Microomics Systems

What Microomics Systems does

Microomics Systems S.L. is a Spain-based Contract Research Organization (CRO) specializing in microbiome analysis, founded in 2017 as a spin-off from the Centre for Genomic Regulation (CRG) in Barcelona. The company operates a full-service 360° platform that covers experimental design, DNA extraction in an ISO-certified clean room, library preparation, Illumina NovaSeq sequencing, proprietary bioinformatics, biobanking, and sample logistics. Its core service lines are Metagenómica Barcoding (16S/18S/ITS marker-gene profiling), Metagenómica Shotgun (whole-genome metagenomics with species/strain-level taxonomic and functional characterization, including MAG recovery and antibiotic resistance detection), Transcriptómica RNA-seq (differential expression studies), and supporting scientific advisory and biobank services. Validated extraction and analysis protocols cover over 50 different sample matrices, from human (feces, saliva, skin, vaginal, nasal) to environmental (soil, water, air), animal, and food matrices.

The company sells exclusively through a sales-led, direct B2B model: customers reach out via the website and email, projects are scoped with a Project Manager and scientific specialists, and pricing is delivered as custom quotes based on sample count, matrix type, sequencing depth, and analysis scope. Microomics targets four vertical markets: Human Health (academic institutions, hospitals, pharma, nutraceuticals), Animal Health (veterinary research, livestock, aquaculture), Agriculture (research institutions, crop protection, biofertilizer developers), and the Food Industry (fermented food producers, quality control labs). Distribution is concentrated in Spain via a dedicated commercial team, with regional reach through scientific conferences and online channels (educational blog, webinars, LinkedIn, peer-reviewed publications). Following the 2020 receipt of NEOTEC CDTI funding and Torres Quevedo grants, the company adopted a mixed model combining fee-for-service CRO work with internal research lines, expanded nationally in 2023, broadened its bioinformatics capabilities in 2024 to include virus and eukaryote taxonomic assignment, and in 2026 relocated to the Almirall Innovation Hub 'The Hive' in Sant Feliu de Llobregat to support further growth. Microomics remains a privately-held, founder-controlled S.L. with no disclosed external venture capital investment.

Name

Microomics Systems

Legal name

MICROOMICS SYSTEMS S.L.

Website

https://microomics.com

Company type

Private

Founded year

2017

Operating status

Operating

Headcount range

1–10 employees

Short description

Microomics Systems is a Spain-based Contract Research Organization that provides 360° microbiome analysis services, including 16S/18S/ITS barcoding, shotgun metagenomics, RNA-seq, and bioinformatics, to academic, pharmaceutical, agricultural, and food industry clients across Europe.

Ownership category

akta.pro rank

Headquarters

HQ city

Barcelona

HQ country

Spain

HQ region

Europe

Offices1 record

Markets served

GTM type

B2B

Offering type

Services

Cost components

Personnel, Technology or R&D, Operations, Marketing or Sales, Infrastructure

Revenue model

1. Metagenomic Analysis Services: Barcoding and shotgun metagenomics services for taxonomic and functional microbiome profiling, offered as project-based services with pricing based on sample numbers, matrix types, and analysis complexity
2. Transcriptomics RNA-seq Services: Differential expression studies using RNA sequencing technology for microbiome and host response analysis
3. Bioinformatics Custom Analysis: Custom bioinformatics analysis using proprietary pipelines including quality filtering, taxonomic assignment, diversity analysis, functional annotation, MAG assembly, and pathway enrichment analysis
4. Biobank and Sample Management Services: Sample storage, custody, and logistics services complementing the core sequencing and analysis offerings
5. Scientific Advisory and Experimental Design: Expert consultation services including experimental design, sampling strategy, and protocol optimization for microbiome studies

Pricing tiers

Go-to-market motion1 record

Distribution channels3 records

Marketing channels5 records

Core offering

Microomics Systems is a Contract Research Organization (CRO) offering 360° microbiome analysis services. It combines metagenomics (16S/18S/ITS barcoding and shotgun whole-genome sequencing via Illumina NovaSeq), transcriptomics (RNA-seq), and proprietary bioinformatics pipelines to deliver taxonomic and functional profiling of microbial communities for research institutions, pharmaceutical, healthcare, agricultural, and food industry clients. The platform spans experimental design, sample logistics, biobanking, DNA extraction in an ISO-certified clean room, sequencing, custom bioinformatics, and interactive HTML report delivery.

Product overview

Microomics Systems is a Contract Research Organization (CRO) specializing in microbiome analysis services. The company operates a 360-degree service platform combining metagenomics, transcriptomics, and complementary services. Core offerings include Metagenómica Barcoding (16S/18S/ITS metabarcoding for taxonomic profiling), Metagenómica Shotgun (whole-genome sequencing for high-resolution taxonomic and functional analysis), and Transcriptómica (RNASeq for differential expression studies). Supporting these are Servicios Complementarios encompassing scientific-technical advisory, biobanking, sample logistics, and transport services. The platform supports analysis from over 50 different sample matrices across human health, animal health, agriculture, and food industry sectors.

