phase
1
Consultation
Begin by reaching out to us. Our experts will propose the optimal analysis strategy for your unique environmental research requirements.
phase
2
Sampling and DNA Extraction
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Develop customized sampling strategies based on research objectives and target environments
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Design appropriate collection methods for environmental samples
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Extract high-quality DNA using methods optimized for each sample type
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Conduct comprehensive quality assessment of extracted DNA
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Apply appropriate DNA extraction and purification protocols based on the chosen sequencing method
Estimated duration: 1-2 weeks
phase
3
Advanced Metagenomic Sequencing
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Perform high-throughput sequencing using advanced high-throughput sequencing platforms
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Offer multiple sequencing options to suit your research goals:
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16S rRNA full-length amplicon sequencing for species-level bacterial diversity
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Shotgun metagenomic sequencing (paired-end short reads) for comprehensive gene content analysis
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Shotgun metagenomic sequencing (long reads) for complex gene structures and genome reconstruction
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Hybrid approach combining short- and long-reads for comprehensive analysis
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Optimize sequencing depth and biological replication for statistically robust data generation
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Conduct initial data quality assessment and generate QC reports
Estimated duration: 2-3 weeks
phase
4
In-depth Data Analysis and Microbiome Profiling
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Perform comprehensive metagenomic analysis using validated bioinformatics pipelines
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Conduct analyses tailored to the chosen sequencing method:
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16S rRNA full-length amplicon analysis: Species-level taxonomic classification, phylogenetic tree construction, and alpha/beta diversity calculations
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Shotgun metagenomic analysis: Taxonomic and functional profiling, metabolic pathway analysis, and de novo gene prediction
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MAG analysis: Construction of high-quality genome bins and functional estimation of uncultured microorganisms
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Apply advanced statistical methods and algorithms for:
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Correlation analysis with environmental parameters
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Identification of differentially abundant taxa and functions
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Key processes include:
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Optimized analysis pipeline establishment
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Taxonomic and functional profiling using marker genes and protein databases
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Statistical analysis to detect significant associations
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Integrated analysis with environmental parameters
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Estimated duration: 3-4 weeks
phase
5
Expert Result Interpretation and Customized Reporting
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Provide detailed interpretation of microbial community structure, function, and ecological significance
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Develop tailored reports that address your specific research questions and environmental contexts
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Offer expert insights on environmental characteristics and their relationship to experimental conditions
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Deliver specialized analyses such as:
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Comprehensive interpretation of microbial community dynamics
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Correlation analysis with environmental parameters and ecological considerations
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Detailed analysis of novel microbes and functions (if applicable)
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Advanced data visualization and strategic recommendations for future research directions
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Estimated duration: 2-3 weeks
High-Resolution Environmental Microbiome Functional Analysis
Bio-DX
At PtBio, we enable comprehensive analysis of complex microbial communities using advanced high-throughput sequencing platforms and advanced bioinformatics tools. Our services range from 16S rRNA amplicon sequencing to shotgun metagenomics and MAG (Metagenome-Assembled Genome) analysis, facilitating the discovery of novel microorganisms and their functions in diverse ecosystems.
16S rRNA full-length amplicon analysis (long reads)
35,000 yen 〜
(Excluding Tax, 1 sample)
Species-level microbiome profiling using advanced technology
Delivery: From 1 month
Shotgun Metagenomic Analysis (Short Reads)
56,000 yen 〜
(Excluding Tax, 1 sample)
High-resolution taxonomic identification and functional profiling
Delivery: From 1 month
