Genomic Characterization Provides an Insight into the Pathogenicity of the Poplar Canker Bacterium Lonsdalea populi
Open Access
- 9 February 2021
- Vol. 12 (2), 246
- https://doi.org/10.3390/genes12020246
Abstract
An emerging poplar canker caused by the gram-negative bacterium, Lonsdalea populi, has led to high mortality of hybrid poplars Populus × euramericana in China and Europe. The molecular bases of pathogenicity and bark adaptation of L. populi have become a focus of recent research. This study revealed the whole genome sequence and identified putative virulence factors of L. populi. A high-quality L. populi genome sequence was assembled de novo, with a genome size of 3,859,707 bp, containing approximately 3434 genes and 107 RNAs (75 tRNA, 22 rRNA, and 10 ncRNA). The L. populi genome contained 380 virulence-associated genes, mainly encoding for adhesion, extracellular enzymes, secretory systems, and two-component transduction systems. The genome had 110 carbohydrate-active enzyme (CAZy)-coding genes and putative secreted proteins. The antibiotic-resistance database annotation listed that L. populi was resistant to penicillin, fluoroquinolone, and kasugamycin. Analysis of comparative genomics found that L. populi exhibited the highest homology with the L. britannica genome and L. populi encompassed 1905 specific genes, 1769 dispensable genes, and 1381 conserved genes, suggesting high evolutionary diversity and genomic plasticity. Moreover, the pan genome analysis revealed that the N-5-1 genome is an open genome. These findings provide important resources for understanding the molecular basis of the pathogenicity and biology of L. populi and the poplar-bacterium interaction.This publication has 50 references indexed in Scilit:
- Lonsdalea quercina subsp. populi subsp. nov., isolated from bark canker of poplar treesInternational Journal of Systematic and Evolutionary Microbiology, 2013
- Genomic variation in Salmonella enterica core genes for epidemiological typingBMC Genomics, 2012
- A CheR/CheB fusion protein is involved in cyst cell development and chemotaxis in Azospirillum brasilense Sp7Microbiological Research, 2011
- A Semi-Quantitative, Synteny-Based Method to Improve Functional Predictions for Hypothetical and Poorly Annotated Bacterial and Archaeal GenesPLoS Computational Biology, 2011
- Protein secretion systems and adhesins: The molecular armory of Gram-negative pathogensInternational Journal of Medical Microbiology, 2007
- Populus: A Model System for Plant BiologyAnnual Review of Plant Biology, 2007
- RNAmmer: consistent and rapid annotation of ribosomal RNA genesNucleic Acids Research, 2007
- Molecular Mechanisms and Regulation of Iron TransportCritical Reviews in Clinical Laboratory Sciences, 2003
- Iron uptake mechanisms and their regulation in pathogenic bacteriaInternational Journal of Medical Microbiology, 2001
- tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic SequenceNucleic Acids Research, 1997