Publications & Research
Peer-reviewed research in bioinformatics, genomics, and human-computer interaction
Peer-Reviewed Publications
The Genome Sequence of Avian Pathogenic Escherichia coli Strain O1:K1:H7 Shares Strong Similarities with Human Extraintestinal Pathogenic E. coli Genomes
Sequenced the full genome of an avian E. coli strain and showed it shares virulence genes with strains that cause serious infections in humans — suggesting poultry could be a reservoir for human disease.
TJ Johnson, S Kariyawasam, Y Wannemuehler, P Mangiamele, et al.
Journal of Bacteriology 189 (8), 3228-3236
Genotypic and phenotypic traits that distinguish neonatal meningitis-associated Escherichia coli from fecal E. coli isolates of healthy human hosts
Identified the genetic and behavioral traits that separate E. coli strains causing neonatal meningitis from harmless gut bacteria — helping explain why some strains become dangerous in newborns.
CM Logue, C Doetkott, P Mangiamele, YM Wannemuehler, TJ Johnson, et al.
Applied and Environmental Microbiology 78 (16), 5824-5830
Transcriptome analysis of avian pathogenic Escherichia coli O1 in chicken serum reveals adaptive responses to systemic infection
Captured which genes E. coli turns on and off during bloodstream infection in poultry — revealing how the bacterium adapts in real time to survive the host immune response.
G Li, KA Tivendale, P Liu, Y Feng, Y Wannemuehler, W Cai, P Mangiamele, et al.
Infection and Immunity 79 (5), 1951-1960
Complete genome sequence of the avian pathogenic Escherichia coli strain APEC O78
Published the first complete genome of APEC O78, one of the most common strains causing disease in poultry worldwide — providing a reference genome for the research community.
P Mangiamele, B Nicholson, Y Wannemuehler, T Seemann, CM Logue, et al.
Genome Announcements 1 (2)
Genetic characterization of ExPEC-like virulence plasmids among a subset of NMEC
Mapped the plasmids (mobile DNA elements) carrying virulence genes in neonatal meningitis E. coli strains — showing these dangerous capabilities can transfer between bacteria.
BA Nicholson, AC West, P Mangiamele, N Barbieri, Y Wannemuehler, et al.
PLoS One 11 (1), e0147757
Complete genome sequence of avian pathogenic Escherichia coli strain APEC O2-211
Sequenced another major avian pathogenic E. coli strain, expanding the set of reference genomes available for comparative genomics and epidemiological tracking.
DW Nielsen, P Mangiamele, N Ricker, NL Barbieri, HK Allen, LK Nolan, et al.
Microbiology Resource Announcements 7 (12)
Toolbox for Exploring Avian Pathogenic Escherichia coli (APEC) Pathogenesis and Control
Presented a computational toolbox I built to help bench scientists explore APEC virulence factors and pathogenesis mechanisms without needing bioinformatics expertise.
P Mangiamele
Plant and Animal Genome XXII Conference
Human Computer Interaction Approaches in Genomic Sequencing
Introduced HCI research methods to the genomics community — arguing that sequence analysis tools should be designed around how biologists actually think, not how programmers build pipelines.
P Mangiamele, B Nicholson, LK Nolan
Conference Presentation