Form 0920-0978 Foodnet Lab Practices Volume

Form Approved OMB No. 0920-0978 Exp. Date xx/xx/xxxx

FoodNet Clinical Laboratory Practices and Testing Volume Surveillance (last updated 8/3/2018)

FoodNet Clincal Laboratory Survey Data Elements
Legal Values

Variable Name
RecordID
Site
Month
Year
HospName
LabID
ChngTestMeth
Tonsite
Labforward
Entericscrn

Format
numeric
character
numeric
numeric
character
character
character
character
character
character

Description
unique system generated record ID
FoodNet site providing data
Month for when the survey was completed or verified
Year for when the survey was complete for verified
Laboratory name
unique identifier for laboratory
During the past 6 months, has you laboratory changed testing methods used for detecting each pathogen?
Does your laboratory test stool specimens (blood/CSF for Listeria) on site for each pathogen?
To which laboratory do you send specimens for testing?
Is each pathogen part of your laboratory's routine (approx >80%) enteric screen?

IDCx
IDPCR
IDAG
IDOther
IDOtherSpec

character
character
character
character
character

How often does your laboratory use culture to initially detect each pathogen?
How often does your laboratory use PCR test to initially detect each pathogen?
How often does your laboratory use Antigen test (ELISA, lateral flow) to initially detect each pathogen?
How often does your laboratory use an other CIDT test to initially detect each pathogen?
If other CIDT method used, please specify?

ReflexCX

character If each pathogen is detected using CIDT, is culture of the organism attempted?

PCRbrand

character What is the brand name of the PCR test for each pathogen?

PCRothspec

character If other PCR test brand used, please specify?

AGbrand

character What is the brand name of the AG test for each pathogen?

Agothspec
IsolateSubmit
StoolSubmit
BrothSubmit
BloodSubmit
CSFSubmit
E.coliCXspecsent
E.coliCXlab

character
character
character
character
character
character
character
character

If other AG test brand used, please specify?
How often are isolates submitted to the public health laboratory?
How often are stools submitted to the public health laboratory?
How often are broth submitted to the public health laboratory?
How often are blood samples submitted to the public health laboratory?
How often are CSF samples submitted to the public health laboratory?
If only culture for E. coli, are specimens sent to a different laboratory for Shiga toxin testing?
To which laboratory?

Comments

CA, CO, CT, GA, MD, MN, NY, OR, TN
1 to 12
2015-present

Yes, No
Yes, No
free text
Yes, No (only upon request)

routinely, sometimes, rarely, never
routinely, sometimes, rarely, never
routinely, sometimes, rarely, never
routinely, sometimes, rarely, never
free text
Yes, always
When requested by provider
Only for special projects or outbreaks
No, specimen sent to reference laboratory for culture
No, never
Becton Dickinson (BD): BD MAXTM Enteric Bacterial Panel
BioFire: FilmArray Gastrointestinal (GI) Panel
Great Basin Stool Bacterial Pathogens Panel
Hologic: Prodesse ProGastro SSCS assay
Laboratory-developed test (LDT)
Luminex: xTAG® Gastrointestinal Pathogen Panel (GPP)
Verigene® Enteric Pathogens Test (EP, formerly Nanosphere)
FilmArray (BioFire) Blood Culture Identification Panel
FilmArray (BioFire) Meningitis/Encephalitis (ME) Panel
Verigene (Nanosphere) Gram-positive Blood Culture Test
Other commercially available PCR test (specify below)
free text
ImmunoCard STAT! CAMPY assay (Meridian)
PREMIERTM CAMPY assay (Meridian)
ProSpecT Campylobacter assay (Remel)
Xpect Campylobacter assay (Remel)
Alere Shiga Toxin Quik Chek
Duopath Verotoxins (Merck)
ImmunoCard STAT! EHEC (Meridian)
PREMIERTM EHEC (Meridian)
ProSpecT Shiga Toxin E. coli (Remel)
VTEC Screen (Denka Seiken)
Other antigen test (specify below)
free text
routinely, sometimes, rarely, never
routinely, sometimes, rarely, never
routinely, sometimes, rarely, never
routinely, sometimes, rarely, never
routinely, sometimes, rarely, never
Yes, No
free text

repeats for all pathogens*
repeats for all pathogens*
repeats for all pathogens* except Listeria
repeats for all pathogens* except Listeria
repeats for all pathogens* except Listeria;
culture includes selective media for Vibrio
and Yersinia

repeats for all pathogens*, except Listeria

repeats for all pathogens*

repeats for all pathogens*

repeats for Campylobacter and STEC

repeats for all pathogens*
repeats for all pathogens*
repeats for all pathogens*
Listeria only
Listeria only
STEC only
STEC only

Public reporting burden of this collection of information is estimated to average 132 minutes per response, including the time for reviewing instructions, searching existing data sources, gathering and maintaining the data needed, and completing and reviewing the collection of information. An agency may not conduct or sponsor, and
a person is not required to respond to a collection of information unless it displays a currently valid OMB control number. Send comments regarding this burden estimate or any other aspect of this collection of information, including suggestions for reducing this burden to CDC/ATSDR Information Collection Review Office, 1600 Clifton
Road NE, MS D-74, Atlanta, Georgia 30333; ATTN: PRA (0920-0978).

