Research Papers

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Characterization of the RofA regulon in the pandemic M1<sub>global</sub> and emergent M1<sub>UK</sub> lineages of <i>St…
Zhi X; Vieira A; Huse KK; Martel PJ; Lobkowicz L; Li HK; Croucher N; Andrew I; Game L; Sriskandan S.
Microb Genom (Unknown)
Published: 2023
4/6 Transparent
Data Funding Declared
Visualizing and quantifying structural diversity around mobile resistance genes.
Shaw LP; Neher RA.
Microb Genom (Unknown)
Published: 2023
4/6 Transparent
Code Funding Declared
Genomic characterization of a unique Panton-Valentine leucocidin-positive community-associated methicillin-resistant <i…
Ramsay JP; Parahitiyawa N; Mowlaboccus S; Mullally CA; Yee NWT; Shoby P; Colombi E; Tan HL; Pearson JC; Coombs GW.
Microb Genom (Unknown)
Published: 2023
4/6 Transparent
Data Funding Declared
SOCfinder: a genomic tool for identifying social genes in bacteria.
Belcher LJ; Dewar AE; Hao C; Katz Z; Ghoul M; West SA.
Microb Genom (Unknown)
Published: 2023
4/6 Transparent
Code Funding Declared
Discordance between different bioinformatic methods for identifying resistance genes from short-read genomic data, with…
Davies TJ; Swann J; Sheppard AE; Pickford H; Lipworth S; AbuOun M; Ellington MJ; Fowler PW; Hopkins S; Hopkins KL; Crook DW; Peto TEA; Anjum MF; Walker AS; Stoesser N.
Microb Genom (Unknown)
Published: 2023
4/6 Transparent
Data Funding Declared
Genomic analysis of <i>Shigella</i> isolates from Lebanon reveals marked genetic diversity and antimicrobial resistance.
Yassine I; Rafei R; Pardos de la Gandara M; Osman M; Fabre L; Dabboussi F; Hamze M; Weill FX.
Microb Genom (Unknown)
Published: 2023
4/6 Transparent
Data Funding Declared
Genomic insights into <i>Enterococcus faecium</i> isolates from marine bivalves highlight One Health concerns and healt…
Heim AVBT; Janice J; Bjørnholt JV; Lunestad BT; Hegstad K; Svanevik CS.
Microb Genom (Unknown)
Published: 2023
3/6 Transparent
Funding Declared
Subinhibitory antibiotic concentrations promote the excision of a genomic island carried by the globally spread carbape…
Piña-Iturbe A; Hoppe-Elsholz G; Suazo ID; Kalergis AM; Bueno SM.
Microb Genom (Unknown)
Published: 2023
4/6 Transparent
Data Funding Declared
Transcriptomic profiling reveals host-specific evolutionary pathways promoting enhanced fitness in the plant pathogen <…
Gopalan-Nair R; Jardinaud MF; Legrand L; Lopez-Roques C; Bouchez O; Genin S; Guidot A.
Microb Genom (Unknown)
Published: 2023
3/6 Transparent
Funding Declared
A critical role for iron and zinc homeostatic systems in the evolutionary adaptation of <i>Escherichia coli</i> to meta…
Paterson JR; Wadsworth JM; Hu P; Sharples GJ.
Microb Genom (Unknown)
Published: 2023
4/6 Transparent
Data Funding Declared
Plasmid-encoded lactose metabolism and mobilized colistin resistance (<i>mcr-9</i>) genes in <i>Salmonella enterica</i>…
Kröger C; Lerminiaux NA; Ershova AS; MacKenzie KD; Kirzinger MW; Märtlbauer E; Perry BJ; Cameron ADS; Schauer K.
Microb Genom (Unknown)
Published: 2023
4/6 Transparent
Data Funding Declared
Molecular epidemiology of <i>Streptococcus agalactiae</i> in non-pregnant populations: a systematic review.
Founou LL; Khan UB; Medugu N; Pinto TCA; Darboe S; Chendi Z; Founou RC; To KN; Jamrozy D; Karampatsas K; Carr VR; Pepper K; Dangor Z; Ip M; Le Doare K; Bentley SD.
Microb Genom (Unknown)
Published: 2023
4/6 Transparent
Registered Funding Declared
Genomic analysis of <i>Streptococcus pneumoniae</i> serogroup 20 isolates in Alberta, Canada from 1993-2019.
Williams AN; Ma A; Croxen MA; Demczuk WHB; Martin I; Tyrrell GJ.
