LM DNA Kit Product Insert
Contents
1. DNA amplification PCR Allow the Master Mix to warm to room temperature 18 to 30 C 2 Gently vortex for approximately 10 seconds This will ensure the salts are in solution Spin briefly 5 10 seconds in microcentrfuge to bring contents to the bottom of the tube 3 Using Table 1 below prepare the components for amplification for n 1 reactions using the indicated amount of each component per reaction except for DNA Bring to a final volume of 20uL per reaction with nuclease free water Gently vortex 4 Pipette the appropriate amount of Genomic DNA 40 to 120ng into the PCR tubes 5 Aliquot the amplification mix into the PCR tubes containing the genomic DNA The total volume of amplification mix and genomic DNA should equal 20uL for each sample reaction 6 Cap tubes tightly to prevent evaporation during PCR Page 4 of 9 LC1437CE 3 05 15 7 P lace samples in the thermal cycler and run program see Table 2 and 3 Table 1 Reaction Components for Amplification Component Amount per PCR sample reaction LIFECODES Master Mix 6uL Genomic DNA 10 200ng uL Total of 80ng LIFECODES Taq Polymerase 0 2uL 1U Nuclease free water To 20pL final volume Table 2 Thermal Cycler Conditions for Amplification Thermal Cycler Mode Ramp speed MAX mode GeneAmp PCR System 9700 3 9 C sec A 9700 MAX mode TM Veriti 96 Well Thermal Cycler 3 9 C sec Table 3 Thermal Cyc2. HLA B HLA C assays solving the allelic ambiguity between A 24 02 24 09N B 51 01 51 11N and C 04 01 04 09N Null 2 is used as a complementary assay to increase the resolution of LIFECODES HLA DRB3 4 5 assay solving the allelic ambiguity between DRB4 01 03 DRB4 01 03 01 02N and DRB5 01 02 DRB5 01 08N Merging of the information from the Null 1 or 2 assay with the corresponding locus specific LIFECODES SSO Typing kit assay results to generate a suggested typing of a sample can be conducted through manual analysis or software analysis For manual analysis the output of the Null 1 or 2 assays identifies the presence of absence of specific null alleles The result from the corresponding locus specific LIFECODES SSO typing kits may carry ambiguities involving these null alleles e g A 24 02 24 09N B 51 01 51 11N C 04 01 04 09N DRB4 01 03 DRB4 01 03 01 02N or DRB5 01 02 DRB5 01 08N If the null allele is identified with the Null product all allele combinations that do not include the null allele can be eliminated from the results obtained from the corresponding locus specific LIFECODES SSO typing kit If the null allele is absent based on the Null product result all allele combinations that include the Null allele can be eliminated from the results obtained from the corresponding locus specific LIFECODES SSO typing kit In the product insert and in the software this process of combining the results of the two products is referred to as mergin
3. Model VPT 0300 or equivalent The temperature within wells and among wells should not vary more than 0 5 C 3 Time at 56 C is critical and should not exceed a total of 13 minutes This includes the 8 minute incubation plus no more than 5 minutes to dilute all the samples with Dilution Solution SA PE mixture 4 Once diluted sample analysis must be complete within 1 hour protect from light 5 Do not mix components from other kits and lots Due to the complex nature of HLA typing qualified personnel should review data interpretation and typing assignments Page 7 of 9 LC1437CE 3 05 15 TROUBLESHOOTING Low Bead Count Probe Mix not well suspended Prewarm sonicate and vortex probe mix and repeat assay Instrument not Out of Calibration Calibrate Instrument Refer to Luminex IS User s functioning properly manual Sample flow path blocked Remove and sonicate needle Perform backflush Call Immucor Transplant Diagnostics Inc if problem persists 888 329 0255 CON Threshold sample failed to amplify Low DNA Check DNA concentration and purity Failure or amplified poorly Salts in Master Mix are out of Heat Master Mix at 37 C for 5 minutes vortex gently solution and spin down briefly Poor Taq Polymerase Use validated LIFECODES Taq Polymerase Catalog 628075 Amplification conditions not within specific parameters Run Thermal profile on Thermal cycler to verify parameters are within specified parameters Low Media
