GenoScreen services

Free purification

Deliverables

.seq / .ab1

Monthly activity report (including remaining credits)

One-Shot Plus

Deliverables

One-Shot
+

Semi-automated review of sequences and corrections with IUPAC annotations

Optimized

Deliverables

One-Shot Plus
+

Manual IUPAC annotations

Reprocessing with optimised protocol (on request)

One-Shot

Purification gratuite

Livrables

.seq / .ab1

Rapport mensuel d'activité (incluant les crédits restants)

One-Shot Plus

Livrables

One-Shot
+

Relecture des séquences et corrections avec annotations IUPAC semi-automatisée

Optimized

Livrables

One-Shot Plus
+

Annotations IUPAC manuelle

Rapport QC (Quality control) relecture manuelle et commentée de chaque séquence avec score qualité

Retraitement avec protocole optimisé (sur demande)

All our offers are open to different sample formats:

tubes
strips
plates, complete or not

Our One-Shot Plus and Optimized offers include additional information:

Signal optimisation
Reduction of any backgroun noise
Assignment of indeterminate bases
A specific protocol for mutation detection

Additional analyses

GenoScreen offers a range of services to complement sequencing:

Slide 1

Purification from pre-cut agarose strips

Custom primer orders

Primer
walking

discover

Mutation
detection

discover

phylogenetic tree editing

Custom analysis

assembly of
forward
and
reverse
readings

generation
of
consensus
sequences
(F/R assembly)

Purification à partir de bandes prédécoupées d'agarose

Commande d’amorces à façon

Primer walking

découvrir

Détection de mutation

découvrir

édition d'arbre phylogénétique

analyse à façon

assemblage
de
lectures forward
reverse

génération
de
séquences
consensus (assemblage F/R)

Economic range

All the quality and responsiveness of GenoScreen at a low price!

Using your own PCR product + primer mix or even the sequencing reaction you have produced, we can take your samples to a more advanced stage for an optimised price.

Pricing

Mix & Run

DNA mix and primers produced on your own (in plates)

Sequencing reaction, purification and migration on capillary sequencer

Run Only

Sequencing reactions carried out on your own (in plates)

Purification and migration on capillary sequencer

Mix & Run

Mélange ADN et primers réalisés par vos soins (en plaque)

Réaction de séquençage, purification et migration sur séquenceur capillaire

Run Only

Réactions de séquençage réalisées par vos soins (en plaque)

Purification et migration sur séquenceur capillaire

GenoScreen advantages

Flexible sequencing offer that adapts to your needs
Personalised monitoring of your projects
Simple ordering system
Monthly invoicing or prepaid account
Free transport of your samples by a GenoScreen-approved operator
Optimised protection of samples in Genobox

Metagenomics: powerful analyses of microbial communities

Molecular metagenomics is used to analyze a community of organisms as a whole; as such, it provides an exhaustive assessment of a complex ecological niche. It is a powerful, innovative approach for characterizing the genes and thus the biological functions in a given microbiome.

In contrast to targeted (profiling) approaches that examine specific, short regions of ribosomal genes, metagenomics is based on the full sequencing of the DNA extracted from a sample (shotgun sequencing).

Metagenomics requires a huge sequencing coverage per sample. This is a limitation for studies of large cohorts, but it provides valuable additional information when profiling a representative subgroup.

Metagenomics has many advantages:

Removal of the bias associated with PCR approaches
Culture-free analysis and direct sequencing of microorganisms
The functional description of a whole ecosystem

Applications

Metagenomics provides an exhaustive analysis of the taxonomic composition of a community of organisms. It provides precise information on the community’s diversity and specific genetic characteristics.

In credit to this direct genetic analysis of microbial communities, metagenomics can also be used to identify new enzymes (biocatalysts) for pharmaceutical, agricultural, industrial and environmental applications.

Metagenomics and human health

Metagenomics is a very well suited solution in diagnosis, evaluation of antibiotic resistance and virus detection, amongst other topics.

It delivers precised solutions in oncology, gastroenterology, dermatology, urology and pulmonology.

