Additional file 5: Figure S4. of Comparative genome and phenotypic analysis of three Clostridioides difficile strains isolated from a single patient provide insight into multiple infection of C. difficile

Additional file 3: of Paeniclostridium sordellii and Clostridioides difficile encode similar and clinically relevant tetracycline resistance loci in diverse genomic locations

Callum Vidor (6423434)
Dieter Bulach (368712)
Milena Awad (5117831)
Dena Lyras (201260)

March 2019

Table S1. Matrices displaying the nucleotide identity (%) of the Tet P regulatory region comprising ...

Short-term genomic stability of Clostridium difficile within patients and a gut model

Eyre, D. W.
Ip, C.
Harding, R. M.
Freeman, J.
Baines, Simon D.
Fawley, W. N.
Walker, S.D.
Crook, D. W.
Peto, T. E. A.
Wilcox, M. H.

September 2011

Background: Clostridium difficile (CD) whole genome sequencing (WGS) has potential to identify relat...

Short-term genome stability of serial Clostridium difficile ribotype 027 isolates in an experimental gut model and recurrent human disease.

David W Eyre
A Sarah Walker
Jane Freeman
Simon D Baines
Warren N Fawley
Caroline H Chilton
David Griffiths
Alison Vaughan
Derrick W Crook
Tim E A Peto
Mark H Wilcox

Clostridium difficile whole genome sequencing has the potential to identify related isolates, even a...

Additional file 7: Figure S6. of Comparative genome and phenotypic analysis of three Clostridioides difficile strains isolated from a single patient provide insight into multiple infection of C. difficile

Uwe Groß (175387)
Elzbieta Brzuszkiewicz (199180)
Katrin Gunka (421851)
Jessica Starke (4728282)
Thomas Riedel (354742)
Boyke Bunk (74932)
Cathrin Spröer (4728303)
Daniela Wetzel (4728288)
Anja Poehlein (113372)
Cynthia Chibani (3919511)
Wolfgang Bohne (652130)
Jörg Overmann (140902)
Ortrud Zimmermann (317647)
Rolf Daniel (113374)
Heiko Liesegang (243100)

January 2018

Motility assay of C. difficile isolates. RT 012 strains (630; DSM 27639), RT 027 strains (R20291; DS...

Additional file 4: Table S11. of Comparative genomic analysis of toxin-negative strains of Clostridium difficile from humans and animals with symptoms of gastrointestinal disease

Piklu Roy Chowdhury (479454)
Matthew DeMaere (3540893)
Toni Chapman (3540890)
Paul Worden (3540887)
Ian Charles (3540896)
Aaron Darling (61404)
Steven Djordjevic (3540884)

March 2016

Regions identified in each C. difficile genome by PHAST. Sheet 1. C. difficile strain P29 genome, Sh...

Comparative genome and phenotypic analysis of three Clostridioides difficile strains isolated from a single patient provide insight into multiple infection of C. difficile

Uwe Groß
Elzbieta Brzuszkiewicz
Katrin Gunka
Jessica Starke
Thomas Riedel
Boyke Bunk
Cathrin Spröer
Daniela Wetzel
Anja Poehlein
Cynthia Chibani
Wolfgang Bohne
Jörg Overmann
Ortrud Zimmermann
Rolf Daniel
Heiko Liesegang

January 2018

Abstract Background Clostridioides difficile infections (CDI) have emerged over the past decade caus...

Additional file 1: Table S1. of Comparative genomic analysis of toxin-negative strains of Clostridium difficile from humans and animals with symptoms of gastrointestinal disease

Piklu Roy Chowdhury (479454)
Matthew DeMaere (3540893)
Toni Chapman (3540890)
Paul Worden (3540887)
Ian Charles (3540896)
Aaron Darling (61404)
Steven Djordjevic (3540884)

March 2016

Isolation history, genomic assembly and initial PCR screening results of the five isolates analysed ...

Phenotypic and Genotypic Analysis of Clostridium difficile Isolates: a Single-Center Study.

