The NanDeSyn database for Nannochloropsis systems and synthetic biology

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Title
The NanDeSyn database for Nannochloropsis systems and synthetic biology
Author(s)
Y Gong; N K Kang; Y U Kim; Z Wang; L Wei; Y Xin; C Shen; Q Wang; W You; Jong Min Lim; S W Jeong; Y I Park; Hee-Mock Oh; K Pan; E Poliner; G Yang; Y Li-Beisson; Y Li; Q Hu; A Poetsch; E M Farre; Y K Chang; Won Joong Jeong; B R Jeong; J Xu
Bibliographic Citation
Plant Journal, vol. 104, no. 6, pp. 1736-1745
Publication Year
2020
Abstract
Nannochloropsis species, unicellular industrial oleaginous microalgae, are model organisms for microalgal systems and synthetic biology. To facilitate community-based annotation and mining of the rapidly accumulating functional genomics resources, we have initiated an international consortium and present a comprehensive multi-omics resource database named Nannochloropsis Design and Synthesis (NanDeSyn; http://nandesyn.single-cell.cn). Via the Tripal toolkit, it features user-friendly interfaces hosting genomic resources with gene annotations and transcriptomic and proteomic data for six Nannochloropsis species, including two updated genomes of Nannochloropsis oceanica IMET1 and Nannochloropsis salina CCMP1776. Toolboxes for search, Blast, synteny view, enrichment analysis, metabolic pathway analysis, a genome browser, etc. are also included. In addition, functional validation of genes is indicated based on phenotypes of mutants and relevant bibliography. Furthermore, epigenomic resources are also incorporated, especially for sequencing of small RNAs including microRNAs and circular RNAs. Such comprehensive and integrated landscapes of Nannochloropsis genomics and epigenomics will promote and accelerate community efforts in systems and synthetic biology of these industrially important microalgae.
Keyword
Genomic databaseFunctional genomicsIndustrial oleaginous microalgaeNannochloropsisTripal
ISSN
0960-7412
Publisher
Wiley
DOI
http://dx.doi.org/10.1111/tpj.15025
Type
Article
Appears in Collections:
Synthetic Biology and Bioengineering Research Institute > Cell Factory Research Center > 1. Journal Articles
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