Molecular Biology & Genomics Centre

Pathogen Identification


Molecular based methods have advanced the centre testing to faster and better diagnostics. PCR methods, microarray and next generation sequencing have provided speed and high level of accuracy. Molecular biology based methods are sensitive and quick to detect microbial pathogens in various clinical specimens. We offer molecular detection of pathogenic viruses, bacteria and parasites from clinical specimens. MBG is ISO 15189 accredited and benefits from a stand-alone containment Level 3 facility where samples for highly contagious pathogen are received and processed.


All Bacteria Virus Fungi Parasite


Accredited
Assay Code HPM-020
Description Coronaviruses are positive-stranded RNA viruses causing mainly respiratory and enteric disease in a range of animals and in humans. Four different human coronaviruses (hCoV) circulate at a global population level. These cause the common cold. The fifth important hCoV is SARS-CoV, which appeared for a limited time period during 2002 and 2003. It caused an outbreak affecting at least 8,000 people. During September 2012, health authorities were notified of several cases of severe hCoV infection caused by a novel virus type hCoV-EMC. The strain was redefined by the International Committee on Taxonomy of Viruses into Middle East respiratory syndrome coronavirus MERS-CoV since it was first reported in Saudi Arabia.
MERS-CoV is a beta coronavirus. Most people infected with MERS-CoV developed severe acute respiratory illness with symptoms of fever, cough, and shortness of breath. MERS-CoV has been shown to spread between people who are in close contact.

Method Real-Time RT-PCR
Sample Type
Accredited : Swab / Secretion (Respiratory).
Transport Condition Samples should be transported at 4°C.
Specimens must be sent in RNA Preservative media. Contact MBG Lab for specimen tubes containing RNA preservative if required.
Turn Around Time (TAT) TAT for routine samples is within 3 working days. Samples delivered after 11:00 AM will be processed next working day (unless urgent).
Urgent Samples will be reported within 24-48 hours and will be charged double.

Links

Validated
Assay Code See Below
Description Monkeypox is a viral zoonotic disease, caused by Monkeypox virus which is recognized as the most important orthopoxvirus infecton after the eradication of smallpox.
Monkeypox virus belongs to the Orthopoxvirus genus in the family Poxviridae. The Orthopoxvirus genus also includes variola virus (which causes smallpox), vaccinia virus (used in the smallpox vaccine), and cowpox virus.
Monkeypox was first discovered in 1958 when two outbreaks of a pox-like disease occurred in colonies of monkeys kept for research, hence the name Monkeypox. The first human case of Monkeypox was recorded in 1970 in the Democratic Republic of the Congo (DRC) during a period of intensified effort to eliminate smallpox
Monkeypox is an infectious viral disease that can occur in both humans and some other animals. Early symptoms include fever, headache, muscle pains, shivering, backache, and feeling extremely tired. Typically there are swollen lymph nodes behind the ear, below the jaw, in the neck or in the groin. This is followed by a rash that forms blisters and crusts over; most frequently in the mouth, on the face, hands and feet, genitals and eyes. The time from exposure to onset of symptoms is on average 12 days; though ranges from five to 21 days. The duration of symptoms is typically two to four weeks. Cases may be severe, especially in children, pregnant women or people with suppressed immune systems.

Method HPM-215: PCR & Sequencing.
HPM-216: Real-Time PCR.


Sample Type
Tissue (Skin lesions), Swabs/Secretions(Abscess/lesions)
Transport Condition Samples should be transported at 4°C and delivered within 24 hours.
Turn Around Time (TAT) TAT for routine samples is within 3 working days. Samples delivered after 11:00 AM will be processed next working day (unless urgent).
Urgent Samples will be reported within 24-48 hours and will be charged double.

Links

Validated
Assay Code See Below
Description Mycobacterium is a genus of Actinobacteria, family Mycobacteriaceae. Over 190 species are recognized in this genus. This genus includes pathogens known to cause serious diseases in mammals, including tuberculosis (Mycobacterium tuberculosis) and leprosy (Mycobacterium leprae) in humans. Bovine tuberculosis is a chronic disease of animals and humans caused by Mycobacterium bovis.

