Additional file 1: of Longitudinal genomic surveillance of multidrug-resistant Escherichia coli carriage in a long-term care facility in the United Kingdom

Hayley Brodrick (3533453)
Kathy Raven (3571811)
Teemu Kallonen (219420)
Dorota Jamrozy (4269490)
Beth Blane (3533447)
Nicholas Brown (721672)
Veronique Martin (2617954)
M. TĂśrĂśk (3571808)
Julian Parkhill (30393)
Sharon Peacock (3499622)

Publication date

July 2017

DOI

10.6084/m9.figshare.c.3834712_d1.v1

Abstract

Additional information for the dataset used in this study. The additional file includes demographic information including location of isolation and sample type along with genome sequence QC data, results of genomic typing and screening for antimicrobial resistance genes. (XLSX 145 kb

Extracted data

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Data Protection

Additional file 1: of Longitudinal genomic surveillance of multidrug-resistant Escherichia coli carriage in a long-term care facility in the United Kingdom

Hayley Brodrick (3533453)
Kathy Raven (3571811)
Teemu Kallonen (219420)
Dorota Jamrozy (4269490)
Beth Blane (3533447)
Nicholas Brown (721672)
Veronique Martin (2617954)
M. TĂśrĂśk (3571808)
Julian Parkhill (30393)
Sharon Peacock (3499622)

Open link

Publication date

July 2017

DOI

10.6084/m9.figshare.c.3834712_d1.v1

Abstract

Extracted data

Fang Tang (116243)
Juanfang Wang (5106413)
Dezhi Li (288515)
Song Gao (131209)
Jianluan Ren (3522614)
Liqing Ma (666491)
Fei Liu (21082)
Xiangkai Zhuge (3522617)
Genqiang Yan (6456665)
Yan Lu (32611)
Jianjun Dai (560787)

March 2019

Figure S1. Presence of antibiotic-resistance genes in E. coli isolates. Red and green bars on the x-...

Additional file 8: of A compilation of antimicrobial susceptibility data from a network of 13 Lebanese hospitals reflecting the national situation during 2015â2016

Rima Moghnieh (679199)
Georges Araj (6385613)
Lyn Awad (6385619)
Ziad Daoud (3966905)
Jacques Mokhbat (307136)
Tamima Jisr (6385625)
Dania Abdallah (6385628)
Nadim Azar (6385631)
Noha Irani-Hakimeh (6385634)
Maher Balkis (6385637)
Mona Youssef (6385640)
Gilbert Karayakoupoglou (6385643)
Monzer Hamze (679195)
Madonna Matar (6385646)
Roula Atoui (6385649)
Edmond Abboud (3917414)
Rita Feghali (6385652)
Nadine Yared (6385655)
Rola Husni (6385658)

February 2019

Table S1. E. coli percent susceptibility to third-generation cephalosporins in countries of the Euro...

Additional file 2 of Genomic surveillance of antimicrobial resistant bacterial colonisation and infection in intensive care patients

Wyres, Kelly L.
Hawkey, Jane
Mirčeta, Mirianne
Judd, Louise M.
Wick, Ryan R.
Gorrie, Claire L.
Pratt, Nigel F.
Garlick, Jill S.
Watson, Kerrie M.
Pilcher, David V.
McGloughlin, Steve A.
Abbott, Iain J.
Macesic, Nenad
Spelman, Denis W.
Jenney, Adam W. J.
Holt, Kathryn E.

July 2021

Specimen and genotype information of isolates included in this study. Further information outlined i...

Longitudinal genomic surveillance of multidrug-resistant Escherichia coli carriage in a long-term care facility in the United Kingdom.

Brodrick, Hayley J
Raven, Kathy E
Kallonen, Teemu
Jamrozy, Dorota
Blane, Beth
Brown, Nicholas M
Martin, Veronique
Török, M Estée
Parkhill, Julian
Peacock, Sharon

July 2017

BACKGROUND: Residents of long-term care facilities (LTCF) may have high carriage rates of multidrug-...

Longitudinal genomic surveillance of multidrug-resistant Escherichia coli carriage in a long-term care facility in the United Kingdom

Hayley J. Brodrick
Kathy E. Raven
Teemu Kallonen
Dorota Jamrozy
Beth Blane
Nicholas M. Brown
Veronique Martin
M. Estée Török
Julian Parkhill
Sharon J. Peacock

July 2017

Abstract Background Residents of long-term care facilities (LTCF) may have high carriage rates of mu...

