Table 1 version 6. Submission of Enteric Disease-associated Bacterial Isolates and Specimens
Table 1 version 6 PDF [4 pages]. Submission of enteric disease-associated bacterial isolates and specimens to the Enteric Diseases Laboratory Branch, effective as of September 1, 2022 (memo [PDF – 3 pages]). Please send isolates or specimens for the following services to the attention of the appropriate contact person at the Centers for Disease Control and Prevention. Addresses and points of contact can be found at the links in the table under “Preparation and Shipping Instructions.” Please include the Laboratory Contact Person in the attention line.
Specimen | Service | Priority | Frequency/timing | Number to send, Submission scheme | Laboratory Examination Requested (test code, if applicable) | Preparation and Shipping Instructions§ |
---|---|---|---|---|---|---|
Clinical, food, environmental specimens for botulism investigations | Outbreak investigation | ASAP^ | As soon as specimens collected | All collected specimens | Botulism laboratory confirmation (CDC-10132) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Fecal, environmental and food specimens for Bacillus cereus foodborne investigation | Outbreak investigation | ASAP^ | as needed | consult contact person for number to send | Bacillus cereus Detection – foodborne outbreak (CDC-10104) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Fecal, environmental and food specimens for Clostridium perfringens foodborne investigation | Outbreak/case investigation | ASAP^ | as needed | consult contact person for number to send | Clostridium perfringens Detection – foodborne outbreak (CDC-10111) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Fecal, environmental and food specimens for Staphylococcus aureus foodborne investigation |
Outbreak investigation | ASAP^ | as needed | consult contact person for number to send | Staphylococcus aureus Detection – foodborne outbreak (CDC-10113) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Clinical, food, and environmental specimens for the isolation of Campylobacter, Cronobacter, Listeria, Salmonella, Shigella, STEC and other diarrheagenic E. coli ^^, Vibrio, Yersinia (non-pestis) and other pathogenic Enterbacteriaceae | Outbreak/case investigation | ASAP^ | as needed | consult contact person for number to send | Enteric Isolation (CDC-10106) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Serum specimens: from suspect cases of Campylobacter | Outbreak investigation/surveillance | As scheduled | consult contact person for frequency/timing | consult contact person for type of specimen to send | Campylobacter species serology (10455) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Serum specimens: from suspect cases of Shiga-toxin producing E. coli | Outbreak investigation/surveillance | As scheduled | consult contact person for frequency/timing | consult contact person for type of specimen to send | Escherichia coli (STEC) serology (not serotyping): CDC-10452 (E. coli) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Serum specimens: from suspect cases of Salmonella serotype Typhi | Outbreak investigation/surveillance | As scheduled | consult contact person for frequency/timing | consult contact person for type of specimen to send | Salmonella serotype Typhi (only) serology (10453) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Serum specimens: from suspect cases of Vibrio cholerae | Outbreak investigation/surveillance | As scheduled | consult contact person for frequency/timing | consult contact person for type of specimen to send | Vibrio cholerae serology (10454) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
STEC (Shiga toxin-producing E. coli) broths | Reference/surveillance | ASAP^ | as needed | Broths from cases of high public health importance (e.g., severe or unusual disease, outbreak-associated or unusual epidemiology) that are positive by Shiga toxin testing but culture-negative for STEC and produce growth on subculture. Consult contact person for prior approval. | Toxin typing, STEC isolation from enrichment broth (10105) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Organism | Service | Priority | Frequency/timing | Number to send, Submission scheme | Laboratory Examination Requested (test order, if applicable) | Preparation and Shipping Instructions§ |
---|---|---|---|---|---|---|
Aeromonas and related organisms | Reference/surveillance | At submitter’s convenience | as needed | any isolates you would like to have analyzed | Identification, subtyping (CDC-10120) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Bacillus cereus | Outbreak investigation | ASAP^ | as needed | consult contact person for number to send | Detection – foodborne outbreak (CDC-10104) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Campylobacter | Outbreak investigation | ASAP^ | every suspected outbreak | consult contact person for number to send | Campylobacter subtyping (CDC-10127) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Campylobacter (FoodNet Sites Only) | NARMSC | As scheduled | at least quarterly | Every 2nd, 3rd, 5th, or all isolates (varies by state) | susceptibility testing for NARMS surveillance (10107) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Campylobacter, Helicobacter, and related organisms | Reference/surveillance | At submitter’s convenience | as needed | isolates that cannot be identified or atypical / rare isolates | Identification (CDC-10126) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Clostridium botulinum and other botulinum producing species of Clostridia | Reference/surveillance | ASAP^ | as needed | consult contact person for number to send | Botulinum toxin productin Clostridia subtyping (CDC-10133) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Clostridium perfringens | Outbreak investigation | ASAP^ | As needed | consult contact person for number to send | Detection – foodborne outbreak (CDC-10111) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Cronobacter sakazakii | Outbreak investigation | ASAP^ | Every suspected case | Every isolate | CDC-10123 | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Cronobacter species | Reference/surveillance | At submitter’s convenience, or ASAP^ if