Tuberculosis (TB) is caused by a bacterium called Mycobacterium tuberculosis. The bacteria usually attack the lungs, but TB bacteria can attack any part of the body such as the kidney, spine, and brain. Not everyone infected with TB bacteria becomes sick. As a result, two TB-related conditions exist: latent TB infection (LTBI) and TB disease. If not treated properly, TB disease can be fatal. There are two kinds of tests that are used to detect TB bacteria in the body: the TB skin test (TST) and TB blood tests. A positive TB skin test or TB blood test only tells that a person has been infected with TB bacteria. It does not tell whether the person has latent TB infection (LTBI) or has progressed to TB disease. Other tests, such as a chest x-ray and a sample of sputum, are needed to see whether the person has TB disease.

Pathogens Tested
  • HPM-038 : Mycobacterium species (This assay includes the detection of Mycobacterium species. This assay can detect M. austroafricanum, M.avium subsp. avium,M.bovis BCG, M.chelonae, M.gordonae, M.fortuitum subsp.fortuitum, M.insubricum, M.intracellulare, M.kansasii, M.marium, M.mucogenicum, M.peregrinum, M.porcinum, M.scrofulaceum, M.setense, M.simiae, M.smegmatis, M.terrae, M.tuberculosis, M.ulcerans, M.xenopi)
  • HPM-100 : Mycobacterium tuberculosis (This assay includes the detection of Mycobacterium species and Mycobacterium tuberculosis.)

Method Real-Time PCR.
Sample Type
For Mycobacterium species: EDTA blood, Stool, Swab / Secretion (Respiratory), Tissue(Biopsy), Culture, CSF, Urine (for urinary TB).
For Mycobacterium tuberculosis: Swab / Secretion (Respiratory), Tissue(Biopsy), CSF, Urine (for urinary TB)
Transport Condition Samples should be transported at 4°C. Stool should be transported to MBG Lab within 24h of collection.
Turn Around Time (TAT) TAT for routine samples is within 3 working days. Samples delivered after 11:00 AM will be processed next working day (unless urgent).
Urgent Samples will be reported within 24-48 hours and will be charged double.

Links

Validated
Assay Code HPM-041
Description Mycoplasma refers to a genus of bacteria that are the smallest living cells known. They can be parasitic or saprotrophic.

Mycoplasma pneumoniae causes the disease mycoplasma pneumonia, a form of atypical bacterial pneumonia, and is related to cold agglutinin disease. It is also referred to as walking pneumonia. Symptoms include cough that may come in violent spasms but produce very little mucus, mild flu-like symptoms such as fever and chills, sore throat, headache, tiredness malaise and community-acquired pneumonia (CAP). It is spread by contact with droplets from nose and throat of an infected person.

Mycoplasma genitalium is a small parasitic bacterium that lives on cilated epithelial cells of the genital tract and is sexually transmitted. In women symptoms such as vaginal itching, burning while urinating, discharge, pain during intercourse may appear. In the long term, this infection is suspected to cause pelvic inflammatory disease and cervicitis. In men, it is a major agent in urogenital tract disease.

Pathogens TestedThis assay can detect many Mycoplasma species including Mycoplasma agassizii,Mycoplasma anatis, Mycoplasma anseris, Mycoplasma arginini,Mycoplasma arthritidis,Mycoplasma auris, Mycoplasma buccale, Mycoplasma canadense,Mycoplasma cloacale,Mycoplasma collis, Mycoplasma columborale, Mycoplasma cricetuli, Mycoplasma cynos,Mycoplasma falconis,Mycoplasma faucium, Mycoplasma felis, Mycoplasma gateae,Mycoplasma gypis, Mycoplasma hominis, Mycoplasma hyopharyngis, Mycoplasma hyorhinis,Mycoplasma hyosynoviae, Mycoplasma iguana, Mycoplasma lagogenitalium, Mycoplasma leonicaptivi, Mycoplasma molare, Mycoplasma mustelae, Mycoplasma neophronis,Mycoplasma neurolyticum, Mycoplasma orale, Mycoplasma phocicerebrale, Mycoplasma phocidae, Mycoplasma salivarium, Mycoplasma spumans, Mycoplasma timone, and Mycoplasma zalophi .

The assay cannot detect Mycoplasma pneumoniae, Mycoplasma gallisepticum and Mycoplasma pulmonis.

Method Real-Time PCR
Sample Type
Tissue, EDTA blood, Swab/ Secretion (Respiratory), Swab / Secretion (Conjunctival), Swab/ Secretion (Genital), CSF, Culture.
Transport Condition Samples should be transported at 4°C.
Turn Around Time (TAT) TAT for routine samples is within 3 working days. Samples delivered after 11:00 AM will be processed next working day (unless urgent).
Urgent Samples will be reported within 24-48 hours and will be charged double.