Metagenomics and the environment

In credit to its very detailed analysis of microbial communities present in the natural environment, metagenomics can be applied to the analysis of water quality, the development of biofuels and agrochemical products, soil remediation and the development of new practices in agriculture and animal husbandry.

GenoScreen - Services provided

GenoScreen’s standardized methods for metagenomic analysis are able to address all the different aspects of your project. By combining low-, medium- and/or high-coverage sequencing with library preparation (with or without a PCR step), we can offer the solution that best meets your needs.

GenoScreen guarantees the quality of its data produced and uses its exclusive WHORMSS^® software to generate a detailed set of results.

GenoScreen's assets

A dedicated team of expert scientists for each project.
Assistance with developing the experimental plan and the sequencing strategy.
Massive whole metagenome sequencing capacity.
Exclusive bioinformatics tools.
Cutting-edge scientific expertise for data exploitation (specially in the field of microbiology).

Targeted sequencing - An in-depth analysis of regions of interest

Targeted sequencing allows specific analysis of targeted genes (or gene regions) on many samples in parallel. With NGS sequencing on MiSeq^®, NextSeq500^® or Hiseq^®platforms, multiple genes can be evaluated with a smaller data volume, which is easier to manage and analyse than WGS datas.

Applications

Sequencing or targeted resequencing can achieve very specific objectives:

Screening of genomic regions of interest.
Complete coverage of coding regions, with a limited volume of genomic data.
Analysis of microbial genes.

GenoScreen - Services provided

Amplicon sequencing

A number of the target regions are amplified by PCR, using the initially defined specific primers. The amplicons obtained are then sequenced by NGS, following the addition of sequencing adaptors. Multiplexing approaches enable us to sequence several amplicons from different samples in parallel.

The Metabiote^® solution

Metabiote^® is a dedicated, innovative, optimized, standardized solution developed by GenoScreen. It integrates targeted metagenomic analysis of microbial communities.

A library preparation methodology that limits between-sample bias.
A diverse range of targets:
• bacterial targets: 16S rDNA
• fungal targets: 18S, ITS1 and/or ITS2 rDNA
A bioinformatics pipeline that has been optimized and automated for high-precision analyses, easy comparisons and statistical analyses, and a high degree of responsiveness.

More informations

Exome sequencing

This type of sequencing is essentially used to:

Screen for mutations in genes involved in regulatory pathways
Screen for mutations (SNPs, indels, etc.) associated with a particular disease (cancer, coagulopathies, etc.).

We use the NimbleGen SeqCap EZ protocol (Roche) for exome sequencing.

Personalized sequencing

After custom probe design, your regions of interest are enriched prior to sequencing which simplifies the subsequent data analysis. This protocol can be set up for any organism with an available reference genome.

GenoScreen's assets

A dedicated team of scientists for each project.
Comprehensive support with the elaboration of an experimental plan and project implementation.
Assistance with data handling and interpretation of the results.

Ready-to-load services - Plugged into our sequencing platform

For a cost effective and responsive offer, GenoScreen proposes "Ready to Load" sequencing services for a wide range of libraries: a real research accelerator giving the opportunity to perform on last generation technical platform with advanced expertise.

Applications

"Ready-to-load" applications are available for mainly all of GenoScreen’s sequencing services:

De novo sequencing or re-sequencing.
RNA-Seq.
Targeted sequencing.
Metagenomics.

GenoScreen - Services provided

"Ready-to-load" sequencing is performed on latest-generation technical facilities: Illumina HiSeq^®2500, MiSeq^®, NextSeq^®500 and HiSeq^®4000 systems in paired-end or single-end runs of 50 to 250 bp.

GenoScreen performs quality control on the libraries with bioAnalyzer and fluorimetric assays. GenoScreen can also ensure the pooling of the sequencing libraries, if required.

We accept different types of librairies:

TruSeq.
Nextera(-XT).
Amplicons.
RADseq or ddRADseq with index and Illumina adaptors.

For the other types of librairies, please contact us.

