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Hotspot mutations and ColE1 plasmids contribute to the fitness of Salmonella Heidelberg in poultry litter
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1006/meth.2001.1262openalex-snapshot
Analysis of Relative Gene Expression Data Using Real-Time Quantitative PCR and the 2−ΔΔCT Method
inferredcites →https://doi.org/10.1016/0092-8674(90)90405-4openalex-snapshot
Control of plasmid replication—How do DNA iterons set the replication frequency?
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Periplasmic Cu,Zn superoxide dismutase and cytoplasmic Dps concur in protecting Salmonella enterica serovar Typhimurium from extracellular reactive oxygen species
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Parallel Compensatory Evolution Stabilizes Plasmids across the Parasitism-Mutualism Continuum
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Microbial Evolution: Towards Resolving the Plasmid Paradox
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A curated dataset of complete Enterobacteriaceae plasmids compiled from the NCBI nucleotide database
inferredcites →https://doi.org/10.1016/j.febslet.2012.01.060openalex-snapshot
Interaction between relaxase MbeA and accessory protein MbeC of the conjugally mobilizable plasmid ColE1
inferredcites →https://doi.org/10.1016/j.femsre.2003.09.001openalex-snapshot
A classification scheme for mobilization regions of bacterial plasmids
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Absolute and relative QPCR quantification of plasmid copy number in Escherichia coli
inferredcites →https://doi.org/10.1016/j.jenvman.2016.02.036openalex-snapshot
Water activity of poultry litter: Relationship to moisture content during a grow-out
inferredcites →https://doi.org/10.1016/j.plasmid.2004.06.002openalex-snapshot
Twenty years of the pPS10 replicon: insights on the molecular mechanism for the activation of DNA replication in iteron-containing bacterial plasmids
inferredcites →https://doi.org/10.1016/j.plasmid.2017.02.006openalex-snapshot
Carriage of type II toxin-antitoxin systems by the growing group of IncX plasmids
inferredcites →https://doi.org/10.1016/j.plasmid.2017.03.002openalex-snapshot
Ordering the mob: Insights into replicon and MOB typing schemes from analysis of a curated dataset of publicly available plasmids
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The evolution of plasmid stability: Are infectious transmission and compensatory evolution competing evolutionary trajectories?
inferredcites →https://doi.org/10.1016/j.vetmic.2017.03.020openalex-snapshot
Impact of treatments for recycled broiler litter on the viability and infectivity of microorganisms
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Replication Control of Plasmid P1 and Its Host Chromosome: The Common Ground
inferredcites →https://doi.org/10.1038/ismej.2013.182openalex-snapshot
Positive epistasis between co-infecting plasmids promotes plasmid survival in bacterial populations
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Cheating fosters species co-existence in well-mixed bacterial communities
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Toxin-antitoxin systems in bacterial growth arrest and persistence
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Cryptic prophages help bacteria cope with adverse environments
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Positive selection and compensatory adaptation interact to stabilize non-transmissible plasmids
inferredcites →https://doi.org/10.1038/nmeth.2109openalex-snapshot
jModelTest 2: more models, new heuristics and parallel computing
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A new perspective on lysogeny: prophages as active regulatory switches of bacteria
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Persistence and reversal of plasmid-mediated antibiotic resistance
inferredcites →https://doi.org/10.1038/s41559-016-0010openalex-snapshot
Multicopy plasmids potentiate the evolution of antibiotic resistance in bacteria
inferredcites →https://doi.org/10.1038/s41559-017-0243-2openalex-snapshot