Additional file 1: of Whole genome analyses of CMY-2-producing Escherichia coli isolates from humans, animals and food in Germany

Michael Pietsch (3317112)
Alexandra Irrgang (2889134)
Nicole Roschanski (599844)
Geovana Brenner Michael (5618447)
Axel Hamprecht (605845)
Heime Rieber (5618456)
Annemarie KĂ¤sbohrer (5618477)
Stefan Schwarz (166988)
Uwe RĂśsler (5618480)
Lothar Kreienbrock (705028)
Yvonne Pfeifer (457305)
Stephan Fuchs (256450)
Guido Werner (28655)

August 2018

Table S1. Characteristics of 164 CMY-2 -producing Escherichia coli isolates from different sources, ...

Additional file 1 of Trends in prevalence of extended-spectrum beta-lactamase-producing Escherichia coli isolated from patients with community- and healthcare-associated bacteriuria: results from 2014 to 2020 in an urban safety-net healthcare system

Eva Raphael (11263709)
M. Maria Glymour (8162703)
Henry F. Chambers (11263712)

August 2021

Additional file 1. Association between patient demographic characteristics and antimicrobial-resista...

Additional file 1: of Whole-genome sequencing reveals transmission of vancomycin-resistant Enterococcus faecium in a healthcare network

Hayley Brodrick (3533453)
Kathy Raven (3571811)
Ewan Harrison (3533438)
Beth Blane (3533447)
Sandra Reuter (494672)
M. TĂśrĂśk (3571808)
Julian Parkhill (30393)
Sharon Peacock (3499622)

January 2016

Table detailing the accession numbers of isolates used within the study. (XLSX 13 kb

Additional file 1: of Whole genome sequencing reveals high clonal diversity of Escherichia coli isolated from patients in a tertiary care hospital in Moshi, Tanzania

Tolbert Sonda (3514244)
Happiness Kumburu (3514241)
Marco van Zwetselaar (3514238)
Michael Alifrangis (79967)
Blandina Mmbaga (3639784)
Frank Aarestrup (3514247)
Gibson Kibiki (205459)
Ole Lund (26628)

June 2018

Table S1. A pairwise genome comparison matrix of SNP differences for E. coli ST131. (XLS 34 kb

Additional file 1: of “Enhanced acquisition of antibiotic-resistant intestinal E. coli during the first year of life assessed in a prospective cohort study”

Benjamin Hetzer (4600903)
Dorothea Orth-Höller (2617123)
Reinhard Würzner (2109)
Peter Kreidl (6716114)
Michaela Lackner (474063)
Thomas Müller (3554)
Ludwig Knabl (6716117)
Daniel Geisler-Moroder (6716120)
Alexander Mellmann (72273)
Özcan Sesli (6716123)
Jeanett Holzknecht (6716126)
Damia Noce (403903)
Orawan Boonpala (6716129)
Noppadon Akarathum (6716132)
Somporn Chotinaruemol (6716135)
Martina Prelog (3160518)
Peninnah Oberdorfer (6716138)

May 2019

Figure S1. Data collection form Figure S2. Genes linked with extra- and intra-intestinal pathogenici...

Additional file 2: of Extended spectrum beta-lactamase mediated resistance in carriage and clinical gram-negative ESKAPE bacteria: a comparative study between a district and tertiary hospital in South Africa

Raspail Founou (5967254)
Luria Founou (5967257)
Sabiha Essack (3408035)

November 2018

Table S2. Antibiotic Resistance Profiles and Resistance Genes of Isolates from Single Patients. (DOC...

Additional file 3: of Faecal carriage of antibiotic resistant Escherichia coli in asymptomatic children and associations with primary care antibiotic prescribing: a systematic review and meta-analysis

Ashley Bryce (3572087)
CĂŠire Costelloe (3572096)
Claire Hawcroft (3572093)
Mandy Wootton (3572090)
Alastair Hay (3572084)

July 2016

Data quality charts (split by studies reporting prevalence of resistance only and prevalence plus an...

