Plant/Animal Whole Genome Sequencing

Whole genome re-sequencing, also known as WGS, enables the revealing of both common and rare mutations on the whole genome including 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. Long-read resequencing allows for more precise identification of large fragments and complicated variations because long reads make it much easier to chromosomal crossing over complicated regions such as tandem repeats, GC/AT-rich regions, and hyper-variable regions.

Platform: Illumina, PacBio, Nanopore

Service Details

Demo Result

Featured Publication

1.Service Advantages

Extensive experience in genome sequencing for over 1000 species.

Over 800 published cases with an accumulative impact factor of over 4000.

Comprehensive bioinformatics analysis on variation calling and function analysis.

2. Service Specifications

Platform		Library	Recommended seq depth
Illumina		PE 150	For SNP, InDel calling ≥ 10x For SV, CNY calling ≥ 30x
Nanopore		8 kb	For SV, CNY calling ≥ 20x
Pacbio	CCS	15 kb	For SNP, InDel, SV, CNY calling ≥ 10x

3. Sample Requirements

Platform		Conc.(ng/μL)	Amount (ng)	Purity		Agarose gel
				OD260/280	OD260/230	1. Clear main band with no or limited degradation observed on gel. 2. No or limited RNA or protein contamination
Illumina		≥1	≥30	-	-
Nanopore		≥30	Depends on data yield 10μg/cell	1.7-2.2	≥1.5
Pacbio	CCS	≥50		1.7-2.2	1.8-2.5

4. Bioinformation Analysis

5. Service Work Flow

Sample delivery

DNA extraction

Library construction

Sequencing

Data analysis

Data delivery

Previous: BMKMANU S1000 Spatial Transcriptome

Next: Single- nucleus RNA Sequencing

1) Statistics of Genome Mapping

Table 1 Statistics of mapping result

Figure 1 Distribution of insert size and reads coverage.

2) Variate Detection

Figure 2 Statistics and annotation of SNP/INDEL/SV among Samples

Figure 3 Genome-wide distribution of vatiations

3) Functional annotation of variations

2019	Nature communications	Whole-genome resequencing reveals Brassica napus origin and genetic loci involved in its improvement
2020	PNAS	The evolutionary origin and domestication history of goldfish (Carassius auratus)
2021	Plant Biotechnology Journal	Reference genomes of the two cultivated jute species
2021	Plant Biotechnology Journal	Genomic signatures of vegetable and oilseed allopolyploid Brassicajuncea and genetic loci controlling the accumulation of glucosinolates
2019	Molecular Plant	Whole-genome resequencing of a world-wide collection of rapeseed accessions reveals genetic basis of their ecotype divergence
2022	Horticulture Research	Genome-wide association analysis provides molecular insights into the natural variation of watermelon seed size
2021	Journal of Experimental Botany	Genome-wide association study identifies variants of GhSAD1 conferring cold tolerance in cotton
2021	Journal of Experimental Botany	Genome-wide association study and transcriptome comparison reveal novel QTL and candidate genes that control petal size in rapeseed