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Microbial Transcriptomics


CD Genomics offers a robust portfolio of genomics solutions for microbial transcriptomics including RNA sequencing (RNA-seq), iso-seq, and metatranscriptomics. Our team of experts has a strong background in microbial genomics and executes each procedure strictly. We ensure comprehensive and accurate sequencing data and bioinformatics analysis reports.

Our Advantages:
  • Utilizing the most advanced microbial transcriptomics approaches.
  • Executing strict quality control following every procedure.
  • Professional, customized bioinformatics analysis
  • State-of-the-art sequencing platforms including NGS and long-read sequencing platforms.
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Introduction to Our Microbial Transcriptomics

We provide prokaryotic RNA sequencing, eukaryotic RNA sequencing, viral RNA sequencing, microbial iso-seq, and metatranscriptomics for microbial transcriptomics and metatranscriptomics studies. Next-generation sequencing (NGS) and long-read sequencing have allowed us to better understand the functions of microorganisms through microbial expression profiling. NGS produces higher coverage and is more accurate than long-read sequencing methods. However, long-read sequencing technologies including PacBio SMRT sequencing and Oxford nanopore sequencing have become increasingly popular due to their capacities in determining full-length transcripts and in de novo assembly.

Microbial transcriptomics holds promise in uncovering novel ways to treat disease and improve human health. For example, bacterial expression profiling has identified major shifts in the expression of metabolic pathways related to disease pathogenesis in human microbiome. Microbial transcriptomics is also important for predicting resistance to specific antibiotics, exploring host-pathogen immune interaction, and tracking disease progression.

Microbial Transcriptomics Workflow

Bioinformatics Analysis

The bioinformatics analysis pipelines are flexible to your needs. Please feel free to contact us for discussing your project.

Bioinformatics Pipelines Details
Read QC Determination of per base sequence quality, removal of reads with lower quality, removal of adapter/linker, trimming of the read sequence, etc.
Alignment & Assembly Read mapping, FPKM estimation, novel transcript assembly, variant calling, etc.
Differential Expression Perform differential expression of reference and novel transcripts/genes with Cuffdiff 2 algorithm and DESeq2.
Advanced Analysis Metabolic pathway integration analysis, gene co-expression network analysis, mRNA-sRNA co-expression network analysis, etc.

Sample requirements

References

  1. Chan J P, Wright J R, Wong H T, et al. Using Bacterial Transcriptomics to Investigate Targets of Host-Bacterial Interactions in Caenorhabditis elegans. Scientific reports, 2019, 9(1): 5545.
  2. Boldogkői Z, Moldován N, Balázs Z, et al. Long-read sequencing–a powerful tool in viral transcriptome research. Trends in microbiology, 2019.
* For Research Use Only. Not for use in diagnostic procedures.

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