Microbial Genomics

Article	Citations
Helicobacter cinaedi is a human-adapted lineage in the Helicobacter cinaedi/canicola/‘magdeburgensis’ complex	619
Multiple independent losses of sporulation and peptidoglycan in the Mycoplasmatales and related orders of the class Bacilli	333
Genomic and pathogenicity analyses to identify the causative agent from multiple serogroups of non-O1, non-O139 Vibrio cholerae in foodborne outbreaks	129
Optimization of high-throughput 16S rRNA gene amplicon sequencing: an assessment of PCR pooling, mastermix use and contamination	66
Bilateral symmetry of linear streptomycete chromosomes	62
A metagenomic approach to One Health surveillance of antimicrobial resistance in a UK veterinary centre	56
Acquisition of Type I methyltransferase via horizontal gene transfer increases the drug resistance of Aeromonas veronii	56
Development and validation of a core-genome multilocus sequence typing scheme for Legionella longbeachae	48
Third generation cephalosporin resistance in clinical non-typhoidal Salmonella enterica in Germany and emergence of bla CTX-M-harbouring pESI plasmids	46
Molecular characterization of Coxsackievirus A2 isolated from hand, foot and mouth disease in eastern China	44
Alterations in chromosomal genes nfsA, nfsB, and ribE are associated with nitrofurantoin resistance in Escherichia coli from the United Kingdom	41
Assessing the safety of microbiome perturbations	41
Prophages encoding human immune evasion cluster genes are enriched in Staphylococcus aureus isolated from chronic rhinosinusitis patients with nasal polyps	39
Evaluating the impact of genomic epidemiology of methicillin-resistant Staphylococcus aureus (MRSA) on hospital infection prevention and control decisions	39
The primate gut microbiota contributes to interspecific differences in host metabolism	39
A systematic review of economic evaluations of whole-genome sequencing for the surveillance of bacterial pathogens	34
Transcriptional landscape of Burkholderia pseudomallei cultured under environmental and clinical conditions	32
The clinical, genomic, and microbiological profile of invasive multi-drug resistant Escherichia coli in a major teaching hospital in the United Kingdom	31
Development of a novel streamlined workflow (AACRE) and database (inCREDBle) for genomic analysis of carbapenem-resistant Enterobacterales	31
Analysis of genome instability and implications for the consequent phenotype in Plasmodium falciparum containing mutated MSH2-1 (P513T)	30
Assembly collapsing versus heterozygosity oversizing: detection of homokaryotic and heterokaryotic Laccaria trichodermophora strains by hybrid genome assembly	30
Comparative genomics of a novel Erwinia species associated with the Highland midge (Culicoides impunctatus)	29
Identifying gene-level mechanisms of successful dispersal of Vibrio parahaemolyticus during El Niño events	28
Genomic comparisons of Escherichia coli ST131 from Australia	27
Context-aware genomic surveillance reveals hidden transmission of a carbapenemase-producing Klebsiella pneumoniae	27

Transcriptomic analysis of Pseudomonas ogarae F113 reveals the antagonistic roles of AmrZ and FleQ during rhizosphere adaption	25
Novel emm4 lineage associated with an upsurge in invasive group A streptococcal disease in the Netherlands, 2022	25
Identification of further variation at the lipooligosaccharide outer core locus in Acinetobacter baumannii genomes and extension of the OCL reference sequence database for Kaptive	24
On the limits of 16S rRNA gene-based metagenome prediction and functional profiling	24
A comparative study of pan-genome methods for microbial organisms: Acinetobacter baumannii pan-genome reveals structural variation in antimicrobial resistance-carrying plasmids	24
Dairy streptococcal cell wall and exopolysaccharide genome diversity	24
Distribution and genomic characterization of tigecycline-resistant tet(X4)-positive Escherichia coli of swine farm origin	24
GBS-SBG - GBS Serotyping by Genome Sequencing	23
Complete genomes of Clostridium botulinum type B(F) isolates associated with a 1995 foodborne botulism outbreak from commercial pâté reveals a recombination event disrupting the ntnh gene	23
