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Fungal ITS Sequencing


Our next-generation sequencing or long-read sequencing platforms can help you identify novel fungal species, explore the structure of fungal communities, and determine the roles of fungi in the environment or in/on the human body.

Our Advantages:
  • Professional and experienced expert team.
  • Validated primers are used to amplify ITS1 and ITS2.
  • High-throughput sequencing and fast turnaround time.
  • Next-generation sequencing (NGS) and third-generation sequencing platforms
  • Comprehensive, accurate, and flexible bioinformatics pipeline
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Introduction to Our Microbial Diversity Analysis Platform

Internally Transcribed Spacer (ITS) lies between highly conserved nuclear ribosomal DNA (rDNA) genes (18S, 5.8S, 28S). It tends to be hypervariable and unique among species but moderately unchanged among individuals from the same species, so it is a suitable marker to identify species identification. ITS can reflect the differences between fungal genera, species, and even strains. In addition, the length of ITS sequence fragments (the lengths of ITS1 and ITS2 are 350 bp and 400 bp respectively) is short, Containing interspecific polymorphisms, the short length of the fragments is easy to amplify, sequence, and analyze. Our advanced NGS platforms (Illumina PE250/300) is ideal for identification and quantitation of known fungi, and discovery of novel fungi.

Fungal ITS sequencing can recognize sample diversity from samples, hence investigating the biological significance. With the emergence of fungi that are resistant to the antifungal drugs, fungal ITS sequencing has therefore become essential for the rapid and accurate identification of fungi in a routine diagnostic microbiology laboratory. Fungal ITS sequencing can also be used for fungal plant disease diagnoses. This technique has been applied to a range of fields, including environmental conservation, agricultural production, petroleum exploration, and industrial manufacturing.

Fungal ITS sequencing workflow

Bioinformatics Analysis

After DNA sequences are obtained, bioinformatics tools such as QIIME and mothur are commonly used for raw data processing, taxonomic assignment, diversity and richness analysis, comparative analysis, and evolutionary analysis. We are flexible to your needs.

Pipeline Analysis Content
Raw data processing Filtering and trimming of poor-quality sequences, read alignment
Taxonomic assignment Operation Taxonomic unit (OTU) clustering and taxonomic assignment
Diversity and richness analysis Rank abundance, Venn, alpha diversity analysis, beta diversity analysis, rarefaction curves, heatmap, etc.
Comparative analysis Metastats, LEfSe, PCA analysis, PCoA analysis, etc.
Evolutionary analysis (Un)weighted UniFrac analysis, phylogenetic trees
Custom analysis CCA analysis, PICRUSt, network analysis, etc.

Sample Requirement

Sampling kits: We provide a complete range of microbial sampling kits for clients, including microbial collection products, DNA/RNA isolation kits, and accessories for storage and mailing.

Deliverables: Raw sequencing data (FASTQ), trimmed and stitched sequences (FASTA), quality-control dashboard, statistic data, and your designated bioinformatics report.

References

  1. R. C. Summerbell, et. al. rRNA Gene Internal Transcribed Spacer 1 and 2 Sequences of Asexual, Anthropophilic Dermatophytes Related to Trichophyton rubrum. J Clin Microbiol. 1999, 37(12): 4005–4011.
  2. A. J. Buehler, et. al. Internal transcribed spacer (ITS) sequencing reveals considerable fungal diversity in dairy products. Journal of Dairy Science. 2017,100(11): 8814-8825.
  3. Kõljalg U, et. al. UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi. New Phytol. 2005, 166(3):1063-8.
* For Research Use Only. Not for use in diagnostic procedures.

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