BMKCloud Log in
条形banner-03

Products

Plant/Animal Whole Genome Sequencing

Whole Genome Sequencing (WGS), also known as re-sequencing, refers to the whole genome sequencing of different individuals of species with known reference genomes. On this basis, the genomic differences of individuals or populations can be further identified. WGS enables the identification of Single Nucleotide Polymorphism (SNP), Insertion Deletion (InDel), Structure variation (SV), and Copy Number Variation (CNV). SVs make up a larger portion of the variation base than SNPs and have a greater impact on the genome, which has a significant effect on living organisms. While short-read resequencing is effective in identifying SNPs and InDels, long-read resequencing allows for more precise identification of large fragments and complicated variations.


Service Details

Bioinformatics

Demo Result

Featured Publications

Service features

● Library preparation can be standard or PCR-free

● Available in 4 sequencing platforms: Illumina NovaSeq, BGI T7, Nanopore Promethion P48 or PacBio Revio.

● Bioinformatic analysis focused on the detection of variants: SNP, InDel, SV and CNV

Service Advantages

● Extensive Expertise and publication records: with accumulated experience in genome sequencing for over 1000 species. This has resulted in over 800 published cases with an cumulative impact factor of over 4000.

● Comprehensive bioinformatics analysis: including variation calling and function annotation

● Post-Sales Support: our commitment extends beyond project completion with a 3-month after-sale service period. During this time, we offer project follow-up, troubleshooting assistance, and Q&A sessions to address any queries related to the results.

● Comprehensive Annotation: we use multiple databases to functionally annotate the genes with identified variations and perform the corresponding enrichment analysis, providing insights on multiple research projects.

Service Specifications

Variants to be identified

Sequencing strategy

Recommended depth

SNP and InDel

Illumina NovaSeq PE150

or BGI T7

10x

SV and CNV  (less accurate)

30x

SV and CNV (more accurate)

Nanopore Prom P48

20x

SNPs, Indels, SV and CNV

PacBio Revio

10x

Sample Requirements

Tissue or extracted nucleic acids

Illumina/BGI

Nanopore

PacBio

Animal Viscera

0.5-1g

≥3.5g

≥3.5g

Animal Muscle

≥5g

≥5g

Mammalian Blood

1.5 mL

≥5 mL

≥5 mL

Poultry/Fish Blood

≥0.5 mL

≥0.5 mL

Plant- Fresh Leaf

1-2g

≥5g

≥5g

Plant -Petal/Stem

≥10g

≥10g

Plant - Root/Seed

≥20g

≥20g

Cultured Cells

 

≥1x108

≥1x108

Extracted DNA

Concentration: ≥1 ng/ µL

Amount: 30ng

Limited or no degradation or contamination

Concentration: ≥40 ng/ µL

Amount: 4 µg/flow cell

OD260/280=1.7-2.2

OD260/23 ≥1.5

Limited or no degradation or contamination

Concentration: ≥50 ng/ µL

Amount: 410µg/flow cell

OD260/280=1.7-2.2

OD260/23=1.8-2.5

Limited or no degradation or contamination

Service Work Flow

sample delivery

Sample delivery

Pilot experiment

DNA extraction

Library Preparation

Library construction

Sequencing

Sequencing

Data analysis

Data analysis

数据上传-03

Data delivery


  • Previous:
  • Next:

  • 流程图7-02

    Includes the following analysis:

    • Raw data Quality Control
    • Statistics of alignment to reference genome
    • Variant identification: SNP, InDel, SV and CNV
    • Functional annotation of variants

    Statistics of alignment to reference genome – sequencing depth distribution

    图片26

     

    SNP calling among multiple samples

    图片27

     

    InDel identification – statistics of the InDel length in the CDS region and the genome-wide region

    图片28

     

    Variant distribution across the genome – Circos plot

    图片29

    Functional annotation of genes with identified variants – Gene Ontology

    图片30

    Chai, Q. et al. (2023) ‘A glutathione S‐transferase GhTT19 determines flower petal pigmentation via regulating anthocyanin accumulation in cotton’, Plant Biotechnology Journal, 21(2), p. 433. doi: 10.1111/PBI.13965.

    Cheng, H. et al. (2023) ‘Chromosome-level wild Hevea brasiliensis genome provides new tools for genomic-assisted breeding and valuable loci to elevate rubber yield’, Plant Biotechnology Journal, 21(5), pp. 1058–1072. doi: 10.1111/PBI.14018.

    Li, A. et al. (2021) ‘Genome of the estuarine oyster provides insights into climate impact and adaptive plasticity’, Communications Biology 2021 4:1, 4(1), pp. 1–12. doi: 10.1038/s42003-021-02823-6.

    Zeng, T. et al. (2022) ‘Analysis of genome and methylation changes in Chinese indigenous chickens over time provides insight into species conservation’, Communications Biology, 5(1), pp. 1–12. doi: 10.1038/s42003-022-03907-7.

    get a quote

    Write your message here and send it to us

    Send your message to us: