<i>Ficus</i> Genome Database: A Comprehensive Genomics and Transcriptomics Research Platform
2024
Peng Sun | Lei Yang | Hui Yu | Lianfu Chen | Ying Bao
<i>Ficus</i> is a significant genus within the Moraceae family, primarily native to tropical and subtropical regions. It plays a crucial role in the study of co-evolution and genetics in the fig–fig wasp symbiosis. Advancements in sequencing technology have facilitated whole-genome sequencing of several <i>Ficus</i> species, accumulating vast amounts of genomic and transcriptomic data available in public databases. To streamline data integration, display, and analysis, we developed the <i>Ficus</i> Genome Database (FGD), a consolidated platform for the genomic data of five <i>Ficus</i> species, and self-assembled transcriptome data for 24 fig ostiolar bracts. The FGD is currently home to a diverse array of data, encompassing genome and gene sequences, annotations of genes, transcriptome analyses, biochemical pathways, non-coding RNA, and findings from comparative genomic studies, such as collinear blocks across different <i>Ficus</i> genome assemblies. To enhance translational and practical research concerning <i>Ficus</i>, FGD provides an extensive suite of accessible query interfaces, analytical instruments, and visualization options. These include the NCBI BLAST sequence search tool and the JBrowse/GBrowse genome browser. FGD also offers several distinct tools, including a genome Synteny Viewer, expression heatmap display, gene family identification, Gene Ontology terms enrichment, and pathway enrichment analysis.
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