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Genome Sequencing

From E.coli to big plants

Eurofins Genomics offers a wide range of services for de novo or re-sequencing of genomes. We will tailor the sequencing strategy to the sequencing layout of your genome of interest.

De novo genome sequencing projects:

  • Sequencing of novel genomes (absence of reference sequence)
  • "Re-sequencing" of genomes without a reference sequence. The de novo strategy is recommended if large genomic re-arrangements or InDels have accumulated in the genome
  • Assembly of shotgun reads into contigs based on sequence identities. Contigs are oriented and ordered by our long jumping distance (LJD) libraries

Re-sequencing projects

  • Ideal when a good reference sequence is available
  • Mapping of shotgun reads to the reference sequence, optional variance analysis

We offer genome sequencing service for the following areas:

Choose the perfect package for your application

De-Novo Sequencing of Genomes

ReSequencing of Genomes



The appropriate layout of different LJD libraries as well as the sequencing technology depends mainly on your project. We would be happy to advise you about the most convenient strategy.


For an individual quote or additional information, contact us.

Selected publications about genome sequencing


Higher Eukaryotic Genomes: Sakai, H. et al., The power of single molecule real-time sequencing technology in the de novo assembly of a eukaryotic genome. Scientific Reports, 5:16780

Higher Eukaryotic Genomes: Sato, K. et al., Resequencing of the common marmoset genome improves genome assemblies and gene-coding sequence analysis. Scientific Reports, 5:16894

Higher Eukaryotic Genomes: Tourasse, N. et al., The complete mitochondrial genome sequence of the green microalga Lobosphaera (Parietochloris) incisa reveals a new type of palindromic repetitive repeat. BMC Genomics, vol. 16:580

Higher Eukaryotic Genomes: Shimomura, M. et al., The Glycine max cv. enrei genome for improvement of Japanese soybean cultivars. Intern. Journal of Genomics, vol. 2015 (358127)



Genome analysis (plasmids): Wang, J. et al., Nucleotide sequences of 16 transmissible plasmids identified in nine multidrug-resistant Escherichia coli isolates expressing an ESBL phenotype isolated from food-producing animals and healthy humans. Journal of Antimicrobial Chemotherapy 69

Higher Eukaryotic Genomes: Stoeckle, B. et al., Identification of 10 polymorphic microsatellite loci in the high montane gastropod Semilimax kotulae using high-throughput sequence data. Molluscan Research 34(1)

Bacterial & Fungal Genomes: Fujinami et al. Genome Sequence of Deep-Sea Denitrifier Pseudomonas sp. Strain MT-1, Isolated from the Mariana Trench. Genome Announc. 2(6)

Bacterial & Fungal Genomes: Takeuchi et al. Complete Genome Sequence of the Biocontrol Strain Pseudomonas protegens Cab57 Discovered in Japan Reveals Strain-Specific Diversity of This Species. PLOS One 9(4)

Bacterial & Fungal Genomes: Bottacini et al. Comparative genomics of the Bifidobacterium breve taxon. BMC Genomics, 15:170



Bacterial & Fungal Genomes: Zhurina et al. High-quality draft genome sequence of Bifidobacterium longum E18, isolated from a healthy adult. Genome Announc. 01084-13

Bacterial & Fungal Genomes: Sabat et al. Novel organization of the arginine catabolic mobile element and staphylococcal cassette chromosome mec composite island and its horizontal transfer between distinct Staphylococcus aureus genotypes. Antimicrob Agents Chemother. 57 (11)

Higher Eukaryotic Genomes: Naito et al. De novo assembly of the complete organelle genome sequences of azuki bean (Vigna angularis) using next-generation sequencers. Ibaraki 305-8602

Bacterial & Fungal Genomes: Mondy et al. Genome Sequence of the Quorum-Quenching Agrobacterium tumefaciens Strain WRT31. GenomeA 10.1270

Cosmids: Chi X et al. The muraminomicin biosynthetic gene cluster and enzymatic formation of the 2-deoxyaminoribosyl appendage. Med. Chem. Commun., 4, 239-243



Higher Eukaryotic Genomes: Stoeckle B et al. Identification of polymorphic microsatellite loci for the endangered Kagu (Rhynochetos jubatus) by high-throughput sequencing. J Ornithol 153:249-253

Bacterial & Fungal Genomes: Witzel K et al. Genome sequence of Enterobacter radicincitans DSM16656T, a plant growth-promoting endophyte. J. Bacteriol. vol. 194

Bacterial & Fungal Genomes: Zischka M et al. Complete genome sequence of the porcine isolate Enterococcus faecalis D32. J Bacteriol. vol. 194

BACs, Viruses & Plasmids: Karczmarczyk M et al. Complete nucleotide sequence of pVQS1 containing a quinolone resistance determinant from Salmonella enterica serovar Virchow associated with foreign travel. J Antimicrob Chemother

Bacterial & Fungal Genomes: Hauser H, Richter DC et al. Comparative genomic analyses of the Taylorellae. Vet Microbiol. Apr 6

BACs, Viruses & Plasmids: Volozhantsev NV et al. Molecular Characterization of Podoviral Bacteriophages Virulent for Clostridium perfringens and Their Comparison with Members of the Picovirinae. PLoS ONE 7(5)

Bacterial & Fungal Genomes: Morohoshi T et al. Complete genome sequence and characterization of the N-acylhomoserine lactone-degrading gene of the potato leaf-associated Solibacillus silvestris. J Biosci Bioeng. Jan;113(1):20-5



Bacterial & Fungal Genomes: Zhurina et al. Complete genome sequence of Bifidobacterium bifidum S17. J Bacteriol. 193 (1)

Bacterial & Fungal Genomes: Amlacher, S. et al. Insight into structure and assembly of the nuclear pore complex by utilizing the genome of a eukaryotic thermophile. Cell 146, July 2011, p 277-289

Bacterial & Fungal Genomes: Morohoshi, T. et al. Genome sequence of Microbacterium testaceum StLB037, an N-Acylhomoserine Lactone-Degrading Bacterium Isolated from Potato Leaves. Journal of bacteriology, p. 2072–2073

Bacterial & Fungal Genomes: Schoen, C.,Weber-Lehmann, J., Strittmatter, A., et al. Whole-genome sequence of the transformableNeisseria meningitidisserogroup A strain WUE2594. Journal of Bacteriology (JB), 27-01-2011

Bacterial & Fungal Genomes & gap closing services: Rechnitzer, H., Strittmatter, A. et al. Genomic features and insights into the biology of Mycoplasma fermentans. Microbiology, 157, 760–773



Bacterial & Fungal Genomes: Nowrousian, M. et al. De novo Assembly of a 40 Mb eukaryotic genome from short sequence reads: Sordaria macrospora, a model organism for fungal morphogenesis. PLoS Genetics, April 2010, Volume 6, Issue 4



Bacterial & Fungal Genomes: De Schutter K., Glinka, S., Weber-Lehmann, J. et al. Genome Sequence of the recombinant protein production hostPichia pastoris. Nature Biotechnology (2009) 27(6), 561-566

BACs, Viruses & Plasmids: Steuernagel B. et al. De novo 454 sequencing of barcoded BAC pools for comprehensive gene survey and genome analysis in the complex genome of barley. BMC Genomics 2009, 10:547