Chlamydia Trachomatis & Neisseria Gonorrhoeae (CT/NG)

Molecular Biology - Infectious Diseases

Chlamydia trachomatis (CT) is the second most leading cause of sexually transmitted diseases worldwide, with approximately 89.1 million cases occurring annually worldwide. CT is the causative infectious agent for a variety of diseases in men, including urethritis, proctitis, conjunctivitis and epididymitis. In women, the consequences of infection with CT are severe if left untreated. Infection can lead to endometriosis, salpingitis (with subsequent infertility and ectopic pregnancy) and perihepatitis. Additionally, infants from infected mothers can develop conjunctivitis, pharyngitis, and pneumonia.

Neisseria gonorrhoeae (NG) is the causative agent of gonorrhoeae. Acute urethritis is seen in the majority of men with gonorrhoeae, and acute epididymitis is the most common complication, particularly in young men. In women, the primary site of infection is the endocervix, there’s a high prevalence of coinfections with CT, Trichomonas vaginalis, and bacterial vaginosis. Many women remain asymptomatic; when symptoms do occur, the most common are increased discharge, dysuria, and intermenstrual bleeding. Additionally, NG may cause pelvic inflammatory disease, endometriosis, tubo ovarian abscess, and pelvic peritonitis.

Preparation of patient: Prior to the collection of urine, the patient should not have urinated for at least one hour. For best results, female patients should not cleanse the labial area prior to collection.

There is no physical preparation for the vaginal swab.

Precautions: None for patient. Media contains Guanidine Thiocyanate, adequate PPE for the person taking the sample.

Note: Chlamydia trachomatis and Neisseria Gonorrhoeae are notifiable diseases under the Infectious Diseases (Amendment) Regulations 2020 (S.I. No. 53/2020).

Sample Type:

Urine or urine in cobas PCR Urine Media (cobas® PCR Urine Sample Kit).

Endocervical or Vaginal swabs in cobas PCR Media (cobas® Media Dual Swab Kit).

Turnaround Time:

4 working days from sample receipt

Sample Stability:

Urine specimens should be transferred into the cobas PCR media tube as soon as possible. If specimens cannot be transferred immediately, they can be stored at 2-30℃ for up to 24 hours. Stabilised urine specimens are stable at 2-30℃ for up to 12 months.

Swabs collected with the cobas PCR Media Swab Kit may be stored at 2-30℃ for up to 12 months.

Instrument / Procedure:

The cobas® 4800 CT/NG Test is an in vitro nucleic acid amplification test for the qualitative detection of Chlamydia trachomatis (CT) and/or Neisseria gonorrhoeae (NG) in patient specimens. The test allows for detection of CT/NG DNA in endocervical and vaginal swab specimens, and male and female urine in cobas® PCR Media. The intended targets for the cobas® 4800 CT/NG Test include all fifteen major Chlamydia trachomatis serovars, the Swedish C. trachomatis mutant (nvCT), and both wild-type and variant DR-9 sequences of N. gonorrhoeae.

Units:
Reference Range:

CT and/or NG Detected

Not Detected

Invalid

Precautions:

Limitations of Test

  • The cobas® 4800 CT/NG Test has only been validated for use with female endocervical swab and clinician collected vaginal swab and clinician-instructed self-collected vaginal swab specimens collected in cobas® PCR Media (UT), female and male urine specimens stabilized in cobas® PCR Media (UUT).
  • Interfering substances include, but are not limited to the following:
    • The presence of mucus in endocervical and cervical specimens may inhibit PCR and cause false negative test results. Mucus free specimens are required for optimal test performance. Use a sponge or an additional swab to remove cervical secretions and discharge before obtaining the specimen.
    • Urine specimens stabilized in cobas® PCR Media containing greater than 0.35% (v/v) blood may give false negative results.
    • Endocervical swab specimens, vaginal swab specimens and cervical specimens, each containing up to 5% (v/v) whole blood exhibited no interference effects. Whole blood levels above 5% (v/v) may give invalid or false negative results.
    • Endocervical swab specimens, vaginal swab specimens and urine specimens, all stabilized in cobas® PCR Media and containing greater than 1 x 105 PBMC cells/mL may give invalid or false negative results.
    • Urine specimens taken from patients who have used the over-the-counter product Replens® vaginal moisturizer may give invalid or false negative results.
    • Urine specimens taken from patients who have used the over-the-counter product RepHreshTM Odor Eliminating Vaginal Gel and RepHreshTM Clean Balance may give invalid or false negative results.

