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  • Baseclear - Microbial typing
    Diagnostics laboratories Agro Sciences Academic Research institutes About BaseClear Our company Meet our team History Partners Distributors Why BaseClear Reasons to work with BaseClear Research development Quality assurance Technologies Information News Ordering Career Jobs Internships Contact Contact details Contact form Request quotation Order forms Blog Home Our services Lab Products Industries About BaseClear Blog Next Gen sequencing Bioinformatics Sanger sequencing Microbiology Bacterial and fungal identifications Microbial typing Microbial diversity analysis Microbial genome sequencing Virus sequencing Mycoplasma detection Synthetic Biology MICROBIAL TYPING Identification of an unknown species that you may have encountered can help to assess whether it poses a safety or spoilage concern The identification of microorganisms causing spoilage is of major importance but sometimes you need to know more including where a contaminant came from Many organisms occupy a diverse range of habitats The only way of knowing the origins of a particular contaminant is to characterize it to a specific strain and then match that with a strain elsewhere in the environment For this BaseClear offers microbial characterization typing services using for instance REP PCR or Multilocus sequencing typing MLST BaseClear is experienced and specialized in molecular microbiology Our microbiology department is a well equipped facility with a complete range of reliable and validated test systems for identification and typing of bacteria and fungi We can offer same day results so that you can get results as fast as possible BaseClear services and solutions can help you prevent for instance long time manufactory shutdown or product recalls Meet Richard de Winter Richard is director of the Sanger sequencing and microbiology department In addition he is site manager of ProBase Pharma the joint venture of BaseClear and MicroSafe for GMP accredited rapid molecular testing Testimonial UMC Utrecht For some bacteria we lack the biochemical tests that would allow us

    Original URL path: http://www.baseclear.com/microbiology/microbial-typing (2016-02-12)
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  • Baseclear - Microbial diversity analysis
    a wide range of possibilities for microbial identification and diversity studies BaseClear offers complete solutions to extract DNA from your samples and the means to determine the composition of bacteria and also for Archaea and fungi in a broad range of sample including water faeces and bioreactor specimens The technical approach for this kind of studies is usually based on PCR amplification followed by sequencing of housekeeping or functional genes for instance 16S 18S 23S or ITS The generated data is then compared to microbial sequencing databases Data analysis is performed by our in house developed tool the BaseClear metaGenome Browser BmGB Advantages of microbial diversity analysis also referred to as microbial profiling 16S profiling or 16S metagenomics studies based on Next Generation sequencing compared to classical methods include Identify thousands of microorganisms in one analysis Identification of non cultivable microorganisms Determine the relative abundance of microorganisms Extremely fast for screening of complex ecosystems Better understanding and control of the microbial flora Microbial diversity analysis using Next Gen sequencing can be applied in a wide variety of studies For instance in food processing probiotics water safety testing microbiome analysis biofilms fermentation soil research e g Rhizobia and environmental samples WHY CHOOSE OUR MICROBIAL DIVERSITY ANALYSIS SERVICE BaseClear is specialized in microbial diversity studies for environmental e g food water and soil and microbiota samples We offer complete solutions based on 16S for bacteria and or ITS for fungi amplicon analysis for taxonomic classification and determine relative frequencies Our managers are happy to discuss the ideal workflow that best fits your needs and budget Our main drive is to make sure that your research questions are answered Our advantages include BaseClear has a strong focus on microbial genomics Many years of experience with microbial profiling projects with samples coming from a

    Original URL path: http://www.baseclear.com/microbiology/next-gen-technologies/microbial-diversity-analysis (2016-02-12)
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  • Baseclear - Microbial genome sequencing
    will receive your genome in only a couple of scaffolds We can also offer draft genome sequencing which is a very cost effective approach for sequencing your genome with only the Illumina system With the use of paired end strategy you will receive usually 95 of the whole genome This service is useful for gene finding re sequencing variant detection and genome comparisons With our annotation service you can search easily for specific genes enzymes and proteins in your genomes ADDED VALUE OF BASECLEAR Our product specialists can advise you both during the project planning stage and during implementation of the project regarding sample preparation and the best technical approach to use After sequencing our bioinformatics specialist can assist you with the analysis and interpretation of the sequence data Although we have completed many projects involving human animal or plant genomes we have a strong focus on microbial genomes genome sizes ranging up to 50 Mbp We have sequenced and assembled significant numbers of bacteria including E coli Bacillus Lactobacillus Lactococcus Actinomycetes Neisseria fungi such as S cerevisiae Aspergillus Tricoderma and viruses Influenza Adenovirus etc With our many years of experience highly qualified specialists and state of the art technologies we can assist you with even the most challenging genome sequencing projects ADVANCED PIPELINE FOR HIGH THROUGHPUT PROJECTS We have developed a high throughput bacterial sequencing platform which is capable of sequencing literally hundreds of genomes per week This platform is a combination of in house developed library preparation solutions robotics genome sequencing and several automated bioinformatic pipelines We can tailor this pipeline to your research question and think with you to minimize the cost of sequencing while maximising the output in terms Additional options like an annotation of the whole strain collection and view the genomes in a browser