Birmingham-group IncP-1α plasmids revisited: RP4, RP1 and RK2 are identical and their remnants can be detected in environmental isolates	23
Enteric fever cluster identification in South Africa using genomic surveillance of Salmonella enterica serovar Typhi	23
Novel diversity of polar Cyanobacteria revealed by genome-resolved metagenomics	23
The use of representative community samples to assess SARS-CoV-2 lineage competition: Alpha outcompetes Beta and wild-type in England from January to March 2021	22
dRNASb: a systems biology approach to decipher dynamics of host-pathogen interactions using temporal dual RNA-seq data	22
Benchmarking the topological accuracy of bacterial phylogenomic workflows using in silico evolution	22
Vibrio cholerae serogroup O5 was responsible for the outbreak of gastroenteritis in Czechoslovakia in 1965	21
High intra-laboratory reproducibility of nanopore sequencing in bacterial species underscores advances in its accuracy	20
Evolution of the CRISPR-Cas9 defence system in Mycoplasma gallisepticum following colonization of a novel bird host	20
Temporal dynamics of gene expression during the development of Campylobacter jejuni biofilms	19
Deep population structure linked to host vernalization requirement in the barley net blotch fungal pathogen	19
Streptococcus pneumoniae serotype 3 population structure in the era of conjugate vaccines, 2001–2018	19
Evaluating methods for genome sequencing of Chlamydia trachomatis and other sexually transmitted bacteria directly from clinical swabs	19
Population structure and antimicrobial resistance of Corynebacterium diphtheriae in Victoria, Australia	18
Draft genomes of novel avian Chlamydia abortus strains from Australian Torresian crows (Corvus orru) shed light on possible reservoir hosts and evolutionary pathways	18
Genomic epidemiology of the clinically dominant clonal complex 1 in the Listeria monocytogenes population in the UK	17
Using 16s rRNA sequencing to characterize the microbiome of tropical cutaneous ulcer disease: insights into the microbial landscape and implications for diagnosis and treatment	17
Pyridoxal 5’-phosphate synthesis and salvage in Bacteria and Archaea: predicting pathway variant distributions and holes	17
Piperacillin/tazobactam-resistant, cephalosporin-susceptible Escherichia coli bloodstream infections are driven by multiple acquisition of resistance across diverse sequence types	17
Small and intermediate size structural RNAs in the unicellular parasite Cryptosporidium parvum as revealed by sRNA-seq and comparative genomics	17
Profiling of vaginal Lactobacillus jensenii isolated from preterm and full-term pregnancies reveals strain-specific factors relating to host interaction	17
A novel variant of the Listeria monocytogenes type VII secretion system EssC component is associated with an Rhs toxin	17
Genomic resistance in historical clinical isolates increased in frequency and mobility after the age of antibiotics	17
Insights into the genomic evolution and the alkali tolerance mechanisms of Agaricus sinodeliciosus by comparative genomic and transcriptomic analyses	16
A local-scale One Health genomic surveillance of Clostridioides difficile demonstrates highly related strains from humans, canines, and the environment	16
Fatal affairs – conjugational transfer of a dinoflagellate-killing plasmid between marine Rhodobacterales	16
Whole-genome analysis of rotavirus G1P[8] and other Wa-like strains in Mozambican children: evidence of genetic variations of pre-vaccine G1P[8] strains from Manhiça, Mozambique	16
Enhancing capacity for national genomics surveillance of antimicrobial resistance in public health laboratories in Kenya	16
Scalable genotyping of microbial colonies	16
The possible impact of novel mutations in human papillomavirus 52 on the infection characteristics	15
Systematic analysis of plasmids of the Serratia marcescens complex using 142 closed genomes	15
Conserved patterns of sequence diversification provide insight into the evolution of two-component systems in Enterobacteriaceae	15
