Additional file 3: of Characterization of the upper and lower respiratory tract microbiota in Piedmontese calves

Additional file 1: Figure S1. of The rumen microbiome as a reservoir of antimicrobial resistance and pathogenicity genes is directly affected by diet in beef cattle

Marc Auffret (4676683)
Richard Dewhurst (4676686)
Carol-Anne Duthie (2147329)
John Rooke (3439619)
R. John Wallace (633583)
Tom Freeman (3440)
Robert Stewart (34430)
Mick Watson (533792)
Rainer Roehe (2147326)

December 2017

Relative abundance (%) of 20 groups of functional genes representing 204 selected genes (number of a...

Additional file 3: of Species-level bacterial community profiling of the healthy sinonasal microbiome using Pacific Biosciences sequencing of full-length 16S rRNA genes

Joshua Earl (2795311)
Nithin Adappa (5890682)
Jaroslaw Krol (5684675)
Archana Bhat (342707)
Sergey Balashov (5684681)
Rachel Ehrlich (5890685)
James Palmer (1752628)
Alan Workman (5890688)
Mariel Blasetti (5890691)
Bhaswati Sen (4599163)
Jocelyn Hammond (5890694)
Noam Cohen (319186)
Garth Ehrlich (4599154)
Joshua Mell (2795317)

October 2018

Figure S1. Effect of primary filters on the number of reads. Figure S2. Insert size distribution. Fi...

Additional file 3: of Cardiorespiratory fitness as a predictor of intestinal microbial diversity and distinct metagenomic functions

Mehrbod Estaki (284755)
Jason Pither (3274305)
Peter Baumeister (260277)
Jonathan Little (3455462)
Sandeep Gill (3455456)
Sanjoy Ghosh (284750)
Zahra Ahmadi-Vand (781456)
Katelyn Marsden (3455459)
Deanna Gibson (3455465)

August 2016

Sampling depth rarefaction curves. Rarefaction curves of all subjects at 97Â % similarity levels sho...

Additional file 4: of Characterization of the upper and lower respiratory tract microbiota in Piedmontese calves

Isabella Nicola (4605823)
Francesco Cerutti (337235)
Elena Grego (4605820)
Iride Bertone (4605811)
Paola Gianella (4605805)
Antonio D’Angelo (4605814)
Simone Peletto (4605817)
Claudio Bellino (4605808)

November 2017

A table reporting the differential abundances of operational taxonomic units (OTUs) found in the nas...

Additional file 1: of Characterization of the upper and lower respiratory tract microbiota in Piedmontese calves

Isabella Nicola (4605823)
Francesco Cerutti (337235)
Elena Grego (4605820)
Iride Bertone (4605811)
Paola Gianella (4605805)
Antonio DâAngelo (4605826)
Simone Peletto (4605817)
Claudio Bellino (4605808)

November 2017

Geographical distribution of the farms. Maps were adapted from Google Maps. (PDF 158Â kb

Additional file 1 of Host-specific probiotics feeding influence growth, gut microbiota, and fecal biomarkers in buffalo calves

Vinay Venkatesh Varada (12196813)
Sachin Kumar (13796353)
Supriya Chhotaray (11454463)
Amrish Kumar Tyagi (12196828)

September 2022

Additional file 1: Figure S1. Compatibility tests between Ligilactobacillus salivarius BF-17 and Lim...

Additional file 4: Table S3. of Relationship between nasopharyngeal and bronchoalveolar microbial communities in clinically healthy feedlot cattle

Mohamed Zeineldin (4170922)
James Lowe (57330)
Elsbeth Grimmer (4170919)
Maria Godoy (4170910)
Mohamed Ghanem (4170916)
Yassein Abd El-Raof (4170925)
Brian Aldridge (4170913)

June 2017

Correlation between the most prevalent bacterial genera in the nasopharyngeal swab samples. Table S4...

Additional file 3 of A global phylogenomic and metabolic reconstruction of the large intestine bacterial community of domesticated cattle

S. Teseo (13862894)
S. Otani (13862897)
C. Brinch (13862900)
S. Leroy (7752674)
P. Ruiz (660773)
M. Desvaux (13862903)
E. Forano (13862906)
F. M. Aarestrup (8559435)
P. Sapountzis (13862909)

September 2022

Additional file 3: Table S3. A: Summary of the assembled contig classification: Number and proportio...

