Haplotype-resolved genome assembly of Coriaria nepalensis a non-legume nitrogen-fixing shrub. Zhao, S., Guo, J., Kong, L., Nie, S., Yan, X., Shi, T., Tian, X., Ma, H., Bao, Y., Li, Z., Chen, Z., Zhang, R., Ma, Y., El-Kassaby, Y. A., Porth, I., Zhao, W., & Mao, J. Scientific Data, 10(1):259, May, 2023. Number: 1 Publisher: Nature Publishing Group![Haplotype-resolved genome assembly of Coriaria nepalensis a non-legume nitrogen-fixing shrub [link]](https://bibbase.org/img/filetypes/link.svg "link")
Paper doi abstract bibtex Coriaria nepalensis Wall. (Coriariaceae) is a nitrogen-fixing shrub which forms root nodules with the actinomycete Frankia. Oils and extracts of C. nepalensis have been reported to be bacteriostatic and insecticidal, and C. nepalensis bark provides a valuable tannin resource. Here, by combining PacBio HiFi sequencing and Hi-C scaffolding techniques, we generated a haplotype-resolved chromosome-scale genome assembly for C. nepalensis. This genome assembly is approximately 620 Mb in size with a contig N50 of 11 Mb, with 99.9% of the total assembled sequences anchored to 40 pseudochromosomes. We predicted 60,862 protein-coding genes of which 99.5% were annotated from databases. We further identified 939 tRNAs, 7,297 rRNAs, and 982 ncRNAs. The chromosome-scale genome of C. nepalensis is expected to be a significant resource for understanding the genetic basis of root nodulation with Frankia, toxicity, and tannin biosynthesis.
@article{zhao_haplotype-resolved_2023,
title = {Haplotype-resolved genome assembly of {Coriaria} nepalensis a non-legume nitrogen-fixing shrub},
volume = {10},
copyright = {2023 The Author(s)},
issn = {2052-4463},
url = {https://www.nature.com/articles/s41597-023-02171-6},
doi = {10.1038/s41597-023-02171-6},
abstract = {Coriaria nepalensis Wall. (Coriariaceae) is a nitrogen-fixing shrub which forms root nodules with the actinomycete Frankia. Oils and extracts of C. nepalensis have been reported to be bacteriostatic and insecticidal, and C. nepalensis bark provides a valuable tannin resource. Here, by combining PacBio HiFi sequencing and Hi-C scaffolding techniques, we generated a haplotype-resolved chromosome-scale genome assembly for C. nepalensis. This genome assembly is approximately 620 Mb in size with a contig N50 of 11 Mb, with 99.9\% of the total assembled sequences anchored to 40 pseudochromosomes. We predicted 60,862 protein-coding genes of which 99.5\% were annotated from databases. We further identified 939 tRNAs, 7,297 rRNAs, and 982 ncRNAs. The chromosome-scale genome of C. nepalensis is expected to be a significant resource for understanding the genetic basis of root nodulation with Frankia, toxicity, and tannin biosynthesis.},
language = {en},
number = {1},
urldate = {2023-05-12},
journal = {Scientific Data},
author = {Zhao, Shi-Wei and Guo, Jing-Fang and Kong, Lei and Nie, Shuai and Yan, Xue-Mei and Shi, Tian-Le and Tian, Xue-Chan and Ma, Hai-Yao and Bao, Yu-Tao and Li, Zhi-Chao and Chen, Zhao-Yang and Zhang, Ren-Gang and Ma, Yong-Peng and El-Kassaby, Yousry A. and Porth, Ilga and Zhao, Wei and Mao, Jian-Feng},
month = may,
year = {2023},
note = {Number: 1
Publisher: Nature Publishing Group},
keywords = {Computational biology and bioinformatics, Plant sciences},
pages = {259},
}
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Here, by combining PacBio HiFi sequencing and Hi-C scaffolding techniques, we generated a haplotype-resolved chromosome-scale genome assembly for C. nepalensis. This genome assembly is approximately 620 Mb in size with a contig N50 of 11 Mb, with 99.9% of the total assembled sequences anchored to 40 pseudochromosomes. We predicted 60,862 protein-coding genes of which 99.5% were annotated from databases. We further identified 939 tRNAs, 7,297 rRNAs, and 982 ncRNAs. 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