4. laser on the Luminex Instrument is turned on at least 30 minutes before the hybridization ends While the samples are hybridizing prepare a 1 200 SA PE mixture Dilution Solution Combine 170uL Dilution Solution DS and 0 85 uL 1mg mL SA PE per sample It is recommended to make enough Dilution Solution Mixture for n 1 samples to account for pipetting loss See Table 5 Keep Dilution Solution SA PE mixture in the dark at room temperature SA PE is light sensitive The Dilution Solution may be warmed at 45 C for 5 minutes and vortexed upon arrival to ensure all components are in solution Dilution Page 5 of 9 LC1437CE 3 05 15 solution must be at room temperature 18 to 30 C before making the mixture Prepare prior to use and discard any remaining portion Table 5 Dilution Solution Preparation Volumes of Samples Dilution Solution DS SAPE 0 85uL 850uL 4 25uL 1700yL 8 5L 3400uL 17uL 8500uL 42 5uL Note DO NOT CANCEL HYBRIDIZATION PROGRAM BEFORE REMOVING THE TRAY FROM THE THERMAL CYCLER 8 At the 56 C hold while the tray is on the thermal cycler dilute each sample with 170uL of the prepared Dilution Solution SA PE mixture It is critical to dilute all samples within 5 minutes following the 8 minute 56 C HOLD step 9 Remove the sample tray from the thermal cycler and place in the Luminex Instrument D Analyze sample using the Luminex Instrument For best results assay the samples immediately using the Lu
5. 1 180 or its foreign counterparts owned by Luminex Corporation to perform multiplex analysis of clinical soecimens for HLA typing Page 8 of 9 LC1437CE 3 05 15 Manufacturer Immucor Transplant Diagnostics Inc 550 West Avenue Stamford CT 06902 USA Phone 203 328 9500 888 329 0255 Fax 203 328 9599 European Technical Service Phone 32 3 385 4791 This document last revised and issued Rev 3 2015 05 15 TRADEMARKS USED AB Gene AB Gene House Luminex Luminex Corporation Costar Corning Incorporated Gene Amp Roche Molecular System Microseal Bio Rad Laboratories Inc Veriti Applied Biosystem IDNA Agarose Lonza Group Ltd LIFECODES Immucor Inc GelStar Lonza Group Ltd APPENDIX A Gel Electrophoresis The PCR reactions performed in the LIFECODES HLA SSO Typing Kits are designed to produce both double and single stranded products which are the predominant products that hybridizes to the SSOs For quality assurance or to trouble shoot an experiment it might be necessary to perform gel electrophoresis to examine the PCR reaction for the presence of amplified DNA Materials Required as listed or equivalent e Electrophoresis Grade Agarose Lonza Group Ltd e GelStar Nucleic Acid Gel Stain Lonza Group Ltd No IDNA Agarose No 50170 50535 e Electrophoresis apparatus power supply e UV Transilluminator ChromatoVUE UVP Inc Model e 1X Gel Buffer 40xTAE Promega No V4281 TM36 e Photographic imag
6. 2 The following Thermal Cyclers have been validated 96 Well GeneAmp PCR System 9700 set to MAX mode Base Cat N8050200 Gold Block Cat 4314878 Veriti 96 Well Thermal Cycler set to 9700 MAX mode Cat 4375786 Refer to Table 2 for maximum ramp speeds Caution Other thermal cyclers and ramp speeds have not been validated SPECIMEN COLLECTION AND PREPARATION A Human DNA can be purified from Whole blood Buffy coats and Buccal swabs using a validated method that meets the criteria below DNA extracted from blood preserved in EDTA and ACD Acid Citrate Dextrose have been tested and shown to perform in this assay DNA extracted from blood preserved in heparin cannot be used in this assay Other preservatives have not been tested The isolated DNA should be in 10 mM TRIS pH 8 0 9 0 or in nuclease free water If a chelating agent such as EDTA is present the final concentration of the chelating agent should not exceed 0 5 mM The presence of alcohol detergents or salts may adversely affect DNA amplification Final DNA concentration should be 10 to 200 ng uL Absorbance measurements of the DNA sample at 260 and 280nm should give a ratio of 1 65 to 2 0 DNA can be used immediately after isolation or stored at 20 C for up to 1 year Repeated freeze thawing should be avoided since this can result in DNA degradation ommo O W Page 3 of 9 LC1437CE 3 05 15 PROCEDURE Caution Deviations from recommended protocol and required materi
