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Sample Preparation

How to Prepare Sequencing Samples

Valid for the European Eurofins MWG Operon sequencing facility.

Sample Preparation for Value Read Service in Tubes or Plates

  • The Value Read process is optimised for stab or glycerol cultures with the selected E.coli clones, purified plasmid DNA and unpurified or purified PCR products
  • Use 1.5 ml tubes or 96well microtiter plates for your samples and primers. Please note that we require one tube per sequencing reaction
  • For samples in tubes we ask to dissolve the DNA either in doubled distilled water or in 5 mM Tris-HCl (pH 8.0 – 9.0) in a total volume of 15 µl without using parafilm
  • Plates may contain a mixture of plasmids and PCR products as long as no purification is needed
  • For optimal results the concentration/amount should be normalised across the plate
  • Primers may be arrayed in a separate primer plate according to the sample layout
  • Plate position H12 should be kept free for internal quality control (optional)

Concentrations:

  • Purified plasmid DNA:
    50-100 ng/µl in a total volume of 15 µl
  • Purified PCR products:
    < 300 bp:            2 ng/µl in a total volume of 15 µl
    300-1000bp:      5 ng/µl in a total volume of 15 µl
    > 1000 bp:        10 ng/µl in a total volume of 15 µl
    The amount has to be doubled for unpurified products
  • Primer Concentration
    2 pmol/µl, minimum volume: 15 µl (corresponds to an amount of 30 pmol)

Premixed Samples in Tubes or Plates:

  • Purified plasmid DNA:
    50-100 ng/µl in a minimum volume of 15 µl incl. 15pmol primer
  • Purified PCR products:
    < 300 bp:            2 ng/µl in a total of 15 µl incl. 15pmol primer
    300-1000bp:      5 ng/µl in a total volume of 15 µl incl. 15pmol primer
    > 1000 bp:        10 ng/µl in a total volume of 15 µl incl. 15pmol primer

Sample Preparation for Ready to Load Sequencing Service in Tubes or Plates

  • Use 1.5 ml tubes or 96well microtiter plates
  • Use ABI Big Dye Terminator Kit (v3.1)
  • Big Dye volume per reaction should not exceed 1 µl
  • Total reaction volume of 10 to 20 µl
  • Shipment of samples on dry ice is strongly recommended.

Sample Preparation for Sequencing Service à la Carte

  • It is possible to send either a stab or glycerol culture with the selected E. coli clone, the purified DNA, your unpurified or purified PCR product or genomic DNA
  • Please use 1,5 ml tubes for your samples and primers
  • We recommend to dissolve the DNA either in double distilled water or in 5 mM Tris-HCl (pH 8.0 – 9.0) without using Parafilm

Concentrations:

  • Purified plasmid DNA:
    50-100 ng/µl, minimum 1 µg per reaction;
    Please send double amount for samples with hairpin- or secondary structures, high GC content or other difficult regions
  • BAC-, PAC-, Cosmid-, Fosmid-DNA:
    200-1000 ng/µl, minimum 4-6 µg per reaction
  • Purified PCR products:
    < 300 bp:            2 ng/µl in a minimum volume of 15 µl
    300-1000bp:      5 ng/µl in a minimum volume of 15 µl
    > 1000 bp:        10 ng/µl in a minimum volume of 15 µl
    The amount should be doubled for unpurified products
  • Genomic DNA
    5-50 ng/µl, minimum amount is 200 ng per reaction
  • Primer concentration
    2 pmol/µl, minimum volume per reaction is 10 µl (corresponds to an amount of 30 pmol)

Sample Preparation for Walking- and GLP-Complaint Sequencing Services

  • It is possible to send either a stab or glycerol culture with the selected E.coli clone, the purified plasmid DNA or your unpurified or purified PCR product
  • Please use 1,5 ml tubes for your samples
  • If available, please send a reference sequence in electronic form

Minimum concentration:

Plasmid DNA: 100 ng/µl
PCR products:  10 ng/µl


Minimum total amount:

  • Single Strand Sequencing:
    Plasmid DNA: 1 µg/1 kb insert
    PCR products:  100 ng/1 kb PCR product
  • Double Strand Sequencing:
    Plasmid DNA: 2 µg/1 kb insert
    PCR products:  200 ng/1 kb PCR product
  • 4fold Coverage Sequencing:
    Plasmid DNA: 4 µg/1 kb insert
    PCR products:  600 ng/1 kb PCR product