Results 21 to 30 of about 68,289 (252)

Pandora: nucleotide-resolution bacterial pan-genomics with reference graphs

Genome Biology, 2021
We present pandora, a novel pan-genome graph structure and algorithms for identifying variants across the full bacterial pan-genome. As much bacterial adaptability hinges on the accessory genome, methods which analyze SNPs in just the core genome have ...
Rachel M. Colquhoun, Michael B. Hall, Leandro Lima, Leah W. Roberts, Kerri M. Malone, Martin Hunt, Brice Letcher, Jane Hawkey, Sophie George, Louise Pankhurst, Zamin Iqbal   +10 more
doaj   +1 more source

Phylogenomics of Globally Spread Clonal Groups 14 and 15 of Klebsiella pneumoniae

Microbiology Spectrum, 2023
Klebsiella pneumoniae sequence type 14 (ST14) and ST15 caused outbreaks of CTX-M-15 and/or carbapenemase producers worldwide, but their phylogeny and global dynamics remain unclear. We clarified the evolution of K.
Carla Rodrigues, Val F. Lanza, Luísa Peixe, Teresa M. Coque, Ângela Novais   +4 more
doaj   +1 more source

The landscape of coadaptation in Vibrio parahaemolyticus

eLife, 2020
Investigating fitness interactions in natural populations remains a considerable challenge. We take advantage of the unique population structure of Vibrio parahaemolyticus, a bacterial pathogen of humans and shrimp, to perform a genome-wide screen for ...
Yujun Cui, Chao Yang, Hongling Qiu, Hui Wang, Ruifu Yang, Daniel Falush   +5 more
doaj   +1 more source

Comparative genome analysis of the genus Shewanella unravels the association of key genetic traits with known and potential pathogenic lineages

Frontiers in Microbiology, 2023
Shewanella spp. are Gram-negative rods widely disseminated in aquatic niches that can also be found in human-associated environments. In recent years, reports of infections caused by these bacteria have increased significantly.
Gabriela N. Cerbino, German M. Traglia, Teolincacihuatl Ayala Nuñez, Gisela Parmeciano Di Noto, María Soledad Ramírez, Daniela Centrón, Andrés Iriarte, Cecilia Quiroga   +7 more
doaj   +1 more source

Association of virulence plasmid and antibiotic resistance determinants with chromosomal multilocus genotypes in Mexican Salmonella enterica serovar Typhimurium strains

BMC Microbiology, 2009
Background Bacterial genomes are mosaic structures composed of genes present in every strain of the same species (core genome), and genes present in some but not all strains of a species (accessory genome).
Silva Claudia, Calva Juan J, Fernández-Mora Marcos, Calva Edmundo, Zaidi Mussaret B, Wiesner Magdalena   +5 more
doaj   +1 more source

Pan-Genome of Novel Pantoea stewartii subsp. indologenes Reveals Genes Involved in Onion Pathogenicity and Evidence of Lateral Gene Transfer

Microorganisms, 2021
Pantoea stewartii subsp. indologenes (Psi) is a causative agent of leafspot on foxtail millet and pearl millet; however, novel strains were recently identified that are pathogenic on onions. Our recent host range evaluation study identified two pathovars;
Gaurav Agarwal, Ronald D. Gitaitis, Bhabesh Dutta   +2 more
doaj   +1 more source

Genomic analysis of Sinorhizobium meliloti LPU63, an acid-tolerant and symbiotically efficient alfalfa-nodulating rhizobia

Frontiers in Agronomy, 2023
The growth and persistence of alfalfa (Medicago sativa), a perennial legume capable of producing high yields of high-quality forage, is reduced in moderately acidic soils.
Juan Hilario Cafiero, María Salvetti Casasco, Mauricio Javier Lozano, Carolina Vacca, Silvina Laura López García, Walter Omar Draghi, Antonio Lagares, María Florencia Del Papa   +7 more
doaj   +1 more source

Genome Sequencing and Pan-Genome Analysis of 23 Corallococcus spp. Strains Reveal Unexpected Diversity, With Particular Plasticity of Predatory Gene Sets

Frontiers in Microbiology, 2018
Corallococcus is an abundant genus of predatory soil myxobacteria, containing two species, C. coralloides (for which a genome sequence is available) and C. exiguus.
Paul G. Livingstone, Russell M. Morphew, David E. Whitworth   +2 more
doaj   +1 more source

Combined Analysis of Variation in Core, Accessory and Regulatory Genome Regions Provides a Super-Resolution View into the Evolution of Bacterial Populations.

PLoS Genetics, 2016
The use of whole-genome phylogenetic analysis has revolutionized our understanding of the evolution and spread of many important bacterial pathogens due to the high resolution view it provides.
Alan McNally, Yaara Oren, Darren Kelly, Ben Pascoe, Steven Dunn, Tristan Sreecharan, Minna Vehkala, Niko Välimäki, Michael B Prentice, Amgad Ashour, Oren Avram, Tal Pupko, Ulrich Dobrindt, Ivan Literak, Sebastian Guenther, Katharina Schaufler, Lothar H Wieler, Zong Zhiyong, Samuel K Sheppard, James O McInerney, Jukka Corander   +20 more
doaj   +1 more source

Destabilization of chromosome structure by histone H3 lysine 27 methylation.

PLoS Genetics, 2019
Chromosome and genome stability are important for normal cell function as instability often correlates with disease and dysfunction of DNA repair mechanisms.
Mareike Möller, Klaas Schotanus, Jessica L Soyer, Janine Haueisen, Kathrin Happ, Maja Stralucke, Petra Happel, Kristina M Smith, Lanelle R Connolly, Michael Freitag, Eva H Stukenbrock   +10 more
doaj   +1 more source