7. MMUCOoR LIFECODES Immucor Transplant Diagnostics Inc 550 West Avenue Stamford CT 06902 USA Tel 203 328 9500 or 888 329 0255 Fax 203 328 9599 WWW IMMUCOR COM Product Documentation and Translations available at www lmmucor com PRODUCT INSERT LIFECODES HLA Null Allele SSO TYPING KIT For In Vitro Diagnostic Use TABLE OF CONTENTS Definition of Symbols 000 ceeee Directions for US cece cece eee eee Reagents by Catalog Number A Purify Genomic DNA 0 0065 intended USC iassoderreeceecnegueenacdsncecowieanais B Amplification C Hybridization D Analyze eee with Luminex Instrument RESULTS oee EAEE Quality Control cccceccee cee nnn nnn nnne Limitation of the Procedure TroubleShooting 0cccceeeeeeeeeeeeeees Expected Valu sS ccccc cece ee ceeeeees Specific Performance characteristics ReEfErONCeS cceceeceeceeneeceeeeeeeeuuneess Limited LICENSE ccc cee eee eee ee eee eee NO Summary and Explanation NO Principles of the Procedure CACC INS iis centric see nieeenewnciamensecetucesess A Identification a nn ann ccc ccc nanan eee B Warnings and Cautions C Storage Instructions PP D Purification or Treatment for Use E Instability Indications Instrument Requirements 05 Specimen Collection and Preparation PP OCCG U0 os da
8. PCR typically employs equimolar amounts of both forward and reverse primer to generate a double stranded DNA product However if the amount of one primer is in excess relative to the other the reaction will generate some single stranded DNA product in addition to double stranded product During the initial cycles of the LIFECODES amplification step double stranded DNA is generated Once the limiting primer is exhausted the remaining primer uses the double stranded product as a template for generation of single stranded DNA This method generates both double stranded and single stranded products that upon denaturation will both participate in the hybridization reaction Each of the different probes may be homologous to a sequence within the amplified DNA that is unique to an allele or group of alleles In other words these probes are designed so that each probe preferentially hybridizes to a complementary region that may or may not be present in the amplified DNA In addition the amplified DNA is also hybridized to one or more Consensus probes homologous to sequences present in all the alleles of a locus SSO Typing can be affected by the type of biological material method of purification amount and integrity of genomic DNA Therefore the signal obtained for the Consensus probe s can serve as an indicator of the success of the amplification and hybridization procedures Also the signal obtained with the Consensus probe can be used to normalize the sig
9. als have not been validated A Materials Provided See tables in Reagents by Catalog Number section for specific information Appropriate Master Mix MX Threshold Table s Probe Hit Chart s Appropriate Probe Mix BM LIFECODES Tag Polymerase LIFECODES Cat Dilution Solution DS No 628075 x 2 B Materials Required but Not Provided The following materials were used in the validation of the kit Luminex Sheath Fluid 1x LIFECODES Cat No Costar plate Costar Cat No 6509 LIFECODES 628005 Cat No 888630 Nuclease free water LIFECODES Cat No 757003 Thermowell Clear Polyethylene Tape Costar No 20mL 6524 LIFECODES Cat No 888635 PCR tubes and caps Corning Thermowell Tube R Phycoerythrin Conjugated Streptavidin SA PE Strips Costar Cat No 6542 LIFECODES Cat No 1mg mL LIFECODES Cat No 628511 888640 or Corning Thermowell PCR 96 well plates e Luminex Calibration Kits Luminex 100 200 Calibration Cat No CLS6551 or Themoscientific AB Gene Kit Luminex 100 200 Performance Verification Kit Superplate 96 well PCR plate Cat No AB 2100 LIFECODES Cat Nos 628018 and 628019 respectively C Additional materials to be provided by the user Vortex Mixer Silicone compression Mat Axygen Scientific CM FLAT or equivalent Bath Sonicator Microcentrifuge Barrier filter tips Pipettors Multichannel pipettors and tips 1 20uL 20 200uL 1000uL Spreadsheet analysis software Heat Blo
10. ar Yellow Photographic Filter Cambrex No 50536 CAUTION Wear protective equipment when handling GelStar Nucleic Acid Stain or Ethidium Bromide and when photographing gel using UV Transilluminator Null Null Class1 Class2 6 Gel analysis 210 180 280 280 Double Strand s bp Single Strand s bp 150 180 140 180 Gel Interpretation Amplification Non amplification Well Double Stranded DNAs Bright Single Stranded DNA less bright Primer Band Page 9 of 9 LC1437CE 3 05 15
