From seawater and freshwater to drinking water, wastewater, and industrial process water—professional 16S rRNA gene sequencing, shotgun metagenomics, and qPCR services trusted by researchers, government agencies, and environmental scientists worldwide.
Trusted by Academic Research Labs | Government Environmental Agencies | Aquaculture & Industry | Public Health Institutions | Environmental Consultants
From sample collection protocols to bioinformatics interpretation, our team handles every step, optimized specifically for the low-biomass, high-diversity challenge of water samples.
Validated Sterivex filtration protocols are optimal for bacterioplankton diversity profiling
Rivers, lakes, ponds, and reservoirs—adaptable filtration for varying turbidity.
Ultra-low biomass protocols; contamination-controlled, regulatory-grade analysis.
Deep aquifer sampling; subsurface microbial ecology; contamination source tracking.
Influent, effluent, and treated water; treatment monitoring; AMR gene surveillance.
Tank, pond, and hatchery water; pathogen detection; probiotic efficacy evaluation.
Use 16S/18S/ITS amplicon sequencing when you need community profiling across bacteria, fungi, or microeukaryotes at lower cost and higher sample throughput. Use shotgun metagenomics when you need functional profiling, AMR genes, higher-resolution taxonomic assignment, or broader detection of microbial potential. Use qPCR when you need targeted quantification, faster turnaround, or assay-driven monitoring. Integrate these datasets into a rigorous reporting framework to ensure publication-ready interpretation for peer-reviewed submission.
Amplicon sequencing is a practical and cost-effective approach for characterizing microbial communities across a wide range of water sample types. It is particularly useful for studies focused on taxonomic composition, ecological comparison, and larger sample sets where consistency and throughput matter.
Common applications include:
Shotgun metagenomic sequencing captures total community DNA and supports a broader, more resolved view of water-associated microbiomes than targeted marker-gene approaches.
Typical uses include:
This revised content incorporates your feedback to streamline the service offerings, unify the AMR and bioinformatics sections, and adopt a more consultative “decision-support” tone.
qPCR is a focused option for projects that require sensitive detection or quantification of predefined microbial targets. It can be used on its own or alongside sequencing to validate findings.
This approach is commonly used for:
Our pipelines are built specifically for the nuances of aquatic data. We move beyond basic charts to provide publication-ready insights:
Specialized Annotation: Dedicated pipelines for AMR gene interpretation and functional mapping.
Many water microbiome projects benefit from combining methods. We help you choose the best-fit approach based on your sample type, expected biomass, and required taxonomic resolution. The result is a workflow designed around the actual goals of your study rather than a one-size-fits-all package.
water microbiome sequencing
16S rRNA water analysis
aquatic metagenomics
AMR water surveillance
drinking water microbiota
freshwater microbial ecology
marine bacterioplankton sequencing
wastewater microbiome profiling
environmental DNA water testing
groundwater microbial diversity
water quality microbiome
aquaculture water microbiome
waterborne pathogen detection
microbial water safety testing
Sterivex filtration protocol
low biomass water sequencing
limnology microbiome service
oceanography DNA sequencing
water microbiome bioinformatics
qPCR water bacteria quantification
river microbiome profiling
CPCB water microbiome India
Jal Jeevan Mission microbiome
WASH water microbiome
industrial process water microbiome
Our team will help you choose the right sequencing approach, review your collection protocol, and ensure your data is ready for publication. Get a free consultation today.
How should I collect and ship water samples for microbiome sequencing?
How long does it take to receive Soil and/or plant microbiome sequencing results?
Standard – ~4 weeks from sample receipt at the lab for data generation and QC + 1-2 weeks for analysis and reporting (Depending on complexity of analysis requested)
Do you provide sequencing services for government and regulatory water research?
Yes
Which countries does Microbiome Insights support water research in?
We support water microbiome research globally. However, we recommend checking the local regulatory requirements for exporting biological samples from your specific country prior to shipment.