Additional file 2: of Whole genome sequencing reveals high clonal diversity of Escherichia coli isolated from patients in a tertiary care hospital in Moshi, Tanzania

Tolbert Sonda (3514244)
Happiness Kumburu (3514241)
Marco van Zwetselaar (3514238)
Michael Alifrangis (79967)
Blandina Mmbaga (3639784)
Frank Aarestrup (3514247)
Gibson Kibiki (205459)
Ole Lund (26628)

June 2018

Table S2. A pairwise genome comparison matrix of SNP differences for E. coli ST10 clonal complex. (X...

Additional file 2: of Enhancing the one health initiative by using whole genome sequencing to monitor antimicrobial resistance of animal pathogens: Vet-LIRN collaborative project with veterinary diagnostic laboratories in United States and Canada

Olgica Ceric (6254609)
Gregory Tyson (6670094)
Laura Goodman (5229467)
Patrick Mitchell (72132)
Yan Zhang (8098)
Melanie Prarat (6670097)
Jing Cui (28824)
Laura Peak (6670100)
Joy Scaria (74080)
Linto Antony (4605940)
Milton Thomas (4605937)
Sarah Nemser (6670103)
Renee Anderson (6670106)
Anil Thachil (724830)
Rebecca Franklin-Guild (6670109)
Durda Slavic (615388)
Yugendar R. Bommineni (340166)
Shipra Mohan (6670112)
Susan Sanchez (764144)
Rebecca Wilkes (5581694)
Orhan Sahin (351207)
G. Hendrix (6670115)
Brian Lubbers (3507200)
Deborah Reed (6670118)
Tracie Jenkins (6670121)
Alma Roy (6670124)
Daniel Paulsen (5500241)
Rinosh Mani (6670127)
Karen Olsen (3391865)
Lanny Pace (6670130)
Martha Pulido (6670133)
Megan Jacob (6670136)
Brett Webb (6670139)
Sarmila Dasgupta (6670142)
Amar Patil (6670145)
Akhilesh Ramachandran (4605925)
Deepanker Tewari (478124)
Nagaraja Thirumalapura (6670148)
Donna Kelly (6670151)
Shelley Rankin (3859015)
Sara D. Lawhon (94496)
Jing Wu (54032)
Claire Burbick (6670154)
Renate Reimschuessel (6254633)

May 2019

A table with full summary of ARG and plasmid detections and NCBI isolate-level accession numbers. (X...

Additional file 2: of Comparative genomic analysis of 127 Escherichia coli strains isolated from domestic animals with diarrhea in China

Fang Tang (116243)
Juanfang Wang (5106413)
Dezhi Li (288515)
Song Gao (131209)
Jianluan Ren (3522614)
Liqing Ma (666491)
Fei Liu (21082)
Xiangkai Zhuge (3522617)
Genqiang Yan (6456665)
Yan Lu (32611)
Jianjun Dai (560787)

March 2019

Figure S1. Presence of antibiotic-resistance genes in E. coli isolates. Red and green bars on the x-...

Additional file 8: of A compilation of antimicrobial susceptibility data from a network of 13 Lebanese hospitals reflecting the national situation during 2015â2016

Rima Moghnieh (679199)
Georges Araj (6385613)
Lyn Awad (6385619)
Ziad Daoud (3966905)
Jacques Mokhbat (307136)
Tamima Jisr (6385625)
Dania Abdallah (6385628)
Nadim Azar (6385631)
Noha Irani-Hakimeh (6385634)
Maher Balkis (6385637)
Mona Youssef (6385640)
Gilbert Karayakoupoglou (6385643)
Monzer Hamze (679195)
Madonna Matar (6385646)
Roula Atoui (6385649)
Edmond Abboud (3917414)
Rita Feghali (6385652)
Nadine Yared (6385655)
Rola Husni (6385658)

February 2019

Table S1. E. coli percent susceptibility to third-generation cephalosporins in countries of the Euro...

Additional file 2 of Genomic surveillance of antimicrobial resistant bacterial colonisation and infection in intensive care patients

Wyres, Kelly L.
Hawkey, Jane
Mirčeta, Mirianne
Judd, Louise M.
Wick, Ryan R.
Gorrie, Claire L.
Pratt, Nigel F.
Garlick, Jill S.
Watson, Kerrie M.
Pilcher, David V.
McGloughlin, Steve A.
Abbott, Iain J.
Macesic, Nenad
Spelman, Denis W.
Jenney, Adam W. J.
Holt, Kathryn E.