11. canecnesaucew ene edad iE a A Materials Provided 0 Trademarks US d cccccec cee cceucsenecaes APPENA Picccadecosceesacwecniaossecessescccexesas Gel Electrophoresis 00 eee ee A FP BPWWWW WWW W B Materials required but not Provided oOo oo O O CO CO CO CON N O Gel Interpretation cc cee eee ee C Additional Materials to be Provided by the User DEFINITION OF SYMBOLS Product Labels and Supplemental Documents Catalog REF Temperature Upper Limit of Batch Code LOT Number REF Limitation Temperature Use By Keep away Sufficient for N Do Not Freeze Date from light Tests Caution Consult _ see instructions Manufacturer Ec REP Instructions for use z EA Page 1 of 9 LC1437CE 3 05 15 REAGENTS BY CATALOG NUMBER LCT N LIFECODES HLA Null Allele SSO Typing Kit Product 628939 LIFECODES HLA Null Allele Typing Kit for use with Luminex Product 629100 50 LIFECODES Null Allele Class 1 Mx N2 N2 LIFECODES Null Allele Class 2 629002 870 uL 2 to a ee Master Mix LIFECODES Null Allele Probe Mix 629003 810 uL x2 oe 0088 Protect From Light CE e Dilution Solution 628515 19 7 mL 18 to 30 C TAQ LIFECODES Taq Polymerase 628075 25 uL x 2 10 C to 30 C Probe Mixes are light sensitive keep exposure to light at a minimum CAUTION Do not use components past their expiration dates CAUTION Deviations from recommended pro
12. ck 70 Isopropanol or 20 Bleach Retainer tray Applied Biosystems 403081 for use with the 9700 thermal cycler only DIRECTIONS FOR USE NOTES Probe mixes and SA PE are light sensitive keep away from light and do not freeze Warm beads at 55 to 60 C for at least 5 10 minutes to thoroughly solubilize components in probe mixture Sonicate briefly 15 sec then vortex probe mix for about 15 seconds to thoroughly suspend the beads Take extreme caution in the aliquoting process using calibrated pipettes Failure to do so may result in reagent loss and sample failure All temperatures must be precisely maintained Fluctuations as little as 0 5 C can affect results At the hybridization stage samples should not remain in the diluted state at 56 C for more than 5 minutes see Results section It is recommended to assay the amplified samples as soon as possible If the samples cannot be run on the Luminex Instrument the same day the amplified product can be stored up to 3 days at 2 8 C prior to use For longer storage store at 20 C up to one week until ready to assay The amplified product can only be frozen and thawed once Repeated freezing and thawing will result in degradation of amplified samples and will yield poor results if assayed A Purify genomic DNA using method of choice final concentration should be 10 to 200 ng uL Adjust if necessary with nuclease free water Keep all samples at similar concentrations B
13. ecific alleles Values obtained with the Consensus SSOs from positive controls should exceed the threshold value for the SSO as set forth in the Threshold Table Worksheet The LIFECODES Probe Mix es contain one or more consensus SSO probes identified in the typing kit worksheets These consensus probes hybridize to all alleles and act as internal controls to verify amplification and to confirm that hybridizations occurred If the minimum value is not obtained for these SSOs the sample may not produce the correct typing and the sample test should be repeated The assay should be run as recommended in the package insert as well as performed with any other quality control procedures that are in accordance with local state federal and or accreditation agencies requirements LIMITATIONS OF THE PROCEDURE The PCR conditions and assay conditions described require precisely controlled conditions Deviations from these parameters may lead to product failure All instruments must be calibrated according to manufacturer s recommendations and operated within manufacturer s prescribed parameters 1 Beads must be pre warmed and well suspended prior to use This ensures that the hybridization buffer components are in solution 2 47 C and 56 C incubations require a high degree of accuracy 0 5 C A thermal cycler should be employed Temperature should be verified within wells of the 96 well thermal cycler plate using a thermocouple e g Bio Rad
14. f 9 LC1437CE 3 05 15 4 For each sample divide the background corrected data for each probe by the background corrected value for the corresponding consensus probe producing the normalized data set MFI Probe MFI Control blank for probe MFI Consensus MFI Control blank for consensus 5 For each probe record the normalized value on the Threshold Table Worksheet 6 Once all values have been assigned the probe hit pattern i e the combination of all positive and negative assignments for a given sample can be compared with the Probe Hit Chart LC1024 provided on website Caution e There is a separate threshold table for each locus e These threshold tables are Lot specific be certain that the Lot on the threshold tables matches the Lot in the typing kit e Ifa normalized value for a particular probe falls above the maximum threshold for a negative assignment and below the minimum value for a positive assignment the sample should be considered as indeterminate for this probe The sample should be typed first assuming the value to be negative and then again assuming the value to be positive e See EXPECTED VALUES section for further information on threshold values QUALITY CONTROL It is recommended that one negative and positive control be run with each test such as a water blank and a previously typed sample respectively Consensus SSO probes listed on the Threshold Table hybridize to their respective locus sp
