Additional file 6: of Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

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 Escherichia coli B2 strains prevalent in inflammatory bowel disease patients have distinct metabolic capabilities that enable colonization of intestinal mucosa

Xin Fang (134979)
Jonathan Monk (3548066)
Nathan Mih (3146436)
Bin Du (138774)
Anand Sastry (5369741)
Erol Kavvas (3465563)
Yara Seif (4908814)
Larry Smarr (379158)
Bernhard Palsson (450761)

June 2018

Table S1: Metadata of 110 strains. Table S2: Genes associated with mucus degradation. Table S3: Meta...

Additional file 1: of Genome sequences of two closely related strains of Escherichia coli K-12 GM4792

Yan-Cong Zhang (3495206)
Yan Zhang (8098)
Bi-Ru Zhu (3495203)
Bo-Wen Zhang (849406)
Chuan Ni (238144)
Da-Yong Zhang (16644)
Ying Huang (53474)
Erli Pang (416861)
Kui Lin (16645)

December 2015

Supplementary Tables and Figures. Table S1. Genomic differences between E. coli GM4792 Lac+ and Lac-...

Additional file 1: of Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Vijay Sharma (651200)
Suryatej Akavaram (6441005)
Robert Schaut (6441008)
Darrell Bayles (3468284)

March 2019

Table S2. Sequence length and location of chromosomal regions in two reference strains exhibiting ho...

Additional file 2: of Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Vijay Sharma (651200)
Suryatej Akavaram (6441005)
Robert Schaut (6441008)
Darrell Bayles (3468284)

March 2019

Table S3. Chromosomal location of genomic islands (GI) in NADC 6564 and corresponding homologs in tw...

Additional file 1: Table S1. of Genome sequencing and comparative genomics of enterohemorrhagic Escherichia coli O145:H25 and O145:H28 reveal distinct evolutionary paths and marked variations in traits associated with virulence & colonization

Sandra Lorenz (4383238)
Narjol Gonzalez-Escalona (4383244)
Michael Kotewicz (4383235)
Markus Fischer (111964)
Julie Kase (4383241)

August 2017

Metadata and accession numbers of the 69 E. coli strains used for phylogenetic analysis. (XLSX 17Â k...

Additional file 1: Table S1. of Escherichia coli O157:H7 strains harbor at least three distinct sequence types of Shiga toxin 2a-converting phages

Shuang Yin (2049994)
Brigida Rusconi (3551264)
Fatemeh Sanjar (3551270)
Kakolie Goswami (3551267)
Lingzi Xiaoli (3551273)
Mark Eppinger (78034)
Edward Dudley (378637)

September 2015

Information on Escherichia coli O157:H7 strains used in this study, and Genbank accession numbers fo...

Additional file 3: of Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Vijay Sharma (651200)
Suryatej Akavaram (6441005)
Robert Schaut (6441008)
Darrell Bayles (3468284)

March 2019

Figure S1. Cladograms showing evolutionary relationship of the dndBCDE gene sequences in NADC 6564 t...

Additional file 4: of Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Vijay Sharma (651200)
Suryatej Akavaram (6441005)
Robert Schaut (6441008)
Darrell Bayles (3468284)

March 2019

Figure S2. Cladograms showing evolutionary relationship of the dptFGH gene sequences in NADC 6564 to...

Additional file 5: of Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Vijay Sharma (651200)
Suryatej Akavaram (6441005)
Robert Schaut (6441008)
Darrell Bayles (3468284)

March 2019

Figure S3. Cladograms showing evolutionary relationship of pea and peaX gene sequences of NADC 6564 ...

Additional file 1: Table S1. of Genome analysis and in vivo virulence of porcine extraintestinal pathogenic Escherichia coli strain PCN033

Canying Liu (3567590)
Huajun Zheng (38118)
Minjun Yang (120481)
Zhuofei Xu (38107)
Xiangru Wang (3196767)
Liuya Wei (3567596)
Biao Tang (3567593)
Feng Liu (72874)
Yanyan Zhang (1462111)
Yi Ding (172783)
Xibiao Tang (3567599)
Bin Wu (138543)
Timothy Johnson (139876)
Huanchun Chen (38125)
Chen Tan (651657)

September 2015

Genomes used for phylogenetic and Escherichia coli protein database construction (DOC 86 kb

Additional file 1: of Genome analysis of E. coli isolated from Crohnâs disease patients

