--- title: "Metagenomics" search_description: "IGATech’s metagenomics services deliver comprehensive insights into complex microbial communities, enabling research in microbiome diversity, pathogen discovery, environmental genomics and detection of antibiotic resistance genes. Advance your metagenomic studies with our precise sequencing solutions." published: 2025-10-09 10:04:59.483224+00:00 locale: "it" --- # Metagenomics [Contact us](https://igatechnology.com/igatech/contacts/#contact-form) ## Technologies ![AVITI Element Biosciences](/media/images/0.width-500.png) ### AVITI Element Biosciences The AVITI System by Element Biosciences is a benchtop sequencer designed for high performance, cost efficiency, and flexibility. It features dual independent flow cells for parallel or independent operation, enabling flexibility in throughput from low to full. The system utilizes Avidity Sequencing™ technology, ensuring over 90% of reads exceed Q30 quality, with minimal errors, low duplication rates, and reduced AT/GC bias. It supports easy data conversion to FASTQ files, offers compatibility with numerous assays, and provides cost-effective sequencing. This is our ideal companion for dedicated and fast-turnaround run set-up. For more detailed information, you can visit their website directly at [https://www.elementbiosciences.com/products/aviti](https://www.elementbiosciences.com/products/aviti). ![PromethION](/media/images/P24.width-500.png) ### PromethION Oxford Nanopore's technology is providing unprecedented accessibility and scalability to long-read sequencing. The technology has proven to be a game-changer in the fields of genome assembly, pangenomics, direct RNA sequencing and metagenomics analyses. Reads can be as long as input DNA/RNA. Bacterial genomes can be assembled in a single molecule in a snap of sequencing. Repetitive elements are easily resolved and with error-correction softwares we can now achieve telomere-to-telomere genome assemblies. ![NovaSeq X Plus](/media/images/Illumina_NovaSeq_XPlus_Left_561x375.width-500.png) ### NovaSeq X Plus The NovaSeq X Plus is a powerful and scalable ultra-high-throughput sequencing system that supports the broadest range of applications and study sizes. Unrivaled data quality using Illumina's proven SBS chemistry has made the NovaSeq X Plus the instrument of choice for all major genome centers and leading institutions throughout the world. Producing up to 25 billion reads \(7.5 Tbp\) per flowcell, yielding up to 120 human genomes in about 2 days at full capacity. ![Nucleic acids extraction](/media/images/DNA_extraction.width-500.png) ### Nucleic acids extraction DNA and RNA extraction is routinely performed at IGATech, providing support to our customers directly from raw material. Relying on automated systems and consolidated protocols we can help you in accelerating the path to analyzed data. We also work with non standard substrates, such as [plants](https://igatechnology.com/genomics-research-services/?area=plant) and [food](https://igatechnology.com/agrigenomics-solutions/). Our expertise in the isolation of high molecular weigth DNA for long-molecule sequencing applications will also be a specialized complement for [*de novo*](http://igatechnology.com/genomics-research-services/?area=plant#denovo) applications*.* Pleas [enquire](https://igatechnology.com/igatech/contacts/) to obtain further details*.* ![Whole Genome Sequencing](/media/images/Whole_genome_sequencing.width-500.png) ### Whole Genome Sequencing The whole genome sequence as the most comprehensive overview of its composition. Identify most of the variability accounted by SNPs, CNVs, PAVs, insertions, deletions, translocations along with its functional impact on the genetic code an organism. Dedicated technologies are applied for *de novo* reconstruction of personal genomes to an affordable price, providing an unbiased method to depict each individual human \(and non-human\) genome. See [*de novo*](https://igatechnology.com/genomics-research-services/?area=plant#denovo) - [whole genome resequencing](https://igatechnology.com/genomics-research-services/whole-genomics-resequencing/). ![Metagenomics](/media/images/Metagenomics.width-500.png) ### Metagenomics The area of research which investigates the taxonomical composition and activity of complex biological substrates. While traditional sequencing of cultured microorganisms could not provide a picture of the diversity of natural substrates, shotgun sequencing has opened