Zhou, Yanjiao
Burnham, Carey-Ann D
Hink, Tiffany
Chen, Lei
Shaikh, Nurmohammad
Wollam, Aye
Weinstock, Erica Sodergren
Weinstock, George M
Tarr, Phillip I
Dubberke, Erik R

December 2014

Clostridium difficile infections (CDI) are a growing concern in North America, because of their incr...

Additional file 2: of Paeniclostridium sordellii and Clostridioides difficile encode similar and clinically relevant tetracycline resistance loci in diverse genomic locations

Callum Vidor (6423434)
Dieter Bulach (368712)
Milena Awad (5117831)
Dena Lyras (201260)

March 2019

Table S2. Bacterial isolates, genomic DNA sequences and sequencing data used in this study. (PDF 274...

Fourteen-genome comparison identifies DNA markers for severe-disease-associated strains of Clostridium difficile

Forgetta, Vincenzo
Rupnik, Maja

June 2012

Clostridium difficile is a common cause of infectious diarrhea in hospitalizedpatients. A severe and...

Additional file 7: of Paeniclostridium sordellii and Clostridioides difficile encode similar and clinically relevant tetracycline resistance loci in diverse genomic locations

Callum Vidor (6423434)
Dieter Bulach (368712)
Milena Awad (5117831)
Dena Lyras (201260)

March 2019

Figure S5. PCR analysis of C. perfringens JIR325 transformed with P. sordellii genomic DNA (gDNA) fr...

Additional file 5: of Paeniclostridium sordellii and Clostridioides difficile encode similar and clinically relevant tetracycline resistance loci in diverse genomic locations

Callum Vidor (6423434)
Dieter Bulach (368712)
Milena Awad (5117831)
Dena Lyras (201260)

March 2019

Figure S3. Nucleotide alignment of the regions flanking regA in P. sordellii Tet P+ isolates. Sequen...

Additional file 8: of Paeniclostridium sordellii and Clostridioides difficile encode similar and clinically relevant tetracycline resistance loci in diverse genomic locations

Callum Vidor (6423434)
Dieter Bulach (368712)
Milena Awad (5117831)
Dena Lyras (201260)

March 2019

Table S3. Oligonucleotide primers used in PCR. (+) forward primer, (â) reverse primer. (PDF 89 kb

Additional file 5: Figure S1. of Comparative genomics of Clostridium bolteae and Clostridium clostridioforme reveals species-specific genomic properties and numerous putative antibiotic resistance determinants

Pierre Dehoux (8104)
Jean Marvaud (3488930)
Amr Abouelleil (535085)
Ashlee Earl (3488927)
Thierry Lambert (2945661)
Catherine Dauga (47455)

October 2016

Distance based phylogenetic tree of genes coding for butyrate kinase (buk). (PNG 721 kb

Additional file 2: Figure S1. of Whole genome sequencing for the molecular characterization of carbapenem-resistant Klebsiella pneumoniae strains isolated at the Italian ASST Fatebenefratelli Sacco Hospital, 2012–2014

Sara Rimoldi (4505101)
Bernardina Gentile (4505092)
Cristina Pagani (4505110)
Annamaria Di Gregorio (4505104)
Anna Anselmo (64079)
Anna Palozzi (4505095)
Antonella Fortunato (4505098)
Valentina Pittiglio (42110)
Anna Lisa Ridolfo (4505107)
Maria Rita Gismondo (4505113)
Giuliano Rizzardini (103636)
Florigio Lista (42114)

October 2017

GoeBURST diagram showing a “population snapshot” of the 68 carbapenem-resistant K. pneumoniae strain...

Additional file 3: of Paeniclostridium sordellii and Clostridioides difficile encode similar and clinically relevant tetracycline resistance loci in diverse genomic locations

Callum Vidor (6423434)
Dieter Bulach (368712)
Milena Awad (5117831)
Dena Lyras (201260)

March 2019

Table S1. Matrices displaying the nucleotide identity (%) of the Tet P regulatory region comprising ...

Short-term genomic stability of Clostridium difficile within patients and a gut model

Eyre, D. W.
Ip, C.
Harding, R. M.
Freeman, J.
Baines, Simon D.
Fawley, W. N.
Walker, S.D.
Crook, D. W.
Peto, T. E. A.
Wilcox, M. H.

