Professional Documents
Culture Documents
Extension Services
SERVICE BROCHURE
Version 2.1
MCCL Extension Service Website
https://sites.google.com/up.edu.ph/mccl-upd-
extension-services/
Previous versions:
2.0 September 2023
1.0 April 2023
TABLE OF CONTENTS
Foreword i
The Mammalian Cell Culture Laboratory ii
A. List of Laboratory Services 1
B. Sample Preparation 3
B.1. What kinds of samples are accepted for testing? 3
B.2. How should clients prepare their samples? 5
B.3. Drying samples before testing 7
B.3.1. MCCL Sample Drying Services 8
B.4. Sample packaging 10
C. Phytochemical Assays 12
C.1. DPPH Free Radical Scavenging Assay 12
C.2. Total Phenolics Content Analysis 14
C.3. Total Flavonoid Content Analysis 16
D. Cell-based Assays 18
D.1. MTT Viability/Cytotoxicity Assay 18
D.2. MTT Photo-documentation 21
D.3. Wound Healing/Scratch Assay 22
D.4. Annexin V-PI Apoptosis/Necrosis Assay 25
D.5. Immunofluorescent Staining Assay 28
D.5.1. Ki-67 staining 29
D.5.2. p53 staining 30
D.5.3. Custom marker staining 30
E. Service Procedures 32
E.1. How can clients request for service? 32
E.2. How long does each procedure take? 33
F. Service Deliverables: Final Reports 36
G. Frequently Asked Questions 40
References 42
Acknowledgements 43
LIST OF FIGURES
Figure 1. Samples that may be accepted for testing 3
Figure 2. Samples that may NOT be accepted for testing 4
Figure 3. Sample preparation pipeline 6
Figure 4. Sample drying and reconstitution 7
Figure 5. Recommendations for sample packaging 10
Figure 6. Sample label format 11
Figure 7. Principle behind the DPPH free radical scavenging assay 12
Figure 8. Principle behind the Folin-Ciocalteu method for
measuring total phenolic content 14
Figure 9. Principle behind the aluminum chloride method for
measuring total flavonoids content 16
Figure 10. Principle behind the MTT viability/cytotoxicity assay 18
Figure 11. Example of phase-contrast images for MTT assay
photo-documentation 21
Figure 12. Principle behind the wound healing/scratch assay 22
Figure 13. Principle behind the Annexin V-PI apoptosis/
necrosis assay 25
Figure 14. Principle behind the indirect method for
immunofluorescent staining assay 28
LIST OF TABLES
Table 1. Summary of the three sample drying methods 9
Table 2. Service Request Classification for each Sample Type 32
Table 3. Timetable for Sample Drying Procedures 34
Table 4. Timetable for Regular Assay and Confirmatory
Bioassay Procedures 35
Table 5. Summary of MCCL Service Deliverables and
Final Report Contents 36
Foreword
The Mammalian Cell Culture Laboratory (MCCL) of the Institute of Biology started as a
research facility for testing natural products that had potential therapeutic effects against cancer.
Over the past years under the leadership of now-retired Dr. Sonia D. Jacinto, MCCL has built on
the facilities and capabilities to chemically purify natural product extracts and test them on cell
culture models of cancer. Today, beyond cancer cells, MCCL conducts research in many other
diseases, namely HIV-related chronic complications, tuberculosis, acute myocardial infarction,
and leptospirosis using advanced disease models such as induced pluripotent stem cells.
All of these are made possible through the help of our partners and funding agencies. The
continued support from our funding agencies such as the Department of Science and Technology
(DOST), and the Commission on Higher Education (CHED) allowed us to afford many of the
equipment, personnel, and other logistical support for us to implement these research activities.
We have also established local and international research partnerships that allow us to explore
more relevant diseases.
With its growing research capacities, MCCL also aims to extend its successes to the Filipino
people by catering to the needs of local health researchers outside our institute. Through the
years, MCCL has provided extension services that allowed students and other researchers to
collect scientific data by submitting their samples to our laboratory for testing. With the new
enhancements and continued government support, MCCL has improved its services from the
standard cytotoxicity assays and antioxidant testing as we now offer more stringent biomolecular
analysis and even bioimaging. More than that, we are now also providing scheduled mentoring
activities aimed to provide the needed skills for Filipino health researchers to perform natural
product extraction, basic cell culture techniques, and other relevant biomolecular assays.