Corrigendum: Genomic characterisation of a unique Panton-Valentine leucocidin-positive community-associated methicillin-resistant Staphylococcus aureus lineage increasingly impacting Australian indige	15
Identification of novel, cryptic Clostridioides species isolates from environmental samples collected from diverse geographical locations	15
Colonization and transmission of Staphylococcus aureus in schools: a citizen science project	15
Population structure of ocular Streptococcus pneumoniae is highly diverse and formed by lineages that escape current vaccines	15
ViromeFlowX: a Comprehensive Nextflow-based Automated Workflow for Mining Viral Genomes from Metagenomic Sequencing Data	15
A new perspective on ancient Mitis group streptococcal genetics	14
pyngoST: fast, simultaneous and accurate multiple sequence typing of Neisseria gonorrhoeae genome collections	14
Bioinformatic investigation of discordant sequence data for SARS-CoV-2: insights for robust genomic analysis during pandemic surveillance	14
Comparative genome analysis of human pathogen Parvimonas micra revealed strain JM503A as potential novel species in the genus Parvimonas and high intra-species functional diversity	14

Unusual SARS-CoV-2 intrahost diversity reveals lineage superinfection	14
An integrated multi-omic approach for discovery and dereplication of bioactive microbial natural products	14
Global population structure of the Serratia marcescens complex and identification of hospital-adapted lineages in the complex	14
Type I-F CRISPR-associated transposons contribute to genomic plasticity in Shewanella and mediate efficient programmable DNA integration	14
Evolutionary dynamics in the genome of ocular Chlamydia trachomatis strains from Northern Tanzania following mass drug administration	14
SNPPar: identifying convergent evolution and other homoplasies from microbial whole-genome alignments	14
Genomic and clinical characteristics of campylobacteriosis in Australia	14
Identifying large-scale recombination and capsular switching events in Streptococcus agalactiae strains causing disease in adults in the UK between 2014 and 2015	14
Split k-mer analysis compared to cgMLST and SNP-based core genome analysis for detecting transmission of vancomycin-resistant enterococci: results from routine outbreak analyses across different hospi	14
Reconstructing NOD-like receptor alleles with high internal conservation in Podospora anserina using long-read sequencing	14
A host shift as the origin of tomato bacterial canker caused by Clavibacter michiganensis	14
Monkeypox virus: phylogenomics, host–pathogen interactome and mutational cascade	14
Heritability and gene functions associated with sclerotia formation of Rhizoctonia solani AG-7 using whole genome sequencing and genome-wide association study	14
Evidence of potential Campylobacter jejuni zooanthroponosis in captive macaque populations	14
Giants’ cooperation: a draft genome of the giant ciliate Muniziella cunhai suggests its ecological role in the capybara’s digestive metabolism	14
Identification of essential genes in Coxiella burnetii	14
HAIviz: an interactive dashboard for visualising and integrating healthcare-associated genomic epidemiological data	14
Exploration of low-frequency allelic variants of SARS-CoV-2 genomes reveals coinfections in Mexico occurred during periods of VOCs turnover	14
Analysis of variola virus molecular evolution suggests an old origin of the virus consistent with historical records	13
Genomic sentinel surveillance: Salmonella Paratyphi B outbreak in travellers coinciding with a mass gathering in Iraq	13
Dual RNA isolation from blood: an optimized protocol for host and bacterial RNA purification for dual RNA-sequencing analysis in whole blood sepsis samples	13
Taking hospital pathogen surveillance to the next level	13
Dominance of high-risk clones ST2 and ST571 and the diversity of resistance islands in clinical Acinetobacter baumannii isolates from Hanoi, Vietnam	13
Genomic surveillance identifies SARS-CoV-2 transmission patterns in local university populations, Wisconsin, USA, 2020–2022	13