September 2011

Background: Clostridium difficile (CD) whole genome sequencing (WGS) has potential to identify relat...

Short-term genome stability of serial Clostridium difficile ribotype 027 isolates in an experimental gut model and recurrent human disease.

David W Eyre
A Sarah Walker
Jane Freeman
Simon D Baines
Warren N Fawley
Caroline H Chilton
David Griffiths
Alison Vaughan
Derrick W Crook
Tim E A Peto
Mark H Wilcox

Clostridium difficile whole genome sequencing has the potential to identify related isolates, even a...

Additional file 7: Figure S6. of Comparative genome and phenotypic analysis of three Clostridioides difficile strains isolated from a single patient provide insight into multiple infection of C. difficile

Uwe Groß (175387)
Elzbieta Brzuszkiewicz (199180)
Katrin Gunka (421851)
Jessica Starke (4728282)
Thomas Riedel (354742)
Boyke Bunk (74932)
Cathrin Spröer (4728303)
Daniela Wetzel (4728288)
Anja Poehlein (113372)
Cynthia Chibani (3919511)
Wolfgang Bohne (652130)
Jörg Overmann (140902)
Ortrud Zimmermann (317647)
Rolf Daniel (113374)
Heiko Liesegang (243100)

January 2018

Motility assay of C. difficile isolates. RT 012 strains (630; DSM 27639), RT 027 strains (R20291; DS...

Additional file 4: Table S11. of Comparative genomic analysis of toxin-negative strains of Clostridium difficile from humans and animals with symptoms of gastrointestinal disease

Piklu Roy Chowdhury (479454)
Matthew DeMaere (3540893)
Toni Chapman (3540890)
Paul Worden (3540887)
Ian Charles (3540896)
Aaron Darling (61404)
Steven Djordjevic (3540884)

March 2016

Regions identified in each C. difficile genome by PHAST. Sheet 1. C. difficile strain P29 genome, Sh...

Comparative genome and phenotypic analysis of three Clostridioides difficile strains isolated from a single patient provide insight into multiple infection of C. difficile

Uwe Groß
Elzbieta Brzuszkiewicz
Katrin Gunka
Jessica Starke
Thomas Riedel
Boyke Bunk
Cathrin Spröer
Daniela Wetzel
Anja Poehlein
Cynthia Chibani
Wolfgang Bohne
Jörg Overmann
Ortrud Zimmermann
Rolf Daniel
Heiko Liesegang

January 2018

Abstract Background Clostridioides difficile infections (CDI) have emerged over the past decade caus...

Additional file 1: Table S1. of Comparative genomic analysis of toxin-negative strains of Clostridium difficile from humans and animals with symptoms of gastrointestinal disease

Piklu Roy Chowdhury (479454)
Matthew DeMaere (3540893)
Toni Chapman (3540890)
Paul Worden (3540887)
Ian Charles (3540896)
Aaron Darling (61404)
Steven Djordjevic (3540884)

March 2016

Isolation history, genomic assembly and initial PCR screening results of the five isolates analysed ...

Phenotypic and Genotypic Analysis of Clostridium difficile Isolates: a Single-Center Study.

Zhou, Yanjiao
Burnham, Carey-Ann D
Hink, Tiffany
Chen, Lei
Shaikh, Nurmohammad
Wollam, Aye
Weinstock, Erica Sodergren
Weinstock, George M
Tarr, Phillip I
Dubberke, Erik R

December 2014

Clostridium difficile infections (CDI) are a growing concern in North America, because of their incr...

Additional file 2: of Paeniclostridium sordellii and Clostridioides difficile encode similar and clinically relevant tetracycline resistance loci in diverse genomic locations

Callum Vidor (6423434)
Dieter Bulach (368712)
Milena Awad (5117831)
Dena Lyras (201260)

March 2019

Table S2. Bacterial isolates, genomic DNA sequences and sequencing data used in this study. (PDF 274...

Fourteen-genome comparison identifies DNA markers for severe-disease-associated strains of Clostridium difficile

Forgetta, Vincenzo
Rupnik, Maja

June 2012

Clostridium difficile is a common cause of infectious diarrhea in hospitalizedpatients. A severe and...

