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Microbial Whole Genome Sequencing

Comprehensive whole-genome sequencing of microorganisms to characterize genetic variation, genome structure, and functional potential.

Microbial Whole Genome Sequencing is a critical approach for sequencing the entire microbial genomes, as well as for comparing multiple reference genomes to mapped genomes of new organisms. Sequencing entire bacterial, viral, or other microbial genomes is important for the generation of accurate reference genomes, microbial identification, and other comparative genomic studies.


Compared with conventional approaches like PCR, Whole Genome Sequencing does not require labor-intensive cloning and mapping steps. Hence, it is time- and cost-effective. Moreover, this high-throughput sequencing approach allows the sequencing of numerous samples at the same time through the courtesy of multiplexing.

Benefits of Microbial Whole Genome Sequencing

Extensive Experience
Extensive Experience

Proven expertise across diverse strains, including pathogenic, probiotic, medicinal, and industrial species.

Professional services
Professional services

End-to-end support from sample selection to sequencing and data analysis with optimized design.

Comprehensive analysis
Comprehensive analysis

Integrated detection of SNPs, InDels, SVs, and population-level insights in a one-stop workflow.

Strict quality control
Strict quality control

Rigorous QC ensures reliable, reproducible, and high-quality sequencing data.

High-quality library preparation
High-quality library preparation

Optimized library construction with precise size selection to ensure consistent and high-quality data output.

Applications of Microbial Whole Genome Sequencing

Permits the detection of variations within target genomes

Microbial Whole Genome Sequencing generates short DNA sequences ("reads") that are computationally assembled and mapped against a reference genome. By comparing the sequences from multiple microbial isolates to this reference or to each other, bioinformatics tools can pinpoint every single genetic difference with high accuracy.

Interpretation of character differences

By having the complete genome, scientists can identify all the genes present in a microorganism. When they observe a difference in phenotype (e.g., one strain is highly virulent while another is benign), they can compare their genomes to identify the specific genes or mutations responsible for that difference.

Allows large-scale evolution research

The vast amount of data from thousands of whole genomes provides a highly resolved and statistically robust dataset for building evolutionary models. By analyzing the patterns of SNPs and other variations across many isolates, scientists can trace the origin, spread, and diversification of microbial lineages.

Enables prerequisite study of novel species identification

Culture-Dependent: A novel microbe is cultured, but its characteristics don't match any known species. WGS provides the genetic data to formally describe it.

Specifications

Sample Requirements

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

Library TypeSample TypeAmount (Qubit)VolumeConcentrationPurity (NanoDropTM/Agarose Gel)
Microbial whole genome libraryGenomic DNA≥200 ng≥20 μL≥10 ng/μLA260/280=1.8-2.0; No degradation, no contamination
Microbial whole genome library(PCR-free)Genomic DNA≥1.1 μg≥20 μL≥20 ng/μL

Sequencing and Analysis

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

Platform TypeIllumina NovaSeq
Read LengthPaired-end 150 bp
Recommended Sequencing Depth≥ 100x for bacterial genomes
≥ 50x for fungal genomes
Standard Data AnalysisData quality control: filtering reads containing adapter or with low quality
Alignment with the reference genome, statistics of seque

Project Workflow

Project Workflow

Resources

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Gene length Distribution of Each Sample

Bar chart of gene length distribution per sample, showing gene counts across length bins (bp).

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The gene distribution of genomic islands

Genomic island gene maps showing gene order, orientation, and positions across predicted islands (kb scale).

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GO annotation

GO annotation bar chart summarizing genes by Biological Process, Cellular Component, and Molecular Function.

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KEGG annotation

KEGG pathway annotation chart showing numbers of genes assigned to major pathway categories and subcategories.

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TCDB Functional Classification Chart

TCDB functional classification bar chart showing counts of genes mapped to transporter classes (1–9).

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CAZy Functional Classification and Corresponding Gene Number Chart

CAZy functional classification chart showing numbers of genes in AA, CBM, CE, GH, GT, and PL families.

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Statistical chart of gene clusters and corresponding gene numbers

Cluster statistics chart comparing number of gene clusters and total genes for each predicted product group.

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Gene function annotation of pathogengic phenotypic mutation types distribution

PHI phenotype classification chart showing counts of genes linked to pathogenicity and virulence phenotype classes.


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