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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...

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Autores principales: Li, Wei, Shi, Cong, Li, Kui, Zhang, Qun-Jie, Tong, Yan, Zhang, Yun, Wang, Jun, Clark, Lynn, Gao, Li-Zhi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2021
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.
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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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