Faculty

Ahmed M Moustafa, PhD

Assistant Professor of Pediatrics (Gastroenterology, Hepatology and Nutrition) at the Children's Hospital of Philadelphia

Department: Pediatrics

Graduate Group Affiliations

Cell and Molecular Biology

Contact information

Children's Hospital of Philadelphia
Abramson Pediatric Research Center
3615 Civic Center Boulevard Room 902C
Philadelphia, PA 19104

Lab: 2155909987

Email:
moustafaam@chop.edu

Publications

Search PubMed for articles

Education:
BPharm (Pharmaceutical Sciences)
Alexandria University, Alexandria, Egypt, 2009.
Ph.D. (Biomedical Sciences)
Murdoch University, Perth, Australia, 2015.
Cert (Research Mentor Training: Effective Communication and Aligning Expectations.)
PSOM ITMAT, 2022.

Links
Search PubMed for articles
The Sequencing Core provides expertise in next-generation sequencing of microbiome samples and single microbial isolates.
Google Scholar Account
Github account where I maintain the bioinformatics tools I develop

Permanent link

> Perelman School of Medicine > Faculty > Details

Description of Other Expertise

SARS-CoV-2 Genomics and Evolution

Description of Research Expertise

Dr. Moustafa is currently the Director for the CHOP Microbiome Sequencing Core and the Co-Director for the microbial ARchive and Cryo-collection (mARC) unit under the PennCHOP Microbiome program. Dr. Moustafa’s research program focuses on evolutionary microbiology, microbial genomics and infectious diseases. The overall goals of the Moustafa laboratory are to 1) build a highly curated strain library of pathogenic and commensal microbes to fuel microbial genomics research and microbiome mechanistic studies 2) pinpoint the molecular determinants of infectious diseases using big genomics data and novel bioinformatics tools 3) bring the tools of next-generation sequencing and microbial genomics to biologists and clinicians using innovative educational approaches.
Keywords: Microbial Genomics; Bioinformatics; microbiome; Population Genetics; Phylogenetics; Bacterial Pathogenesis.

Selected Publications

Esteves Matheus Assis Côrtes, Viana Alice Slotfeldt, Viçosa Gabriela Nogueira, Botelho Ana Maria Nunes, Moustafa Ahmed M., Mansoldo Felipe Raposo Passos, Ferreira Adriana Lucia Pires, Vermelho Alane Beatriz, Ferreira-Carvalho Bernadete Teixeira, Planet Paul Joseph, Figueiredo Agnes Marie Sá: RdJ detection tests to identify a unique MRSA clone of ST105-SCCmecII lineage and its variants disseminated in the metropolitan region of Rio de Janeiro. Frontiers in Microbiology. Digvijay Verma (eds.). 14, Nov 2023.

Margaret Free, Nicole Soper, James C Slaughter, Andries Feder, Colleen Bianco, Ahmed M Moustafa, Paul Planet, C Buddy Creech, Isaac Thomsen: Evolution of Invasive and Colonizing Pediatric Staphylococcus aureus Isolates Journal of the Pediatric Infectious Diseases Society. Oxford University Press on behalf of The Journal of the Pediatric Infectious Diseases Society, 12: S3-S4, Nov 2023.

Ahmed M. Moustafa*, Erin Theiller, Arnav Lal, Andries Feder, Apurva Narechania, Paul J. Planet*: "Redcarpet: A Tool for Rapid Recombination Detection Amidst Expanding Genomic Databases" 8th Annual MidAtlantic Bioinformatics Conference October 2023.

Erin Theiller, Elizabeth Qian, Andries Feder, Alice Slotfeld Viana, Agnes Marie Sá Figueiredo, Paul J. Planet, Ahmed M. Moustafa: "Empowering Global Disease Surveillance: The CURED Tool for Rapid Identification of Unique Clonal Biomarkers" 8th Annual MidAtlantic Bioinformatics Conference October 2023.

Nicholas J. Pitcher, Andries Feder, Nicholas Bolden, Christian F. Zirbes, Anthony J. Pamatmat, Linda Boyken, Jared J. Hill, Alyssa R. Bartels, Andrew L. Thurman, Valerie C. Reeb, Harry S. Porterfield, Ahmed M. Moustafa, Paul J. Planet, Anthony J. Fischer: Parallel Evolution of Linezolid Resistant Staphylococcus aureus in Patients with Cystic Fibrosis. Microbiol. Spectr. Matthew Culyba (eds.). ASM, Page: e0208423, September 2023 Notes: 10.1128/spectrum.02084-23.

Martínez JRW, Planet PJ, Spencer-Sandino M, Rivas L, Díaz L, Moustafa AM, Quesille-Villalobos A, Riquelme-Neira R, Alcalde-Rico M, Hanson B, Carvajal LP, Rincón S, Reyes J, Lam M, Calderon J, Araos R, García P, Arias CA, Munita JM.: Dynamics of the MRSA Population in A Chilean Hospital: A Phylogenomic Analysis (2000-2016). Microbiol. Spectr. ASM, Page: e05351-22, June 2023 Notes: 10.1128/spectrum.05351-22.

She Q, Feder A, Galis B, Jones S, Gibbs K, Hayes E, Smathers S, Thompson K, Harris R, Zackular JP, Moustafa AM, Srinivasan L, Planet PJ.: Phylogenomic analysis of colonizing and invasive Staphylococcus aureus in a neonatal intensive care unit reveals high levels of transmission of invasive strain. CHOP Research Symposium (May 2023), Philadelphia, PA, USA. CHOP RI May 2023 Notes: Best Poster Prize.

Theiller E, Galis B, Higgins S, Jones S, She Q, Planet PJ, Zackular JP, Moustafa AM.: MicrobialARC: Genomics Driven Initiative to Improve Personalized Patient Care and Pathogen Surveillance. CHOP Research Symposium (May 2023), Philadelphia, PA, USA. CHOP RI May 2023.

Bianco C, Moustafa AM, O’Brien, Martin M, Read TD, Kreiswirth B, Planet PJ. : Pre-epidemic evolution of USA300 clade and molecular key for classification. Frontiers in Cellular and Infection Microbiology 13, Jan 2023.

Mahalak KK, Firrman J, Narrowe AB, Hu W, Jones SM, Bittinger K, Moustafa AM, Liu L.: Fructooligosaccharides (FOS) differentially modifies the in vitro gut microbiota in an age-dependent manner. Front Nutr 9: 1058910, Jan 2023.