the possibility of an unbiased fingerprinting and metabolic activity profiling of diverse communities, ranging from soil samples to the human intestinal flora. Several techniques provide scalable solutions. See [metagenomics](https://igatechnology.com/genomics-research-services/plantanimal/metagenomics/) - [metabarcoding](https://igatechnology.com/genomics-research-services/plantanimal/metabarcoding/). ## Genomics on a huge scale ![54diwzvi0r5a1](/media/images/54diwzvi0r5a1.width-1500.jpg) **discover new organisms and explore the dynamic nature of microbial populations** Microbes affect human and animal health, support the growth of plants, are critical components of all terrestrial and aquatic ecosystems and can be exploited to produce food, fuels or chemicals. Estimating the presence and abundance of small animals, phytoplankton and zooplankton, metegenomics has proven a powerful tool to assess biodiversity and be used to monitor health of terrestrial and aquatic ecosystems. Next-Generation Sequencing, with its ability to sequence thousands of organisms in parallel, has revolutionized microbiology by allowing concurrent analysis of whole microbial communities from complex samples and identification of strains that may not be found using other methods. **Advanced Bioinformatics Pipeline**: Our comprehensive workflow ensures accurate assembly, annotation, and analysis of metagenomic data. **Customized Solutions**: Tailored services to meet the unique needs of your project. **Applications of Metagenomics** - **Environmental Microbiology**: Explore soil, water, and air microbiomes. - **Human and Animal Health**: Study gut microbiota and their impact on health. - **Agricultural Science**: Improve crop yield by understanding soil microbes. - **Biotechnology**: Discover new enzymes and biochemical pathways. - **Ecology and Conservation**: Assess biodiversity and ecosystem health. ### Shotgun metagenomic sequencing Shotgun metagenomics allows researchers to comprehensively sample all genes in all organisms present in a given complex sample. The method provides information both about**which organisms are present** and**what metabolic processes are possible in the community**. Since the collection of DNA from an environment is largely uncontrolled, it is important to remember that the most abundant organisms in an environmental sample are most highly represented in the resulting sequence data. Thus, large sequencing efforts are required to achieve the high coverage needed to fully resolve the genomes of under-represented community members. However, the random nature of shotgun sequencing ensures that many of these organisms, which would otherwise go unnoticed using traditional culturing techniques, will be represented by at least some small sequence segments. **Our Metagenomic Analysis Workflow** Quality Control and Preprocessing De Novo Metagenome Assembly Metagenome-Assembled Genomes \(MAGs\) Reconstruction Abundance Profiling Functional and Taxonomic Annotation Gene Prediction Taxonomic Classification Phylogenetic Analysis Detection of Antibiotic Resistance Genes \(ARGs\) ### **Key Deliverables** - **Raw reads with Quality Control Reports**: Detailed HTML reports on read quality and preprocessing steps. - **Assembled Metagenomes**: High-quality contigs and scaffolds for each sample. - **Metagenome-Assembled Genomes \(MAGs\)**: Reconstructed genomes with completeness and contamination metrics. - **Functional Annotations**: - **Annotations Tables**: Comprehensive data on gene functions and pathways. - **Metabolic Summaries**: Excel spreadsheets summarizing metabolic capabilities. - **Taxonomic Classifications**: Accurate assignments from domain to species level. - **Phylogenetic Trees**: Newick format trees illustrating microbial relationships. - **Abundance Profiles**: Quantitative data on genome abundance across samples. - **Gene and Protein Catalogs**: Non-redundant collections for further research. - **Alignment Files**: Mapped reads to contigs, MAGs, and predicted genes. - **Antibiotic Resistance Genes hits**: - by shotgun mapping mapping - by ORF match from assembled MAGs. ## Terms and Conditions - [Privacy Information.pdf](/documents/12/Privacy_Information_rev00.pdf) - [Human samples clearance.pdf](/documents/13/__Human-samples_clearance.pdf) - [Shipping and Packaging Guidelines.pdf](/documents/9/SHIPPING_AND_PACKAGING_GUIDELINES.pdf) - [rev05 Terms and Conditions.pdf](/documents/137/__M12_01_rev05_Terms_and_Conditions.pdf)