The aim of our viral metagenomics is to study viruses efficiently and easily by utilizing the next-generation sequencing technology and random-primed PCR, coupled with comprehensive bioinformatics analysis.
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Viral metagenomics is the application of environmental genomics in viruses, which needs a combination of innovative technologies such as viral operations, random PCR, next-generation sequencing (NGS), and long-read sequencing. The common sequencing platforms for viral metagenomics contain Illumina HiSeq/MiSeq, PacBio RS II, and Nanopore SMRT instruments. The technical routes include sample preparation, enrichment of viral particles, DNA libraries construction, sequencing, and bioinformatics analysis. The efficiency of viral metagenomics and bioinformatics analysis has been greatly improved in recent years. Viral metagenomics surpasses traditional viral research for its ability to detect low-abundance viruses.
Viral metagenomic studies have provided insights into viral ecology by elucidating the genetic potential, community structure, and biogeography of environmental viruses. Viral metagenomics has expanded current knowledge on virus-host interactions by uncovering genes that may allow the viruses to manipulate their hosts in unexpected ways. The intrinsic potential for virus discovery through viral metagenomics can help advance a wide array of disciplines including evolutionary biology, pathogen surveillance, and biotechnology. In addition, functional viral metagenomics serves as a platform to discover more useful enzymes. As the annotation of viral genes continues to improve, the discovery of vital enzymes will increase considerably.
Our bioinformatics analysis includes five parts: quality control, genomic assembly, taxonomic assignment, diversity analysis, functional analysis, and custom analysis. For advanced bioinformatics analysis in detail, please refer to the following table.
|Quality control||Fastqc, cutadapt, fastp, etc.|
|Genome assembly||Genovo, Bambus 2, Spades, MetaVelvet, Meta-IDBA, MEGAHIT, Ray, et al.|
|Taxonomic assignment||NCBI nr/nt database; Bowtie, BWA, SOAP3, mrsFAST, et al.|
|Diversity analysis||PcoA, NMDS, Heatmap, Krona analysis, clustering tree, etc.|
|Functional analysis||ARDB, CAZY, KEGG, eggNOG, GO, MG-RAST, IMG/M, WebMGA, RAMMCAP, etc.|
|Custom analysis||RDA/CCA, correlation analysis, ROC curve, etc.|
Sampling kits: We provide a complete range of microbial sampling kits for clients, including microbial collection products, DNA/RNA isolation kits, and accessories for storage and mailing.
Deliverables: Raw sequencing data (FASTQ), quality-control dashboard, statistic data, and your designated bioinformatics report.