Genetic insights into Shewanella spp., progenitor of the bla OXA-48-like genes: a large-scale study	13
An imputed ancestral reference genome for the Mycobacterium tuberculosis complex better captures structural genomic diversity for reference-based alignment workflows	13
20 years later: unravelling the genomic success of New Zealand’s home-grown AK3 community-associated methicillin-resistant Staphylococcus aureus	13
The characterization of Moraxella catarrhalis carried in the general population	13
An improved catalogue for whole-genome sequencing prediction of bedaquiline resistance in Mycobacterium tuberculosis using a reproducible algorithmic approach	13
Evaluation of the accuracy of bacterial genome reconstruction with Oxford Nanopore R10.4.1 long-read-only sequencing	13
Genomic characterization of respiratory syncytial virus genotypes circulating in the paediatric population of Sydney, NSW, Australia	13
Cryptosporidium felis differs from other Cryptosporidium spp. in codon usage	13
Comparative genome analyses of five Vibrio penaeicida strains provide insights into their virulence-related factors	12
Discovery of a bacteriophage sequence in a mite genome assembly reveals bacterial contamination and opens new possibilities for exploring arthropod symbionts	12
In silico investigation of the genus Campylobacter type VI secretion system reveals genetic diversity in organization and putative effectors	12
Genomic epidemiology and the evolution of erm(B)-mediated macrolide resistance in Campylobacter	12
Chlamydia trachomatis genomes from rectal samples: description of a new clade comprising ompA-genotype L4 from Argentina	12
Corrigendum: ‘Nanopore-only assemblies for genomic surveillance of the global priority drug-resistant pathogen, Klebsiella pneumoniae’	12
Laboratory strains of Escherichia coli K-12: things are seldom what they seem	12
Global phylogenomic analysis of Staphylococcus pseudintermedius reveals genomic and prophage diversity in multidrug-resistant lineages	12
SARS-CoV-2 variants of concern dominate in Lahore, Pakistan in April 2021	12
Genomic characterization of multidrug-resistant Salmonella serovar Kentucky ST198 isolated in poultry flocks in Spain (2011–2017)	12
Revealing microbial species diversity using sequence capture by hybridization	12
Cluster-specific gene markers enhance Shigella and enteroinvasive Escherichia coli in silico serotyping	12
Plasmid conjugation drives within–patient plasmid diversity	12
Implementation of national whole-genome sequencing of Mycobacterium tuberculosis, National Public Health Laboratory, Singapore, 2019—2022	12
‘Vivaldi’: an amplicon-based whole-genome sequencing method for the four seasonal human coronaviruses, 229E, NL63, OC43 and HKU1, alongside SARS-CoV-2	12
Pan-genomic characterization and structural variant analysis reveal insights into spore development and species diversity in Ganoderma	11
A Streptococcus pneumoniae lineage usually associated with pneumococcal conjugate vaccine (PCV) serotypes is the most common cause of serotype 35B invasive disease in South Africa, following routine u	11
Increased clonality among Neisseria gonorrhoeae isolates during the COVID-19 pandemic in Amsterdam, the Netherlands	11
Use of genome-scale metabolic reconstructions of avian pathogenic Escherichia coli (APEC) phylogroups for the identification of lineage-specific metabolic pathways	11
Subinhibitory antibiotic concentrations promote the excision of a genomic island carried by the globally spread carbapenem-resistant Klebsiella pneumoniae sequence type 258	11
Expanded roles of lactate-sensing LldR in transcription regulation of the Escherichia coli K-12 genome: lactate utilisation and acid resistance	11
Phylogenomic and genomic analysis reveals unique and shared genetic signatures of Mycobacterium kansasii complex species	11
Matching excellence: Oxford Nanopore Technologies’ rise to parity with Pacific Biosciences in genome reconstruction of non-model bacterium with high G+C content	11
The macronuclear genomic landscape within Tetrahymena thermophila	11
The long and short of it: benchmarking viromics using Illumina, Nanopore and PacBio sequencing technologies	11