Links




Molecular Biology & Genomics Centre

Pathogen Identification


Molecular based methods have advanced the centre testing to faster and better diagnostics. PCR methods, microarray and next generation sequencing have provided speed and high level of accuracy. Molecular biology based methods are sensitive and quick to detect microbial pathogens in various clinical specimens. We offer molecular detection of pathogenic viruses, bacteria and parasites from clinical specimens. MBG is ISO 15189 accredited and benefits from a stand-alone containment Level 3 facility where samples for highly contagious pathogen are received and processed.


All Bacteria Virus Fungi Parasite


Accredited
Assay Code HPM-020
Description Coronaviruses are positive-stranded RNA viruses causing mainly respiratory and enteric disease in a range of animals and in humans. Four different human coronaviruses (hCoV) circulate at a global population level. These cause the common cold. The fifth important hCoV is SARS-CoV, which appeared for a limited time period during 2002 and 2003. It caused an outbreak affecting at least 8,000 people. During September 2012, health authorities were notified of several cases of severe hCoV infection caused by a novel virus type hCoV-EMC. The strain was redefined by the International Committee on Taxonomy of Viruses into Middle East respiratory syndrome coronavirus MERS-CoV since it was first reported in Saudi Arabia.
MERS-CoV is a beta coronavirus. Most people infected with MERS-CoV developed severe acute respiratory illness with symptoms of fever, cough, and shortness of breath. MERS-CoV has been shown to spread between people who are in close contact.

Method Real-Time RT-PCR
Sample Type
Accredited : Swab / Secretion (Respiratory).
Transport Condition Samples should be transported at 4°C.
Specimens must be sent in RNA Preservative media. Contact MBG Lab for specimen tubes containing RNA preservative if required.
Turn Around Time (TAT) TAT for routine samples is within 3 working days. Samples delivered after 11:00 AM will be processed next working day (unless urgent).
Urgent Samples will be reported within 24-48 hours and will be charged double.

Links

Validated
Assay Code See Below
Description Monkeypox is a viral zoonotic disease, caused by Monkeypox virus which is recognized as the most important orthopoxvirus infecton after the eradication of smallpox.
Monkeypox virus belongs to the Orthopoxvirus genus in the family Poxviridae. The Orthopoxvirus genus also includes variola virus (which causes smallpox), vaccinia virus (used in the smallpox vaccine), and cowpox virus.
Monkeypox was first discovered in 1958 when two outbreaks of a pox-like disease occurred in colonies of monkeys kept for research, hence the name Monkeypox. The first human case of Monkeypox was recorded in 1970 in the Democratic Republic of the Congo (DRC) during a period of intensified effort to eliminate smallpox
Monkeypox is an infectious viral disease that can occur in both humans and some other animals. Early symptoms include fever, headache, muscle pains, shivering, backache, and feeling extremely tired. Typically there are swollen lymph nodes behind the ear, below the jaw, in the neck or in the groin. This is followed by a rash that forms blisters and crusts over; most frequently in the mouth, on the face, hands and feet, genitals and eyes. The time from exposure to onset of symptoms is on average 12 days; though ranges from five to 21 days. The duration of symptoms is typically two to four weeks. Cases may be severe, especially in children, pregnant women or people with suppressed immune systems.

Method HPM-215: PCR & Sequencing.
HPM-216: Real-Time PCR.


Sample Type
Tissue (Skin lesions), Swabs/Secretions(Abscess/lesions)
Transport Condition Samples should be transported at 4°C and delivered within 24 hours.
Turn Around Time (TAT) TAT for routine samples is within 3 working days. Samples delivered after 11:00 AM will be processed next working day (unless urgent).
Urgent Samples will be reported within 24-48 hours and will be charged double.

Links

Validated
Assay Code See Below
Description Mycobacterium is a genus of Actinobacteria, family Mycobacteriaceae. Over 190 species are recognized in this genus. This genus includes pathogens known to cause serious diseases in mammals, including tuberculosis (Mycobacterium tuberculosis) and leprosy (Mycobacterium leprae) in humans. Bovine tuberculosis is a chronic disease of animals and humans caused by Mycobacterium bovis.

