Discovery of Novel Strains

Overview

With breakthroughs in genetic methodologies, different categorization techniques based on nucleotide sequences are increasingly popular regarding novel microbe discovery. Methods based on gene sequencing can be used to pinpoint, identify, and track microbes, even poorly established or uncultured microorganisms. CD Genomics is dedicated to supplying reliable and cost-effective microbial whole-genome sequencing services with decades of expertise in the areas of genome sequencing. We integrate microbial re-sequencing systems for both Illumina (short reads) and PacBio (long reads) and complete de novo genome sequencing. Adaptable sequencing tactics and professional bioinformatics pipelines enhance our strong expertise.

Our Advantages:

State-of-the-art sequencing platforms including next- and third- generation sequencing.
Standardized laboratory methods and strict quality control.
High-resolution sequencing coupled with optimized bioinformatics analysis.
Professional, comprehensive, and customized analysis pipeline.

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Novel Strain Discovery Services

According to new estimates, there are around one trillion of microorganisms on the earth, of which 99.999% have not been discovered. A large number of microorganisms are discovered each year, but the potential for discovery is still huge. In the past, research has relied on phenotypic research methods, such as morphology and biochemical methods. With the development of technology, we have a deeper understanding of the nature of biological genetics. Especially ribosomal DNA sequencing, it can efficiently detect microorganisms. With the continuous maturity of sequencing technologies and the declining cost, high-throughput, whole-genome sequencing provides a powerful tool for the discovery of new strains.

CD Genomics has long been committed to the exploration and application of sequencing technologies, and has a comprehensive layout platform to help new microbial discovery projects. We can provide amplicon sequencing using next generation sequencing with simple and fast protocols that can select and compare new gene sequences. We can also use whole genome sequencing to help you grasp the comprehensive information of the new strains, and perform functional analysis or prediction while identifying new strains. Meanwhile, our long-read sequencing platform can meet the demand of avoiding amplification and therefore lowering the cost. Equipped with a various technology platforms, CD Genomics can fully meet your needs in new strain discovery.

Workflow of Novel Strain Discovery

Bioinformatics Analysis

Analysis Contents	Details
De novo Assembly	We establish genomes from a large amount of DNA fragments (short- or long-) without insight of the appropriate sequence or order of those fragments a priori.
Reference Genome Mapping	We discover where our reads emerge from in the genome and then we can either call variants or build a consensus sequence for our series of aligned reads once these reads are synchronized.
Genome Annotation	In the sequence of a genome, we recognize functional components that allow DNA sequencing, which then generates sequences of unknown functions. This evaluation involves the prediction of pathogenic and susceptibility genes, non-coding prediction of RNA, prediction of CRISPRs.
Comparative Genomics	Based on DNA sequence, genes, gene order, regulatory sequences, and other genomic structural landmarks, we evaluate microorganisms' genomic characteristics. We also perform the classification of SNP/InDel.
Evolutionary Analysis and Divergence Time Estimation	We perform molecular evolution statistical evaluation and formulate phylogenetic trees.

Sample requirement

1. Specimens from human, animal, natural and industrial environments, as well as DNA and PCR products.
2. 1.8 < OD_260/280 < 2.0, OD_260/230 ≥ 1.8, no degradation or contamination.
3. Illumina platform: prokaryotic/eukaryotic DNA/cDNA amount ≥ 2 μg, viral DNA/cDNA amount ≥ 1 ug
4. PacBio platform: bacterial DNA amount ≥ 5 μg, fungal DNA amount ≥ 10 μg

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

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