July 2021

Specimen and genotype information of isolates included in this study. Further information outlined i...

Longitudinal genomic surveillance of multidrug-resistant Escherichia coli carriage in a long-term care facility in the United Kingdom.

Brodrick, Hayley J
Raven, Kathy E
Kallonen, Teemu
Jamrozy, Dorota
Blane, Beth
Brown, Nicholas M
Martin, Veronique
Török, M Estée
Parkhill, Julian
Peacock, Sharon

July 2017

BACKGROUND: Residents of long-term care facilities (LTCF) may have high carriage rates of multidrug-...

Longitudinal genomic surveillance of multidrug-resistant Escherichia coli carriage in a long-term care facility in the United Kingdom

Hayley J. Brodrick
Kathy E. Raven
Teemu Kallonen
Dorota Jamrozy
Beth Blane
Nicholas M. Brown
Veronique Martin
M. Estée Török
Julian Parkhill
Sharon J. Peacock

July 2017

Abstract Background Residents of long-term care facilities (LTCF) may have high carriage rates of mu...

Additional file 1: of Whole genome analyses of CMY-2-producing Escherichia coli isolates from humans, animals and food in Germany

Michael Pietsch (3317112)
Alexandra Irrgang (2889134)
Nicole Roschanski (599844)
Geovana Brenner Michael (5618447)
Axel Hamprecht (605845)
Heime Rieber (5618456)
Annemarie KĂ¤sbohrer (5618477)
Stefan Schwarz (166988)
Uwe RĂśsler (5618480)
Lothar Kreienbrock (705028)
Yvonne Pfeifer (457305)
Stephan Fuchs (256450)
Guido Werner (28655)

August 2018

Table S1. Characteristics of 164 CMY-2 -producing Escherichia coli isolates from different sources, ...

Eva Raphael (11263709)
M. Maria Glymour (8162703)
Henry F. Chambers (11263712)

August 2021

Additional file 1. Association between patient demographic characteristics and antimicrobial-resista...

Additional file 1: of Whole-genome sequencing reveals transmission of vancomycin-resistant Enterococcus faecium in a healthcare network

Hayley Brodrick (3533453)
Kathy Raven (3571811)
Ewan Harrison (3533438)
Beth Blane (3533447)
Sandra Reuter (494672)
M. TĂśrĂśk (3571808)
Julian Parkhill (30393)
Sharon Peacock (3499622)

January 2016

Table detailing the accession numbers of isolates used within the study. (XLSX 13 kb

Additional file 1: of Whole genome sequencing reveals high clonal diversity of Escherichia coli isolated from patients in a tertiary care hospital in Moshi, Tanzania

Tolbert Sonda (3514244)
Happiness Kumburu (3514241)
Marco van Zwetselaar (3514238)
Michael Alifrangis (79967)
Blandina Mmbaga (3639784)
Frank Aarestrup (3514247)
Gibson Kibiki (205459)
Ole Lund (26628)

June 2018

Table S1. A pairwise genome comparison matrix of SNP differences for E. coli ST131. (XLS 34 kb

Additional file 1: of “Enhanced acquisition of antibiotic-resistant intestinal E. coli during the first year of life assessed in a prospective cohort study”

Benjamin Hetzer (4600903)
Dorothea Orth-Höller (2617123)
Reinhard Würzner (2109)
Peter Kreidl (6716114)
Michaela Lackner (474063)
Thomas Müller (3554)
Ludwig Knabl (6716117)
Daniel Geisler-Moroder (6716120)
Alexander Mellmann (72273)
Özcan Sesli (6716123)
Jeanett Holzknecht (6716126)
Damia Noce (403903)
Orawan Boonpala (6716129)
Noppadon Akarathum (6716132)
Somporn Chotinaruemol (6716135)
Martina Prelog (3160518)
Peninnah Oberdorfer (6716138)

May 2019

Figure S1. Data collection form Figure S2. Genes linked with extra- and intra-intestinal pathogenici...

Raspail Founou (5967254)
Luria Founou (5967257)
Sabiha Essack (3408035)

November 2018

Table S2. Antibiotic Resistance Profiles and Resistance Genes of Isolates from Single Patients. (DOC...