Through this, we hope to foster and promote further health research across the country. We also
wish to contribute to the need of a stronger health research labor force.
To help our potential clients and mentees who are interested in availing our services, we have
authored this Service Brochure. In it, you will find detailed explanation of every laboratory service
our laboratory is offering. It will also serve as a guide on how the client can choose the
appropriate service assay for their specific research and what to expect from our services.
Moreover, this brochure also contains the detailed instructions for all needed administrative and
documentary requirements of each service. We hope that all these information will be helpful for
those who wish to avail our extension services.
i
The Mammalian Cell Culture Laboratory
ii
A. List of Laboratory Services
1
List of Laboratory Services
2
B. Sample Preparation
WET
SAMPLES
Drugs / pure
compounds
DRIED SAMPLES
rock/soil/non-
Food samples dissolvable powders
5
Sample Preparation
Legend:
CLIENT OR MCCL
Sample will be
accepted
Sample will NOT
be accepted
Required step
Optional step
Dry Sample
7
Sample Preparation
Sample Preparation
Each method has its own advantages and disadvantages and may only
be applicable to certain types of samples. It order to fully dry your wet
sample, it may take the combination of any 2 or all 3 of the methods listed
above. Table 1 (next page) lists the known advantages and disadvantages
for each method.
In order to avail of our drying services, the client must also indicate the
extraction solvent used so we can assess if the drying service method is
appropriate for the wet sample. If the client choses an inappropriate drying
method, MCCL will inform them of any changes to the method prior to the
acceptance of their samples.
8
Sample Preparation
1. The cooling system will • Quickest and most • Will subject samples Samples dissolved
be set to 4°C and the efficient drying to moderately high in any percentage of
water bath will be set method for large temperatures which water
to 40°C volume of liquid may cause degrada- Samples dissolved
2. Sample will be loaded samples tion of heat-sensitive in organic solvents
and run in the rotavap compounds like (e.g. ethanol, hexane,
machine until a signi- proteins ethers, etc.)
ficant reduction in • One sample per run Oily/colloidal
solvent is observed
• Samples must further samples
3. Before turning viscous/ be dried in an oven to
thick, sample will be fully remove any
transferred to an oven remaining solvent
set at 40°C
1. Sample will be loaded • Cheapest method for • Will subject samples Samples dissolved
into a glass petridish sample drying to moderately high in any percentage of
temperatures which water
2. Sample will be placed • Can be used for a may cause degrada-
inside the oven-drier much wider variety of Samples dissolved
set at 40°C tion of heat-sensitive in organic solvents
samples compounds like (e.g. ethanol, hexane,
3. Sample will be • Several samples in proteins ethers, etc.)
incubated until all one run
solvents are fully Oily/colloidal
removed samples
9
Sample Preparation
Stored in lab-grade Labelled with Caps tightly Covered with Covered with
bottles or plastic tape & water- secured with aluminum foil bubble wrap
containers with resistant ink parafilm wrap to protect from to prevent
tight caps UV/light breakages
NOT RECOMMENDED
EXAMPLE:
11
C. Phytochemical Assays
Concentration of antioxidant
12
Phytochemical Assays
Our service will test and compute % inhibition of the sample at six (6)
fixed concentrations in three (3) trials:
Concentration of phenols
14
Phytochemical Assays
y (absorbance) = m * x (concentration) + b
sample
Using the Gallic Acid standard curve, the total phenolic content of the
sample will interpolated and computed as gallic acid equivalent (GAE)
mg/g sample using a formula based on the Beer-Lambert Law of
Absorbance:
15
Phytochemical Assays
Concentration of flavonoids
16
Phytochemical Assays
y (absorbance) = m * x (concentration) + b
sample
Using the Quercetin standard curve, the total phenolic content of the
sample will interpolated and computed as quercetin equivalent (QE) mg/
g sample using a formula based on the Beer-Lambert Law of Absorbance:
17
D. Cell-based Assays
Cytotoxicity
Cellular viability
18
Cell-based Assays
Our service will test and compute % inhibition of the sample at eight
(8) fixed concentrations after 72-hr incubation in three (3) trials:
19
Cell-based Assays
REMINDER: MCCL DOES NOT SELL CELL LINES. Our cell lines are
available because we are conducting ongoing research projects that make
use of these cell lines. We are not permitted by the original
manufacturers (ATCC, Lonza, Sigma) to resell these biomaterials.
