*Applications will be reviewed on a rolling-basis.A research opportunity is currently available with the Culture-Independent and Metagenomic Subtyping group (CIMS) in the Enteric Diseases Laboratory Branch (EDLB) at the Division of Foodborne, Waterborne, and Environmental Diseases (DFWED), in the National Center for Emerging and Zoonotic Infectious Diseases (NCEZID), at the Centers for Disease Control and Prevention (CDC) located in Atlanta, Georgia. To maintain long-term viability, foodborne enteric pathogen outbreak surveillance systems must transition from culture-based methods, which require extensive laboratory work to isolate pathogens from other microbes in a patient stool sample, to molecular techniques compatible with complex metagenomic samples. CIMS is working closely with PulseNet, the National Antimicrobial Resistance Surveillance Team in EDLB, and other partners to develop complete culture-independent workflows covering specimen collection to final pathogen report. Throughout the course of this research project, the participant will help support the development and optimization of laboratory procedures utilizing amplicon sequencing and shotgun metagenomic sequencing for culture-independent enteric pathogen surveillance. Participant activities will include working with other project scientists to develop project plans, interpreting data, writing protocols, and presenting results to partner public health organizations. The participant will receive extensive laboratory mentoring with the goal of developing a robust molecular and microbiological skillset that will include many techniques commonly used in public health laboratories around the USA. Validated best practices resulting from this project will be distributed to public health laboratories.Under the guidance of a mentor, participant activities will include:Evaluate, develop, and implement a variety of next generation sequencing (NGS) approaches for metagenomic testing of complex specimens for public health deploymentOperate specialized equipment such as Fluidigm Juno, Perkin-Elmer SciClone, Illumina MiSeq, and Agilent Fragment AnalyzerUse standard microbiological techniques to safely manipulate primary clinical samples and pathogen isolatesExtract DNA from pathogen isolates and stool for NGSPerform maintenance of shared laboratory spaces and equipmentMaintain laboratory notebook and other project related recordsCommunicate results to other project scientists and external collaboratorsThis internship involves working with human pathogen isolates and human clinical specimens (primarily stool). Relevant vaccinations for working with human clinical samples will be required. Extensive biosafety and chemical safety training and oversite will be provided.Anticipated Appointment Start Date: Fall / Winter 2020This program, administered by ORAU through its contract with the U.S. Department of Energy to manage the Oak Ridge Institute for Science and Education, was established through an interagency agreement between DOE and CDC. The initial appointment can be up to one year, but may be renewed upon recommendation of CDC contingent on the availability of funds. The participant will receive a monthly stipend commensurate with educational level and experience. Proof of health insurance is required for participation in this program. The appointment is full-time at CDC in the Atlanta, Georgia, area. Participants do not become employees of CDC, DOE or the program administrator, and there are no employment-related benefits. If you have questions, send an email to ORISE.CDC.NCEZID@orau.org.