Ashley Bryce (3572087)
CĂŠire Costelloe (3572096)
Claire Hawcroft (3572093)
Mandy Wootton (3572090)
Alastair Hay (3572084)

July 2016

Data quality charts (split by studies reporting prevalence of resistance only and prevalence plus an...

Additional file 2: of Whole genome sequencing reveals high clonal diversity of Escherichia coli isolated from patients in a tertiary care hospital in Moshi, Tanzania

Tolbert Sonda (3514244)
Happiness Kumburu (3514241)
Marco van Zwetselaar (3514238)
Michael Alifrangis (79967)
Blandina Mmbaga (3639784)
Frank Aarestrup (3514247)
Gibson Kibiki (205459)
Ole Lund (26628)

June 2018

Table S2. A pairwise genome comparison matrix of SNP differences for E. coli ST10 clonal complex. (X...

Olgica Ceric (6254609)
Gregory Tyson (6670094)
Laura Goodman (5229467)
Patrick Mitchell (72132)
Yan Zhang (8098)
Melanie Prarat (6670097)
Jing Cui (28824)
Laura Peak (6670100)
Joy Scaria (74080)
Linto Antony (4605940)
Milton Thomas (4605937)
Sarah Nemser (6670103)
Renee Anderson (6670106)
Anil Thachil (724830)
Rebecca Franklin-Guild (6670109)
Durda Slavic (615388)
Yugendar R. Bommineni (340166)
Shipra Mohan (6670112)
Susan Sanchez (764144)
Rebecca Wilkes (5581694)
Orhan Sahin (351207)
G. Hendrix (6670115)
Brian Lubbers (3507200)
Deborah Reed (6670118)
Tracie Jenkins (6670121)
Alma Roy (6670124)
Daniel Paulsen (5500241)
Rinosh Mani (6670127)
Karen Olsen (3391865)
Lanny Pace (6670130)
Martha Pulido (6670133)
Megan Jacob (6670136)
Brett Webb (6670139)
Sarmila Dasgupta (6670142)
Amar Patil (6670145)
Akhilesh Ramachandran (4605925)
Deepanker Tewari (478124)
Nagaraja Thirumalapura (6670148)
Donna Kelly (6670151)
Shelley Rankin (3859015)
Sara D. Lawhon (94496)
Jing Wu (54032)
Claire Burbick (6670154)
Renate Reimschuessel (6254633)

May 2019

A table with full summary of ARG and plasmid detections and NCBI isolate-level accession numbers. (X...

Additional file 2: of Comparative genomic analysis of 127 Escherichia coli strains isolated from domestic animals with diarrhea in China

Fang Tang (116243)
Juanfang Wang (5106413)
Dezhi Li (288515)
Song Gao (131209)
Jianluan Ren (3522614)
Liqing Ma (666491)
Fei Liu (21082)
Xiangkai Zhuge (3522617)
Genqiang Yan (6456665)
Yan Lu (32611)
Jianjun Dai (560787)

March 2019

Figure S1. Presence of antibiotic-resistance genes in E. coli isolates. Red and green bars on the x-...

Additional file 8: of A compilation of antimicrobial susceptibility data from a network of 13 Lebanese hospitals reflecting the national situation during 2015â2016

Rima Moghnieh (679199)
Georges Araj (6385613)
Lyn Awad (6385619)
Ziad Daoud (3966905)
Jacques Mokhbat (307136)
Tamima Jisr (6385625)
Dania Abdallah (6385628)
Nadim Azar (6385631)
Noha Irani-Hakimeh (6385634)
Maher Balkis (6385637)
Mona Youssef (6385640)
Gilbert Karayakoupoglou (6385643)
Monzer Hamze (679195)
Madonna Matar (6385646)
Roula Atoui (6385649)
Edmond Abboud (3917414)
Rita Feghali (6385652)
Nadine Yared (6385655)
Rola Husni (6385658)

February 2019

Table S1. E. coli percent susceptibility to third-generation cephalosporins in countries of the Euro...

Additional file 1: of Longitudinal genomic surveillance of multidrug-resistant Escherichia coli carriage in a long-term care facility in the United Kingdom

Abstract

Extracted data

Additional file 1: of Longitudinal genomic surveillance of multidrug-resistant Escherichia coli carriage in a long-term care facility in the United Kingdom

Abstract

Extracted data

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