Metatranscriptome Sequencing

Community-wide transcriptome profiling to characterize microbial gene expression, functional activity, and responses across complex environments.

Metatranscriptomics uses RNA-seq to study gene expression in microbial communities at a specific time, revealing which genes are most active. Through NGS-based, random mRNA sequencing, it provides comprehensive expression profiles, offering insights into microbial community structure, function, and adaptation.

Novogene leverages advanced Illumina NovaSeq platforms for this analysis. Using a paired-end 150-base-pair (bp) protocol, we consistently generate high-fidelity, high-quality, short-reads data. With extensive experience and substantial sequencing capacity, Novogene delivers tailored services to meet diverse research needs.

Benefits of Novogene Metatranscriptome Sequencing

Extensive Experience

Over 1 million RNA-seq samples delivered annually.

Local Support

Regional sequencing facilities and dedicated customer service.

Comprehensive Solutions

Customized workflows and bioinformatic analysis for challenging or low-input/low-quality prokaryotic samples.

Superior Data Quality

Consistently exceeding manufacturer performance benchmarks.

Applications of Metatranscriptome Sequencing

Metatranscriptomics studies the genome-wide transcriptional activity and regulatory patterns of a microbial community at a specific time and in a specific environment. It can also conduct in situ characterization of transcriptionally active bacterial taxa in microbial communities and the expression of core genes.

Microbial community analysis

Transcriptional profiling to resolve community composition, functional activity, and trait dynamics.

Pathogen detection and quantification

Identification and relative abundance estimation of target pathogens in clinical and environmental samples.

Transcriptionally active microbes and functional activity

Exploration of dominant/active microbial species and their functional potentials.

Core gene screening & pathway analysis

Core gene screening & functional characterization with metabolic pathway analysis.

Specifications

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Specifications

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Demo Results

1/1

Species-abundance Clustering

This analysis clusters samples or species based on species abundance patterns to reveal similarities/differences in community composition and identify key taxa driving community structure variations.

1/1

Cluster Analysis of Samples based on Species Abundance

This analysis groups samples with similar species abundance patterns to reveal potential sample associations, ecological similarities, or grouping trends related to environmental factors or experimental treatments.

1/1

Phylogenetic Tree of Species Differences

This tree visually illustrates evolutionary relationships and divergence patterns among species, aiding in identifying key differences in genetics, morphology, or ecology across taxa.

1/1

Circos Plot of ARO Abundance

This Circos plot intuitively visualizes the relative abundance and distribution patterns of Antimicrobial Resistance Genes (AROs) across samples or microbial taxa.

1/1

Distribution- and Abundance-based Cluster Analysis of Resistance Gene Types

This analysis clusters resistance gene types based on their distribution patterns and abundance levels to reveal associations between gene groups and environmental/biological factors, supporting resistance mechanism research.

1/1

Volcano Plot of Differentially Expressed Genes

The Volcano plot of differentially expressed genes visually displays the fold change and statistical significance of gene expression differences between groups, enabling rapid identification of significantly upregulated/downregulated genes.

Demo Results

1/1

Species-abundance Clustering

This analysis clusters samples or species based on species abundance patterns to reveal similarities/differences in community composition and identify key taxa driving community structure variations.

1/1

Cluster Analysis of Samples based on Species Abundance

1/1

Phylogenetic Tree of Species Differences

This tree visually illustrates evolutionary relationships and divergence patterns among species, aiding in identifying key differences in genetics, morphology, or ecology across taxa.

1/1

Circos Plot of ARO Abundance

This Circos plot intuitively visualizes the relative abundance and distribution patterns of Antimicrobial Resistance Genes (AROs) across samples or microbial taxa.

1/1

Distribution- and Abundance-based Cluster Analysis of Resistance Gene Types

1/1

Volcano Plot of Differentially Expressed Genes

More Services

Shotgun Metagenomic Sequencing

Amplicon Sequencing

Microbial Whole Genome Sequencing

Microbial De novo Sequencing

Ready to Start Your Project?