Compensatory mutations improve general permissiveness to antibiotic resistance plasmids
inferredcites →https://doi.org/10.1046/j.1365-2958.2000.01986.xopenalex-snapshot
Control of plasmid DNA replication by iterons: no longer paradoxical
inferredcites →https://doi.org/10.1073/pnas.0306466101openalex-snapshot
Gram-positive bacteria are a major reservoir of Class 1 antibiotic resistance integrons in poultry litter
inferredcites →https://doi.org/10.1073/pnas.0602917103openalex-snapshot
Tests of parallel molecular evolution in a long-term experiment with Escherichia coli
inferredcites →https://doi.org/10.1073/pnas.0906217106openalex-snapshot
High frequency of hotspot mutations in core genes of Escherichia coli due to short-term positive selection
inferredcites →https://doi.org/10.1073/pnas.1405336111openalex-snapshot
Pervasive domestication of defective prophages by bacteria
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Antibiotic stress selects against cooperation in the pathogenic bacterium Pseudomonas aeruginosa
inferredcites →https://doi.org/10.1089/cmb.2012.0021openalex-snapshot
SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
inferredcites →https://doi.org/10.1089/fpd.2011.0933openalex-snapshot
Agar Disk Diffusion and Automated Microbroth Dilution Produce Similar Antimicrobial Susceptibility Testing Results for Salmonella Serotypes Newport, Typhimurium, and 4,5,12:i-, But Differ in Economic Cost
inferredcites →https://doi.org/10.1089/mdr.2015.0126openalex-snapshot
A Novel 6′ -N- Aminoglycoside Acetyltransferase, AAC(6′)-Ial, from a Clinical Isolate of Serratia marcescens
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Fast and accurate short read alignment with Burrows–Wheeler transform
inferredcites →https://doi.org/10.1093/bioinformatics/btp352openalex-snapshot
The Sequence Alignment/Map format and SAMtools
inferredcites →https://doi.org/10.1093/bioinformatics/btr330openalex-snapshot
The variant call format and VCFtools
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PGDSpider: an automated data conversion tool for connecting population genetics and genomics programs
inferredcites →https://doi.org/10.1093/bioinformatics/btu033openalex-snapshot
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
inferredcites →https://doi.org/10.1093/bioinformatics/btu153openalex-snapshot
Prokka: rapid prokaryotic genome annotation
inferredcites →https://doi.org/10.1093/gbe/evu079openalex-snapshot
Comparative Genomic Analysis and Virulence Differences in Closely Related Salmonella enterica Serotype Heidelberg Isolates from Humans, Retail Meats, and Animals
inferredcites →https://doi.org/10.1093/molbev/mst010openalex-snapshot
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
inferredcites →https://doi.org/10.1093/nar/gkt1419openalex-snapshot
A widespread bacteriophage abortive infection system functions through a Type IV toxin–antitoxin mechanism
inferredcites →https://doi.org/10.1093/nar/gku1003openalex-snapshot
STRING v10: protein–protein interaction networks, integrated over the tree of life
inferredcites →https://doi.org/10.1093/nar/gkw1004openalex-snapshot
CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database
inferredcites →https://doi.org/10.1093/ps/86.9.1840openalex-snapshot
Spatial Shifts in Microbial Population Structure Within Poultry Litter Associated with Physicochemical Properties
inferredcites →https://doi.org/10.1098/rsbl.2015.0361openalex-snapshot
Plasmid carriage can limit bacteria–phage coevolution
inferredcites →https://doi.org/10.1101/187070openalex-snapshot
Compensatory evolution facilitates the acquisition of multiple plasmids in bacteria
inferredcites →https://doi.org/10.1101/gr.107524.110openalex-snapshot
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
inferredcites →https://doi.org/10.1111/1574-6976.12072openalex-snapshot
Bacteria–phage coevolution as a driver of ecological and evolutionary processes in microbial communities
inferredcites →https://doi.org/10.1111/j.1365-2672.1965.tb02170.xopenalex-snapshot
The Microbiology of Built Up Poultry Litter
inferredcites →https://doi.org/10.1111/j.1365-2958.2008.06426.xopenalex-snapshot
Cross‐talk suppression between the CpxA–CpxR and EnvZ–OmpR two‐component systems in E. coli
