Bacterial 16S rRNA sequencing utilizes consensus primers to specifically target conserved regions of the bacterial 16s ribosomal RNA (rRNA) gene followed by high-throughput sequencing. We guarantee the quality of our data and report.
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The 16S rRNA gene, a housekeeping gene in almost all bacteria, is about 1550 bp long and consists of both conserved and variable regions. The sequence of the variable region can be used for bacterial taxonomy and phylogeny. 16S rRNA sequencing generally involves the selective PCR amplification using appropriate primers that target the16S rRNA gene, followed by next/third generation sequencing through Illumina MiSeq/HiSeq, Roche 454, or Ion Torrent instruments, or by third-generation sequencing through PacBio SMRT or Nanopore instruments. Coupled with powerful bioinformatics tools, we can perform basic sequence processing, diversity analysis, taxonomic assignment, and community comparisons. Our robust 16S rRNA analysis pipeline for phylogenetic assignment is using three popular databases – Silva, Green Genes, and Ribosomal Database Project (RDP).
Bacterial 16S rRNA sequencing can determine the microbial diversity, microbial abundance, and possible microbial functions. It has played an important role in the identification of the global bacteria communities in both healthy and diseased groups for disease diagnosis, biomarker discovery, and target discovery. Bacterial 16S rRNA sequencing has also been applied to areas such as environmental conservation, agricultural production, petroleum exploration, and industrial manufacturing.
After DNA sequences are obtained, bioinformatics tools such as QIIME and mothur are commonly used for raw data processing, taxonomic assignment, diversity analysis, community comparisons, and evolutionary analysis.
| Pipeline | The problem to be solved |
|---|---|
| Basic data processing | Filtering and trimming of poor-quality sequence |
| Taxonomic assignment | Operation Taxonomic Unit (OTU) clustering and species annotation |
| Diversity analysis | Classification and abundance analysis of single species |
| Community comparisons | Measure the difference in bacterial community composition among different samples, and conduct network analysis and correlation analysis |
| Evolutionary analysis | Construction of phylogenetic tree |
Sampling kits: We provide a range of microbial sampling kits for clients, including MicroCollect™ oral sample microbial collection products and MicroCollect™ stool sample collection products.
Deliverables: Raw sequencing data (FASTQ), trimmed and stitched sequences (FASTA), data QC report, and custom bioinformatics analysis report.
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