Additional file 2: of Genome sequencing of strains of the most prevalent clonal group of O1:K1:H7 Escherichia coli that causes neonatal meningitis in France

Guillaume Geslain (6242036)
André Birgy (6242039)
Sandrine Adiba (362590)
Mélanie Magnan (304705)
Céline Courroux (6242042)
Corinne Levy (317205)
Robert Cohen (317208)
Philippe Bidet (160707)
Stéphane Bonacorsi (75195)

Open link

Publication date

January 2019

DOI

10.6084/m9.figshare.7604465.v1

Abstract

Primers of serotype PCR; description: list of primers and sequences used for serotype PCR. (DOCX 17 kb

Extracted data

We use cookies to provide a better user experience.

Data Protection

Additional file 2: of Genome sequencing of strains of the most prevalent clonal group of O1:K1:H7 Escherichia coli that causes neonatal meningitis in France

Guillaume Geslain (6242036)
André Birgy (6242039)
Sandrine Adiba (362590)
Mélanie Magnan (304705)
Céline Courroux (6242042)
Corinne Levy (317205)
Robert Cohen (317208)
Philippe Bidet (160707)
Stéphane Bonacorsi (75195)

Open link

Publication date

January 2019

DOI

10.6084/m9.figshare.7604465.v1

Abstract

Primers of serotype PCR; description: list of primers and sequences used for serotype PCR. (DOCX 17 kb

Extracted data

Jillian Rumore (6050549)
Lorelee Tschetter (4026191)
Ashley Kearney (6050558)
Rima Kandar (6050564)
Rachel McCormick (6050567)
Matthew Walker (343875)
Christy-Lynn Peterson (4026188)
Aleisha Reimer (3370232)
Celine Nadon (3370208)

December 2018

BioProject and BioSample information for the 250 isolates used in the study. (DOCX 33 kb

Additional file 3: of Attack of the clones: whole genome-based characterization of two closely related enterohemorrhagic Escherichia coli O26 epidemic lineages

Lucia Karnisova (5708015)
Monika Marejkova (5708018)
Hana Hrbackova (4682806)
Alexander Mellmann (72273)
Helge Karch (72277)
Angelika Fruth (214889)
Pavel Drevinek (23044)
Kveta Blahova (5708021)
Martina Bielaszewska (79970)
Jaroslav Nunvar (2938236)

September 2018

Table S3. Discrimination of early nEC and late nEC strains by sen/ent SNP-specific PCR, WGS and PFGE...

Additional file 3: 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 Käsbohrer (558035)
Stefan Schwarz (166988)
Uwe Rösler (5618465)
Lothar Kreienbrock (705028)
Yvonne Pfeifer (457305)
Stephan Fuchs (256450)
Guido Werner (28655)

August 2018

Figure S2. SNP-based maximum-likelihood-trees of isolates of selected sequence types. a: Maximum-lik...

Additional file 3: of Genome sequencing of strains of the most prevalent clonal group of O1:K1:H7 Escherichia coli that causes neonatal meningitis in France

Guillaume Geslain (6242036)
André Birgy (6242039)
Sandrine Adiba (362590)
Mélanie Magnan (304705)
Céline Courroux (6242042)
Corinne Levy (317205)
Robert Cohen (317208)
Philippe Bidet (160707)
Stéphane Bonacorsi (75195)

January 2019

Sequencing data information; description: N50, N75, Minimum contig Length, Maximum contig Length, Av...

Additional file 4: of Genome sequencing of strains of the most prevalent clonal group of O1:K1:H7 Escherichia coli that causes neonatal meningitis in France

Guillaume Geslain (6242036)
André Birgy (6242039)
Sandrine Adiba (362590)
Mélanie Magnan (304705)
Céline Courroux (6242042)
Corinne Levy (317205)
Robert Cohen (317208)
Philippe Bidet (160707)
Stéphane Bonacorsi (75195)

January 2019

166 genes searched by local blast analysis using the NCBI blast tool; description: list of genes sea...

Additional file 1: of Genome sequencing of strains of the most prevalent clonal group of O1:K1:H7 Escherichia coli that causes neonatal meningitis in France

Guillaume Geslain (6242036)
André Birgy (6242039)
Sandrine Adiba (362590)
Mélanie Magnan (304705)
Céline Courroux (6242042)
Corinne Levy (317205)
Robert Cohen (317208)
Philippe Bidet (160707)
Stéphane Bonacorsi (75195)

January 2019

ex vivo amoeba model outcomes for several representatives of O1:K1 STc95 E. coli meningitis strains;...