The results

Raw sequences (FastQ files) and quality control results after demultiplexing.
Quality reports, including the number of reads obtained, the number of reads after application of quality filters, and the coverage obtained.
The results are transferred to a secure FTP server or an external hard disk.

GenoScreen's assets

Cutting-edge technical facilities.
A top-of-the-range service at a keen price.
Responsiveness.

Transcriptomics - Analyzing gene expression

High-throughput sequencing of the transcriptome (RNA-Seq) has revolutionized the quantitative and qualitative analysis of prokaryotic and eukaryotic organisms.

RNA-Seq significatively enables differential expression analyses:

Measurement of the relative abundance of transcripts.
Identification of the genes expressed differentially in various groups (tissues, treatments, etc.)

Applications

Transcriptome sequencing provides a complete, objective analysis of messenger RNAs:

Differential expression: assessment of variations in the expression of several transcriptomes.
Annotation of a transcriptome against a reference database.
Identification of all specific sequences of the studied transcriptome.
SNP analysis.

GenoScreen - Services provided

Two methods are used to enrich the RNA fraction of interest (mRNA) prior to cDNA synthesis and library preparation:

Poly(A) capture (for eukaryotic total RNA).
RNA depletion (via capture with complementary probes) and mRNA enrichment (for prokaryotic or eukaryotic total RNA).

Most of our RNA-Seq libraries are sequenced on Illumina® HiSeq®4000 systems.

GenoScreen's assets

A dedicated team of scientists for each project.
Assistance with elaborating the experimental plan and sequencing strategy.
RNA extraction, quantification, purification, and quality control.
Assistance with data management and interpretation of the results.
Analysis of differential expression in the absence of a reference genome.

Whole-genome sequencing - A high-precision method for characterizing the genome

The latest sequencing technologies make it possible to analyze the full primary structure of an isolated organism’s genome, regardless of, whether the latter is a eukaryote, a prokaryote or a virus.
An analysis of whole-genome sequencing data provides a precised description of any type of organism and thus addresses a very broad range of research questions.

Applications

Whole-genome sequencing addresses important research questions in many sectors (healthcare, nutrition, agrifood, environment, etc.):

Description of an organism’s genes and how they are organized.
Quantification of diagnostic or phenotypic biomarkers.
Screening for susceptibility/adaptability/resistance genes.

GenoScreen - Services provided

As specialists in whole-genome sequencing (WGS), our expert teams are able to build you a custom solution.

Our precise, fast solutions combine NGS and Sanger techniques and are implemented in cutting-edge technical facilities.

Our bioinformatics solutions can, then deliver in-depth processing and analysis of your WGS data (assembly, annotation, etc.).

Genome structure and mapping of isolated organisms.
Comparative genomics: identification of SNPs, indels and/or major structural rearrangements.
Multilocus sequence typing (MLST).

GenoScreen's assets

We understand your needs and provide personalized support.
Exclusive bioinformatics analyses.
Significant expertise in sequencing microorganisms (bacteria, fungi, yeasts, algae, etc.).
Fast solution.

MLST/MLVA, microbial typing/tracing solutions

GenoScreen proposes you the opportunity to characterize more accurately your microorganisms (subspecies or strain characterization) using standardized and validated molecular biology methods such as MLST or MLVA (including MIRU-VNTR).

MultiLocus Sequencing Typing (MLST)

Pricing

The MLST (MultiLocus Sequencing Typing) sequencing typing is the reference technique for the distinction of different strains. This method is based on the house-keeping genes sequencing (house-keeping genes are encoding essential proteins of the bacterium).

These sequences have the particularity of presenting a stable polymorphism over time and sufficient enough to distinguish strains from each other.

This approach allows the characterization of a microorganism whose genus (or species) is known in order to identity the species(or subspecies) and this thanks to the sequencing of 7 house-keeping genes.

The MLST by GenoScreen

GenoScreen's MLST service offer is a complete package of services realized from extracted DNA or thermolysate. This includes the PCRs realization, the sequencing on a capillary sequencer, the sequences analysis and the strain assignment..


Règne / Kingdom	Classe / Class	Ordre / Order	Espèce / Species
Animalia	Myxozoa	Multivalvulida	Kudoa septempunctata
Animalia	Rhabditophora	Plagiorchiida	Clonorchis sinensis
Bacteria	Actinobacteria	Actinomycetales	Corynebacterium diphtheriae
Bacteria	Actinobacteria	Actinomycetales	Cutibacterium acnes
Bacteria	Actinobacteria	Actinomycetales	Mycobacterium abscessus complex
Bacteria	Actinobacteria	Actinomycetales	Mycobacterium spp.
Bacteria	Actinobacteria	Actinomycetales	Rhodococcus equi
Bacteria	Actinobacteria	Actinomycetales	Streptomyces spp.
Bacteria	Alpha Proteobacteria	Rhizobiales	Bartonella bacilliformis
Bacteria	Alpha Proteobacteria	Rhizobiales	Bartonella henselae
Bacteria	Alpha Proteobacteria	Rhizobiales	Bartonella washoensis
Bacteria	Alpha Proteobacteria	Rhizobiales	Brucella spp.
Bacteria	Alpha Proteobacteria	Rhizobiales	Candidatus Liberibacter solanacearum
Bacteria	Alpha Proteobacteria	Rhizobiales	Sinorhizobium spp.
Bacteria	Alpha Proteobacteria	Rickettsiales	Anaplasma phagocytophilum
Bacteria	Alpha Proteobacteria	Rickettsiales	Orientia tsutsugamushi
Bacteria	Alpha Proteobacteria	Rickettsiales	Wolbachia spp.
Bacteria	Bacilli	Bacillales	Bacillus cereus
Bacteria	Bacilli	Bacillales	Bacillus licheniformis
Bacteria	Bacilli	Bacillales	Bacillus subtilis
Bacteria	Bacilli	Bacillales	Macrococcus canis
Bacteria	Bacilli	Bacillales	Macrococcus caseolyticus
Bacteria	Bacilli	Bacillales	Paenibacillus larvae
Bacteria	Bacilli	Bacillales	Staphylococcus aureus
Bacteria	Bacilli	Bacillales	Staphylococcus epidermidis
Bacteria	Bacilli	Bacillales	Staphylococcus haemolyticus
Bacteria	Bacilli	Bacillales	Staphylococcus hominis
Bacteria	Bacilli	Bacillales	Staphylococcus pseudintermedius
Bacteria	Bacilli	Lactobacillales	Carnobacterium maltaromaticum
Bacteria	Bacilli	Lactobacillales	Enterococcus faecalis
Bacteria	Bacilli	Lactobacillales	Enterococcus faecium
Bacteria	Bacilli	Lactobacillales	Lactobacillus salivarius
Bacteria	Bacilli	Lactobacillales	Melissococcus plutonius
Bacteria	Bacilli	Lactobacillales	Pediococcus pentosaceus
Bacteria	Bacilli	Lactobacillales	Streptococcus agalactiae
Bacteria	Bacilli	Lactobacillales	Streptococcus anginosus
Bacteria	Bacilli	Lactobacillales	Streptococcus bovis complex
Bacteria	Bacilli	Lactobacillales	Streptococcus canis
Bacteria	Bacilli	Lactobacillales	Streptococcus dysgalactiae
Bacteria	Bacilli	Lactobacillales	Streptococcus equinus complex
Bacteria	Bacilli	Lactobacillales	Streptococcus faecalis
Bacteria	Bacilli	Lactobacillales	Streptococcus gallolyticus
Bacteria	Bacilli	Lactobacillales	Streptococcus gordonii
Bacteria	Bacilli	Lactobacillales	Streptococcus mitis
Bacteria	Bacilli	Lactobacillales	Streptococcus mutans
Bacteria	Bacilli	Lactobacillales	Streptococcus oralis
Bacteria	Bacilli	Lactobacillales	Streptococcus pneumoniae
Bacteria	Bacilli	Lactobacillales	Streptococcus pyogenes
Bacteria	Bacilli	Lactobacillales	Streptococcus salivarius
Bacteria	Bacilli	Lactobacillales	Streptococcus suis