The client may choose one or more of the available cell lines at MCCL
for their requested MTT assay. MCCL is not responsible for providing
technical consultation regarding which cell line/s is/are most appropriate
for the client’s research. A list of available cell lines is posted at the MCCL
Extension Service Website or in our Service Forms, which are
periodically updated based on the availability of active cultures. Below are
the types of cell lines typically available at MCCL for MTT assay:
20
Cell-based Assays
Cell-based Assays
Example:
HCT 116 colorectal cancer cells HCT 116 colorectal cancer cells
before treatment after 72-hr treatment w/ Doxorubicin
21
Cell-based Assays
22
Cell-based Assays
Cell-based Assays
Our service will test and compute % scratch area and FC (wound
closure) after 3-day incubation in three (3) trials. Representative phase-
contrast images at Day 0, Day 1 and Day 3 will be provided.
23
Cell-based Assays
REMINDER: MCCL DOES NOT SELL CELL LINES. Our cell lines are
available because we are conducting ongoing research projects that make
use of these cell lines. We are not permitted by the original
manufacturers (ATCC, Lonza, Sigma) to resell these biomaterials.
The client may choose one or more of the available cell lines at MCCL
for their requested wound healing assay. MCCL is not responsible for
providing technical consultation regarding which cell line/s is/are most
appropriate for the client’s research. A list of available cell lines is posted at
the MCCL Extension Service Website or in our Service Forms, which are
periodically updated based on the availability of active cultures. Since the
wound healing assay relies on the principles of cell migration on a flat 2D
surface, the assay is limited to adherent cell lines only. Below are the
types of cell lines typically available for wound/healing assay at MCCL:
24
Cell-based Assays
Cell-based Assays
25
Cell-based Assays
Our service will test and compute these % values in three (3) trials.
Our Annexin V-PI apoptosis assay service allows the client to choose
at which concentration the sample will be tested and at which time-
point the assay will be performed based on the results of the MTT
cytotoxicity assay prior to this service. NOTE: We recommend a
concentration at which the sample significantly reduced cell viability and
induced morphological changes.
26
Cell-based Assays
Cell-based Assays
REMINDER: MCCL DOES NOT SELL CELL LINES. Our cell lines are
available because we are conducting ongoing research projects that make
use of these cell lines. We are not permitted by the original
manufacturers (ATCC, Lonza, Sigma) to resell these biomaterials.
The client may only choose among the cell lines which have previously
been used in the MTT Cytotoxicity/Viability Assay for the sample. MCCL is
not responsible for providing technical consultation regarding which
cell line/s is/are most appropriate for the client’s research.
27
Cell-based Assays
28
Cell-based Assays
Cell-based Assays
29
Cell-based Assays
30
Cell-based Assays
Cell-based Assays
Our service will test and compute these % values in three (3) trials.
31
E. Service Procedures
Dried 5mg–5g
1
Recommended concentration only. If concentration cannot be adjusted (e.g., sample is a
commercially procured reagent/drug), contact us at mccl.upd@up.edu.ph
2
If your diluent is not DMSO/water/pure ethanol, you must submit 1-5mL of the diluent in
addition to your diluted sample. This will serve as negative control for the assays
After determining the Class of Request, the client must fill-up the
appropriate Service Form (MCCL Form 1) provided in the MCCL
Extension Service Website. Further transactions will then proceed via e-
mail based on our Service Timelines.
32
Service Procedures
33
Service Procedures
Table 3. Timetable for Sample Drying Procedures based on MCCL standard protocols.
Sample Drying Time Table
Drying method Service Steps Estimated Time
RA assignment and scheduling 5 days
Sample preparation (ULTF) 1 day
Freeze-drying/ 12-16
lyophilization Lyophilization (for 50mL sample) 1-5 days* days
Report writing, review and endorsement 5 days
RA assignment and scheduling 5 days
Rotary Sample preparation and loading in single run of
Rotavap machine (for 500mL sample) 1-7 days** 12-20
evaporation
Sample collection and further drying in oven days
(Rotavap) 1-3 days**
Report writing, review and endorsement 5 days
RA assignment and scheduling 5 days
Sample preparation and oven drying (for 300mL 11-13
Oven drying sample) 1-3 days**
days
Report writing, review and endorsement 5 days
34
Service Procedures
Table 4. Timetable for Regular Assay and Confirmatory Bioassay Procedures based on
MCCL standard protocols.