Differentiator

Problem solved

Functional benefit

Products and services

• Metagenómica Barcoding (16S/18S/ITS Metabarcoding) Metabarcoding service for taxonomic profiling and diversity analysis of bacterial (16S) and fungal/eukaryotic (18S/ITS) communities using PCR amplification of marker genes, with ASV-based diversity analysis and functional inference. Targeted at research institutions, pharma, clinical, agricultural, and food industry clients conducting microbiome studies.
• Metagenómica Shotgun (Whole-Genome Metagenomics) Whole-genome shotgun metagenomics service providing species/strain-level taxonomic identification and complete functional characterization of microbiomes through random DNA sequencing on Illumina NovaSeq (2x150 bp, 40 million paired-end reads guaranteed per sample). Includes detection of antibiotic resistance genes, mobile elements, virulence factors, and recovery of MAGs (Metagenome-Assembled Genomes). Targeted at research institutions, pharma, clinical, agricultural, and food industry clients requiring high-resolution microbiome analysis.
• Transcriptómica (RNA-seq) RNA sequencing service for differential expression studies analyzing gene expression patterns in microbiome samples and host response studies. Targeted at research institutions and industry clients studying gene expression in vitro and in vivo as part of microbiome research.
• Servicios Complementarios (Biobank, Logistics & Scientific Advisory) Supporting services including experimental design consultation, sampling strategy, protocol optimization, biobank storage, sample custody, and transportation services for microbiome studies. Targeted at research institutions and industry clients requiring end-to-end study support beyond sequencing and bioinformatics.

Quantifiable outcome

• 40 million paired-end reads guaranteed per sample for shotgun sequencing
• +3 more outcomes

Segments4 records

Ideal customer profiles4 records

Technology focussed Yes

API detail

Has API

No

API docs

API detail

Core technology

AI maturity

App detail

Feature7 records

Partnerships

Seven partnerships are on record, tiered core and minor.

• Centre for Genomic Regulation (CRG)coreStrategic or Co-development Partner · 1 January 2017Microomics originated as a spin-off from the Centre for Genomic Regulation (CRG), located at the Biomedical Research Park of Barcelona (PRBB). The company was founded by two scientists from CRG: Pedro González PhD and Toni Gabaldón PhD. Co-founder Toni Gabaldón serves as Scientific Advisor, maintaining institutional ties that support research excellence and knowledge transfer.
• Almirall Innovation Hub 'The Hive'coreStrategic or Co-development PartnerIn 2026, Microomics relocated its headquarters to the Almirall Innovation Hub 'The Hive' in Sant Feliu de Llobregat as a strategic move to support company growth and access to innovation ecosystem resources. Almirall is a leading Spanish pharmaceutical company focused on dermatology and inflammation research.
• AseBiominorOthersMember of AseBio (Spanish Association of Biotechnology Companies), providing networking, industry representation, and participation in events such as the AseBio Green Innovation Forum 2026 in Salamanca.
• Barcelona Health HubminorOthersMember of Barcelona Health Hub, a health innovation hub connecting companies and institutions in the Barcelona health ecosystem.
• Catalonia Bio & Health TechminorOthersMember of Catalonia Bio & Health Tech, the association of biotechnology and health technology companies in Catalonia, Spain.
• BiovegenminorOthersMember of Biovegen, a Spanish technology platform connecting companies and research groups in plant biotechnology.
• ICREA (Institució Catalana de Recerca i Estudis Avançats)minorStrategic or Co-development PartnerLogo displayed on company website indicating partnership or institutional affiliation with ICREA, a Catalan institution promoting advanced research and research excellence.

Scale indicators4 records

Recent moves9 records

Expansion highlights5 records

Direct peers

• CosmosID: US-based microbiome CRO offering end-to-end metagenomics sequencing and bioinformatics with proprietary ID database. Directly comparable to Microomics as a competing specialized microbiome services provider for pharma, food, and environmental clients.
• DNA Genotek (microbiome services): Sample collection and microbiome services provider offering integrated workflows from collection through sequencing for human/animal microbiome research. Comparable to Microomics in target customer (research institutions, pharma) and service scope.
• CD Genomics: Microbiome sequencing and bioinformatics services company offering 16S/ITS, shotgun metagenomics, and related -omics for academic and industrial clients. Directly comparable service mix and target market to Microomics.
• Microbiome Insights: Contract microbiome services lab offering sequencing, bioinformatics, and statistical analysis for human/animal/environmental microbiome studies. Directly comparable to Microomics as a focused microbiome CRO.
• Zymo Research: Provider of microbiome sample collection devices, DNA extraction kits, and sequencing/bioinformatics services. Comparable to Microomics as a vertically integrated microbiome services and tools provider.
• MR DNA: Texas-based molecular research lab specializing in microbiome sequencing (16S, ITS, shotgun) and bioinformatics for agricultural, environmental, and biomedical clients. Comparable to Microomics' cross-sector targeting and service mix.
• RTL Genomics: Microbiome and environmental genomics services lab offering sequencing and bioinformatics for animal health, agriculture, and environmental research. Comparable to Microomics' non-human sector mix and approach.

Broad incumbents

• Eurofins Genomics: Global genomics services arm of Eurofins offering sequencing, including microbiome, at industrial scale. Broader incumbent competitor with significantly larger scale and geographic footprint than Microomics.
• Novogene (microbiome services): Large-scale genomic sequencing CRO providing 16S/ITS, shotgun metagenomics, and bioinformatics globally. Comparable offering to Microomics but with vastly greater throughput and international footprint.

Regional players

• BaseClear: Dutch-based microbiome and microbial genomics services company serving European pharma, food, and research clients. Closely comparable to Microomics in service offering and European market focus.

Market position

Strengths5 records

Weaknesses5 records

Competitive moat4 records

Key risks6 records

Key highlights7 records

Customer concentration

• LinkedInlinkedin.com/company/microomics-systems-s-l
• Xx.com/microomics_syst

Revenue estimate

Valuation estimate

Number of profiles

Profiles13 records

Funding overview

Funding rounds

Investors

Funding detail is available on the Subscription and Enterprise plan.Contact sales →

M&A

Investments

M&A and investment is available on the Subscription and Enterprise plan.Contact sales →

Frequently asked questions about Microomics Systems