Microb Genom (Unknown)
Published: 2023
3/6 Transparent
Funding Declared
Implementation of national whole-genome sequencing of <i>Mycobacterium tuberculosis</i>, National Public Health Laborat…
Lim AYH; Ang MLT; Cho SSL; Ng DHL; Cutter J; Lin RTP.
Microb Genom (Unknown)
Published: 2023
3/6 Transparent
Funding Declared
Development of a novel streamlined workflow (AACRE) and database (inCREDBle) for genomic analysis of carbapenem-resista…
Alioto TS; Gut M; Rodiño-Janeiro BK; Cruz F; Gómez-Garrido J; Vázquez-Ucha JC; Mata C; Antoni R; Briansó F; Dabad M; Casals E; Ingham M; Álvarez-Tejado M; Bou G; Gut IG.
Microb Genom (Unknown)
Published: 2023
5/6 Transparent
Data Code Funding Declared
The intra-host evolutionary landscape and pathoadaptation of persistent <i>Staphylococcus aureus</i> in chronic rhinosi…
Houtak G; Bouras G; Nepal R; Shaghayegh G; Cooksley C; Psaltis AJ; Wormald PJ; Vreugde S.
Microb Genom (Unknown)
Published: 2023
5/6 Transparent
Data Code Funding Declared
Draft genomes of novel avian <i>Chlamydia abortus</i> strains from Australian Torresian crows (<i>Corvus orru</i>) shed…
Kasimov V; White RT; Jelocnik M.
Microb Genom (Unknown)
Published: 2023
4/6 Transparent
Data Funding Declared
Comparison of carbapenem-susceptible and carbapenem-resistant <i>Enterobacterales</i> at nine sites in the USA, 2013-20…
Lutgring JD; Kent AG; Bowers JR; Jasso-Selles DE; Albrecht V; Stevens VA; Pfeiffer A; Barnes R; Engelthaler DM; Johnson JK; Gargis AS; Rasheed JK; Limbago BM; Elkins CA; Karlsson M; Halpin AL.
Microb Genom (Unknown)
Published: 2023
4/6 Transparent
Data Funding Declared
Introduction and benchmarking of pyMLST: open-source software for assessing bacterial clonality using core genome MLST.
Biguenet A; Bordy A; Atchon A; Hocquet D; Valot B.
Microb Genom (Unknown)
Published: 2023
5/6 Transparent
Data Code Funding Declared
Metagenome-assembled genomes from High Arctic glaciers highlight the vulnerability of glacier-associated microbiota and…
Hay MC; Mitchell AC; Soares AR; Debbonaire AR; Mogrovejo DC; Els N; Edwards A.
Microb Genom (Unknown)
Published: 2023
5/6 Transparent
Data Code Funding Declared
Spliceosomal introns in the diplomonad parasite <i>Giardia duodenalis</i> revisited.
Seabolt MH; Roellig DM; Konstantinidis KT.
Microb Genom (Unknown)
Published: 2023
3/6 Transparent
Funding Declared
Comparison of genomic diversity between single and pooled <i>Staphylococcus aureus</i> colonies isolated from human col…
Raghuram V; Gunoskey JJ; Hofstetter KS; Jacko NF; Shumaker MJ; Hu YJ; Read TD; David MZ.
Microb Genom (Unknown)
Published: 2023
5/6 Transparent
Data Code Funding Declared
Genomic epidemiology of <i>Streptococcus pneumoniae</i> serotype 16F lineages.
Mokaya J; Mellor KC; Murray GGR; Kalizang'oma A; Lekhuleni C; Zar HJ; Nicol MP; McGee L; Bentley SD; Lo SW; Dube F.
Microb Genom (Unknown)
Published: 2023
3/6 Transparent
Funding Declared
Whole-genome sequencing and phylogenetic analysis of coxsackievirus-A16 strains causing hand, foot and mouth disease (H…
Tikute S; Sonawane S; Shete A; Kumar A; Yadav S; Yadav PD; Lavania M.
Microb Genom (Unknown)
Published: 2023
4/6 Transparent
Data Funding Declared
The clinical, genomic, and microbiological profile of invasive multi-drug resistant <i>Escherichia coli</i> in a major …
Hamilton WL; Coscione S; Maes M; Warne B; Pike LJ; Khokhar FA; Blane B; Brown NM; Gouliouris T; Dougan G; Török ME; Baker S.
Microb Genom (Unknown)
Published: 2023
3/6 Transparent
Funding Declared