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- Title
Nelumbo genome database, an integrative resource for gene expression and variants of Nelumbo nucifera.
- Authors
Li, Hui; Yang, Xingyu; Zhang, Yue; Gao, Zhiyan; Liang, Yuting; Chen, Jinming; Shi, Tao
- Abstract
Sacred lotus (Nelumbo nucifera, or lotus) is one of the most widely grown aquatic plant species with important uses, such as in water gardening and in vegetable and herbal medicine. A public genomic database of lotus would facilitate studies of lotus and other aquatic plant species. Here, we constructed an integrative database: the Nelumbo Genome Database (NGD, http://nelumbo.biocloud.net). This database is a collection of the most updated lotus genome assembly and contains information on both gene expression in different tissues and coexpression networks. In the NGD, we also integrated genetic variants and key traits from our 62 newly sequenced lotus cultivars and 26 previously reported cultivars, which are valuable for lotus germplasm studies. As applications including BLAST, BLAT, Primer, Annotation Search, Variant and Trait Search are deployed, users can perform sequence analyses and gene searches via the NGD. Overall, the valuable genomic resources provided in the NGD will facilitate future studies on population genetics and molecular breeding of lotus. Measurement(s) reference genome data • whole genome sequencing • transcriptome Technology Type(s) Hi-C • PacBio Sequel System • Illumina sequencing • RNA sequencing • DNA sequencing Sample Characteristic - Organism Nelumbo nucifera Machine-accessible metadata file describing the reported data: https://doi.org/10.6084/m9.figshare.13487271
- Subjects
EAST Indian lotus; GENE expression; AQUATIC plants; WATER gardens; GERMPLASM; HERBAL medicine
- Publication
Scientific Data, 2021, Vol 8, Issue 1, p1
- ISSN
2052-4463
- Publication type
Article
- DOI
10.1038/s41597-021-00828-8