Metatranscriptomic Sequencing
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Metatranscriptomic sequencing is the investigation of the structure and function of the microbial community by high-throughput sequencing and assembly of the microbial community transcripts without reference data. Metatranscriptomic sequencing reveals the diversity of gene expression in microorganisms under different environmental conditions, which facilitates research focused on determining the function of unknown genes, exploring the specific mechanism of gene regulation, studying the interaction between the microbial community and the environment, and analyzing different metabolic niche strategies.

Benefits:

  1. Simple: Avoid technical limitations inherent in traditional isolated culture and cloning methods
  2. Insightful: Obtain information about structure and function of the microbiome
  3. Customized: Bioinformatics analysis tailored for specific interests
Coming soon..

Bioinformatics:

  1. Data processing
    1. Remove low-quality reads and adapters
    2. Statistics for host contamination rate (if host genome sequence is known)
  2. Genome assembly
    1. Contig construction
    2. Statistics of contig length distribution
    3. Statistical table of mapping ratios
  3. Genome-wide component analysis
    1. Gene prediction
    2. Small RNA identification
  4. Gene expression analysis
    1. Statistics of gene coverage and coverage depth
    2. Gene expression annotation
  5. Species annotations
    1. Species composition and abundance
    2. Denotation of composite species expression
  6. Gene functional annotations
    1. Gene functional annotation and expression statistics of annotated function based on the KEGG (Kyoto Encyclopedia of Genes and Genomes) database
    2. Gene functional annotation and expression statistics of annotated function based on the CAZy (Carbohydrate-Active Enzymes Database) database
    3. Gene functional annotation and expression statistics of annotated function based on eggNOG (Evolutionary Genealogy of Genes: Non-supervised Orthologous Groups) database
    4. Gene functional annotation and expression statistics of annotated function based on the GO (Gene Ontology) database
    5. Gene functional annotation and expression statistics of annotated function for antibiotics resistance genes
  7. Differentially expressed gene analysis (sample ≥ 2)
    1. Identification of differentially expressed genes (DEGs)
    2. Cluster analysis of expression patterns of DEGs
    3. Significance analysis of DEGs across species
    4. Significance analysis of DEGs based on KEGG, CAZy, eggNOG, and GO analyses
  8. Customized analysis (case by case)
  9. BGI Tech can also perform other customized analyses to meet the requirements of specific projects.

Sample Requirements:

  1. Sample type: genomic DNA (To avoid possible RNA degradation during shipping, we recommend reverse transcription of RNA into cDNA before shipping)
  2. Sample quantity: ≥ 5µg
  3. Sample concentration: ≥150 ng/µL

Turnaround Time:

The standard turnaround time for the whole workflow (including library construction, sequencing and bioinformatics analysis) is 70 business days.

Completion Criteria:

Generate 2G clean data at minimum