  • Detection of C. trachomatis and N. gonorrhoeae is dependent on the number of organisms present in the specimen and may be affected by specimen collection methods, patient factors (i.e., age, history of STD, presence of symptoms), stage of infection and/or infecting C. trachomatis and N. gonorrhoeae strains.
  • False negative results may occur due to polymerase inhibition. The CT/NG Internal Control is included in the cobas® 4800 CT/NG Test to help identify specimens containing substances that may interfere with nucleic acid isolation and PCR amplification.
  • Prevalence of infection in a population may affect performance. Positive predictive values decrease when testing populations with low prevalence or individuals with no risk of infection. Because the prevalence of C. trachomatis and N. gonorrhoeae may be low in some populations or patient groups, a false positive rate can exceed the true positive rate so that the predictive value of a positive test is very low. Since some patients that are truly infected will not be identified by testing a single specimen, the true rate of false positives cannot be determined or presumed from the clinical data. The rate of false positive test results may depend on training, operator ability, reagent and specimen handling or other such factors in each laboratory.
  • Reliable results are dependent on adequate specimen collection, transport, storage and processing. Follow the procedures in the Package Insert.
  • The cobas® 4800 CT/NG Test is not recommended for evaluation of suspected sexual abuse and for other medico-legal indications.
  • The cobas® 4800 CT/NG Test provides qualitative results. No correlation can be drawn between the Ct value reported for a positive cobas® 4800 CT/NG Test and the number of C. trachomatis and N. gonorrhoeae cells within the infected specimen.
  • The cobas® 4800 CT/NG Test for male and female urine testing is recommended to be performed on first catch urine specimens (defined as the first 10 to 50 mL of the urine stream). The effects of other variables such as first-catch vs. midstream, post-douching, etc. have not been evaluated.
  • Improperly collected endocervical swab specimens are likely to contain excess mucus, which may cause clots on the cobas® 4800 System.
  • The effects of other potential variables such as vaginal discharge, use of tampons, douching, etc. and specimen collection variables have not been evaluated.
  • The cobas® 4800 CT/NG Test is not intended to replace cervical exam and endocervical sampling for diagnosis of urogenital infection. Patients may have cervicitis, urethritis, urinary tract infections, or vaginal infections due to other causes or concurrent infections with other agents.
  • Though rare, mutations within the highly conserved regions of the cryptic plasmid or genomic DNA of C. trachomatis or the genomic DNA of N. gonorrhoeae covered by the cobas® 4800 CT/NG Test’s primers and/or probes may result in failure to detect the presence of the bacterium.
  • The presence of PCR inhibitors may cause false negative or invalid results.
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SAMPLE REQUIREMENTS FOR COAGULATION TESTS

PROCEDURE

Sample Requirements and Collection

  • Patients should be relaxed pre-venepuncture. Excessive stress and exercise will increase FVIII, vWF antigen and fibrinolysis. Venous occlusion should be avoided.  
  • Difficult venepuncture with trauma may lead to platelet activation with release of PF4 from alpha granules.
  • Venous blood should be collected into coagulation tubes containing Sodium Citrate 3.2%, 0.105M.
  • Specimens must be mixed immediately post venepuncture to avoid clot activation, by GENTLY inverting the tubes 5 to 10 times.
  • The ratio of whole blood to anticoagulant is crucial to clotting times. A target blood to anticoagulant ratio of 9:1 is optimal.  Under- or over- filled specimens will not be processed this can adversely affect results.  
  • Any warfarin treatment should be mentioned on the request form.
  • Sample rejection Criteria: Clotted sample, grossly hemolyzed sample, underfilled/overfilled specimen, unlabeled sample, mismatched patient ID, aged samples, wrong sample tube (citrate tube only).

