Lily Database: A Comprehensive Genomic Resource for the Liliaceae Family
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Published:2023-12-25
Issue:1
Volume:10
Page:23
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ISSN:2311-7524
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Container-title:Horticulturae
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language:en
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Short-container-title:Horticulturae
Author:
Biswas Manosh Kumar12ORCID, Natarajan Sathishkumar23ORCID, Biswas Dhiman4, Howlader Jewel2, Park Jong-In2, Nou Ill-Sup2ORCID
Affiliation:
1. Department of Genetics and Genome Biology, University of Leicester, Leicester LE1 7RH, UK 2. Department of Horticulture, Sunchon National University, 255, Jungang-ro, Suncheon 57922, Republic of Korea 3. 3BIGS Co., Ltd., B-831, Geumgang Penterium IX Tower, Hwaseong 18469, Republic of Korea 4. Department of Computer Science and Engineering, Maulana Abul Kalam Azad University of Technology, Kolkata 700064, West Bengal, India
Abstract
The Lily database is an online genomic resource which is composed of a Korean Lily germplasm collection, transcriptome sequences, molecular markers, transcription factors (TFs) and DEGs (Differentially Expressed Genes) data. A total of ~0.23 gb of RNA-sequencing data were used for gene identification, marker development and gene expression analysis. As a result, 103,929 genomic, 47,863 EST-SSR, 20,929 SNP and 1213 COS-marker were developed. A total of 1327 TF genes were identified and characterized. This is the first unique, user-friendly, genomic resource database for Lilium species. It is a relational database based on a ‘three-tier architecture’ that catalogs all the information in a MySQL table and a user-friendly query interface and data visualization page developed using JavaScript, PHP and HTML code. The search parameters are highly flexible; users can retrieve data by using either single or multiple search parameters. Data present in this database can be used for germplasm characterization, gene discovery, population structure analysis, QTL mapping, and accelerating lily variety improvements.
Funder
the Ministry of Agriculture, Food and Rural Affairs (MAFRA), South Korea
Subject
Horticulture,Plant Science
Reference44 articles.
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