A high-quality chromosome-level genome assembly and annotation of the medicinal orchid Cremastra appendiculata (Orchidaceae)
4 affiliations
- 1College of Biological Sciences and Technology, National Facility Preservation Bank for Forestry and Grassland Germplasm Resources (Xiong’an), National Engineering Research Center of Tree Breeding and Ecological Restoration, State Key Laboratory of Efficient Production of Forest Resources, Beijing Forestry University, Beijing, 100083 China
- 2Chongqing University of Chinese Medicine, Chongqing, 402760 China
- 3State Key Laboratory of Plant Diversity and Specialty Crops, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093 China
- 4Chongqing Institute of Medicinal Plant Cultivation, Chongqing, 408435 China
Abstract
Cremastra appendiculata (D. Don) Makino, an endangered terrestrial orchid with significant medicinal value, lacks comprehensive genomic resources to elucidate its evolution and conservation genetics. Here, we present a chromosome-level genome assembly for C. appendiculata, generated by integrating PacBio circular consensus sequencing and Hi-C technologies. The final genome assembly totals 2.40 Gb, achieving contig and scaffold N50 values of 27.47 Mb and 98.06 Mb, respectively. Hi-C scaffolding anchored 98.66% of the assembly to 24 chromosomes, with repetitive elements comprising 83.85% of the genome and a total of 31,703 protein-coding genes predicted, of which 29,094 (91.77%) were functionally annotated. This high-quality, chromosome-level reference genome provides a foundational resource for understanding the population genetic structure, adaptive evolution and speciation mechanisms of C. appendiculata, thereby offering valuable insights into its evolutionary history and conservation.
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BibTeX
@article{tang2026highquality,
title = {{A high-quality chromosome-level genome assembly and annotation of the medicinal orchid Cremastra appendiculata (Orchidaceae)}},
author = {Yongchao Tang and Bo Xiao and Ruimin Yu and Shubin Dong and Xiujin Qi and Yibo Luo and Xiaohong Zhao and Jin Cheng},
journal = {Scientific Data},
year = {2026},
month = jul,
doi = {10.1038/s41597-026-07847-3},
url = {https://doi.org/10.1038/s41597-026-07847-3},
note = {CC BY-NC-ND 4.0},
}
RIS
TY - JOUR
TI - A high-quality chromosome-level genome assembly and annotation of the medicinal orchid Cremastra appendiculata (Orchidaceae)
AU - Yongchao Tang
AU - Bo Xiao
AU - Ruimin Yu
AU - Shubin Dong
AU - Xiujin Qi
AU - Yibo Luo
AU - Xiaohong Zhao
AU - Jin Cheng
PY - 2026
DA - 2026/07/13
JO - Scientific Data
DO - 10.1038/s41597-026-07847-3
UR - https://doi.org/10.1038/s41597-026-07847-3
AB - Cremastra appendiculata (D. Don) Makino, an endangered terrestrial orchid with significant medicinal value, lacks comprehensive genomic resources to elucidate its evolution and conservation genetics. Here, we present a chromosome-level genome assembly for C. appendiculata, generated by integrating PacBio circular consensus sequencing and Hi-C technologies. The final genome assembly totals 2.40 Gb, achieving contig and scaffold N50 values of 27.47 Mb and 98.06 Mb, respectively. Hi-C scaffolding anchored 98.66% of the assembly to 24 chromosomes, with repetitive elements comprising 83.85% of the genome and a total of 31,703 protein-coding genes predicted, of which 29,094 (91.77%) were functionally annotated. This high-quality, chromosome-level reference genome provides a foundational resource for understanding the population genetic structure, adaptive evolution and speciation mechanisms of C. appendiculata, thereby offering valuable insights into its evolutionary history and conservation.
SN - 2052-4463
ER -