Transportation and Storage

  • PT/INR specimens should be transported to the laboratory at room temperature.
  • Coagulation specimens should ideally be analysed within 4 hours of collection. Where this is not possible, centrifuge specimens at room temperature (RT) @ 1500RCF for at least 15 minutes, and then carefully remove the plasma from the cells, transfer to a fresh plastic plain tube and freeze at -20oC.  
  • Non-frozen coagulation specimens should be transported at RT ASAP to avoid deterioration of labile factors V and VIII.
  • Collection of blood through intravenous lines that have been previously flushed with heparin should be avoided. In the event blood is drawn from an indwelling catheter, the line should be flushed with 5ml of saline, and the first 5ml of blood or 6 times the line volume be drawn off and discarded before coagulation tube is filled.
  • Effect of freezing on Coagulation Specimens.
  • A 14days in-house study on the effect of freezing, on coagulation specimens at -20oC, showed that there was negligible and clinically non-significant effect of freezing on coagulation specimen results. Therefore frozen citrated coagulation samples are stable for 14 days at -20oC, post centrifugation. This study is available in-house for reference.
ESR Ref Ranges
Units of Measurement
MALE
FEMALE
>50 Years
mm/hr
0 - ≤12
0 - ≤15
<50 Years
mm/hr
0 - ≤8
0 - ≤10
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Analyte
Units of Measurement
MALE
FEMALE
WBC
10^9/L
4.0–10.0
4.0 - 10.0
RBC
10^12/L
5.0 ± 0.5
4.3 ± 0.5
HB
g/dL
15.0 ± 2.0
13.5 ± 1.5
HCT
L/L
0.45 ± 0.05
0.41 ± 0.05
MCV
fL
92 ± 9
92 ± 9
MCH
pg
29.5 ± 2.5
29.5 ± 2.5
MCHC
g/dL
33.0 ± 1.5
33.0 ± 1.5
PLT
10^9/L
280 ± 130
280 ± 130
MPV
fL
N/A
N/A
RDW
%
11.6 - 14.0
11.6 - 14.0
#Neut
10^9/L
2.0 – 7.0 (40 - 80%)
2.0 – 7.0 (40 - 80%)
#Lymph
10^9/L
1.0 – 3.0 (20 - 40%)
1.0 – 3.0 (20 - 40%)
#Mono
10^9/L
0.2 – 1.0 (2 - 10%)
0.2 – 1.0 (2 - 10%)
#Eos
10^9/L
0.02 – 0.5 (1 - 6%)
0.02 – 0.5 (1 - 6%)
#Baso
10^9/L
0.02 – 0.1 (<1 - 2%)
0.02 – 0.1 (<1 - 2%)
Analyte
Units of Measurement
MALE & FEMALE
WBC
10^9/L
Birth: 18 ± 8
Day 3: 15 ± 8
Day 7: 14 ± 8
Day 14: 14 ± 8
1 Month: 12 ± 7
2 Months: 10 ± 5
3–6 Months: 12 ± 6
1 Year: 11 ± 5
2–6 Years: 10 ± 5
6–12 Years: 9 ± 4
RBC
10^12/L
Birth: 6.0 ± 1.0
Day 3: 5.3 ± 1.3
Day 7: 5.1 ± 1.2
Day 14: 4.9 ± 1.3
1 Month: 4.2 ± 1.2
2 Months: 3.7 ± 0.6
3–6 Months: 4.7 ± 0.6
1 Year: 4.5 ± 0.6
2–6 Years: 4.6 ± 0.6
6–12 Years: 4.6 ± 0.6
HB
g/dL
Birth: 18.0 ± 4.0
Day 3: 18.0 ± 3.0
Day 7: 17.5 ± 4.0
Day 14: 16.5 ± 4.0
1 Month: 14.0 ± 2.5