15. g the results REAGENTS A Identification See tables in Reagents by Catalog Number section for complete listing of catalog numbers B Warnings or Cautions 1 For In Vitro Diagnostic Use 2 Separate pipettes should be designated for Pre PCR manipulations as well as for Post PCR manipulations 3 Biohazard All biological and blood samples should be treated as potentially infectious Use Universal Precautions when handling 4 Dilution Solution Probe mixes TAQ Polymerase and R Phycoerythrin Conjugated Streptavidin contain hazardous compounds Avoid contact with skin and eyes and dispose of all materials after use according to local regulations See Material Safety Data Sheets for additional information C Storage Instructions 1 Refer to kit component packaging label for proper storage temperatures 2 Probe mixes and R Phycoerythrin Conjugated Streptavidin are light sensitive KEEP FROM LIGHT DO NOT FREEZE 3 Do not use components past their expiration date D Purification or Treatment Required for Use See Specimen Collection and Preparation E Instability Indications 1 If salts have precipitated out of solution during shipping or storage resolubilize completely prior to use by vortexing at room temperature 18 to 30 C 2 Do not use R Phycoerythrin Conjugated Streptavidin that has been frozen during shipment or storage INSTRUMENT REQUIREMENTS 1 Luminex Instrument and XY Platform Product Number 888300 888310
16. ing system The relative migration of the single stranded product is dependent upon the gel concentration and buffer system employed Approximate migrations for each amplification are listed below for samples run in a 2 Agarose gel in 1X TAE buffer Electrophoresis Conditions 1 Remove GelStar Nucleic Acid Stain Lonza Group Ltd No 50535 from freezer to thaw Keep in dark 2 The gel used for this procedure must be 2 i e for a 200ml gel bed use 4 grams of agarose to 200mL 1X TAE Dilute from 40X TAE Add 10uL GelStar Nucleic Acid Stain to the molten agarose When pouring the gel be sure to leave ample room for DNA to run a significant distance 1 to 2 inches USE CAUTION GelStar is a potential Carcinogen NOTE It is possible to run gels with 20uL of 10mg mL Ethidium Bromide in place of GelStar Nucleic Acid Stain Product band intensity will be less in gels containing Ethidium Bromide than in gels containing GelStar USE CAUTION Ethidium Bromide is a known Carcinogen 3 Keep gel in dark and allow to solidify 4 Load a mixture of 2 5uL of each PCR product and 2 5uL 2X loading buffer with visible dye per sample per amplification Let gel run in the dark at approximately 160 volts for 45 minutes or until sample runs far enough to see separate bands for single and double stranded product bromophenol blue band or other visible marker migrates 1 to 2 inches from wells 5 Photograph using UV Transilluminator accompanied by a GelSt
17. ler Conditions for Amplification Step Temperature and Incubation Time of Cycles 1 95 C for 3 min 1 95 C for 15 sec 2 60 C for 30 sec 12 72 C for 30 sec 95 C for 10 sec 3 63 C for 30 sec 28 72 C for 30 sec 4 72 C for 2 min 1 4 C forever 1 Note To be sure of sample amplification refer to Product Gel Electrophoresis Appendix A C H ybridization Be sure hybridization buffer components of the LIFECODES probe mix are solubilized and that the beads are thoroughly suspended Turn on the Luminex Instrument and XY Platform to allow for 30 minute warm up Warm probe mix in a 55 to 60 C heat block for at least 5 10 minutes to thoroughly solubilize components in probe mixture Sonicate briefly 15 sec then vortex probe mix for about 15 seconds to thoroughly suspend the beads Combine 15 uL of the appropriate probe mix with 5 uL of locus specific PCR product into each well of a thermal cycler 96 well plate Costar No 6509 When aliquoting probe mix to more than 10 wells gently vortex probe mix after each set of ten Seal plate with polyethylene tape Costar No 6524 Place silicone compression mat on top of plate prior to hybridization Hybridize samples under the following incubation conditions Table 4 Thermal Cycler Conditions for Hybridization 97 C for 2 minutes 47 C for 10 minutes 56 C for 8 minutes 562C HOLD Ensure that the detection