Additional file 7: of Paeniclostridium sordellii and Clostridioides difficile encode similar and clinically relevant tetracycline resistance loci in diverse genomic locations

Callum Vidor (6423434)
Dieter Bulach (368712)
Milena Awad (5117831)
Dena Lyras (201260)

March 2019

Figure S5. PCR analysis of C. perfringens JIR325 transformed with P. sordellii genomic DNA (gDNA) fr...

Additional file 5: of Paeniclostridium sordellii and Clostridioides difficile encode similar and clinically relevant tetracycline resistance loci in diverse genomic locations

Callum Vidor (6423434)
Dieter Bulach (368712)
Milena Awad (5117831)
Dena Lyras (201260)

March 2019

Figure S3. Nucleotide alignment of the regions flanking regA in P. sordellii Tet P+ isolates. Sequen...

Additional file 8: of Paeniclostridium sordellii and Clostridioides difficile encode similar and clinically relevant tetracycline resistance loci in diverse genomic locations

Callum Vidor (6423434)
Dieter Bulach (368712)
Milena Awad (5117831)
Dena Lyras (201260)

March 2019

Table S3. Oligonucleotide primers used in PCR. (+) forward primer, (â) reverse primer. (PDF 89 kb

Additional file 5: Figure S1. of Comparative genomics of Clostridium bolteae and Clostridium clostridioforme reveals species-specific genomic properties and numerous putative antibiotic resistance determinants

Pierre Dehoux (8104)
Jean Marvaud (3488930)
Amr Abouelleil (535085)
Ashlee Earl (3488927)
Thierry Lambert (2945661)
Catherine Dauga (47455)

October 2016

Distance based phylogenetic tree of genes coding for butyrate kinase (buk). (PNG 721 kb

Additional file 2: Figure S1. of Whole genome sequencing for the molecular characterization of carbapenem-resistant Klebsiella pneumoniae strains isolated at the Italian ASST Fatebenefratelli Sacco Hospital, 2012–2014

Sara Rimoldi (4505101)
Bernardina Gentile (4505092)
Cristina Pagani (4505110)
Annamaria Di Gregorio (4505104)
Anna Anselmo (64079)
Anna Palozzi (4505095)
Antonella Fortunato (4505098)
Valentina Pittiglio (42110)
Anna Lisa Ridolfo (4505107)
Maria Rita Gismondo (4505113)
Giuliano Rizzardini (103636)
Florigio Lista (42114)

October 2017

GoeBURST diagram showing a “population snapshot” of the 68 carbapenem-resistant K. pneumoniae strain...

Additional file 3: of Paeniclostridium sordellii and Clostridioides difficile encode similar and clinically relevant tetracycline resistance loci in diverse genomic locations

Callum Vidor (6423434)
Dieter Bulach (368712)
Milena Awad (5117831)
Dena Lyras (201260)

March 2019

Table S1. Matrices displaying the nucleotide identity (%) of the Tet P regulatory region comprising ...

Short-term genomic stability of Clostridium difficile within patients and a gut model

Eyre, D. W.
Ip, C.
Harding, R. M.
Freeman, J.
Baines, Simon D.
Fawley, W. N.
Walker, S.D.
Crook, D. W.
Peto, T. E. A.
Wilcox, M. H.

September 2011

Background: Clostridium difficile (CD) whole genome sequencing (WGS) has potential to identify relat...

Short-term genome stability of serial Clostridium difficile ribotype 027 isolates in an experimental gut model and recurrent human disease.

David W Eyre
A Sarah Walker
Jane Freeman
Simon D Baines
Warren N Fawley
Caroline H Chilton
David Griffiths
Alison Vaughan
Derrick W Crook
Tim E A Peto
Mark H Wilcox

Clostridium difficile whole genome sequencing has the potential to identify related isolates, even a...

Additional file 5: Figure S4. of Comparative genome and phenotypic analysis of three Clostridioides difficile strains isolated from a single patient provide insight into multiple infection of C. difficile

Abstract

Extracted data

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