Tuberculosis (TB) is caused by a bacterium called Mycobacterium tuberculosis. The bacteria usually attack the lungs, but TB bacteria can attack any part of the body such as the kidney, spine, and brain. Not everyone infected with TB bacteria becomes sick. As a result, two TB-related conditions exist: latent TB infection (LTBI) and TB disease. If not treated properly, TB disease can be fatal. There are two kinds of tests that are used to detect TB bacteria in the body: the TB skin test (TST) and TB blood tests. A positive TB skin test or TB blood test only tells that a person has been infected with TB bacteria. It does not tell whether the person has latent TB infection (LTBI) or has progressed to TB disease. Other tests, such as a chest x-ray and a sample of sputum, are needed to see whether the person has TB disease.

Pathogens Tested
  • HPM-038 : Mycobacterium species (This assay includes the detection of Mycobacterium species. This assay can detect M. austroafricanum, M.avium subsp. avium,M.bovis BCG, M.chelonae, M.gordonae, M.fortuitum subsp.fortuitum, M.insubricum, M.intracellulare, M.kansasii, M.marium, M.mucogenicum, M.peregrinum, M.porcinum, M.scrofulaceum, M.setense, M.simiae, M.smegmatis, M.terrae, M.tuberculosis, M.ulcerans, M.xenopi)
  • HPM-100 : Mycobacterium tuberculosis (This assay includes the detection of Mycobacterium species and Mycobacterium tuberculosis.)

Method Real-Time PCR.
Sample Type
For Mycobacterium species: EDTA blood, Stool, Swab / Secretion (Respiratory), Tissue(Biopsy), Culture, CSF, Urine (for urinary TB).
For Mycobacterium tuberculosis: Swab / Secretion (Respiratory), Tissue(Biopsy), CSF, Urine (for urinary TB)
Transport Condition Samples should be transported at 4°C. Stool should be transported to MBG Lab within 24h of collection.
Turn Around Time (TAT) TAT for routine samples is within 3 working days. Samples delivered after 11:00 AM will be processed next working day (unless urgent).
Urgent Samples will be reported within 24-48 hours and will be charged double.

Links

Validated
Assay Code HPM-041
Description Mycoplasma refers to a genus of bacteria that are the smallest living cells known. They can be parasitic or saprotrophic.

Mycoplasma pneumoniae causes the disease mycoplasma pneumonia, a form of atypical bacterial pneumonia, and is related to cold agglutinin disease. It is also referred to as walking pneumonia. Symptoms include cough that may come in violent spasms but produce very little mucus, mild flu-like symptoms such as fever and chills, sore throat, headache, tiredness malaise and community-acquired pneumonia (CAP). It is spread by contact with droplets from nose and throat of an infected person.

Mycoplasma genitalium is a small parasitic bacterium that lives on cilated epithelial cells of the genital tract and is sexually transmitted. In women symptoms such as vaginal itching, burning while urinating, discharge, pain during intercourse may appear. In the long term, this infection is suspected to cause pelvic inflammatory disease and cervicitis. In men, it is a major agent in urogenital tract disease.

Pathogens TestedThis assay can detect many Mycoplasma species including Mycoplasma agassizii,Mycoplasma anatis, Mycoplasma anseris, Mycoplasma arginini,Mycoplasma arthritidis,Mycoplasma auris, Mycoplasma buccale, Mycoplasma canadense,Mycoplasma cloacale,Mycoplasma collis, Mycoplasma columborale, Mycoplasma cricetuli, Mycoplasma cynos,Mycoplasma falconis,Mycoplasma faucium, Mycoplasma felis, Mycoplasma gateae,Mycoplasma gypis, Mycoplasma hominis, Mycoplasma hyopharyngis, Mycoplasma hyorhinis,Mycoplasma hyosynoviae, Mycoplasma iguana, Mycoplasma lagogenitalium, Mycoplasma leonicaptivi, Mycoplasma molare, Mycoplasma mustelae, Mycoplasma neophronis,Mycoplasma neurolyticum, Mycoplasma orale, Mycoplasma phocicerebrale, Mycoplasma phocidae, Mycoplasma salivarium, Mycoplasma spumans, Mycoplasma timone, and Mycoplasma zalophi .

The assay cannot detect Mycoplasma pneumoniae, Mycoplasma gallisepticum and Mycoplasma pulmonis.

Method Real-Time PCR
Sample Type
Tissue, EDTA blood, Swab/ Secretion (Respiratory), Swab / Secretion (Conjunctival), Swab/ Secretion (Genital), CSF, Culture.
Transport Condition Samples should be transported at 4°C.
Turn Around Time (TAT) TAT for routine samples is within 3 working days. Samples delivered after 11:00 AM will be processed next working day (unless urgent).
Urgent Samples will be reported within 24-48 hours and will be charged double.

Links