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Streptococcus (Group A) Identification - Isolate

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Aliases

GAS, S. pyogenes, Streptococcus pyogenes

Test Name
Streptococcus (Group A) Identification - Isolate
Test Code

GASID

Methodology

MALDI-TOF (matrix-assisted laser desorption ionization-time of flight) mass spectrometry

Overview/Supplementary

This test confirms the identification of group A Streptococcus. This test is for surveillance of invasive disease caused by group A streptococci.

Turn Around Time

Not Applicable

Specimen Requirements

Isolates: Actively growing culture from an invasive site on media that support the growth of the bacterial isolate submitted.

Special Considerations

For surveillance use only. Results not reported back to submitter.

This organism is reportable and submission of clinical materials is required by the MN Reportable Disease Rule 4605.7000 - 4605.7900 (https://www.health.state.mn.us/diseases/reportable/rule/index.html).

Transport/Stability

Store and ship at ambient (8°C to 25°C) or refrigeration (2°C to 8°C) temperature.

Interface/Codes

LOINC: 17656-0

Test Resource ID
938

Shigella Identification - Isolate

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Aliases
Test Name
Shigella Identification - Isolate
Test Code

SHIGID

Methodology

Biochemicals, Serology

Overview/Supplementary

This test identifies Shigella spp. from submitted isolates.

Turn Around Time

1-3 days

Specimen Requirements

Isolates: Actively growing culture on media that support the growth of the bacterial isolate submitted.

Special Considerations

This organism is reportable and submission of clinical materials is required by the MN Reportable Disease Rule 4605.7000 - 4605.7900 (https://www.health.state.mn.us/diseases/reportable/rule/index.html).

Transport/Stability

Store at ambient (8°C to 25°C) temperature. Ship at ambient (8°C to 25°C) or refrigeration (2°C to 8°C) temperature.

Interface/Codes
Test Resource ID
936

Shigella Culture - Stool

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Aliases

Shigellosis, EIEC/Shigella

Test Name
Shigella Culture - Stool
Test Code

RDRSPEC

Methodology

Biochemicals, Culture, Serology

Overview/Supplementary

This test isolates Shigella species from clinical specimens.

Culture-independent diagnostic tests (CIDTs), like BioFire FilmArray, target the ipaH gene to detect both Shigella and Enteroinvasive Escherichia coli (EIEC) but are unable to differentiate between the organisms.

MDH-PHL is utilizing PCR and whole genome sequencing (WGS) to conduct surveillance of Enteroinvasive Escherichia coli (EIEC) to gain a deeper understanding of the epidemiology of this pathogen.

Turn Around Time

3-7 days

Specimen Requirements

Specimens: Stool or rectal swabs preserved in Para-Pak C&S, modified Cary-Blair or equivalent transport media. 

Minimum volumes: 
Rectal swab: shows visible trace of fecal material and is immersed in transport media.
Stool specimen: transport media vial filled with approximately 5 ml of stool. 

Special Considerations

This organism is reportable and submission of clinical materials is required by the MN Reportable Disease Rule 4605.7000 - 4605.7900 (https://www.health.state.mn.us/diseases/reportable/rule/index.html).

Transport/Stability

Store at ambient (8°C to 25°C) temperature. Ship at ambient (8°C to 25°C) or refrigeration (2°C to 8°C) temperature.

Interface/Codes

LOINC: 82300-5

Test Resource ID
937

Shiga toxin-producing E. coli (STEC) Culture - Stool

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Aliases
VTEC, Escherichia coli, E. coli
Test Name
Shiga toxin-producing E. coli (STEC) Culture - Stool
Test Code
STECCU
Methodology
Biochemicals, Culture, Real-time multiplex PCR
Overview/Supplementary
This test detects Escherichia coli O157 and shiga-toxin genes (stx1 and stx2) in clinical specimens.
Turn Around Time
3-7 days
Specimen Requirements

Specimens: Stool or rectal swabs preserved in Para-Pak C&S, modified Cary-Blair or equivalent transport media. 