Daria Rakitina (104963)
Alexander Manolov (4259773)
Alexandra Kanygina (3455015)
Sofya Garushyants (4259776)
Julia Baikova (4259746)
Dmitry Alexeev (1535380)
Valentina Ladygina (2131024)
Elena Kostryukova (3455012)
Andrei Larin (4259758)
Tatiana Semashko (3547331)
Irina Karpova (3606446)
Vladislav Babenko (4259743)
Ruzilya Ismagilova (4259761)
Sergei Malanin (4259740)
Mikhail Gelfand (4027)
Elena Ilina (741179)
Roman Gorodnichev (4259749)
Eugenia Lisitsyna (4259770)
Gennady Aleshkin (4259782)
Petr Scherbakov (4259764)
Igor Khalif (4259752)
Marina Shapina (4259755)
Igor Maev (4259779)
Dmitry Andreev (4259767)
Vadim Govorun (2131033)

July 2017

Strains used for the comparative analysis. (A) Strains used for the phylogenetic analysis. Character...

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 6: Table S6. of Genome analysis and in vivo virulence of porcine extraintestinal pathogenic Escherichia coli strain PCN033

Canying Liu (3567590)
Huajun Zheng (38118)
Minjun Yang (120481)
Zhuofei Xu (38107)
Xiangru Wang (3196767)
Liuya Wei (3567596)
Biao Tang (3567593)
Feng Liu (72874)
Yanyan Zhang (1462111)
Yi Ding (172783)
Xibiao Tang (3567599)
Bin Wu (138543)
Timothy Johnson (139876)
Huanchun Chen (38125)
Chen Tan (651657)

September 2015

Biochemical characteristics of PCN033 and PCN061 strains with API 20E test strips (DOC 40 kb

Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Vijay K. Sharma
Suryatej Akavaram
Robert G. Schaut
Darrell O. Bayles

March 2019

Abstract Background Escherichia coli O157:H7 (O157) has been linked to numerous foodborne disease ou...

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 Escherichia coli B2 strains prevalent in inflammatory bowel disease patients have distinct metabolic capabilities that enable colonization of intestinal mucosa

Xin Fang (134979)
Jonathan Monk (3548066)
Nathan Mih (3146436)
Bin Du (138774)
Anand Sastry (5369741)
Erol Kavvas (3465563)
Yara Seif (4908814)
Larry Smarr (379158)
Bernhard Palsson (450761)

June 2018

Table S1: Metadata of 110 strains. Table S2: Genes associated with mucus degradation. Table S3: Meta...

Additional file 1: of Genome sequences of two closely related strains of Escherichia coli K-12 GM4792

Yan-Cong Zhang (3495206)
Yan Zhang (8098)
Bi-Ru Zhu (3495203)
Bo-Wen Zhang (849406)
Chuan Ni (238144)
Da-Yong Zhang (16644)
Ying Huang (53474)
Erli Pang (416861)
Kui Lin (16645)

December 2015

Supplementary Tables and Figures. Table S1. Genomic differences between E. coli GM4792 Lac+ and Lac-...

Additional file 1: of Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Vijay Sharma (651200)
Suryatej Akavaram (6441005)
Robert Schaut (6441008)
Darrell Bayles (3468284)

March 2019

Table S2. Sequence length and location of chromosomal regions in two reference strains exhibiting ho...

Additional file 2: of Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Vijay Sharma (651200)
Suryatej Akavaram (6441005)
Robert Schaut (6441008)
Darrell Bayles (3468284)

March 2019

Table S3. Chromosomal location of genomic islands (GI) in NADC 6564 and corresponding homologs in tw...

Additional file 1: Table S1. of Genome sequencing and comparative genomics of enterohemorrhagic Escherichia coli O145:H25 and O145:H28 reveal distinct evolutionary paths and marked variations in traits associated with virulence & colonization

Sandra Lorenz (4383238)
Narjol Gonzalez-Escalona (4383244)
Michael Kotewicz (4383235)
Markus Fischer (111964)
Julie Kase (4383241)

August 2017

Metadata and accession numbers of the 69 E. coli strains used for phylogenetic analysis. (XLSX 17Â k...

Additional file 1: Table S1. of Escherichia coli O157:H7 strains harbor at least three distinct sequence types of Shiga toxin 2a-converting phages

Shuang Yin (2049994)
Brigida Rusconi (3551264)
Fatemeh Sanjar (3551270)
Kakolie Goswami (3551267)
Lingzi Xiaoli (3551273)
Mark Eppinger (78034)
Edward Dudley (378637)

September 2015

Information on Escherichia coli O157:H7 strains used in this study, and Genbank accession numbers fo...

Additional file 3: of Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Vijay Sharma (651200)
Suryatej Akavaram (6441005)
Robert Schaut (6441008)
Darrell Bayles (3468284)

March 2019

Figure S1. Cladograms showing evolutionary relationship of the dndBCDE gene sequences in NADC 6564 t...