35
F. Service Deliverables & Final Reports
• Methodology performed
• Table 1. Summary of average
absorbance readings at 450nm and
computed Quercetin equivalents (QE)
TFC MCCL Form 4F - and TFC of the sample at the indicated
concentrations. N/A
Assay Final Report [TFC]
• Table 2. Summary of blank-adjusted
absorbance readings at 450nm.
• Figure 1. Plots for Quercetin Standard
curve per trial
36
Service Deliverables & Final Reports
Table 5. cont. (2 of 4)
Service Deliverables and Final Reports, cont.
Other
Services Report Form Report Content Deliverables
• Methodology performed
• Table 1. Percent inhibition computed
from the absorbance readings of each
concentration of the positive control,
doxorubicin, against <cell line>
MTT MCCL Form 4A -
N/A
Assay Final Report [MTT] • Table 2. Percent inhibition computed
from the absorbance readings of each
concentration of the sample against
<cell line>
• Table 3. Absorbance readings
(OD570nm) of treated <cell line>
37
Service Deliverables & Final Reports
Table 5. cont. (3 of 4)
Service Deliverables and Final Reports, cont.
Other
Services Report Form Report Content Deliverables
• Methodology performed
• Table 1. Percent scratch areas (relative to Day
0) of <cell line> treated with the control
(DMSO)
• Table 2. Percent scratch areas (relative to
Day 0) of <cell line> treated with <sample
name> at X ug/ml. By request:
Wound • Table 3. Fold changes in wound closure ZIP/RAR file
healing/ MCCL Form 4B - (relative to the control) of <cell line> treated of high-
Final Report
Scratch [Scratch] with <sample name> at X ug/ml. resolution
Assay • Table 4. Pixel measurements of the scratch photos in
areas of treated <cell line>. JPEG/PNG
• Figure 1. A: Typical morphology of <cell line>
in T-25 culture flask before seeding. B: <cell
line> at 100% confluency prior to scratching.
• Figure 2. Scratched monolayers of <cell line>
treated with DMSO control and X µg/ml
<sample name> at Day 0, Day 1 and Day 3.
• Methodology performed
• Table 1. Percent Early Apoptotic, Late
Apoptotic and Necrotic cells of <cell line>
treated with control (DMSO)
By request:
• Table 2. Percent Early Apoptotic, Late ZIP/RAR file
Annexin MCCL Form 4C - Apoptotic and Necrotic cells of <cell line>
of high-
V-PI Final Report treated with with <sample name> at X ug/ml.
resolution
assay [Annexin V-PI] • Table 3. Summary of cell counts of 4 fields per photos in
treatment JPEG/PNG
• Figure 1. Representative fluorescence images
of <cell line> treated with control (DMSO) and
<sample name> at X ug/ml after 72-hr
incubation.
38
Service Deliverables & Final Reports
Table 5. cont. (4 of 4)
Service Deliverables and Final Reports, cont.
Other
Services Report Form Report Content Deliverables
• Methodology performed
• Table 1. Summary of cell counts (6 fields)
and percent <marker>-positive <cell line>
treated with control (DMSO) By request:
ZIP/RAR file
IF
MCCL Form 4H - • Table 2. Summary of cell counts (6 fields) of high-
staining Final Report [IF] and percent <marker>-positive <cell line> resolution
assay treated with <sample name> at X ug/ml photos in
• Figure 1. Representative fluorescence JPEG/PNG
images of <cell line> treated with control
(DMSO) and <sample name> at X ug/ml
after 72-hr incubation.
39
G. Frequently Asked Questions
40
Frequently Asked Questions
Can MCCL obtain a particular cell line specific for the client’s study?
No. Cell lines can cost around Php 50-200,000. Furthermore, cell line procurement is a long
process (around 6 months to 1 year). Hence, we only offer testing in cell lines that are already
available at our facility.
41
REFERENCES
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ACKNOWLEDGEMENTS
43