    Original URL path: http://www.baseclear.com/microbiology/next-gen-technologies/microbial-genome-sequencing (2016-02-12)
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  • Baseclear - Virus sequencing
    Sample kits Epigenetic services Bio Basic Gene Synthesis Protein expression and purification Peptide synthesis Custom antibody service Kisker Biotech Lab disposables Lab equipment Microparticles Industries Industrial Biotechnology Food Ingredients Pharma Health Water Environment Clinical Diagnostics laboratories Agro Sciences Academic Research institutes About BaseClear Our company Meet our team History Partners Distributors Why BaseClear Reasons to work with BaseClear Research development Quality assurance Technologies Information News Ordering Career Jobs Internships Contact Contact details Contact form Request quotation Order forms Blog Home Our services Lab Products Industries About BaseClear Blog Next Gen sequencing Bioinformatics Sanger sequencing Microbiology Bacterial and fungal identifications Microbial typing Microbial diversity analysis Microbial genome sequencing Virus sequencing Mycoplasma detection Synthetic Biology VIRUS SEQUENCING SERVICE BaseClear has considerable experience with the sequencing of both RNA and DNA viral genomes e g influenza virus adenovirus etc Please contact us to discuss your virus sequencing project BaseClear s Virus sequencing service Simply provide us with the reference sequence and the viral material and leave the work to BaseClear please discuss terms of delivery of the viral material with one of our specialists We have experience with many different viruses Viral RNA or DNA isolation optional for many viruses please contact our

    Original URL path: http://www.baseclear.com/microbiology/virus-sequencing (2016-02-12)
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  • Baseclear - Mycoplasma detection
    for Mycoplasma infection is an essential requirement for reaching quality control standards for laboratories concerned with research production and maintenance of cell lines Since Mycoplasma contamination is a recurring problem that can cause non reproducible results in research and productivity losses in industry BaseClear recommends routine diagnostic testing of cell cultures on a monthly basis as well as prior to cell banking and cryopreservation VALIDATED PCR TEST BaseClear uses a validated PCR test for rapid and reliable detection of Mycoplasma contamination in various in situ biologicals including cell cultures and virus stocks The test is based on specific amplification of conserved regions in the 16S ribosomal RNA genes of the Mycoplasma genome This allows for detection of most of the Mycoplasma Acholeplasma and Ureaplasma species tested so far Using this highly sensitive test we can detect as little as 2 50 Mycoplasma particles of more than 25 different Mycoplasma species including M fermentans M pirum M hominis M argininii M pneumoniae Acholeplasma laidlawii and others You submit To maximize test sensitivity cell lines should be cultured in the absence of antibiotics for 3 days without refreshment of culture media If cells are cultured for a longer period inhibiting substances may accumulate in the medium Collect 1 ml of cell free culture supernatant preferably in screw cap tubes To maximise test sensitivity supernatants should be collected from 90 100 confluent cell cultures Sample tubes should be wrapped in absorbing material and enclosed in a watertight container e g a 50 ml tube to prevent leaking during transport The minimum number of samples per order is 5 You receive A full report of the Mycoplasma tests on your samples via e mail and regular mail including a table summarizing our interpretation of the test results OPTIONAL MYCOPLASMA IDENTIFICATION Positive Mycoplasma samples can

