Microbial Strain-Typing
Order form
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ORDER (please use the sample sheet)
THE FOLLOWING OPTIONS ARE AVAILABLE, PLEASE INDICATE YOUR CHOICE ON THE SAMPLESHEET:

Typing of bacteria/ fungi:
BC-311: Strain Typing using rep-PCR, A DNA fingerprint will be generated using repetitive
element sequence-based (rep) PCR. The PCR-products are separated by a microfluidics-based
platform for sizing and a species (sometimes strain)-specific pattern is obtained. Isolates with
similar patterns (i.e. belonging to the same species) will cluster together. Delivery time of this
service is 5 days. This service can be used for all type of organisms.
BC-312: Strain Typing using MLST, Multilocus sequence typing (MLST) is an unambiguous
procedure for characterizing isolates of micro-organisme using the sequences of internal
fragments of (usually) seven house-keeping genes. For each of these housekeeping genes, the
different sequences are assigned as alleles and the alleles at the loci provide an allelic profile or
sequence type (ST). A series of profiles can then be the identification marker for strain typing.
Delivery time of this service is 5 days. This service can be used for a limited number of
organisms, please contact BaseClear for the complete list.
BC-307/BC-308/ BC-309: Microbial identification: DNA isolation, PCR, purification and
double stranded sequencing of the partial/ complete 16S (in case of bacteria) or ITS region (in
case of fungal samples). Identification results can be of additional value when strain typing is
requested
RESULTS
The results will be send by email and regular mail.
I accept the general terms and conditions of
BaseClear*
Name
: ______________________
Signature
: ______________________
Date
:__ / __/ ____
To be filled out by BaseClear:
Project Code
: __________________
Date of registration : _ _ / _ _ / _ _ _ _
*Our General Terms and Conditions apply to all projects BaseClear carries out and can be downloaded from our
website (www.baseclear.com/labservices/terms_conditions).
BaseClear B.V.
The Netherlands
Version: 3
F089-MICRO-05
P.O. Box 1336
2302 BH Leiden
Einsteinweg 5
2333 CC Leiden
T +31 71 523 3917
F +31 71 523 5594
W www.baseclear.com
E info@baseclear.com
Page 1 of 3
Microbial Strain-Typing
Order form
SAMPLES
We can only process live Class I, non-pathogenic micro-organism that are provided to us according to Dutch
regulations. In brief, this means that bacteria or fungi should be delivered on petri-dishes or on slants that are
sealed with parafilm. Sealed dishes/ slants should be wrapped in absorbing tissue, and enclosed in an
unbreakable and watertight cover. Please make sure that you clearly indicate the sample names on the petridishes. If you suspect the micro-organisms to be pathogenic please contact us beforehand so we can discuss
alternative means of transportation.
TERMS OF DELIVERY
Microbial typing using repetitive element sequence-based PCR (BC-311)
DNA-isolation, PCR, running the PCR products on a microfluidics-based platform and reporting will be performed
using BaseClear’s custom protocols.
A full report including the identification results of the samples and the typing groups will be mailed to the client
within 5 working days.
Microbial typing using Multilocus sequence typing (BC-312)
DNA-isolation, PCR, sequencing, data analyses, assigning allele numbers, combining them to get a sequence
type (ST) and reporting will be performed using BaseClear’s custom protocols.
A full report including the allele number and sequence type (ST) will be mailed to the client within 5 working
days.
Identification of bacterial samples using custom protocols (BC-308 and BC-309)
We offer two possibilities for identification of bacterial samples using our custom kits.
For a custom ID <700bp (BC-308) approximately 600 base pairs of the 16S rRNA gene will be amplified and
sequenced on both strands. A full report including the homology search in our internal or online database and
sequence data will be mailed to the client within 5 working days.
For a custom ID <1400bp (BC-309) approximately 1400 base pairs of the 16S rRNA gene will be amplified and
sequenced on both strands. A full report including the homology search in an online database and sequence
data will be mailed to the client within 5 working days.
The reported result is the most likely sample identification. However, the client has to make the final conclusion
to the identity of the sample.
Identification of fungal samples using custom protocols (BC-307)
Samples can be analysed by amplification and sequencing of the internal transcribed spacer (ITS) genes (BC307) using custom kits and protocols, and blasting in public databases. The consensus sequence length is about
700 bp long. A full report including the homology search in an online database and sequence data will be mailed
to the client within 5 working days.
The reported result is the most likely sample identification. However, the client has to make the final conclusion
to the identity of the sample.
Transport and Storage (To be filled in by client)
Transport:
 liquid nitrogen
 Frozen (-25C and -15°C)
 Other,
 Dry ice
 Cooled (2-8C)
Temperature logger present
 yes
Storage:
 liquid nitrogen
 Frozen (-25C and -15°C)
 Other,
 Deep frozen(<-60C)
 Cooled (2-8C)
BaseClear B.V.
The Netherlands
Version: 3
F089-MICRO-05
P.O. Box 1336
2302 BH Leiden
Einsteinweg 5
2333 CC Leiden
 Room temp. (15-25C)
(please specify)
 no
 Room temp. (15-25C)
(please specify)
T +31 71 523 3917
F +31 71 523 5594
W www.baseclear.com
E info@baseclear.com
Page 2 of 3
Microbial Strain-Typing
Order form
Type of service
No
Sample name
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Microbial typing using repetitive element sequence-based PCR (BC-311)
Microbial typing using Multilocus sequence typing (BC-312)
Sample Type
Additional identification***
(Samples will be identified using 16S/ITS
sequencing)
Suspected ID
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
Bacterial
Fungal
Bacterial partial
Bacterial full
Fungal ITS
No Identification
…………………………
***: Please note: Identification of the samples will be at additional cost!
Remarks:
BaseClear B.V.
The Netherlands
Version: 3
F089-MICRO-05
P.O. Box 1336
2302 BH Leiden
Einsteinweg 5
2333 CC Leiden
T +31 71 523 3917
F +31 71 523 5594
W www.baseclear.com
E info@baseclear.com
Page 3 of 3
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