, high-throughput genome sequencing technology is also required for the mining of trait-related functional genes. Nowadays, the focus of orchid genomics research has been directed to the origin and classification of species, genome evolution and deletion, gene duplication and chromosomal polyploidy, and flower morphogenesis-related regulation. Here, the progressing achieved in orchid molecular biology and genomics over the past few decades have been discussed, including the evolution of genome size and polyploidization. The frequent incorporation of LTR retrotransposons play important role in the expansion and structural variation of the orchid genome. The large-scale gene duplication event of the nuclear genome generated plenty of recently tandem duplicated genes, which drove the evolution and functional divergency of new genes. The evolution and loss of the plastid genome, which mostly affected genes related to photosynthesis and autotrophy, demonstrated that orchids have experienced more separate transitions to heterotrophy than any other terrestrial plant. Moreover, large-scale resequencing provide useful SNP markers for constructing genetic maps, which will facilitate the breeding of novel orchid varieties. The significance of high-throughput sequencing and gene editing technologies in the identification and molecular breeding of the trait-related genes in orchids provides us with a representative trait-improving gene as well as some mechanisms worthy of further investigation. In addition, gene editing has promise for the improvement of orchid genetic transformation and the investigation of gene function. This knowledge may provide a scientific reference and theoretical basis for orchid genome studies.

show abstract

Section: Sequencing and Evolution Of The Chloroplast Genome In Orchidmentioning

confidence: 99%

In-depth analysis of genomes and functional genomics of orchid using cutting-edge high-throughput sequencing

et al. 2022

View full text Add to dashboard Cite

show abstract

“…The Dendrobium species, occupying the largest family members of Orchidaceae, have been widely used as traditional Chinese medicine (Wojcikowski and Gobe 2014;Zhang et al 2018) and popular garden flowers (Gao et al 2018). Dendrobium thyrsiflorum Rchb.…”

Section: Dendrobium Thyrsiflorum; Chloroplast Genome; Pacbio Platform; Phylogenetic Analysismentioning

confidence: 99%

The complete chloroplast genome sequence of Dendrobium thyrsiflorum (Orchidaceae) and its phylogenetic analysis

Zhu

Luo

Gao

et al. 2019

Mitochondrial DNA Part B

View full text Add to dashboard Cite

Dendrobium thyrsiflorum Rchb.f., a native species to China, is widely used as an important garden flower and a traditional Chinese medicine. Herein, the complete chloroplast (cp) genome of D. thyrsiflorum was deciphered by high-throughput sequencing. The cp genome exhibited a typical quadripartite cycle of 151,686 bp in length, comprising of a pair of inverted repeats (IRa and IRb) of 26,293 bp which were intersected by a large single copy (LSC) region of 84,749 bp and a small single copy (SSC) region of 14,351 bp. A total of 126 genes were de novo assembled in this cp genome, including 78 protein genes, 40 tRNA genes and 8 rRNA genes. Among these genes, 86 genes (22 tRNAs and 64 coding genes) were single copy, the rest were two-copy genes, and the average of GC content of the whole genome is 37.55%. Phylogenetic trees showed that the D. thyrsiflorum was closely related to D. devonianum . This study provides molecular information for future evolution, genetic and molecular biology studies of Dendrobium .

show abstract

Genetic diversity and population structure of cultivated Dendrobium huoshanense (C.Z. Tang et S.J. Cheng) using SNP markers generated from GBS analysis

Ye¹,

Wang²,

Zhou³

et al. 2021

PAK.J.BOT.

View full text Add to dashboard Cite

The complete chloroplast genome sequence of an Endangered orchid species Dendrobium bellatulum (Orchidaceae)

Abstract: Song (2018) The complete chloroplast genome sequence of an Endangered orchid species Dendrobiumbellatulum (Orchidaceae), Mitochondrial DNA Part B, 3:1, 233-234,

Cited by 3 publications

References 11 publications

In-depth analysis of genomes and functional genomics of orchid using cutting-edge high-throughput sequencing

In-depth analysis of genomes and functional genomics of orchid using cutting-edge high-throughput sequencing

The complete chloroplast genome sequence of Dendrobium thyrsiflorum (Orchidaceae) and its phylogenetic analysis

Genetic diversity and population structure of cultivated Dendrobium huoshanense (C.Z. Tang et S.J. Cheng) using SNP markers generated from GBS analysis

Contact Info

Product

Resources

About