Additional file 4: of Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Vijay Sharma (651200)
Suryatej Akavaram (6441005)
Robert Schaut (6441008)
Darrell Bayles (3468284)

March 2019

Figure S2. Cladograms showing evolutionary relationship of the dptFGH gene sequences in NADC 6564 to...

Additional file 5: of Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Vijay Sharma (651200)
Suryatej Akavaram (6441005)
Robert Schaut (6441008)
Darrell Bayles (3468284)

March 2019

Figure S3. Cladograms showing evolutionary relationship of pea and peaX gene sequences of NADC 6564 ...

Additional file 1: Table S1. of Genome analysis and in vivo virulence of porcine extraintestinal pathogenic Escherichia coli strain PCN033

Canying Liu (3567590)
Huajun Zheng (38118)
Minjun Yang (120481)
Zhuofei Xu (38107)
Xiangru Wang (3196767)
Liuya Wei (3567596)
Biao Tang (3567593)
Feng Liu (72874)
Yanyan Zhang (1462111)
Yi Ding (172783)
Xibiao Tang (3567599)
Bin Wu (138543)
Timothy Johnson (139876)
Huanchun Chen (38125)
Chen Tan (651657)

September 2015

Genomes used for phylogenetic and Escherichia coli protein database construction (DOC 86 kb

Additional file 1: of Genome analysis of E. coli isolated from Crohnâs disease patients

Daria Rakitina (104963)
Alexander Manolov (4259773)
Alexandra Kanygina (3455015)
Sofya Garushyants (4259776)
Julia Baikova (4259746)
Dmitry Alexeev (1535380)
Valentina Ladygina (2131024)
Elena Kostryukova (3455012)
Andrei Larin (4259758)
Tatiana Semashko (3547331)
Irina Karpova (3606446)
Vladislav Babenko (4259743)
Ruzilya Ismagilova (4259761)
Sergei Malanin (4259740)
Mikhail Gelfand (4027)
Elena Ilina (741179)
Roman Gorodnichev (4259749)
Eugenia Lisitsyna (4259770)
Gennady Aleshkin (4259782)
Petr Scherbakov (4259764)
Igor Khalif (4259752)
Marina Shapina (4259755)
Igor Maev (4259779)
Dmitry Andreev (4259767)
Vadim Govorun (2131033)

July 2017

Strains used for the comparative analysis. (A) Strains used for the phylogenetic analysis. Character...

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 6: Table S6. of Genome analysis and in vivo virulence of porcine extraintestinal pathogenic Escherichia coli strain PCN033

Canying Liu (3567590)
Huajun Zheng (38118)
Minjun Yang (120481)
Zhuofei Xu (38107)
Xiangru Wang (3196767)
Liuya Wei (3567596)
Biao Tang (3567593)
Feng Liu (72874)
Yanyan Zhang (1462111)
Yi Ding (172783)
Xibiao Tang (3567599)
Bin Wu (138543)
Timothy Johnson (139876)
Huanchun Chen (38125)
Chen Tan (651657)

September 2015

Biochemical characteristics of PCN033 and PCN061 strains with API 20E test strips (DOC 40 kb

Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Vijay K. Sharma
Suryatej Akavaram
Robert G. Schaut
Darrell O. Bayles

March 2019

Abstract Background Escherichia coli O157:H7 (O157) has been linked to numerous foodborne disease ou...

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 Escherichia coli B2 strains prevalent in inflammatory bowel disease patients have distinct metabolic capabilities that enable colonization of intestinal mucosa

Xin Fang (134979)
Jonathan Monk (3548066)
Nathan Mih (3146436)
Bin Du (138774)
Anand Sastry (5369741)
Erol Kavvas (3465563)
Yara Seif (4908814)
Larry Smarr (379158)
Bernhard Palsson (450761)

June 2018

Table S1: Metadata of 110 strains. Table S2: Genes associated with mucus degradation. Table S3: Meta...

Additional file 1: of Genome sequences of two closely related strains of Escherichia coli K-12 GM4792

Yan-Cong Zhang (3495206)
Yan Zhang (8098)
Bi-Ru Zhu (3495203)
Bo-Wen Zhang (849406)
Chuan Ni (238144)
Da-Yong Zhang (16644)
Ying Huang (53474)
Erli Pang (416861)
Kui Lin (16645)

December 2015

Supplementary Tables and Figures. Table S1. Genomic differences between E. coli GM4792 Lac+ and Lac-...

Additional file 6: of Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Abstract

Extracted data

Additional file 6: of Comparative genomics reveals structural and functional features specific to the genome of a foodborne Escherichia coli O157:H7

Abstract

Extracted data

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