Plant & Animal De Novo Whole Genome Sequencing

Plant & Animal De Novo Whole Genome Sequencing

Service Description

BGI is a recognized leader in De Novo Whole Genome Sequencing and has been involved in the sequencing and assembly of 1000s of De Novo genomes and affiliated research published in the world’s leading journals.

De novo sequencing refers to sequencing a novel genome where there is no reference sequence available for alignment.

The process of de novo genome sequencing involves the sequencing of small DNA fragments, and assembling the reads into longer sequences (contigs) and finally ordering the contigs to obtain the entire genome sequence.

With the advent of rapid, low-cost next-generation sequencing (NGS) technology, researchers can now obtain whole genome data for organisms previously considered too low a priority to sequence. The availability of this whole genome data has allowed large-scale genomic studies to be performed that were unimaginable just a few years ago.

Project Workflow

We care for your samples from the start through to the result reporting. Highly experienced laboratory professionals follow strict quality procedures to ensure the integrity of your results.

  • Sample QC
  • Library QC
  • Data QC
  • Sample preparation
  • Library construction
  • Sequencing
  • Raw data output
  • Bioinformatics analysis

How to order

Request a Quote

Send us a no obligation request for quote and our dedicated sales team will reply to you within 24 hours.

Create an Online myBGI Account

Create a myBGI account to view all our sample and shipping documentation and to manage your project moving forwards. It's quick, free and easy!

Sequencing Service Specification

BGI provides various combinations of sequencing platforms, sequencing read-lengths and paired-end and mate-pair library options for De Novo whole genome sequencing applications for human, animal and microorganisms.

Services are performed on either the HiSeq X10 or Sequel platforms.

  • Sample Requirements

    Sample Requirements

    • 150bp paired end sequencing
    • Raw data, standard and customized data analysis
    • Cloud-based data storage and delivery system
  • Sequencing Quality Standard

    Sequencing Quality Standard

    • Guaranteed ≥ 80% of bases with quality score of ≥Q30
    • Standard sequencing coverage ≥50X; ≥150X is recommended for cancer sample
  • Turn Around Time

    Turn Around Time

    • Typical 40 working days from sample QC acceptance to filtered raw data availability
    • Expedited services are available, contact your local BGI specialist for details

Note: The total quantity of sample required is also determined by the experimental strategy, as well as the type and number of libraries to be constructed.

Quantity Required

Short-insert libraries

≥3 µg

2 kb large-insert libraries

≥20 µg

5 kb-6 kb large-insert libraries

≥20 µg

10 kb large-insert libraries

≥20 µg

Concentration and Purity

Concentration

Purity

Short-insert libraries

≥30 ng/ µL

OD260/280= 1.8-2.0

Large-insert libraries

≥133 ng/ µL

OD260/280= 1.8-2.0

Data Analysis

In addition to raw data output, BGI offers a range of standard and customized bioinformatics pipelines for your whole genome sequencing project.

Genome Survey

  • Filtering

  • K-mer depth distribution analysis and genome size estimation

  • Genome heterozygous rate estimation

  • Preliminary assembly

Genome Assembly

  • Genome Assembly

  • GC-Depth distribution analysis

  • GC-Content distribution analysis

  • Sequencing depth analysis

  • Evaluation of coverage of autosomal chromosome (BAC or Fosmid sequence should be provided)

  • Evaluation of coverage of interested genes (EST or transcriptome data should be provided)

Evolution analysis

  • Genome map with GC skew and annotation

  • Gene family identification (animal: TreeFam; plant: OrthoMCL)

  • Phylogenetic analysis

  • Estimation of species divergence time

  • Genomic island prediction

  • Genome-wide synteny analysis

  • Segmental duplication analysis (animal: WGD; plant: WGAC)

Annotation

  • ncRNA annotation

  • Gene function annotation

  • Gene prediction

  • Repeat annotation

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