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<scp>EucaMOD</scp> : a comprehensive multi‐omics database for functional genomics research and molecular breeding of fast‐growing eucalyptus trees

Meng LiGuangxi Colleges and Universities Key Laboratory for Cultivation and Utilization of Subtropical Forest Plantation, Key Laboratory of National Forestry and Grassland Administration on Cultivation of Fast‐Growing Timber in Central South China, College of Forestry Guangxi University Nanning 530004 ChinaYunpeng CaoGuangxi Colleges and Universities Key Laboratory for Cultivation and Utilization of Subtropical Forest Plantation, Key Laboratory of National Forestry and Grassland Administration on Cultivation of Fast‐Growing Timber in Central South China, College of Forestry Guangxi University Nanning 530004 ChinaWenfei WuGuangxi Colleges and Universities Key Laboratory for Cultivation and Utilization of Subtropical Forest Plantation, Key Laboratory of National Forestry and Grassland Administration on Cultivation of Fast‐Growing Timber in Central South China, College of Forestry Guangxi University Nanning 530004 ChinaYi MoGuangxi Colleges and Universities Key Laboratory for Cultivation and Utilization of Subtropical Forest Plantation, Key Laboratory of National Forestry and Grassland Administration on Cultivation of Fast‐Growing Timber in Central South China, College of Forestry Guangxi University Nanning 530004 ChinaJianzhong WangGuangxi Dongmen Forest Farm Chongzuo 532108 ChinaXian-Chen GengGuangxi Colleges and Universities Key Laboratory for Cultivation and Utilization of Subtropical Forest Plantation, Key Laboratory of National Forestry and Grassland Administration on Cultivation of Fast‐Growing Timber in Central South China, College of Forestry Guangxi University Nanning 530004 ChinaJiajing XuGuangxi Colleges and Universities Key Laboratory for Cultivation and Utilization of Subtropical Forest Plantation, Key Laboratory of National Forestry and Grassland Administration on Cultivation of Fast‐Growing Timber in Central South China, College of Forestry Guangxi University Nanning 530004 ChinaYuchong FeiGuangxi Colleges and Universities Key Laboratory for Cultivation and Utilization of Subtropical Forest Plantation, Key Laboratory of National Forestry and Grassland Administration on Cultivation of Fast‐Growing Timber in Central South China, College of Forestry Guangxi University Nanning 530004 ChinaGuijin SuGuangxi Colleges and Universities Key Laboratory for Cultivation and Utilization of Subtropical Forest Plantation, Key Laboratory of National Forestry and Grassland Administration on Cultivation of Fast‐Growing Timber in Central South China, College of Forestry Guangxi University Nanning 530004 ChinaHao HuGuangxi Colleges and Universities Key Laboratory for Cultivation and Utilization of Subtropical Forest Plantation, Key Laboratory of National Forestry and Grassland Administration on Cultivation of Fast‐Growing Timber in Central South China, College of Forestry Guangxi University Nanning 530004 ChinaKuipeng LiGuangxi Colleges and Universities Key Laboratory for Cultivation and Utilization of Subtropical Forest Plantation, Key Laboratory of National Forestry and Grassland Administration on Cultivation of Fast‐Growing Timber in Central South China, College of Forestry Guangxi University Nanning 530004 ChinaJun NiGuangxi Colleges and Universities Key Laboratory for Cultivation and Utilization of Subtropical Forest Plantation, Key Laboratory of National Forestry and Grassland Administration on Cultivation of Fast‐Growing Timber in Central South China, College of Forestry Guangxi University Nanning 530004 ChinaZeng‐Fu XuGuangxi Colleges and Universities Key Laboratory for Cultivation and Utilization of Subtropical Forest Plantation, Key Laboratory of National Forestry and Grassland Administration on Cultivation of Fast‐Growing Timber in Central South China, College of Forestry Guangxi University Nanning 530004 China

The Plant Journaljournal2025en

ABI

Annotatsiya

Eucalyptus, one of the most widely planted plantation tree species globally, is primarily found in tropical and subtropical regions and contributes significantly to economic and social benefits. With advances in sequencing technologies, there is an increasing demand for the systematic analysis of multi-omics data among Eucalyptus species to enhance genetic breeding efforts. Although several early genomic databases have been established for eucalyptus, they have not been updated in a timely manner and lack recent multi-omics data, rendering them insufficient for current research needs. To address this gap, we developed the eucalyptus multi-omics database (EucaMOD, http://eucalyptusggd.net/eucamod), a comprehensive resource for cross-omics studies. In this study, we functionally annotated 45 eucalyptus genomes and structurally annotated 15, conducting comparative genomics and pan-proteomics analyses across all genomes. Additionally, we analyzed eucalyptus transcriptome, epigenome, and variome data through standardized workflows, enabling the in-depth mining and reanalysis of multi-omics datasets. EucaMOD is the most comprehensive multi-omics database for eucalyptus to date and includes data from 45 genomes (39 species), 870 mRNA-seq samples, 17 miRNA-seq samples, 52 epigenomic datasets (histone modifications and transcription factor binding), and genetic variation data from 1219 samples. To support functional genomics and molecular breeding research, the database is organized into the following 11 modules: Home, Species, Genomics, Comparative genomics, Pan-proteomics, Transcriptomics, Epigenetics, Variomics, Tools, Download, and Help. EucaMOD also offers online analysis tools for data mining, providing free public services to aid eucalyptus gene function and genetic engineering studies.

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Mavzular

Plant Gene Expression Analysis Genomics and Phylogenetic Studies Genetic Mapping and Diversity in Plants and Animals

Identifikatorlar

DOI: 10.1111/tpj.70603

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