Genomic characterization of enterohaemolysin-encoding haemolytic Escherichia coli of animal and human origin	11
Using whole-genome sequencing to assess the diversity of Paenibacillus larvae within an outbreak and a beekeeping operation	11
Transmission, distribution and drug resistance-conferring mutations of extensively drug-resistant tuberculosis in the Western Cape Province, South Africa	11
Phylogenomic analysis of the genus Delftia reveals distinct major lineages with ecological specializations	11
Population genomics of the food-borne pathogen Vibrio fluvialis reveals lineage associated pathogenicity-related genetic elements	11
Genomic diversity and antimicrobial resistance among non-typhoidal Salmonella associated with human disease in The Gambia	11
Comparative transcriptomics reveals context- and strain-specific regulatory programmes of Agrobacterium during plant colonization	11
Naturally occurring Neisseria gonorrhoeae can have large deletions in housekeeping gene abcZ, making them untypable with multilocus sequence typing	10
Genomic diversity and epidemiological significance of non-typhoidal Salmonella found in retail food collected in Norfolk, UK	10
Nationwide surveillance in Thailand revealed genotype-dependent dissemination of carbapenem-resistant Enterobacterales	10
Exploring the microbial communities in coastal cenote and their hidden biotechnological potential	10
Whole-genome sequencing enhances existing pathogen and antimicrobial-resistance surveillance schemes within a neonatal unit	10
ChiVariARIBA: a modular, editable workflow and database for characterising chitin gene variation in Vibrio spp. and related bacteria	10
Genomic surveillance of multidrug-resistant Klebsiella in Wales reveals persistent spread of Klebsiella pneumoniae ST307 and adaptive evolution of pOXA-48-like plasmids	10
Evaluation of Klebsiella pneumoniae pathogenicity through holistic gene content analysis	10
Genomics reveals multiple introductions of the seventh pandemic Vibrio cholerae O1 El Tor lineage into Iran since 1965	10
IS26-mediated plasmid reshuffling results in convergence of toxin–antitoxin systems but loss of resistance genes in XDR Klebsiella pneumoniae from a chronic infection	10
Five centuries of genome evolution and multi-host adaptation of Campylobacter jejuni in Brazil	10
Pneumococcal population genomics changes during the early time period of conjugate vaccine uptake in southern India	10
Serotype replacement and mobile genetic elements in Streptococcus pneumoniae: a systematic review	10
Hospital outbreak of carbapenem-resistant Enterobacterales associated with a bla OXA-48 plasmid carried mostly by Escherichia coli ST399	10
Corrigendum: Coupling next-generation sequencing to dominant positive screens for finding antibiotic cellular targets and resistance mechanisms in Escherichia coli	9
High-resolution characterization of short-term temporal variability in the taxonomic and resistome composition of wastewater influent	9

Genome sequencing and multifaceted taxonomic analysis of novel strains of violacein-producing bacteria and non-violacein-producing close relatives	9
The antimicrobial resistance landscape of Neisseria gonorrhoeae in New Zealand from November 2018 to March 2019 and the role of sexual orientation in transmission	9
Plasmid genomic epidemiology of bla NDM carbapenemase-producing Enterobacterales in Canada from 2010 to 2023	9
Parallel loss of type VI secretion systems in two multi-drug-resistant Escherichia coli lineages	9
A conserved uORF in the ilvBNC mRNA of Corynebacterium species regulates ilv operon expression	9
Genomic characterization of cocirculating Corynebacterium diphtheriae and non-diphtheritic Corynebacterium species among forcibly displaced Myanmar nationals, 2017–2019	9
Leveraging comparative genomics to uncover alien genes in bacterial genomes	9
Genomic characterization of Aeromonas spp. isolates from striped catfish with motile Aeromonas septicemia and human bloodstream infections in Vietnam	9
Endemic erythromycin resistant Corynebacterium diphtheriae in Vietnam in the 1990s	9