Our platform offers tailored solutions for

your unique experimental needs, ensuring a seamless experience from project design to data delivery.

Metatranscriptome Sequencing

Community-wide transcriptome profiling to characterize microbial gene expression, functional activity, and responses across complex environments.

Benefits of Novogene Metatranscriptome Sequencing

Extensive Experience

Over 1 million RNA-seq samples delivered annually.

Local Support

Regional sequencing facilities and dedicated customer service.

Comprehensive Solutions

Customized workflows and bioinformatic analysis for challenging or low-input/low-quality prokaryotic samples.

Superior Data Quality

Consistently exceeding manufacturer performance benchmarks.

Applications of Metatranscriptome Sequencing

Microbial community analysis

Transcriptional profiling to resolve community composition, functional activity, and trait dynamics.

Pathogen detection and quantification

Identification and relative abundance estimation of target pathogens in clinical and environmental samples.

Transcriptionally active microbes and functional activity

Exploration of dominant/active microbial species and their functional potentials.

Core gene screening & pathway analysis

Core gene screening & functional characterization with metabolic pathway analysis.

Specifications

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Specifications

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sample Requirements

Sample amounts are listed for reference only. Download the Sample Requirements to learn more. For detailed information, please contact us with your customized requests.

Library Type	Sample Type	Amount	Volume	Concentration	RIN (Agilent 2100)	Purity
Metatranscriptome Library (double rRNA depletion)	Total RNA	≥ 400 ng	≥ 20 μL	≥ 20 ng/μL	≥ 5.8, with flat baseline	OD260/280 ≥ 2.0; OD260/230 ≥ 2.0; no degradation, no contamination

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Sequencing and Analysis

Recommended data outputs and analysis contents displayed are for reference only. For detailed information, please contact us with your customized requests.

Sequencing Platform	Illumina NovaSeq Platforms
Read Length	Paired-end 150bp
Recommended Data Amount	≥ 20 million read pairs per sample
Content of Data Analysis	Data Quality Control Metatranscriptome Assembly Species Annotation Functional Annotation Gene Expression Quantification Differential Expression Analysis Enrichment Analysis

Project Workflow

Our Metatranscriptome Sequencing workflow ensures high-quality results through a rigorous, step-by-step process:

Demo Results

1/1

Species-abundance Clustering

This analysis clusters samples or species based on species abundance patterns to reveal similarities/differences in community composition and identify key taxa driving community structure variations.

1/1

Cluster Analysis of Samples based on Species Abundance

1/1

Phylogenetic Tree of Species Differences

This tree visually illustrates evolutionary relationships and divergence patterns among species, aiding in identifying key differences in genetics, morphology, or ecology across taxa.

1/1

Circos Plot of ARO Abundance

This Circos plot intuitively visualizes the relative abundance and distribution patterns of Antimicrobial Resistance Genes (AROs) across samples or microbial taxa.

1/1

Distribution- and Abundance-based Cluster Analysis of Resistance Gene Types

1/1

Volcano Plot of Differentially Expressed Genes

Demo Results

1/1

Species-abundance Clustering

This analysis clusters samples or species based on species abundance patterns to reveal similarities/differences in community composition and identify key taxa driving community structure variations.

1/1

Cluster Analysis of Samples based on Species Abundance

1/1

Phylogenetic Tree of Species Differences

This tree visually illustrates evolutionary relationships and divergence patterns among species, aiding in identifying key differences in genetics, morphology, or ecology across taxa.

1/1

Circos Plot of ARO Abundance

This Circos plot intuitively visualizes the relative abundance and distribution patterns of Antimicrobial Resistance Genes (AROs) across samples or microbial taxa.

1/1

Distribution- and Abundance-based Cluster Analysis of Resistance Gene Types

1/1

Volcano Plot of Differentially Expressed Genes

More Services

Shotgun Metagenomic Sequencing

Amplicon Sequencing

Microbial Whole Genome Sequencing

Microbial De novo Sequencing

Ready to Start Your Project?

Our platform offers tailored solutions for

your unique experimental needs, ensuring a seamless experience from project design to data delivery.