18. minex Instrument 1 Turn on the Luminex Instrument between 30 minutes and 4 hours before assaying the samples 2 Prior to analyzing the samples on the Luminex Instrument set up a Batch Run by which the samples will be analyzed a Select Create a New Batch from the File menu e For example if analyzing for Null Class add Batch for Null Class e The Batch Template is provided on website and is named in this case Null1 xxxxxx lot e Please note that the template versions are lot number specific and correspond to the probe mix lot numbers e Follow the stepwise instructions that appear on the screen for creating batches When naming the batch do not include commas in the name because information after a comma will be lost upon exportation of the data For further instructions on creating batches and multibatches refer to the Luminex User s Manual b Click the eject icon to eject the plate holder Place the 96 well thermal cycler plate containing the samples in the XYP heater block present on the plate holder c Click the Retract icon The samples are now ready to be analyzed A prime step should be performed before starting the run d After the samples have been run through the instrument a sanitization step with 70 Isopropanol or 20 household bleach should be performed followed by two wash steps The instrument can be turned off at this point if it is not going to be used for the remainder of the day 3 After a batch is co
19. mplete the data is exported as a comma separated values csv file These files are named OUTPUT CSV and saved in a folder with the Batch Name This data is then available for making typing assignments as described below Refer to Luminex User s Manual for instrument operation including daily startup calibration maintenance and shutdown procedures RESULTS Sample typing can be done as follows The generated CSV files can be opened and the data processed with common spreadsheet programs such as Microsoft Excel Lotus 123 Corel Quattro Pro or similar software Analysis is comprised of the following steps 1 Verify that the Number of Events for each SSO in each sample is at least 60 This information is found in the DataType Count section of the CSV file 2 Determine that the values for the Consensus probes for each sample are above their minimum Median Fluorescent Intensity or MFI The minimum thresholds are lot specific and can be found in the Threshold Table Caution e To obtain reliable results there must be sufficient data gathered by the Luminex Instrument e Collect at least 60 events for each SSO 3 Subtract the Background Control value for each probe from the sample values producing the background corrected data set Background Control values are found in the Threshold Table and are lot specific Background values are average MFI values for each bead to compensate for background noise due to bead variation Page 6 o
20. n Fluorescent Intensity Value MFI Warm dilution solution at 45 C for 5 minutes before use and vortex Store at room temperature Replace R Phycoerythrin Conjugated Streptavidin Multiple SSO Allele specific Amplification conditions not Run Thermal profile on Thermal cycler to verify failures or sample amplification within specific parameters parameters are within specified parameters fails to yield a HLA DNA sample contaminated Evaporation during hybridization step If not using an entire plate leave one row empty on each side of samples to be assayed to allow plate to be sealed tightly PCR amplification can be verified by gel electrophoresis See Appendix A EXPECTED VALUES Each Locus has one CON probe and two SSO probes If a sample contains one of the loci being assayed the consensus probe and at least one of the SSO probes for that locus should be positive Probe values typically can be resolved as positive and negative In some rare instances a value may fall between the positive and negative cutoff values and therefore is considered to be indeterminate If a sample contains indeterminate values for a particular SSO probe the sample should be typed with the probe as a negative and again with the probe as a positive If two SSO probes for a locus are indeterminate the sample cannot be typed and should be re assayed e As noted in the Limitations of the Procedure section it is critical to precisely follow the protocol Any de
