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Draft genome of the herbaceous bamboo Raddia distichophylla
Bamboos are important nontimber forest plants widely distributed in the tropical and subtropical regions of Asia, Africa, America, and Pacific islands. They comprise the Bambusoideae in the grass family (Poaceae), including approximately 1700 described species in 127 genera. In spite of the widespre...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8022951/ https://www.ncbi.nlm.nih.gov/pubmed/33585868 http://dx.doi.org/10.1093/g3journal/jkaa049 |
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author | Li, Wei Shi, Cong Li, Kui Zhang, Qun-Jie Tong, Yan Zhang, Yun Wang, Jun Clark, Lynn Gao, Li-Zhi |
author_facet | Li, Wei Shi, Cong Li, Kui Zhang, Qun-Jie Tong, Yan Zhang, Yun Wang, Jun Clark, Lynn Gao, Li-Zhi |
author_sort | Li, Wei |
collection | PubMed |
description | Bamboos are important nontimber forest plants widely distributed in the tropical and subtropical regions of Asia, Africa, America, and Pacific islands. They comprise the Bambusoideae in the grass family (Poaceae), including approximately 1700 described species in 127 genera. In spite of the widespread uses of bamboo for food, construction, and bioenergy, the gene repertoire of bamboo still remains largely unexplored. Raddia distichophylla (Schrad. ex Nees) Chase, belonging to the tribe Olyreae (Bambusoideae, Poaceae), is a diploid herbaceous bamboo with only slightly lignified stems. In this study, we report a draft genome assembly of the ∼589 Mb whole-genome sequence of R. distichophylla with a contig N50 length of 86.36 Kb. Repeat sequences account for ∼49.08% of the genome assembly, of which LTR retrotransposons occupy ∼35.99% of the whole genome. A total of 30,763 protein-coding genes were annotated in the R. distichophylla genome with an average transcript size of 2887 bp. Access to this herbaceous bamboo genome sequence will provide novel insights into biochemistry, molecular marker-assisted breeding programs, and germplasm conservation for bamboo species worldwide. |
format | Online Article Text |
id | pubmed-8022951 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-80229512021-04-09 Draft genome of the herbaceous bamboo Raddia distichophylla Li, Wei Shi, Cong Li, Kui Zhang, Qun-Jie Tong, Yan Zhang, Yun Wang, Jun Clark, Lynn Gao, Li-Zhi G3 (Bethesda) Genome Report Bamboos are important nontimber forest plants widely distributed in the tropical and subtropical regions of Asia, Africa, America, and Pacific islands. They comprise the Bambusoideae in the grass family (Poaceae), including approximately 1700 described species in 127 genera. In spite of the widespread uses of bamboo for food, construction, and bioenergy, the gene repertoire of bamboo still remains largely unexplored. Raddia distichophylla (Schrad. ex Nees) Chase, belonging to the tribe Olyreae (Bambusoideae, Poaceae), is a diploid herbaceous bamboo with only slightly lignified stems. In this study, we report a draft genome assembly of the ∼589 Mb whole-genome sequence of R. distichophylla with a contig N50 length of 86.36 Kb. Repeat sequences account for ∼49.08% of the genome assembly, of which LTR retrotransposons occupy ∼35.99% of the whole genome. A total of 30,763 protein-coding genes were annotated in the R. distichophylla genome with an average transcript size of 2887 bp. Access to this herbaceous bamboo genome sequence will provide novel insights into biochemistry, molecular marker-assisted breeding programs, and germplasm conservation for bamboo species worldwide. Oxford University Press 2021-01-06 /pmc/articles/PMC8022951/ /pubmed/33585868 http://dx.doi.org/10.1093/g3journal/jkaa049 Text en © The Author(s) 2021. Published by Oxford University Press on behalf of Genetics Society of America. https://creativecommons.org/licenses/by-nc-nd/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs licence (http://creativecommons.org/licenses/by-nc-nd/4.0/ (https://creativecommons.org/licenses/by-nc-nd/4.0/) ), which permits non-commercial reproduction and distribution of the work, in any medium, provided the original work is not altered or transformed in any way, and that the work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
spellingShingle | Genome Report Li, Wei Shi, Cong Li, Kui Zhang, Qun-Jie Tong, Yan Zhang, Yun Wang, Jun Clark, Lynn Gao, Li-Zhi Draft genome of the herbaceous bamboo Raddia distichophylla |
title | Draft genome of the herbaceous bamboo Raddia distichophylla |
title_full | Draft genome of the herbaceous bamboo Raddia distichophylla |
title_fullStr | Draft genome of the herbaceous bamboo Raddia distichophylla |
title_full_unstemmed | Draft genome of the herbaceous bamboo Raddia distichophylla |
title_short | Draft genome of the herbaceous bamboo Raddia distichophylla |
title_sort | draft genome of the herbaceous bamboo raddia distichophylla |
topic | Genome Report |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8022951/ https://www.ncbi.nlm.nih.gov/pubmed/33585868 http://dx.doi.org/10.1093/g3journal/jkaa049 |
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