Minimum volumes: 
Rectal swab: shows visible trace of fecal material and is immersed in transport media.
Stool specimen: transport media vial filled with approximately 5 ml of stool. 

Special Considerations
This organism is reportable and submission of clinical materials is required by the MN Reportable Disease Rule 4605.7000 - 4605.7900 (https://www.health.state.mn.us/diseases/reportable/rule/index.html).
Transport/Stability

Store at ambient (8°C to 25°C) temperature. Ship at ambient (8°C to 25°C) or refrigeration (2°C to 8°C) temperature.

Interface/Codes
Test Resource ID
935

Salmonella Serotype by Whole Genome Sequencing

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Aliases
Test Name
Salmonella Serotype by Whole Genome Sequencing
Test Code
Contact IDL for Specific Test Code
Methodology
Whole genome sequencing
Overview/Supplementary
This test determines the serotype of Salmonella sp. isolates using Whole Genome Sequencing.
Turn Around Time
7-14 days
Specimen Requirements
Isolates: Actively growing culture on media that support the growth of the bacterial isolate submitted (e.g., Blood agar, Hektoen Enteric agar, MacConkey agar, Tryptose agar).
Special Considerations
This organism is reportable and submission of clinical materials is required by the MN Reportable Disease Rule 4605.7000 - 4605.7900 (https://www.health.state.mn.us/diseases/reportable/rule/index.html).
Transport/Stability

Isolates should be incubated overnight or stored at 2-8°C up to one week.

Ship at ambient (8°C to 25°C) or refrigeration (2°C to 8°C) temperature.

Interface/Codes
Test Resource ID
934

Salmonella Identification - Isolate

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Aliases
Test Name
Salmonella Identification - Isolate
Test Code

SALMID

Methodology

Biochemicals, MALDI-TOF (matrix-assisted laser desorption ionization-time of flight) mass spectrometry

Overview/Supplementary

This test confirms the identification of Salmonella from a submitted isolate.

Submitters will receive confirmation results.

Isolates are reflexed to Salmonella serotyping by Whole Genome Sequencing.

Turn Around Time

2-3 days

Specimen Requirements

Isolates: Actively growing culture on media that support the growth of the bacterial isolate submitted.

Special Considerations

This organism is reportable and submission of clinical materials is required by the MN Reportable Disease Rule 4605.7000 - 4605.7900 (https://www.health.state.mn.us/diseases/reportable/rule/index.html).

Transport/Stability

Store at ambient (8°C to 25°C) temperature. Ship at ambient (8°C to 25°C) or refrigeration (2°C to 8°C) temperature.

Interface/Codes
Test Resource ID
933

Salmonella Culture - Stool

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Aliases
Test Name
Salmonella Culture - Stool
Test Code

SALCU

Methodology

Culture, MALDI-TOF (matrix-assisted laser desorption ionization-time of flight) mass spectrometry

Overview/Supplementary

This test isolates and identifies Salmonella from stool specimens. Identified isolates are reflexed to Salmonella identification and serotyping.

Turn Around Time

3-7 days

Specimen Requirements

Specimens: Stool or rectal swabs preserved in Para-Pak C&S, modified Cary-Blair or equivalent transport media. 

Minimum volumes: 
Rectal swab: shows visible trace of fecal material and is immersed in transport media.
Stool specimen: transport media vial filled with approximately 5 ml of stool. 

Special Considerations

This organism is reportable and submission of clinical materials is required by the MN Reportable Disease Rule 4605.7000 - 4605.7900 (https://www.health.state.mn.us/diseases/reportable/rule/index.html).

Transport/Stability

Store at ambient (8°C to 25°C) temperature. Ship at ambient (8°C to 25°C) or refrigeration (2°C to 8°C) temperature.

Interface/Codes
Test Resource ID
932

Rubella Virus PCR

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Aliases

German measles

Test Name

Rubella Virus PCR

Test Code

RUVPCR

Methodology

Real-time PCR

Overview/Supplementary

This test detects rubella by real-time PCR from specimens or viral culture isolates. Respiratory Virus Isolation and Identification (MMRCULT) will be performed on negative respiratory specimens.