Bacteria	Bacilli	Lactobacillales	Streptococcus thermophilus
Bacteria	Bacilli	Lactobacillales	Streptococcus uberis
Bacteria	Bacilli	Lactobacillales	Streptococcus viridans
Bacteria	Bacilli	Lactobacillales	Streptococcus zooepidemicus
Bacteria	Bacteroidetes	Porphyromonadaceae	Porphyromonas gingivalis
Bacteria	Beta Proteobacteria	Burkholderiales	Achromobacter
Bacteria	Beta Proteobacteria	Burkholderiales	Bordetella spp.
Bacteria	Beta Proteobacteria	Burkholderiales	Burkholderia cepacia complex
Bacteria	Beta Proteobacteria	Burkholderiales	Burkholderia pseudomallei
Bacteria	Beta Proteobacteria	Burkholderiales	Taylorella spp.
Bacteria	Beta Proteobacteria	Neisseriales	Neisseria spp.
Bacteria	Chlamydiae	Chlamydiales	Chlamydiales spp.
Bacteria	Clostridia	Clostridiales	Clostridioides difficile
Bacteria	Clostridia	Clostridiales	Clostridium botulinum
Bacteria	Clostridia	Clostridiales	Clostridium septicum
Bacteria	Epsilon Proteobacteria	Campylobacterales	Arcobacter spp.
Bacteria	Epsilon Proteobacteria	Campylobacterales	Campylobacter spp.
Bacteria	Epsilon Proteobacteria	Campylobacterales	Helicobacter cinaedi
Bacteria	Epsilon Proteobacteria	Campylobacterales	Helicobacter pylori
Bacteria	Epsilon Proteobacteria	Campylobacterales	Helicobacter suis
Bacteria	Flavobacteria	Flavobacteriales	Flavobacterium psychrophilum
Bacteria	Flavobacteria	Flavobacteriales	Ornithobacterium rhinotracheale
Bacteria	Flavobacteria	Flavobacteriales	Riemerella anatipestifer
Bacteria	Flavobacteria	Flavobacteriales	Tenacibaculum spp.
Bacteria	Gamma Proteobacteria	Aeromonadales	Aeromonas spp.
Bacteria	Gamma Proteobacteria	Cardiobacteriales	Dichelobacter nodosus
Bacteria	Gamma Proteobacteria	Enterobacteriales	Citrobacter freundii
Bacteria	Gamma Proteobacteria	Enterobacteriales	Cronobacter spp.
Bacteria	Gamma Proteobacteria	Enterobacteriales	Edwardsiella spp.
Bacteria	Gamma Proteobacteria	Enterobacteriales	Enterobacter cloacae
Bacteria	Gamma Proteobacteria	Enterobacteriales	Escherichia spp.
Bacteria	Gamma Proteobacteria	Enterobacteriales	Klebsiella aerogenes
Bacteria	Gamma Proteobacteria	Enterobacteriales	klebsiella michiganensis
Bacteria	Gamma Proteobacteria	Enterobacteriales	Klebsiella oxytoca
Bacteria	Gamma Proteobacteria	Enterobacteriales	Salmonella spp.
Bacteria	Gamma Proteobacteria	Enterobacteriales	Yersinia pseudotuberculosis
Bacteria	Gamma Proteobacteria	Enterobacteriales	Yersinia ruckeri
Bacteria	Gamma Proteobacteria	Enterobacteriales	Yersinia spp.
Bacteria	Gamma Proteobacteria	Pasteurellales	Gallibacterium anatis
Bacteria	Gamma Proteobacteria	Pasteurellales	Haemophilus influenzae
Bacteria	Gamma Proteobacteria	Pasteurellales	Haemophilus parasuis
Bacteria	Gamma Proteobacteria	Pasteurellales	Mannheimia haemolytica
Bacteria	Gamma Proteobacteria	Pasteurellales	Pasteurella multocida
Bacteria	Gamma Proteobacteria	Pseudomonadales	Acinetobacter baumannii
Bacteria	Gamma Proteobacteria	Pseudomonadales	Moraxella catarrhalis
