Category Ranking
98%
Total Visits
921
Avg Visit Duration
2 minutes
Citations
20
Article Abstract
An astronomical increase in microbial genome data in recent years has led to strong demand for bioinformatic tools for pan-genome analysis within and across species. Here, we present PGAweb, a user-friendly, web-based tool for bacterial pan-genome analysis, which is composed of two main pan-genome analysis modules, PGAP and PGAP-X. PGAweb provides key interactive and customizable functions that include orthologous clustering, pan-genome profiling, sequence variation and evolution analysis, and functional classification. PGAweb presents features of genomic structural dynamics and sequence diversity with different visualization methods that are helpful for intuitively understanding the dynamics and evolution of bacterial genomes. PGAweb has an intuitive interface with one-click setting of parameters and is freely available at http://PGAweb.vlcc.cn/.
Download full-text PDF |
Source |
|---|---|
| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6110895 | PMC |
| http://dx.doi.org/10.3389/fmicb.2018.01910 | DOI Listing |
Publication Analysis
Top Keywords
Similar Publications
Genomic characterization and comparative analysis of antibiotic resistance and virulence in Bangladeshi and global Klebsiella pneumoniae ST48 strains.
J Genet Eng Biotechnol
September 2025
Department of Microbiology, University of Dhaka, Dhaka, Bangladesh. Electronic address:
Klebsiella pneumoniae is an opportunistic pathogen associated with nosocomial infections, known for its multidrug resistance (MDR) and biofilm-forming abilities. ST48 is a particularly concerning sequence type and an emerging international clone linked to global spread and MDR infections. This study examines the comprehensive genomic epidemiology of the local and global populations of K.
View Article and Find Full Text PDFPan-Genome-Based Characterization of the PYL Transcription Factor Family in .
Plants (Basel)
August 2025
Xinjiang Production & Construction Corps Key Laboratory of Protection and Utilization of Biological Resources in Tarim Basin, Aral 843300, China.
Abscisic acid (ABA) is a key phytohormone involved in regulating plant growth and responses to environmental stress. As receptors of ABA, pyrabactin resistance 1 (PYR)/PYR1-like (PYL) proteins play a central role in initiating ABA signal transduction. In this study, a total of 30 genes were identified and classified into three sub-families (PYL I-III) in the pan-genome of 17 species, through phylogenetic analysis.
View Article and Find Full Text PDFA species-wide inventory of receptor-like kinases in Arabidopsis thaliana.
BMC Biol
August 2025
Department of Biological Sciences, University of Toronto - Scarborough, Toronto, Canada.
Background: The receptor-like kinases (RLKs) are the largest family of proteins in plants. Characterized members play critical roles in diverse processes from growth to immunity, and yet the majority do not have a known function. Assigning function to RLKs poses a significant challenge due to the specificity of ligand recognition and because of the often pleiotropic or redundant functions RLKs possess.
View Article and Find Full Text PDFUropathogenic Escherichia coli (UPEC) that hides its identity: features of LC2 and EC73 strains from recurrent urinary tract infections.
BMC Microbiol
August 2025
Department of Public Health and Infectious Diseases, "Sapienza" University of Rome, Microbiology Section, P. le Aldo Moro 5, Rome, 00185, Italy.
Background: Uropathogenic Escherichia coli (UPEC) strains are the major causative agents of human urinary tract infections (UTIs). Many patients who develop UTIs will experience a recurrent UTI (RUTI) within 6 months despite antibiotic-mediated clearance of the initial infection. A significant proportion of RUTIs are caused by E.
View Article and Find Full Text PDFThe evolution, variation, and expression patterns under development and stress responses of the NAC gene family in the barley pan-genome.
Front Plant Sci
August 2025
Crop Research Institute, Shandong Academy of Agricultural Sciences, Jinan, Shandong, China.
The NAC transcription factor family is pivotal in regulating plant development and stress responses, yet its diversity and evolutionary dynamics in barley () remain underexplored. In this study, we performed a comprehensive pan-genome analysis to identify and characterize the across 20 barley accessions. A ranging from 127 to 149 were identified in each genome, in which the Morex genome harbored the highest count.
View Article and Find Full Text PDF