    Original URL path: http://www.baseclear.com/microbiology/mycoplasma-detection (2016-02-12)
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  • Baseclear - Synthetic Biology
    with BaseClear Research development Quality assurance Technologies Information News Ordering Career Jobs Internships Contact Contact details Contact form Request quotation Order forms Blog Home Our services Lab Products Industries About BaseClear Blog Next Gen sequencing Bioinformatics Sanger sequencing Microbiology Synthetic Biology Synthetic DNA libraries Gene synthesis Custom cloning PCR cloning Mutagenesis SYNTHETIC BIOLOGY SERVICES BaseClear offers a broad range of services in synthetic biology We can efficiently synthesize DNA molecules ranging from single genes up to DNA segments of 10 kb and over In addition to this we have considerable experience with performing the most challenging cloning projects and can deliver these with fast delivery times These services have the potential to greatly improve the speed and efficiency of your research allowing you to focus more on the essential aspects of your research while outsourcing construct creation to us Meet Danny Duijsings Danny is our R D director and manages the synthetic biology department Danny has a background in molecular virology and holds a Ph D from Wageningen University He has years of experience in the field of molecular biology in both the academic world as well as the biotech industry Testimonial DuPont R D We outsource many molecular biological

    Original URL path: http://www.baseclear.com/synthetic-biology (2016-02-12)
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  • Synthetic DNA libraries
    DNA LIBRARIES BaseClear can construct high quality synthetic DNA libraries in order to optimise even the most complicated genes Synthetic DNA libraries can be used as an in vitro molecular evolution strategy This is the most efficient method for creating proteins and regulatory sequences with improved or novel properties A library might help for example to Increase or adjust promoter strength or specificity Enhance or modulate protein stability Modify or combine enzyme properties Increase binding affinities of receptors ligands and antibodies Optimise or alter signal peptide efficiencies Destroy protein function whilst retaining immunogenicity Combine and select natural polymorphisms Increase protein half life Adjust thermal stability Optimal results for complicated libraries BaseClear is able to synthesise large libraries with the highest degree of accuracy in the non random constant part of the genes of interest and an equal distribution of nucleotides in the randomised parts BaseClear has extensive experience with a wide variety of libraries including very complicated ones We are even able to construct libraries of large genes or large constructs 2 3 kb due to several in house specialist technologies SEVERAL OPTIONS Site Mutated Libraries One or more specified mutations at a specific location Site Saturated libraries One location mutated in all possible variants C ombinatorial Libraries Several locations mutated in one or more or all possible variants AUTOMATIC COLONY PICKING We have fully automated systems for the isolation and quantification of DNA from various sources After cloning and transformation into E coli the colonies can be picked up by our automatic colony picking equipment and transferred into microtiter plates This allows for fast automatic screening of the libraries In combination with our in house equipment for sequencing and gene synthesis this results in short time lines and high quality libraries Meet Danny Duijsings Danny is our R D

    Original URL path: http://www.baseclear.com/synthetic-biology/DNA-libraries (2016-02-12)
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  • Gene synthesis - BaseClear
    Basic services within The Netherlands Belgium Italy and Scandinavia Denmark Finland Norway Iceland Sweden GUARANTEED LOWEST PRICE As many budgets have been cut down Bio Basic has decided to guarantee to beat any of their competitors pricing on gene synthesis by 10 The genes they deliver are fully cloned and 100 sequence verified Codon optimization is included in the standard prices Genes are cloned into standard pUC57 Amp Ampicillin treated or pUC57 kan Kanamycin treated vectors Should you require to clone the gene into a vector other than pUC57 or pBluescript there is an additional fee DELIVERABLES You will receive 2 4ug of lyophilized DNA containing synthetic gene of interest sequence chromatogram trace files gene report QC restriction digestion files an alignment file as well as vector information If you wish to receive up to 10ug of plasmid DNA we are pleased to provide it to you at no extra cost However an additional turn around time would be required Further discounts on large projects and long term contracts are also available Discount rates are based on total number of base pairs of your gene order Single stranded sequencing only Double stranded sequencing service is available upon request Terms Conditions apply check with your BaseClear account manager GUARANTEED COMMITMENT Bio Basic is approved for ISO9001 2000 Bio Basic offers a 100 correct DNA Sequencing guarantee each gene is confirmed base by base by sequence and is guaranteed to match 100 with your requested sequences Quick Turnaround Lowest price guaranteed Absolute confidentiality guarantee Lowest price guaranteed Bio Basic will match any competitor s advertised price for identical products or services offered in the Bio Basic Canada Inc catalogues and on www biobasic com within 30 days Bio Basic reserves the right to verify that the competitor is an authorized company located

    Original URL path: http://www.baseclear.com/synthetic-biology/gene-synthesis (2016-02-12)
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