Marker Gene Analysis Services

Unlock detailed insights into microbial communities with our specialized marker gene analysis services (MGA, or amplicon sequencing, services). By targeting specific genomic regions—such as the 16S rRNA gene for bacteria and archaea or the ITS regions for fungi—we provide high-resolution taxonomic classifications and relative abundance estimations within your samples.

 

Our Expertise in Marker Gene Analysis

At Cmbio, we leverage advanced next-generation sequencing (NGS) technologies, including long-read platforms like Oxford Nanopore Technologies (ONT), to ensure marker gene detection of microorganisms. Our optimized workflows and expert analysis deliver accurate and in-depth microbial profiles, enabling you to identify marker genes for reliable data and empowering your research with robust marker gene detection.

Our Marker Gene Analysis Services

Customised Target Regions

We focus on variable regions of the 16S rRNA gene (e.g., V1-V8 for bacteria, V4-V9 for archaea) and can employ cross-domain primers for marker gene selection to detect bacteria, archaea, and eukaryotes simultaneously. Our service also includes methods to identify marker genes and optimize marker gene selection methods for different sample types.

Interactive Data Exploration

Gain access to our user-friendly platform for interactive exploration and downstream analyses of your results. Features include filtering options, multivariate statistics, and customizable visualisations like heatmaps and PCA plots. This allows users to assess marker gene expression, explore differential expression analysis, and annotate cell clusters based on expression values and average expression.

Advanced Taxonomic Classification

Utilizing databases such as SILVA, HOMD, and MiDAS, we tailor classifications to your sample type, potentially extending down to the species level, and can accommodate alternative databases to meet specific project requirements. Our analysis supports identification of cell type marker genes, potential marker genes, and gene markers for cell type identification and clustering.

 

Flexible and Scalable Solutions

Designed for cost-effectiveness and scalability, our services suit continuous process monitoring, large cohort studies, and serve as a pre-screening tool for extensive metagenomic projects. We facilitate clustering by gene expression profiles, supporting analysis of single cell data, cell rna seq data, scrna seq data, and cells expressing specific marker genes.

 

Our Marker Gene Analysis Services

  • Customized Target Regions: We focus on variable regions of the 16S rRNA gene (e.g., V1-V8 for bacteria, V4-V9 for archaea) and can employ cross-domain primers to detect bacteria, archaea, and eukaryotes simultaneously.

  • Advanced Taxonomic Classification: Utilizing databases such as SILVA, HOMD, and MiDAS, we tailor classifications to your sample type, potentially extending down to the species level. We can also accommodate alternative or custom databases to meet specific project requirements.

  • Interactive Data Exploration: Gain access to our user-friendly platform for interactive exploration and visualization of your results. Features include filtering options, multivariate statistics, and customizable visualizations like heatmaps and PCA plots.

  • Flexible and Scalable Solutions: Our services are designed to be cost-effective and scalable, making them suitable for continuous process monitoring, large cohort studies, and as a pre-screening tool for extensive metagenomic projects.

An imagined medical structure similar to DNA

Amplicon Sequencing Services & Solutions

Amplicon sequencing is an essential methodology for microbiologists and microbiome researchers, generating whole community analysis of bacteria or fungi in complex samples. Targeted sequencing enables you to submit samples for single cell rna sequencing and receive genome-wide information, benefiting from our tools for analysing genetic variation and data from improved sequencing depth. This process helps in finding marker genes, determining fold change and identifying ideally identified marker genes for multiple cell types, including t cells, nk cells, and dendritic cells.
image-7

Benefits of Our MGA Approach

High Accuracy and Depth

Long-read sequencing minimizes biases associated with short-read methods, enhancing the accuracy of taxonomic classifications.

Cost-Effective

MGA offers an economical solution for microbial profiling without compromising on data quality.

Fast Turnaround

With streamlined processes, we offer standard and expedited turnaround times to meet your project deadlines.

Expert Support

Our team provides comprehensive support, from initial consultation to data interpretation, ensuring your project's success.

 

Sample Types We Handle

We have extensive experience extracting DNA from a diverse range of sample matrices, including:

  • Environmental Samples: Soil, water, sediments, oil spills, marine and freshwater ecosystems.

  • Clinical Samples: Biopsies, swabs (skin, oral), feces, entrails, eDNA.

  • Industrial Samples: Wastewater, bioreactors, microbial-induced corrosion samples.

  • Agricultural Samples: Animal gut contents (pigs, chickens, fish), plant materials, aquaculture samples.

Our customized DNA extraction workflows are optimized to handle both low- and high-biomass samples, ensuring high yield and purity for optimal sequencing results.

A gloved hand touching samples within a special lab equipments opening

Service Packages

Standard Service Package Includes

  • Consultation: Optional pre- and post-project meetings with our specialists to tailor the analysis strategy to your research goals.

  • DNA Extraction and Quality Control: High-quality DNA extraction using protocols optimized for your sample type, followed by rigorous quality control checks.

  • Library Preparation and Sequencing: Preparation of DNA libraries and sequencing using the latest ONT technologies for long-read sequencing.

  • Data Analysis: Comprehensive taxonomic classification, relative abundance estimates, and microbial community analysis presented through interactive visualizations.

  • Results Delivery: Access to our platform for exploring your data, complete with features for filtering, statistical analysis, and customizable visualizations - or receive a detailed PDF report summarizing your results.

Optional Add-On Services

  • Expedited Turnaround: Accelerated processing options of 3 or 7 working days for time-sensitive projects.

  • Advanced Statistical Analysis: Additional analyses such as multi-omics data analysis for deeper insights into your study.

  • Custom Analysis Requests: Tailored solutions to meet unique project requirements, including the use of specific primers or databases.

Send Us A Message