Microbial genomic island discovery, visualization and analysis

C Bertelli, KE Tilley, FSL Brinkman - Briefings in bioinformatics, 2019 - academic.oup.com
Horizontal gene transfer (also called lateral gene transfer) is a major mechanism for
microbial genome evolution, enabling rapid adaptation and survival in specific niches …

Pan-Genome Plasticity and Virulence Factors: A Natural Treasure Trove for Acinetobacter baumannii

T Karampatakis, K Tsergouli, P Behzadi - Antibiotics, 2024 - mdpi.com
Acinetobacter baumannii is a Gram-negative pathogen responsible for a variety of
community-and hospital-acquired infections. It is recognized as a life-threatening pathogen …

Single-cell genomics-based analysis of virus–host interactions in marine surface bacterioplankton

JM Labonté, BK Swan, B Poulos, H Luo… - The ISME …, 2015 - academic.oup.com
Viral infections dynamically alter the composition and metabolic potential of marine
microbial communities and the evolutionary trajectories of host populations with resulting …

Characterization of the core and accessory genomes of Pseudomonas aeruginosa using bioinformatic tools Spine and AGEnt

EA Ozer, JP Allen, AR Hauser - BMC genomics, 2014 - Springer
Background Pseudomonas aeruginosa is an important opportunistic pathogen responsible
for many infections in hospitalized and immunocompromised patients. Previous reports …

PAIDB v2. 0: exploration and analysis of pathogenicity and resistance islands

SH Yoon, YK Park, JF Kim - Nucleic acids research, 2015 - academic.oup.com
Pathogenicity is a complex multifactorial process confounded by the concerted activity of
genetic regions associated with virulence and/or resistance determinants. Pathogenicity …

[HTML][HTML] GIPSy: genomic island prediction software

SC Soares, H Geyik, RTJ Ramos, PHCG de Sá… - Journal of …, 2016 - Elsevier
Bacteria are highly diverse organisms that are able to adapt to a broad range of
environments and hosts due to their high genomic plasticity. Horizontal gene transfer plays a …

Pangenomic study of Corynebacterium diphtheriae that provides insights into the genomic diversity of pathogenic isolates from cases of classical diphtheria …

E Trost, J Blom, S de Castro Soares… - Journal of …, 2012 - Am Soc Microbiol
Corynebacterium diphtheriae is one of the most prominent human pathogens and the
causative agent of the communicable disease diphtheria. The genomes of 12 strains …

Inside the pan-genome-methods and software overview

L Carlos Guimaraes, L Benevides de Jesus… - Current …, 2015 - ingentaconnect.com
The number of genomes that have been deposited in databases has increased
exponentially after the advent of Next-Generation Sequencing (NGS), which produces high …

The Pan-Genome of the Animal Pathogen Corynebacterium pseudotuberculosis Reveals Differences in Genome Plasticity between the Biovar ovis and equi Strains

SC Soares, A Silva, E Trost, J Blom, R Ramos… - PLoS …, 2013 - journals.plos.org
Corynebacterium pseudotuberculosis is a facultative intracellular pathogen and the
causative agent of several infectious and contagious chronic diseases, including caseous …

Complete Genome Analysis of Three Acinetobacter baumannii Clinical Isolates in China for Insight into the Diversification of Drug Resistance Elements

L Zhu, Z Yan, Z Zhang, Q Zhou, J Zhou, EK Wakeland… - PloS one, 2013 - journals.plos.org
Background The emergence and rapid spreading of multidrug-resistant Acinetobacter
baumannii strains has become a major health threat worldwide. To better understand the …