Occurrence of genes encoding spore germination in Clostridium species that cause meat spoilage	9
Infectious bronchitis virus vaccination, but not the presence of XCR1, is correlated with large differences in chicken caecal microbiota	9
Global genomic epidemiology of bla GES-5 carbapenemase-associated integrons	9
Molecular epidemiology of extended-spectrum beta-lactamase-producing Klebsiella pneumoniae bloodstream infections from Aberdeen, Scotland, and their comparison to isolates from England	9
Genomic diversity of non-typhoidal Salmonella found in patients suffering from gastroenteritis in Norfolk, UK	9
Genomic epidemiology of a Bacillus cereus bacteraemia outbreak linked to contaminated hospital laundry	9
Profiling the plasmid conjugation potential of urinary Escherichia coli	9
Genome-wide annotation of transcript boundaries using bacterial Rend-seq datasets	9
Lung microbiome dynamics in health and lung cancer	9
IS1-related large-scale deletion of chromosomal regions harbouring the oxygen-insensitive nitroreductase gene nfsB causes nitrofurantoin heteroresistance in Escherichia coli	9
Genomic and antigenic diversity of colonizing Klebsiella pneumoniae isolates mirrors that of invasive isolates in Blantyre, Malawi	9
Genome and antibiotic resistance characteristics of Shigella clinical isolates in Fujian Province, Southeast China, 2005–2019	8
Erratum: In silico identification of bacterial seaweed-degrading bioplastic producers	8
Introduction and benchmarking of pyMLST: open-source software for assessing bacterial clonality using core genome MLST	8
ShigaPass: an in silico tool predicting Shigella serotypes from whole-genome sequencing assemblies	8
Beyond blast: enabling microbiologists to better extract literature, taxonomic distributions and gene neighbourhood information for protein families	8
A comparative genomics approach reveals a local genetic signature of Leishmania tropica in Morocco	8
ActinoBase: tools and protocols for researchers working on Streptomyces and other filamentous actinobacteria	8
Development of a sequence-based in silico OspA typing method for Borrelia burgdorferi sensu lato	8
Long-read sequencing reveals genomic diversity and associated plasmid movement of carbapenemase-producing bacteria in a UK hospital over 6 years	8
Cappable-Seq reveals the transcriptional landscape of stress responses in the bacterial endosymbiont Wolbachia	8
Key features of pneumococcal isolates recovered in Central and Northwestern Russia in 2011–2018 determined through whole-genome sequencing	8
Tn4661-mediated transfer of bla CTX-M-15 from Klebsiella michiganensis to an outbreak clone of Pseudomonas aeruginosa	8
Parallel genetic adaptation of Bacillus subtilis to different plant species	8
A panoramic view of the genomic landscape of the genus Streptomyces	8
Mobile genetic element-driven genomic changes in a community-associated methicillin-resistant Staphylococcus aureus clone during its transmission in a regional community outbreak in Japan	8
Impacts of Mycoplasma agalactiae restriction-modification systems on pan-epigenome dynamics and genome plasticity	8
From defaults to databases: parameter and database choice dramatically impact the performance of metagenomic taxonomic classification tools	8
Fine-grain population structure and transmission patterns of Mycobacterium tuberculosis in southern Mozambique, a high TB/HIV burden area	8
Transcriptomic profiling reveals host-specific evolutionary pathways promoting enhanced fitness in the plant pathogen Ralstonia pseudosolanacearum	8
Natural variation of the streptococcal group A carbohydrate biosynthesis genes impacts host–pathogen interaction	8
Insights into microbial dysbiosis and Cutibacterium acnes CAMP factor interactions in acne vulgaris	8
Mobilisation and analyses of publicly available SARS-CoV-2 data for pandemic responses	8
Genome placement of alpha-haemolysin cluster is associated with alpha-haemolysin sequence variation, adhesin and iron acquisition factor profile of Escherichia coli	7
Plasmid genomic epidemiology of carbapenem-hydrolysing class D β-lactamase (CDHL)-producing Enterobacterales in Canada, 2010−2021	7