C. sakazakii has not been ruled out | Every suspected case | Any isolates requiring speciation | CDC-10123 | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Enterobacteriaceae , other | Reference/surveillance | At submitter’s convenience | as needed | any isolates implicated in enteric disease | Identification, serotyping, subtyping (CDC-10123) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Escherichia coli, diarrheagenic^^ | Outbreak investigation | ASAP^ | Please send only when CDC requests | 3 representative isolates | Susceptibility testing (CDC-10116); other testing upon request | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Escherichia coli O157 | NARMSC | As scheduled | at least quarterly | every 20th** | susceptibility testing for NARMS surveillance (10107) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Escherichia | Reference/surveillance | At submitter’s convenience | as needed | atypical isolates, rare serovars, or isolates that cannot be identified | Identification, serotyping, subtyping, virulence profiling (CDC-10114) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Listeria monocytogenes | Outbreak investigation | At submitter’s convenience * | in every suspected outbreak | 3 representative isolates from patients | Identification, serotyping, subtyping (CDC-10129) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Listeria, species other than monocytogenes | Reference/surveillance | At submitter’s convenience * | every time it is isolated/as soon as it is isolated | any isolates obtained from a normally sterile body site | Identification, serotyping, subtyping (CDC-10129) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Salmonella | Reference/surveillance | At submitter’s convenience | as needed | atypical isolates, rare serovars, or isolates that cannot be identified | Salmonella identification and serotyping (CDC-10110) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Salmonella (all non-typhoidal serotypes and serotype Paratyphi B) | NARMSC | As scheduled | at least quarterly | every 20th** | susceptibility testing for NARMS surveillance (10107) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Salmonella (all non-Typhi serotypes) | Outbreak investigation | ASAP^ | Please send only when CDC requests | 3 representative isolates | Salmonella subtyping (CDC-10108) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Salmonella (typhoidal serotypes Paratyphi A, Paratyphi C and Typhi) | NARMSC | As scheduled | at least quarterly | ALL | susceptibility testing for NARMS surveillance (10107) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Salmonella serotype Typhi | Outbreak investigation | ASAP^ | every suspected outbreak | consult contact person for number to send | Salmonella subtyping (CDC-10108) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Shigella | Reference/surveillance | At submitter’s convenience | as needed | any isolates you would like to have analyzed | Identification, subtyping (CDC-10114) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Shigella | Outbreak investigation | ASAP^ | Please send only when CDC requests | 3 representative isolates | Susceptibility testing (CDC-10116) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Shigella | NARMSC | As scheduled | at least quarterly | every 20th** | susceptibility testing for NARMS surveillance (10107) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Staphylococcus aureus | Outbreak investigation | ASAP^ | as needed | consult contact person for number to send | Detection – foodborne outbreak (CDC-10113) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Vibrio cholerae | Reference/surveillance | ASAP^ | every time it is isolated/as soon as it is isolated | All isolates | Identification, virulence testing (10119) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Vibrio mimicus | Reference/surveillance | At submitter’s convenience | at least quarterly | All isolates | Identification, virulence testing (CDC-10120) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Vibrio, non-cholerae | Outbreak investigation | ASAP^ | every suspected outbreak | All isolates | Identification, subtyping (CDC-10122) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Vibrio, non-cholerae | NARMSC | As scheduled | at least quarterly | All isolates | susceptibility testing for NARMS surveillance (10107) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Vibrio and related organisms | Reference/surveillance | At submitter’s convenience | as needed | any isolates requiring speciation and/or you would like to have analyzed | Identification, subtyping (CDC-10120) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
Yersinia (non-pestis ) | Reference/surveillance | At submitter’s convenience | as needed | any isolates requiring speciation and/or you would like to have analyzed | Identification, serotyping, biotyping, subtyping (CDC-10123) | Test Order | Submitting Specimens to CDC | Infectious Diseases Laboratories | CDC |
§ Please submit specimens to CDC via CDC Specimen Test Order and Reporting (CSTOR) web portal or CDC 50.34 Specimen Submission Form: https://www.cdc.gov/laboratory/specimen-submission/form.html
^Isolates/specimens with a priority of “ASAP” should be shipped as soon as possible (within one business day of presumptive identification)
^^Escherichia coli, diarrheagenic = Shiga toxin-producing E. coli (STEC), Enterotoxigenic E. coli (ETEC), Enteropathogenic E. coli (EPEC), Enteroinvasive E. coli (EIEC) and Enteroaggregative E. coli (EAEC)
CNational Antimicrobial Resistance Monitoring System
* Laboratories that are NOT performing whole genome sequencing and submitting data in real time for Listeria should ship isolates ASAP
**For non-typhoidal Salmonella, Shigella, and E. coli O157 isolates included in NARMS surveillance, the 1st isolate collected each year should be submitted, followed by every 20th isolate
General inquiries: entericbacteria@cdc.gov, 404-639-3334
Public health officials (state, territorial, and CDC) can send general inquiries, and communicate about pending and current isolate requests by:
- Email (entericbacteria@cdc.gov)
- Phone call (Enteric Diseases Laboratory Branch at 404-639-3334)
- Contacting specific personnel linked in Table 1 version 6.