inferredcites →https://doi.org/10.1111/mec.14080openalex-snapshot
Conflicting selection alters the trajectory of molecular evolution in a tripartite bacteria–plasmid–phage interaction
inferredcites →https://doi.org/10.1126/science.1088157openalex-snapshot
Toxins-Antitoxins: Plasmid Maintenance, Programmed Cell Death, and Cell Cycle Arrest
inferredcites →https://doi.org/10.1126/science.1212986openalex-snapshot
The Molecular Diversity of Adaptive Convergence
inferredcites →https://doi.org/10.1128/aac.00201-12openalex-snapshot
Characterization of Multidrug-Resistant Salmonella enterica Serovar Heidelberg from a Ground Turkey-Associated Outbreak in the United States in 2011
inferredcites →https://doi.org/10.1128/aac.00410-17openalex-snapshot
First Detection of a Fosfomycin Resistance Gene, fosA7 , in Salmonella enterica Serovar Heidelberg Isolated from Broiler Chickens
inferredcites →https://doi.org/10.1128/aac.01105-12openalex-snapshot
Novel 6′- N -Aminoglycoside Acetyltransferase AAC(6′)-Iaj from a Clinical Isolate of Pseudomonas aeruginosa
inferredcites →https://doi.org/10.1128/aac.01919-16openalex-snapshot
A Whole-Genome Sequencing Approach To Study Cefoxitin-Resistant Salmonella enterica Serovar Heidelberg Isolates from Various Sources
inferredcites →https://doi.org/10.1128/aac.03354-14openalex-snapshot
Identification of a Novel 6′- N -Aminoglycoside Acetyltransferase, AAC(6′)-Iak, from a Multidrug-Resistant Clinical Isolate of Stenotrophomonas maltophilia
inferredcites →https://doi.org/10.1128/aem.00180-10openalex-snapshot
Interrelations between the Microbiotas in the Litter and in the Intestines of Commercial Broiler Chickens
inferredcites →https://doi.org/10.1128/aem.01945-16openalex-snapshot
Bacterial Quorum Sensing Stabilizes Cooperation by Optimizing Growth Strategies
inferredcites →https://doi.org/10.1128/genomea.00990-16openalex-snapshot
Complete Genome Sequences of 17 Canadian Isolates of Salmonella enterica subsp. enterica Serovar Heidelberg from Human, Animal, and Food Sources
inferredcites →https://doi.org/10.1128/genomea.01154-13openalex-snapshot
Complete Genome Sequences of Salmonella enterica Serovar Heidelberg Strains Associated with a Multistate Food-Borne Illness Investigation
inferredcites →https://doi.org/10.1128/genomea.01526-15openalex-snapshot
Complete Genome and Plasmid Sequences of Three Canadian Isolates of Salmonella enterica subsp. enterica Serovar Heidelberg from Human and Food Sources
inferredcites →https://doi.org/10.1128/jb.00333-15openalex-snapshot
Diversity of Cyclic Di-GMP-Binding Proteins and Mechanisms
inferredcites →https://doi.org/10.1128/jb.00552-12openalex-snapshot
Convergent Molecular Evolution of Genomic Cores in Salmonella enterica and Escherichia coli
inferredcites →https://doi.org/10.1128/jb.00706-06openalex-snapshot
Salmonella enterica Serovar Typhimurium Periplasmic Superoxide Dismutase SodCI Is a Member of the PhoPQ Regulon and Is Induced in Macrophages
inferredcites →https://doi.org/10.1128/jb.00748-09openalex-snapshot
The Glycerol-3-Phosphate Permease GlpT Is the Only Fosfomycin Transporter in Pseudomonas aeruginosa
inferredcites →https://doi.org/10.1128/jb.01342-08openalex-snapshot
Analysis of ColE1 MbeC Unveils an Extended Ribbon-Helix-Helix Family of Nicking Accessory Proteins
inferredcites →https://doi.org/10.1128/jb.181.9.2703-2709.1999openalex-snapshot
Intraspecific Diversity of the 23S rRNA Gene and the Spacer Region Downstream in Escherichia coli
inferredcites →https://doi.org/10.1128/jb.182.21.5954-5961.2000openalex-snapshot
Sequence Changes in the Ton Box Region of BtuB Affect Its Transport Activities and Interaction with TonB Protein
inferredcites →https://doi.org/10.1128/jb.185.15.4371-4381.2003openalex-snapshot
TraG-Like Proteins of Type IV Secretion Systems: Functional Dissection of the Multiple Activities of TraG (RP4) and TrwB (R388)
inferredcites →https://doi.org/10.1128/jcm.02200-15openalex-snapshot
Usefulness of High-Quality Core Genome Single-Nucleotide Variant Analysis for Subtyping the Highly Clonal and the Most Prevalent Salmonella enterica Serovar Heidelberg Clone in the Context of Outbreak Investigations