Bacteria	Gamma Proteobacteria	Pseudomonadales	Pseudomonas aeruginosa
Bacteria	Gamma Proteobacteria	Pseudomonadales	Pseudomonas fluorescens
Bacteria	Gamma Proteobacteria	Pseudomonadales	Pseudomonas putida
Bacteria	Gamma Proteobacteria	Thiotrichales	Piscirickettsia salmonis
Bacteria	Gamma Proteobacteria	Vibrionales	Photobacterium damselae
Bacteria	Gamma Proteobacteria	Vibrionales	Vibrio cholerae
Bacteria	Gamma Proteobacteria	Vibrionales	Vibrio parahaemolyticus
Bacteria	Gamma Proteobacteria	Vibrionales	Vibrio spp.
Bacteria	Gamma Proteobacteria	Vibrionales	Vibrio tapetis
Bacteria	Gamma Proteobacteria	Vibrionales	Vibrio vulnificus
Bacteria	Gamma Proteobacteria	Xanthomonadales	Stenotrophomonas maltophilia
Bacteria	Gamma Proteobacteria	Xanthomonadales	Xylella fastidiosa
Bacteria	Mollicutes	Mycoplasmatales	Mycoplasma agalactiae
Bacteria	Mollicutes	Mycoplasmatales	Mycoplasma bovis
Bacteria	Mollicutes	Mycoplasmatales	Mycoplasma flocculare
Bacteria	Mollicutes	Mycoplasmatales	Mycoplasma hominis
Bacteria	Mollicutes	Mycoplasmatales	Mycoplasma hyopneumoniae
Bacteria	Mollicutes	Mycoplasmatales	Mycoplasma hyorhinis
Bacteria	Mollicutes	Mycoplasmatales	Mycoplasma iowae
Bacteria	Mollicutes	Mycoplasmatales	Mycoplasma pneumoniae
Bacteria	Mollicutes	Mycoplasmatales	Mycoplasma synoviae
Bacteria	Mollicutes	Mycoplasmatales	Ureaplasma spp.
Bacteria	Spirochaetes	Brachyspirales	Brachyspira spp.
Bacteria	Spirochaetes	Leptospirales	Leptospira spp.
Bacteria	Spirochaetes	Spirochaetales	Borrelia spp.
Bacteria	Spirochaetes	Spirochaetales	Treponema pallidum subsp. pallidum
Chromista	Oomycota	Saprolegniales	Saprolegnia parasitica
Excavata	Parabasalia	Trichomonadida	Trichomonas vaginalis
Fungi	Blastocystae	Blastocystida	Blastocystis sp.
Fungi	Eurotiomycetes	Eurotiales	Aspergillus fumigatus
Fungi	Saccharomycetes	Saccharomycetales	Candida albicans
Fungi	Saccharomycetes	Saccharomycetales	Candida glabrata
Fungi	Saccharomycetes	Saccharomycetales	Candida krusei
Fungi	Saccharomycetes	Saccharomycetales	Candida tropicalis

Multiple Loci VNTR Analysis (MLVA)

Pricing

The MLVA (Multiple Loci VNTR Analysis) is a genetic analysis method of VNTR (variable number of tandem repeats) pattern polymorphism based on their count. During a first step, each targeted VNTR locus is amplified by PCR with flanking-region specific primers. The fragments obtained are then separated according to their size by electrophoresis on capillary sequencer. The genotyping of each locus and the results compiled from each sample allow to assign to the strain a specific numerical code for a subspecies.

The MLVA approach allows to characterize a microorganism whose species is known, to identify, at least, the subspecies through allele typing and comparison to the MLVA databases. This method is more selective than the MLST method and does not require a DNA sequencing step. It thus makes it possible to differentiate close subspecies (clonal species).