21. nal of the allele specific probes and correct for variations in the amount of amplified product in the hybridization reaction The analysis of the results generated from the SSO typing can be used to determine the presence or absence of particular DNA sequences in amplified DNA and to identify the possible alleles in the sample For the LIFECODES HLA SSO Typing procedure probes are attached to Luminex Microspheres designed for use with the Luminex Instrument Up to 100 different populations of Luminex Microspheres can be mixed together and analyzed by the Luminex Instrument because each population of microspheres can be distinguished by its unique fluorescence signature or color A different SSO probe can be attached to each color microsphere Therefore a mixture of several probes can be distinguished from each other by virtue of their association with particular color microspheres The Luminex Instrument is also able to quantify the relative amounts of labeled PCR product hybridizing to each Luminex Microsphere Therefore the relative signal obtained with the SSO probes in the LIFECODES assay as with other SSOP methods can be used to assign the probes Page 2 of 9 LC1437CE 3 05 15 as having positive or negative reactivity with the amplified DNA sample see Results section This in turn provides the information needed to determine the HLA phenotype of the sample Null 1 is used as a complementary assay to increase the resolution of LIFECODES HLA A
22. tocol and required materials including LIFECODES Tag Polymerase have not been validated INTENDED USE DNA Typing of Class and Class II Alleles in conjunction with LIFECODES HLA SSO Typing kits SUMMARY AND EXPLANATION DNA based HLA typing using PCR amplified DNA is a common laboratory procedure PCR amplification of DNA is used as the means to enrich for a selected DNA region For HLA typing a subsequent assay is utilized to determine the properties of the amplified DNA Several types of assays such as SSP 1 direct SSOP 2 RFLP 3 and reverse SSOP dot blot technologies 4 have been used in HLA typing Like SSOP and reverse dot blot methods LIFECODES HLA SSO Typing kits utilize sequence specific oligonucleotides SSOs to identify which HLA alleles are present in a PCR amplified sample It is the set of SSOs employed not the methodologies that determines the ability to distinguish among the various alleles present in the PCR amplification Whereas reverse dot blot and SSOP methods employ enzyme labels and colorimetric substrates that require subsequent development the LIFECODES assay is a homogenous multiplex system That is all SSOs are analyzed simultaneously and the entire assay is carried out in a single reaction vessel with the addition of a single reagent PRINCIPLES OF THE PROCEDURE The LIFECODES HLA SSO Typing procedure is based on the hybridization of labeled single stranded PCR product to SSO probes Amplification of DNA using
23. viations can lead to sample typing failure SPECIFIC PERFORMANCE CHARACTERISTICS When LIFECODES HLA SSO Null Allele Typing Kits are used according to the procedure described in the product insert the Class and Class II HLA type of DNA samples can be determined The HLA Null Allele Class 1 Null1 assay shows 100 agreement 97 4 lower boundary of 95 Confidence Interval for A locus 100 agreement 97 4 lower boundary of 95 Confidence Interval for B locus and 100 agreement 97 4 lower boundary of 95 Confidence Interval for C locus in 139 samples evaluated when compared to results obtained with bi directional sequencing The HLA Null Allele Class 2 Null2 assay shows 97 1 agreement 92 7 lower boundary of 95 Confidence Interval for DRB 4 locus and 98 5 agreement 94 8 lower boundary of 95 Confidence Interval for DRB 5 locus in 137 samples evaluated when compared to results obtained with bi directional sequencing REFERENCES 1 Olerup O et al 1992 Tissue Antigens 39 225 3 Maeda M et al 1989 Tissue Antigens 34 290 2 Saiki RK et al 1986 Nature 324 163 4 Bugawan TL et al 1990 Immunogenetics 32 231 LIMITED LICENSE Taq polymerase is manufactured for Immucor Transplant Diagnostics by Promega Corp It is licensed to Promega under U S Patent Nos 5 338 671 and 5 587 287 and their corresponding foreign patents The purchase of this product includes a limited non transferable license under U S patent 5 98
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