Additional file 2: of Diversity of virulence level phenotype of hypervirulent Klebsiella pneumoniae from different sequence type lineage

Qiucheng Shi (3233457)
Peng Lan (5699819)
Danyan Huang (5148011)
Xiaoting Hua (435699)
Yan Jiang (12139)
Jiancang Zhou (3233460)
Yunsong Yu (496103)

August 2018

Table S1. PCR primers used for studying Serotype and Virulence-Associated Genes of Klebsiella pneumo...

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 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 1: of High frequency of hybrid Escherichia coli strains with combined Intestinal Pathogenic Escherichia coli (IPEC) and Extraintestinal Pathogenic Escherichia coli (ExPEC) virulence factors isolated from human faecal samples

BjĂ¸rn-Arne Lindstedt (6032030)
Misti Finton (6032021)
Davide Porcellato (5016440)
Lin Brandal (3571076)

November 2018

PCR primers used in study. Sequences of all PCR-primers used in this study, with references. (DOCX 1...

Additional file 2: of Attack of the clones: whole genome-based characterization of two closely related enterohemorrhagic Escherichia coli O26 epidemic lineages

Lucia Karnisova (5708015)
Monika Marejkova (5708018)
Hana Hrbackova (4682806)
Alexander Mellmann (72273)
Helge Karch (72277)
Angelika Fruth (214889)
Pavel Drevinek (23044)
Kveta Blahova (5708021)
Martina Bielaszewska (79970)
Jaroslav Nunvar (2938236)

September 2018

Figure S1. Core genome-derived phylogeny of 159 E. coli O26 isolates. The phylogram (inferred using ...

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: Figure S1. of The molecular characterisation of Escherichia coli K1 isolated from neonatal nasogastric feeding tubes

Aldukali Alkeskas (3554327)
Pauline Ogrodzki (3554333)
Mohamed Saad (3554330)
Naqash Masood (119596)
Nasreddin Rhoma (3554324)
Karen Moore (760400)
Audrey Farbos (579006)
Konrad Paszkiewicz (131602)
Stephen Forsythe (47724)

October 2015

Genomic analysis of E. coli sequence types using the Comprehensive Antibiotic Database (CARD: http:/...

Additional file 1: of Evaluation of whole-genome sequencing for outbreak detection of Verotoxigenic Escherichia coli O157:H7 from the Canadian perspective

Jillian Rumore (6050549)
Lorelee Tschetter (4026191)
Ashley Kearney (6050558)
Rima Kandar (6050564)
Rachel McCormick (6050567)
Matthew Walker (343875)
Christy-Lynn Peterson (4026188)
Aleisha Reimer (3370232)
Celine Nadon (3370208)

December 2018

BioProject and BioSample information for the 250 isolates used in the study. (DOCX 33 kb

Additional file 3: of Attack of the clones: whole genome-based characterization of two closely related enterohemorrhagic Escherichia coli O26 epidemic lineages

Lucia Karnisova (5708015)
Monika Marejkova (5708018)
Hana Hrbackova (4682806)
Alexander Mellmann (72273)
Helge Karch (72277)
Angelika Fruth (214889)
Pavel Drevinek (23044)
Kveta Blahova (5708021)
Martina Bielaszewska (79970)
Jaroslav Nunvar (2938236)

September 2018

Table S3. Discrimination of early nEC and late nEC strains by sen/ent SNP-specific PCR, WGS and PFGE...

Additional file 3: 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 Käsbohrer (558035)
Stefan Schwarz (166988)
Uwe Rösler (5618465)
Lothar Kreienbrock (705028)
Yvonne Pfeifer (457305)
Stephan Fuchs (256450)
Guido Werner (28655)

August 2018

Figure S2. SNP-based maximum-likelihood-trees of isolates of selected sequence types. a: Maximum-lik...

Additional file 3: of Genome sequencing of strains of the most prevalent clonal group of O1:K1:H7 Escherichia coli that causes neonatal meningitis in France

Guillaume Geslain (6242036)
André Birgy (6242039)
Sandrine Adiba (362590)
Mélanie Magnan (304705)
Céline Courroux (6242042)
Corinne Levy (317205)
Robert Cohen (317208)
Philippe Bidet (160707)
Stéphane Bonacorsi (75195)

January 2019

Sequencing data information; description: N50, N75, Minimum contig Length, Maximum contig Length, Av...

Additional file 4: of Genome sequencing of strains of the most prevalent clonal group of O1:K1:H7 Escherichia coli that causes neonatal meningitis in France

Guillaume Geslain (6242036)
André Birgy (6242039)
Sandrine Adiba (362590)
Mélanie Magnan (304705)
Céline Courroux (6242042)
Corinne Levy (317205)
Robert Cohen (317208)
Philippe Bidet (160707)
Stéphane Bonacorsi (75195)

January 2019

166 genes searched by local blast analysis using the NCBI blast tool; description: list of genes sea...