Turn Around Time

1-3 days

Specimen Requirements

Specimens in VTM (preferred transport medium), Liquid Stuarts, M4, M5, Sterile PBS, Sterile saline, or UTM: Throat swab (preferred source, up to 9 days post onset), Nasal swab, Nasal wash, Nasopharyngeal swab, or Nasopharyngeal wash 

Specimens in a sterile container: Cerebrospinal fluid/CSF (if meningitis or encephalitis suspected), or Urine (if collected 5 or more days post onset, pair with throat swab)

Isolates: Viral culture isolate

Preferred volume: 3 mL
Minimum volume: 140 µL

Special Considerations

Contact Infectious Disease Epidemiology Prevention and Control (IDEPC) at 651-201-5414 or 877-676-5414 before requesting this test.

This organism is reportable and submission of clinical materials is required by the MN Reportable Disease Rule 4605.7000 - 4605.7900 (https://www.health.state.mn.us/diseases/reportable/rule/index.html).

 

 

Transport/Stability

Store and ship at refrigeration (2°C to 8°C) temperature within 7 days of collection. Alternatively, ship frozen (≤0°C).

Interface/Codes
Test Resource ID
931

Rhinovirus and Enterovirus Multiplex PCR

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Aliases

Enterovirus typing, EV68

Test Name
Rhinovirus and Enterovirus Multiplex PCR
Test Code

RVEVPCR

Methodology

Real-time multiplex PCR

Overview/Supplementary

This test detects and distinguishes rhinovirus from enterovirus RNA. Samples positive for enterovirus RNA may be further characterized with Enterovirus Genotype by VP1 NGS Sequencing.

Turn Around Time

5-7 days

Specimen Requirements

Specimens in DMEM, EMEM, Sterile PBS, Sterile Saline, UTM, or VTM: Bronchial wash, Bronchoalveolar lavage/BAL, Dual NP/OP swab, Nasal aspirate, Nasal swab, Nasal wash, Nasopharyngeal swab, Oropharyngeal swab, Sputum, Tracheal aspirate, or Vesicular fluid/skin lesion swabs

Specimens in sterile container: Cerebrospinal fluid/CSF, Dry swabs of vesicular fluid/skin lesions,  Skin lesions or scabs, or Stool (raw or in Cary-Blair)

Isolates: Viral culture isolates

Preferred volume: 3 mL
Minimum volume: 200 µL

Special Considerations

None

Transport/Stability

Store and ship respiratory specimens, vesicle swabs/scabs in VTM/UTM, and stool at refrigeration (2°C to 8°C) temperature within 7 days of collection.

Store and ship cerebrospinal fluid/CSF at refrigeration (2°C to 8°C) temperature within 10 days of collection. Alternatively, ship frozen (≤0°C).

Store and ship dry samples at ambient (8°C to 25°C) temperature.

Interface/Codes

LOINC: 40991-2

Test Resource ID
930

Respiratory Virus Isolation and Identification

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Aliases

MMR culture

Test Name
Respiratory Virus Isolation and Identification
Test Code

MMRCULT

Methodology

Culture, Direct fluorescent antibody (DFA)

Overview/Supplementary

This test isolates and identifies respiratory viruses by culture from specimens that were negative by PCR testing for measles, mumps, and/or rubella.

Turn Around Time

Up to 6 weeks

Specimen Requirements

Specimens in Liquid Stuarts, M4, M5, Sterile PBS, Sterile saline, UTM, or VTM: Throat swab (preferred up to 9 days post onset), Buccal swab, Nasal swab, Nasal wash, Nasopharyngeal swab, or Nasopharyngeal wash

Preferred volume: 3 mL
Minimum volume: 140 µL

Special Considerations

None

Transport/Stability

Store and ship at refrigeration (2°C to 8°C) temperature within 7 days of collection. Alternatively, ship frozen (≤0°C).

Interface/Codes
Test Resource ID
929