The Dynamic Codon Biaser: calculating prokaryotic codon usage biases	7
Putative genome contamination has minimal impact on the GTDB taxonomy	7
Genomic analysis of the zooplankton-associated pathogenic bacterium Spirobacillus cienkowskii reveals its functional and metabolic capacities	7
Biodiscovery of Actinomycetota through metabolo-genomics reveals functional diversity across contrasting Mexican ecosystems	7
Genome-wide phylodynamic approach reveals the epidemic dynamics of the main Mycoplasma bovis subtype circulating in France	7
Large-scale characterization of the macrolide resistome reveals high diversity and several new pathogen-associated genes	7
Borderline rpoB mutations transmit at the same rate as common rpoB mutations in a tuberculosis cohort in Bangladesh	7
Bacterial genomic epidemiology with mixed samples	7
Biomolecule sulphation and novel methylations related to Guillain-Barré syndrome-associated Campylobacter jejuni serotype HS:19	7
High-resolution Staphylococcus profiling reveals intra-species diversity in a single skin niche	7
Linear plasmids in Klebsiella and other Enterobacteriaceae	7
Phenotypic and genomic analysis of the emerging poultry pathogen Enterococcus cecorum in UK isolates	7
SyFi: generating and using sequence fingerprints to distinguish SynCom isolates	7
The risk of pig and chicken farming for carriage and transmission of Escherichia coli containing extended-spectrum beta-lactamase (ESBL) and mobile colistin resistance (mcr) genes in Thailand	7
Genome analysis of Neisseria gonorrhoeae in Norway, 2016–2023, reveals shifting epidemiology in the wake of the COVID-19 pandemic	7
Rapid identification and subsequent contextualization of an outbreak of methicillin-resistant Staphylococcus aureus in a neonatal intensive care unit using nanopore sequencing	7
Reciprocally rewiring and repositioning the Integration Host Factor (IHF) subunit genes in Salmonella enterica serovar Typhimurium: impacts on physiology and virulence	7
Evidence for common ancestry and microevolution of passerine-adapted Salmonella enterica serovar Typhimurium in the UK and USA	7
Genomic analysis of Streptococcus pneumoniae serogroup 20 isolates in Alberta, Canada from 1993–2019	7
Insertion sequences and other mobile elements associated with antibiotic resistance genes in Enterococcus isolates from an inpatient with prolonged bacteraemia	7
Monensin phase-out in Norwegian turkey production decreases Bifidobacterium spp. abundance while enhancing microbial diversity	7
Genetic variation in symbiotic islands of natural variant strains of soybean Bradyrhizobium japonicum and Bradyrhizobium diazoefficiens differing in competitiveness and in the efficiency of nitrogen f	7
Genomic analysis of Legionella pneumophila in the drinking water system of a large building over 25 years	7
Fusobacterium nucleatum subsp. polymorphum recovered from malignant and potentially malignant oral disease exhibit heterogeneity in adhesion phenotypes and adhesin gene copy number, shaped by inter-su	7
Using a combination of short- and long-read sequencing to investigate the diversity in plasmid- and chromosomally encoded extended-spectrum beta-lactamases (ESBLs) in clinical Shigella and Salmonella	7
Comparative analysis of integrative and conjugative mobile genetic elements in the genus Mesorhizobium	7
Compatibility of whole-genome sequencing data from Illumina and Ion Torrent technologies in genome comparison analysis of Listeria monocytogenes	7
Metagenomic sequencing sheds light on microbes putatively associated with pneumonia-related fatalities of white-tailed deer (Odocoileus virginianus)	7
Bioinformatic discovery of type 11 secretion system (T11SS) cargo across the Proteobacteria	7
Prevalence and diversity of TAL effector-like proteins in fungal endosymbiotic Mycetohabitans spp.	7
Vibrio cholerae O37: one of the exceptions that prove the rule	7
Comparison of the genetic basis of biofilm formation between Salmonella Typhimurium and Escherichia coli	7
BakRep – a searchable large-scale web repository for bacterial genomes, characterizations and metadata	7