Additional file 1: of Genome sequencing of strains of the most prevalent clonal group of O1:K1:H7 Escherichia coli that causes neonatal meningitis in France

Guillaume Geslain (6242036)
André Birgy (6242039)
Sandrine Adiba (362590)
Mélanie Magnan (304705)
Céline Courroux (6242042)
Corinne Levy (317205)
Robert Cohen (317208)
Philippe Bidet (160707)
Stéphane Bonacorsi (75195)

January 2019

ex vivo amoeba model outcomes for several representatives of O1:K1 STc95 E. coli meningitis strains;...

Additional file 2: of Diversity of virulence level phenotype of hypervirulent Klebsiella pneumoniae from different sequence type lineage

Qiucheng Shi (3233457)
Peng Lan (5699819)
Danyan Huang (5148011)
Xiaoting Hua (435699)
Yan Jiang (12139)
Jiancang Zhou (3233460)
Yunsong Yu (496103)

August 2018

Table S1. PCR primers used for studying Serotype and Virulence-Associated Genes of Klebsiella pneumo...

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 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...

BjĂ¸rn-Arne Lindstedt (6032030)
Misti Finton (6032021)
Davide Porcellato (5016440)
Lin Brandal (3571076)

November 2018

PCR primers used in study. Sequences of all PCR-primers used in this study, with references. (DOCX 1...

Additional file 2: of Attack of the clones: whole genome-based characterization of two closely related enterohemorrhagic Escherichia coli O26 epidemic lineages

Lucia Karnisova (5708015)
Monika Marejkova (5708018)
Hana Hrbackova (4682806)
Alexander Mellmann (72273)
Helge Karch (72277)
Angelika Fruth (214889)
Pavel Drevinek (23044)
Kveta Blahova (5708021)
Martina Bielaszewska (79970)
Jaroslav Nunvar (2938236)

September 2018

Figure S1. Core genome-derived phylogeny of 159 E. coli O26 isolates. The phylogram (inferred using ...

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: Figure S1. of The molecular characterisation of Escherichia coli K1 isolated from neonatal nasogastric feeding tubes

Aldukali Alkeskas (3554327)
Pauline Ogrodzki (3554333)
Mohamed Saad (3554330)
Naqash Masood (119596)
Nasreddin Rhoma (3554324)
Karen Moore (760400)
Audrey Farbos (579006)
Konrad Paszkiewicz (131602)
Stephen Forsythe (47724)

October 2015

Genomic analysis of E. coli sequence types using the Comprehensive Antibiotic Database (CARD: http:/...

Additional file 1: of Evaluation of whole-genome sequencing for outbreak detection of Verotoxigenic Escherichia coli O157:H7 from the Canadian perspective

Jillian Rumore (6050549)
Lorelee Tschetter (4026191)
Ashley Kearney (6050558)
Rima Kandar (6050564)
Rachel McCormick (6050567)
Matthew Walker (343875)
Christy-Lynn Peterson (4026188)
Aleisha Reimer (3370232)
Celine Nadon (3370208)

December 2018

BioProject and BioSample information for the 250 isolates used in the study. (DOCX 33 kb

Additional file 3: of Attack of the clones: whole genome-based characterization of two closely related enterohemorrhagic Escherichia coli O26 epidemic lineages

Lucia Karnisova (5708015)
Monika Marejkova (5708018)
Hana Hrbackova (4682806)
Alexander Mellmann (72273)
Helge Karch (72277)
Angelika Fruth (214889)
Pavel Drevinek (23044)
Kveta Blahova (5708021)
Martina Bielaszewska (79970)
Jaroslav Nunvar (2938236)

September 2018

Table S3. Discrimination of early nEC and late nEC strains by sen/ent SNP-specific PCR, WGS and PFGE...

Additional file 3: 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 Käsbohrer (558035)
Stefan Schwarz (166988)
Uwe Rösler (5618465)
Lothar Kreienbrock (705028)
Yvonne Pfeifer (457305)
Stephan Fuchs (256450)
Guido Werner (28655)

August 2018

Figure S2. SNP-based maximum-likelihood-trees of isolates of selected sequence types. a: Maximum-lik...

Additional file 2: of Genome sequencing of strains of the most prevalent clonal group of O1:K1:H7 Escherichia coli that causes neonatal meningitis in France

Abstract

Extracted data

Additional file 2: of Genome sequencing of strains of the most prevalent clonal group of O1:K1:H7 Escherichia coli that causes neonatal meningitis in France

Abstract

Extracted data

Related items

Related items