Fungal Whole Genome Resequencing

Overview

Fungal whole genome resequencing refers to the high-throughput sequencing of each fungus or fungal populations with a reference genome. We provide the fungal whole genome resequencing platform to help you determine single nucleotide polymorphisms (SNPs), insertions and deletions (InDels), structural variations (SVs), and copy number variations (CNVs) in the fungal genomes.

Our Advantages:

Advanced sequencing platforms: Illumina HiSeq, Nanopore MinION, and PacBio SMRT platforms.
Rapid, efficient, flexible workflow for sequencing and data analysis.
Extensive experience in the industry of genomic service.
Keep up with the frontiers of microbial genomics and bioinformatics analysis.

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We are dedicated to providing outstanding customer service and being reachable at all times.

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Introduction to our fungal whole genome resequencing platform

We provide fungal whole genome resequencing using a whole-genome shotgun strategy by next generation sequencing (Illumina HiSeq PE150/251, 100X) or long-read sequencing platforms (PacBio RSII or Nanopore MinION instrument). A large number of reads generated from sequencers are subjected to quality control, and the clean data are subsequently aligned to reference genome sequences. With powerful bioinformatics analysis, we can detect large variations including SNPs, InDels, SVs, CNVs, etc. Fungal whole genome resequencing is an effective and accurate, method to quickly sequence and analyze fungal genomes.

With the availability of more high-quality reference genome sequences from different species, the use of fungal genome resequencing becomes common. Fungal whole genome resequencing can quickly and efficiently detect both mutations and structural variations on a global genome. Comparative genomic analysis can identify differentially expressed genes through gene ontology analysis and explore the evolutionary relationships and biological traits, including pathogenic mechanism and resistant mechanism. Moreover, our platform supports studies in pharmaceutical and biotechnology industries, scientific research and agriculture.

Fungal whole genome resequencing workflow

Bioinformatics Analysis

Our bioinformatics analysis includes: genomic assembly, genomic structure studies, functional annotation and comparative genomic analysis. For advanced bioinformatics analysis in detail, please refer to the following table.

Genomic Assembly	Data quality control
	Raw data filtering
	Sequence alignment
Genomic Structure Analysis	Detection of SNPs, InDels, SVs, CNVs
	Detection of CRISPRs
	LncRNA prediction
Functional Annotation	NR, GO, COG, KEGG, SwissProt, Pfam, TCDB, SignalP, CAZy
Comparative Genomic Analysis	Synteny analysis
	Analysis of gene family evolution
	Phylogenetic analysis
	ANI analysis

Sample Requirement

1. DNA amount: Illumina platform: fungal DNA amount ≥ 2 μg; PacBio platform: fungal DNA amount ≥ 10 μg
2. DNA Purity: OD_260/280 =1.8 ~2.0. No DNA degradation or RNA contamination

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), annotated sequences (FASTA), quality-control dashboard, statistic data, and the bioinformatics report.

References

Bentley D R. Whole-genome re-sequencing. Current opinion in genetics & development, 2006, 16(6): 545-552.
Li R, Li Y, Fang X, et al. SNP detection for massively parallel whole-genome resequencing. Genome research, 2009, 19(6): 1124-1132.

* For Research Use Only. Not for use in diagnostic procedures or other clinical purposes.