inferredcites →https://doi.org/10.1146/annurev.micro.112408.134247openalex-snapshot
TonB-Dependent Transporters: Regulation, Structure, and Function
inferredcites →https://doi.org/10.1186/1471-2105-5-113openalex-snapshot
MUSCLE: a multiple sequence alignment method with reduced time and space complexity
inferredcites →https://doi.org/10.1292/jvms.16-0071openalex-snapshot
Virulence characteristics of extraintestinal pathogenic Escherichia coli deletion of gene encoding the outer membrane protein X
inferredcites →https://doi.org/10.1371/journal.pgen.1004217openalex-snapshot
The Kil Peptide of Bacteriophage λ Blocks Escherichia coli Cytokinesis via ZipA-Dependent Inhibition of FtsZ Assembly
inferredcites →https://doi.org/10.1371/journal.pone.0009328openalex-snapshot
Sociobiological Control of Plasmid Copy Number in Bacteria
inferredcites →https://doi.org/10.1371/journal.pone.0011147openalex-snapshot
progressiveMauve: Multiple Genome Alignment with Gene Gain, Loss and Rearrangement
inferredcites →https://doi.org/10.1371/journal.pone.0019912openalex-snapshot
Design and Synthesis of a Quintessential Self-Transmissible IncX1 Plasmid, pX1.0
inferredcites →https://doi.org/10.1371/journal.pone.0041259openalex-snapshot
Sequencing of IncX-Plasmids Suggests Ubiquity of Mobile Forms of a Biofilm-Promoting Gene Cassette Recruited from Klebsiella pneumoniae
inferredcites →https://doi.org/10.1371/journal.pone.0162369openalex-snapshot
National Outbreak of Multidrug Resistant Salmonella Heidelberg Infections Linked to a Single Poultry Company
inferredcites →https://doi.org/10.1534/genetics.109.103028openalex-snapshot
Contribution of Gene Amplification to Evolution of Increased Antibiotic Resistance inSalmonella typhimurium
inferredcites →https://doi.org/10.2307/1589575openalex-snapshot
Some Factors Affecting Salmonella typhimurium Infection and Shedding in Chickens Raised on Litter
inferredcites →https://doi.org/10.2307/1591762openalex-snapshot
Correlation of Water Activity and Other Environmental Conditions with Repeated Detection of Salmonella Contamination on Poultry Farms
inferredcites →https://doi.org/10.2741/actisopenalex-snapshot
Bacterial plasmids: replication of extrachromosomal genetic elements encoding resistance to antimicrobial compounds
inferredcites →https://doi.org/10.3201/eid2207.151377openalex-snapshot
Extended-Spectrum Cephalosporin-ResistantSalmonella entericaserovar Heidelberg Strains, the Netherlands1
inferredcites →https://doi.org/10.3382/ps.2011-01583openalex-snapshot
Research on Salmonella in broiler litter reused for up to 14 consecutive flocks
inferredcites →https://doi.org/10.3389/fmicb.2016.00593openalex-snapshot
Intestinal Microbiota of Broiler Chickens As Affected by Litter Management Regimens
inferredcites →https://doi.org/10.4315/0362-028x.jfp-12-087openalex-snapshot
Influence of Primer Sequences and DNA Extraction Method on Detection of Non-O157 Shiga Toxin-Producing Escherichia coli in Ground Beef by Real-Time PCR Targeting the eae, stx, and Serogroup-Specific Genes
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.3390/ani15071003openalex-snapshot
Phenotypic and Genomic Assessment of Antimicrobial Resistance and Virulence Factors Determinants in Salmonella Heidelberg Isolated from Broiler Chickens
inferred← citeshttps://doi.org/10.3390/app12052639openalex-snapshot
Synchrotron Radiation Circular Dichroism, a New Tool to Probe Interactions between Nucleic Acids Involved in the Control of ColE1-Type Plasmid Replication
inferred← citeshttps://doi.org/10.3390/microorganisms8081203openalex-snapshot
Iron-Uptake Systems of Chicken-Associated Salmonella Serovars and Their Role in Colonizing the Avian Host
inferred← citeshttps://doi.org/10.3390/pathogens10081024openalex-snapshot
Prevalence of IncFIB Plasmids Found among Salmonella enterica Serovar Schwarzengrund Isolates from Animal Sources in Taiwan Using Whole-Genome Sequencing
inferred← citeshttps://doi.org/10.3390/pathogens11121500openalex-snapshot
A Familiar Outbreak of Monophasic Salmonella serovar Typhimurium (ST34) Involving Three Dogs and Their Owner’s Children
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