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infectious disease specifications

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TECHNICAL SPECIFICATIONS

Many types and species of microorganisms are causative of infections in humans and the specialized tests that we perform can identify some of these. Our tests utilize real time PCR (qPCR) amplification to detect the presence of a microorganism in a specimen by amplifying the genomic material of the organism(s). The microorganism(s) we test for are listed below in Test Menus. Amplification and detection are performed using a the Applied Biosystems™ QuantStudio™ 7 Flex real time PCR system which includes the QuantStudio™ Real-Time PCR Software. Real time PCR amplification is performed using validated multiplex real-time PCR assays utilizing hydrolysis probe technology to identify target nucleic acids. The primer/probes are pre-dispensed into a qPCR plate to be used in conjunction with nucleic acids extracted from a variety of sample types and include essential control assays to ensure dependable results. 

ANTIBIOTIC RESISTANCE GENES (Abx Res)

These methodologies allow Southwest Labs to rapidly and simultaneously test for many infectious organisms as well as some of the most common genes known to confer possible resistance to antibiotics. Given this, all of these possible tests return an independent binary result: present or absent. For this reason, it is not possible for Southwest labs to determine which of two (or more) detected bacterial pathogens contain any simultaneously detected antibiotic resistance gene (s) from the same specimen. Therefore, in polymicrobial specimen results of this type, medical providers could assume the antibiotic resistance genes were present in all detected bacterial microorganisms when they are selecting a treatment as a means of reducing the likelihood of antibiotic failure due to antibiotic resistance.

TREATMENT RECOMMENDATIONS & DISCLAIMER

Our tests can simultaneously detect the possible presence of many infectious organisms as well as some of the most common genes known to confer possible resistance to antibiotics. As a courtesy to medical providers, our tests result software utilizes these data points to generate some clinical treatment information for consideration by the ordering provider. The resources used to compile this information were the Sanford Guide™ the Comprehensive Antibiotic Resistance Database™, UpToDate™, The Infectious Diseases Society of America (IDSA), and the advice of experienced medical professionals. However, any and all information relating to possible treatment of infectious disease(s) provided by Southwest Labs is done so exclusively as an informational courtesy alone. Any and all decisions to treat our not treat an infection and/or what treatments to use for an infection(s) must be made at the sole direction of the medical provider using clinical judgement and information. Southwest Labs does not make medical diagnoses and does not provide medical treatment. Southwest Labs is not responsible for any treatment decision(s) made by ordering providers.

PNEUMONIA PANEL

Bacterial Targets:

  • Acinetobacter baumanii

  • Bordetella pertussis, parapertussis, bronchiseptica

  • Chlamydia pneumoniae

  • Enterobacter cloacae complex / Klebsiella (Enterobacter) aerogenes

  • Escherichia coli

  • Haemophilus influenzae

  • Klebsiella oxytoca

  • Klebsiella pneumoniae

  • Legionella pneumophila

  • Moraxella catarrhalis

  • Mycoplasma pneumoniae

  • Nocardia spp

  • Proteus mirabilis, vulgaris

  • Pseudomonas aeruginosa

  • Serratia marcescens

  • Staphylococcus aureus

  • Streptococcus agalactiae (Group B)

  • Streptococcus pneumoniae

Fungal Targets:

  • Aspergillus spp. (flavus, niger, terreus, fumigatus)

  • Candida albicans, parapsilosis, tropicalis

  • Candida glabrata

Viral Targets:

  • Adenovirus

  • Coronavirus (229E, HKU1, NL63, and OC43)

  • COVID-19 Coronavirus (SARS-CoV-2)

  • Cytomegalovirus

  • Enterovirus D68

  • Human metapneumovirus

  • Influenza virus A, B

  • Parainfluenza virus (types 1, 2, 3, 4)

  • Respiratory syncytial virus

  • Rhinovirus / Enterovirus

Antiobiotic Resistance Genes:

  • ACT/MIR, FOX, ACC Groups

  • CTX-M Groups

  • DfrA1, DfrA5, Sul1, Sul2, Sul3

  • ermA, ermB, erm C, mefA

  • IMP, NDM, VIM Groups

  • mecA, mecC

  • OXA48, OXA51

  • qnrA1/A2, qnrB2, qnrS

  • SVH, KPC Groups

  • tetB, tetM

  • vanA, vanB

PHARYNGITIS / LARYNGITIS PANEL

BACTERIAL TARGETS:

  • Chlamydia pneumoniae

  • Fusobacterium nucleatum / Fusobacterium necrophorum

  • Mycoplasma pneumoniae

  • Streptococcus dysgalactiae subsp. Equisimilis

  • Streptococcus pyogenes (Group A)

FUNGAL TARGETS:

  • Candida albicans, parapsilosis, tropicalis

  • Candida glabrata

 

VIRAL TARGETS:

  • Adenovirus

  • Coronavirus (229E, HKU1, NL63, and OC43)

  • COVID-19 Coronavirus (SARS-CoV-2)

  • Enterovirus D68

  • Epstein-Barr Virus

  • HSV Type 1 & 2

  • Human metapneumovirus

  • Influenza virus A, B

  • Parainfluenza virus (types 1, 2, 3, 4)

  • Respiratory syncytial virus

  • Rhinovirus / Enterovirus

ANTIBIOTIC RESISTANCE GENES:

  • ACT/MIR, FOX, ACC Groups

  • CTX-M Groups

  • DfrA1, DfrA5, Sul1, Sul2, Sul3

  • ermA, ermB, erm C, mefA

  • IMP, NDM, VIM Groups

  • mecA, mecC

  • OXA48, OXA51

  • qnrA1/A2, qnrB2, qnrS

  • SVH, KPC Groups

  • tetB, tetM

  • vanA, vanB

CHRONIC NONVIRAL SINUSITIS PANEL

BACTERIAL TARGETS:

  • Fusobacterium nucleatum / Fusobacterium necrophorum

  • Haemophilus influenzae

  • Moraxella catarrhalis

  • Nocardia spp

  • Pseudomonas aeruginosa

  • Staphylococcus aureus

  • Streptococcus pneumoniae

FUNGAL TARGETS:

  • Aspergillus spp. (flavus, niger, terreus, fumigatus)

  • Candida albicans, parapsilosis, tropicalis

  • Candida glabrata

ANTIBIOTIC RESISTANCE GENES:

  • ACT/MIR, FOX, ACC Groups

  • CTX-M Groups

  • DfrA1, DfrA5, Sul1, Sul2, Sul3

  • ermA, ermB, erm C, mefA

  • IMP, NDM, VIM Groups

  • mecA, mecC

  • OXA48, OXA51

  • qnrA1/A2, qnrB2, qnrS

  • SVH, KPC Groups

  • tetB, tetM

  • vanA, vanB

ACUTE VIRAL RHINOSINUSITIS PANEL

VIRAL TARGETS:

  • Adenovirus

  • Coronavirus (229E, HKU1, NL63, and OC43)

  • COVID-19 Coronavirus (SARS-CoV-2)

  • Enterovirus D68

  • Human metapneumovirus

  • Influenza virus A, B

  • Parainfluenza virus (types 1, 2, 3, 4)

  • Respiratory syncytial virus

ACUTE RESPIRATORY VIRUSES PANEL

VIRAL TARGETS:

  • Influenza A and B

  • Respiratory Syncytial Virus

  • SARS-CoV-2

URINARY TRACT INFECTION + SEXUAL ACTIVITY PANEL

BACTERIAL TARGETS:

  • Acinetobacter baumannii

  • Chlamydia trachomatis

  • Citrobacter freundii

  • Enterobacter cloacae complex

  • Enterococcus faecalis

  • Enterococcus faecium

  • Escherichia coli

  • Klebsiella aerogenes

  • Klebsiella oxytoca

  • Klebsiella pneumoniae

  • Morganella morganii

  • Mycoplasma genitalium

  • Mycoplasma hominis

  • Neisseria gonorrhoeae

  • Proteus mirabilis

  • Proteus vulgaris

  • Pseudomonas aeruginosa

  • Serratia marcescens

  • Staphylococcus aureus

  • Staphylococcus epidermidis, haemolyticus, lugdunensis

  • Staphylococcus saprophyticus

  • Streptococcus agalactiae (Group B)

  • Streptococcus pyogenes (Group A)

  • Ureaplasma parvum

  • Ureaplasma urealyticum

FUNGAL TARGETS:

  • Candida albicans, parapsilosis, tropicalis

  • Candida glabrata

  • Candida krusei

PARASITIC TARGETS:

  • Trichomonas vaginalis

ANTIBIOTIC RESISTANCE GENES:

  • ACT/MIR, FOX, ACC Groups

  • CTX-M Groups

  • DfrA1, DfrA5, Sul1, Sul2, Sul3

  • ermA, ermB, erm C, mefA

  • IMP, NDM, VIM Groups

  • mecA, mecC

  • OXA48, OXA51

  • qnrA1/A2, qnrB2, qnrS

  • SVH, KPC Groups

  • tetB, tetM

  • vanA, vanB

URINARY TRACT INFECTION PANEL

BACTERIAL TARGETS:

  • Acinetobacter baumannii

  • Citrobacter freundii

  • Enterobacter cloacae complex

  • Enterococcus faecalis

  • Enterococcus faecium

  • Escherichia coli

  • Klebsiella aerogenes

  • Klebsiella oxytoca

  • Klebsiella pneumoniae

  • Morganella morganii

  • Proteus mirabilis

  • Proteus vulgaris

  • Pseudomonas aeruginosa

  • Serratia marcescens

  • Staphylococcus aureus

  • Staphylococcus epidermidis, haemolyticus, lugdunensis

  • Staphylococcus saprophyticus

  • Streptococcus agalactiae (Group B)

  • Streptococcus pyogenes (Group A)

FUNGAL TARGETS:

  • Candida albicans, parapsilosis, tropicalis

  • Candida glabrata

  • Candida krusei

ANTIBIOTIC RESISTANCE GENES:

  • ACT/MIR, FOX, ACC Groups

  • CTX-M Groups

  • DfrA1, DfrA5, Sul1, Sul2, Sul3

  • ermA, ermB, erm C, mefA

  • IMP, NDM, VIM Groups

  • mecA, mecC

  • OXA48, OXA51

  • qnrA1/A2, qnrB2, qnrS

  • SVH, KPC Groups

  • tetB, tetM

  • vanA, vanB

WOMEN'S HEALTH PANEL

BACTERIAL TARGETS:

  • Atopobium vaginae

  • BVAB 2, 3 (bacterial vaginosis associated bacteria 2, 3)

  • Chlamydia trachomatis

  • Gardnerella vaginalis

  • Megasphaera (types 1, 2)

  • Mobiluncus spp.

  • Mycoplasma genitalium

  • Mycoplasma hominis

  • Neisseria gonorrhoeae

  • Ureaplasma parvum

  • Ureaplasma urealyticum

FUNGAL TARGETS:

  • Candida albicans, parapsilosis, tropicalis

  • Candida glabrata (Nakaseomyces glabratus)

  • Candida krusei (Pichia kudriavzevii)

PARASITIC TARGETS:

  • Trichomonas vaginalis

VIRAL TARGETS:

  • Herpes simplex virus Type 1 and 2

  • HPV Types 16 and 18

ANTIBIOTIC RESISTANCE GENES:

  • ACT/MIR, FOX, ACC Groups

  • CTX-M Groups

  • DfrA1, DfrA5, Sul1, Sul2, Sul3

  • ermA, ermB, erm C, mefA

  • IMP, NDM, VIM Groups

  • mecA, mecC

  • OXA48, OXA51

  • qnrA1/A2, qnrB2, qnrS

  • SVH, KPC Groups

  • tetB, tetM

  • vanA, vanB

SEXUALLY TRANSMITTED INFECTION PANEL

BACTERIAL TARGETS:

  • Chlamydia trachomatis

  • Mycoplasma genitalium

  • Mycoplasma hominis

  • Neisseria gonorrhoeae

  • Ureaplasma parvum

  • Ureaplasma urealyticum

VIRAL TARGETS:

  • Herpes simplex virus 1 and 2

  • HPV Types 16 and 18

PARASITIC TARGETS:

  • Trichomonas vaginalis

ANTIBIOTIC RESISTANCE GENES:

  • ACT/MIR, FOX, ACC Groups

  • CTX-M Groups

  • DfrA1, DfrA5, Sul1, Sul2, Sul3

  • ermA, ermB, erm C, mefA

  • IMP, NDM, VIM Groups

  • mecA, mecC

  • OXA48, OXA51

  • qnrA1/A2, qnrB2, qnrS

  • SVH, KPC Groups

  • tetB, tetM

  • vanA, vanB

Ana Valdez

Chief of Laboratory Operations

Jennine Griffith-Vandi MB(ASCP)CM

Director of Pre-Analytic & Molecular Operations

Southwest Labs Regional Sales Representatives