2 Months: 11.2± 1.8
3–6 Months: 12.6 ± 1.5
1 Year: 12.6 ± 1.5
2–6 Years: 12.5 ± 1.5
6–12 Years: 13.5 ± 2.0
HCT
L/L
Birth: 0.60 ± 0.15
Day 3: 0.56 ± 0.11
Day 7: 0.54 ± 0.12
Day 14: 0.51 ± 0.12
1 Month: 0.43 ± 0.10
2 Months: 0.35 ± 0.07
3–6 Months: 0.35 ± 0.05
1 Year: 0.34 ± 0.04
2–6 Years: 0.37 ± 0.03
6–12 Years: 0.40 ± 0.05
MCV
fL
Birth: 110 ± 10
Day 3: 105 ± 13
Day 7: 107 ± 19
Day 14: 105 ± 19
1 Month: 104 ± 12
2 Months: 95 ± 8
3–6 Months: 76 ± 8
1 Year: 78 ± 6
2–6 Years: 81 ± 6
6–12 Years: 86 ± 9
MCH
pg
Birth: 34 ± 3
Day 3: 34 ± 3
Day 7: 34 ± 3
Day 14: 34 ± 3
1 Month: 33 ± 3
2 Months: 30 ± 3
3–6 Months: 27 ± 3
1 Year: 27 ± 2
2–6 Years: 27 ± 3
6–12 Years: 29 ± 4
MCHC
g/dL
Birth: 33.0 ± 3.0
Day 3: 33.0 ± 4.0
Day 7: 33.0 ± 5.0
Day 14: 33.0 ± 5.0
1 Month: 33.0 ± 4.0
2 Months: 32.0 ± 3.5
3–6 Months: 33.0 ± 3.0
1 Year: 34.0 ± 2.0
2–6 Years: 34.0 ± 3.0
6–12 Years: 34.0 ± 3.0
PLT
10^9/L
Birth: 100 – 450
Day 3: 210 – 500
Day 7: 160 – 500
Day 14: 170 – 500
1 Month: 200 – 500
2 Months: 210 – 650
3–6 Months: 200 – 550
1 Year: 200 – 550
2–6 Years: 200 – 490
6–12 Years: 170 – 450
Reticulocytes
10^9/L
Birth: 120 – 400
Day 3: 50 – 350
Day 7: 50 – 100
Day 14: 50 - 100
1 Month: 20 – 60
2 Months: 30 – 50
3–6 Months: 40 – 100
1 Year: 30 – 100
2–6 Years: 30 – 100
6–12 Years: 30 – 100
#Neut
10^9/L
Birth: 4 – 14
Day 3: 3 – 5
Day 7: 3 – 6
Day 14: 3 – 7
1 Month: 3 – 9
2 Months: 1.0 – 5
3–6 Months: 1 – 6
1 Year: 1 – 7
2–6 Years: 1.5 – 8
6–12 Years: 2 – 8
#Lymph
10^9/L
Birth: 3 – 8
Day 3: 2 – 8
Day 7: 3 – 9
Day 14: 3 – 9
1 Month: 3 – 16
2 Months: 4 – 10
3–6 Months: 4 – 12
1 Year: 3.5 – 11
2–6 Years: 6 - 9
6–12 Years: 1 - 5
#Mono
10^9/L
Birth: 0.5 – 2.0
Day 3: 0.5 – 1.0
Day 7: 0.1 – 1.7
Day 14: 0.1 – 1.7
1 Month: 0.3 – 1.0
2 Months: 0.4 – 1.2
3–6 Months: 0.2 – 1.2
1 Year: 0.2 – 1.0
2–6 Years: 0.2 – 1.0
6–12 Years: 0.2 – 1.0
#Eos
10^9/L
Birth: 0.1 – 1.0
Day 3: 0.1 – 2.0
Day 7: 0.1 – 0.8
Day 14: 0.1 – 0.9
1 Month: 0.2 – 1.0
2 Months: 0.1 – 1.0
3–6 Months: 0.1 – 1.0
1 Year: 0.1 – 1.0
2–6 Years: 0.1 – 1.0
6–12 Years: 0.1 – 1.0
Reference Ranges:
Age
Absolute Reference Range
Age
% Reference Range
0 - 1 day
324 - 617 x109/L
0 - 1 day
1.72 - 8.62%
1 - 5 days
85 - 400 x109/L
1 - 5 days
1.9 - 9.1%
5 days - 1 mth
34.2 - 724 x109/L
5 days - 1 mth
0.1 - 6.9%
1 - 3 mths
21.3 - 205 x109/L
1 - 3 mths
0.1 - 6.27%
3 - 12 mths
8.0 - 171 x109/L
3 - 12 mths
0.1 - 4.7%
1 - 3 yrs
55.6 - 120 x109/L
1 - 3 yrs
0.35 - 2.95%
3 - 7yrs
16.4 - 120.7 x109/L
3 - 7yrs
0.25 - 2.57%
Adult
35.2 - 122.8 x109/L
Adult
0.75 - 2.7%
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