Explore Comprehensive Microbial Molecular Profiles with MicrobialScope
MicrobialScope empowers researchers with an integrative resource for multi-layered microbial data — from core genomic content to defense systems and metabolic pathways — across major microbial domains.
Archaea
Monoisolate
Microbial ID
eg. GCA_000025685.1, GCF_000006805.1, GCF_000025685.1, GCF_004799605.1
Microorganisms
Archaea
24,472
Bacteria
2,411,503
Fungi
20,203
Viruses
188,267
Functional Annotations
Protein
1,072,114,935
tRNA & tmRNA
24,640,186
CRISPR/Cas System
140,888
Anti-CRISPR Element
173,256
Secondary Metabolite Biosynthetic Cluster
105,121
Signal Peptide
13,235,096
Virulence Factor
2,940,445
Antibiotic Resistance Gene
188,602,052
Transmembrane Protein
50,811,729
Focus
MicrobialScope Release News
Version 1.4 (2025.10.15)
- Added antibiotic resistance gene (ARG) annotations for all viral genomes using AMRFinderPlus.
- Applied a more stringent filtering criterion (80% coverage cutoff) for virulence gene identification to improve annotation accuracy.
- Fixed technical issues and improved website stability.
Version 1.3 (2025.9.20)
Quality Enhancements and Expanded Features. This update focuses on improving data reliability and user accessibility. Key highlights include:- Integration of GTDB taxonomy for bacterial and archaeal genomes, enhancing phylogenetic resolution.
- Introduced a flexible Download API for customized data retrieval, including Metadata, FASTA, and more.
- Performed dataset update with newly released genomes and refined QC filters.
- Fixed various bugs.
Version 1.2 (2025.7.23)
New Analysis Modules. We've expanded our analytical capabilities with new modules allowing users to upload and analyze their own data. New features include:- ORF Prediction & Protein Classification
- tRNA & tmRNA Prediction
- Virulence Factor & Antibiotic Resistance Gene Detecion
- Transmembrane Protein Annotation
- Sequence Alignment
- Comparative Analysis
Version 1.1 (2025.6.30)
Interactive Visualization Features. Our new interactive genomic annotation visualization enables intuitive exploration of genomic features. You can now:- Zoom in/out using mouse wheel
- Navigate through regions by horizontal dragging
- Download visualization charts in SVG and PNG formats
- View protein product names directly on the map when viewing regions smaller than 25,000 bp
Version 1.0 (2025.5.1)
- MicrobialScope has been released. Welcome to use!
Xikang Feng, Yinhu Li, Jieyi Zheng, Xuhua Chen, Shuo Yang, Yu Chen, Shuai Cheng Li, MicrobialScope: an integrated genomic resource with rich annotations across bacteria, archaea, fungi, and viruses, Nucleic Acids Research, 2025;, gkaf1234, https://doi.org/10.1093/nar/gkaf1234