FoodNet Clinical Laboratory Practices and Testing Volume Surveillance (last updated 8/3/2018)

FoodNet Clincal Laboratory Survey Data Elements
Variable Name
Format Description
Legal Values
STECCIDTspecsent character If ONLY non-culture based test(s), are specimens sent to a different laboratory for culture testing?
Yes, No
STECCIDTlab
character To which laboratory?
free text
PCR concurrently used with culture
ListProtocol

character Which of the following protocols are followed to detect Listeria?

PCR performed first, if positive reflex culture performed
Only PCR panels, no culture is performed
Only culture, no PCR test is performed

Comments
STEC only
STEC only

Listeria only

Stool submitted to your laboratory for any enteric pathogen
Norotest

character When is norovirus test performed?

Norotestspec
NoroGene
NoroOthMeth
Comments

character Please specify other reason?
character Please specify gene targets for PCR assay devloped in house or by published PCR method
character If other antigen test, PCR, or method used, please specify
character

*Pathogens include Campylobacter, STEC (E.coli O157 and/or Shiga toxin), Salmonella, Shigella, Vibrio, Yersinia, Listeria, and Norovirus

Only when norovirus testing is specifically requested by a
clinician
Other reason (specify below)
free text
free text
free text
free text

Norovirus only

Norovirus only
Norovirus only
Norovirus only

FoodNet Clincal Laboratory Practices and Testing Volume Surveillance (last updated 7/26/2018)

Variable Name
Record ID
VolYear
State
LabID

Format
numeric
numeric
character
character

Method

numeric

Comment
Pathogen
TotalGenCx
CxGenPos
TotalSynPCR
SynPos
TCx
TCxPos
TPCR
TPCRPos
TAG
TAGPos
TBldCx
TBldCxPos
TCSFCx
TCSFCxPos

character
character
numeric
numeric
numeric
numeric
numeric
numeric
numeric
numeric
numeric
numeric
numeric
numeric
numeric
numeric

FoodNet Laboratory Testing Volume Data Elements
Description
Legal Values
unique system generated record ID
Year volume data provided for
2018, 2019
State providing data
CA, CO, CT, GA, MD, MN, NM, NY, OR, TN
Local unique laboratory identificaiton number, standardize across surveillance and lab survey
1. Direct extraction from LIMS or equivalent system of total tests and positive tests for
catchment area
2. Direct extraction from LIMS or equivalent system of total tests and positive tests not
limited to catchment area
3. Direct extraction from LIMS or equivalent system of total tests for catchment area,
positives extracted from state surveillance data
How volume data was obtained for values provided

Any comment on data method or data provided
Name of pathogen
No. of general stool culture tests performed
No. of these tests with a positive result
No. of multi-analytic (syndromic panel) PCR tests performed
No. of multi-analytic (syndrome panel) tests with a positive result
No. of stool culture performed for a specific pathogen
No. of stool culture positive for a specific pathogen
No. of single analyte PCR tests performed
No. of single analyte PCR tests positive
No. of immuno-assay (EIA) tests performed
No. of immuno-assay (EIA) tests positive
No. blood culture tests performed
No. blood culture tests positive
No. cerebrospinal fluid culture tests performed
No. cerebrospinal fluid culture tests positive

Comments

4. Direct extraction from LIMS or equivalent system of total tests not limited to
catchment area, positives extracted from surveillance data associated region covered
5. Estimate of total tests for catchment area provided by microbiologist or other party
that can make an estimate based on workload or ordering of supplies; positives extracted
from state surveillance data
6. Estimate of total tests not limited to catchment area provided by microbiologist or
other party that can make an estimate based on workload or ordering of supplies;
positives extracted from surveillance data associated region covered
varies by state
Salmonella, Campylobacter, Listeria, Shigella, STEC, STX, O157, Vibrio, Yersinia
1-999999
1-999999
1-999999
1-999999
1-999999
1-999999
1-999999
1-999999
1-999999
1-999999
1-999999
1-999999
1-999999
1-999999

repeating data by pathogen
repeating data by pathogen
repeating data by pathogen
repeating data by pathogen
repeating data by pathogen
repeating data by pathogen
repeating data by pathogen
repeating data by pathogen
Listeria only
Listeria only
Listeria only
Listeria only