Additional file 5: Table S5. of Relationship between nasopharyngeal and bronchoalveolar microbial communities in clinically healthy feedlot cattle

Mohamed Zeineldin (4170922)
James Lowe (57330)
Elsbeth Grimmer (4170919)
Maria Godoy (4170910)
Mohamed Ghanem (4170916)
Yassein Abd El-Raof (4170925)
Brian Aldridge (4170913)

June 2017

Correlation between the most prevalent bacterial genera in the bronchoalveolar lavage samples. Table...

Additional file 6: of Skin and gut microbiomes of a wild mammal respond to different environmental cues

Anton Lavrinienko (5699762)
Eugene Tukalenko (5699765)
Tapio Mappes (208603)
Phillip Watts (541434)

November 2018

Statistical comparison of alpha diversity estimates by Kruskal–Wallis tests using Dunn’s post hoc te...

Additional file 3: of Dietary energy drives the dynamic response of bovine rumen viral communities

Christopher Anderson (120673)
Matthew Sullivan (83956)
Samodha Fernando (4622947)

November 2017

Rarefaction curves of species richness (Chao1 index) in bacterial (A) and viral (B) communities disp...

Additional file 1 of The association of hyperketonemia with fecal and rumen microbiota at time of diagnosis in a case-control cohort of early lactation cows

Asha M. Miles (11704916)
Jessica A. A. McArt (14174373)
Svetlana F. Lima (14174376)
Rafael C. Neves (9352088)
Erika Ganda (14174379)

November 2022

Additional file 1: Supplementary Fig. 1. Alpha diversity metrics by health status group. Boxplots sh...

Additional file 2: of Culture-enriched human gut microbiomes reveal core and accessory resistance genes

Frédéric Raymond (51256)
Maurice Boissinot (59036)
Amin Ouameur (6561317)
Maxime Déraspe (3480068)
Pier-Luc Plante (604214)
Sewagnouin Kpanou (6561320)
Ève Bérubé (6561323)
Ann Huletsky (2418028)
Paul Roy (6561326)
Marc Ouellette (51263)
Michel Bergeron (6561329)
Jacques Corbeil (51262)

April 2019

Figure S1. Diversity and abundance distribution of bacterial families in culture-independent or cult...

Additional file 1: Figure S1. of Comparison of rumen bacteria distribution in original rumen digesta, rumen liquid and solid fractions in lactating Holstein cows

Shoukun Ji (3706237)
Hongtao Zhang (167639)
Hui Yan (117134)
Arash Azarfar (3706243)
Haitao Shi (291654)
Gibson Alugongo (3706240)
Shengli Li (420941)
Zhijun Cao (395358)
Yajing Wang (447120)

February 2017

Microbial diversity in different fractions of rumen content. a, the OTU numbers in original, solid o...

Additional file 4: of Enrichment of beneficial bacteria in the skin microbiota of bats persisting with white-nose syndrome

Virginie Lemieux-LabontĂŠ (4411555)
Anouk Simard (677107)
Craig Willis (3260376)
FranĂ§ois-Joseph Lapointe (3522548)

September 2017

Rarefaction curves of alpha diversity calculated on multiple rarefied data table for each of the 66 ...

Additional file 1: Figure S1. of The rumen microbiome as a reservoir of antimicrobial resistance and pathogenicity genes is directly affected by diet in beef cattle

Marc Auffret (4676683)
Richard Dewhurst (4676686)
Carol-Anne Duthie (2147329)
John Rooke (3439619)
R. John Wallace (633583)
Tom Freeman (3440)
Robert Stewart (34430)
Mick Watson (533792)
Rainer Roehe (2147326)

December 2017

Relative abundance (%) of 20 groups of functional genes representing 204 selected genes (number of a...

Additional file 3: of Species-level bacterial community profiling of the healthy sinonasal microbiome using Pacific Biosciences sequencing of full-length 16S rRNA genes

Joshua Earl (2795311)
Nithin Adappa (5890682)
Jaroslaw Krol (5684675)
Archana Bhat (342707)
Sergey Balashov (5684681)
Rachel Ehrlich (5890685)
James Palmer (1752628)
Alan Workman (5890688)
Mariel Blasetti (5890691)
Bhaswati Sen (4599163)
Jocelyn Hammond (5890694)
Noam Cohen (319186)
Garth Ehrlich (4599154)
Joshua Mell (2795317)

October 2018

Figure S1. Effect of primary filters on the number of reads. Figure S2. Insert size distribution. Fi...

Additional file 3: of Cardiorespiratory fitness as a predictor of intestinal microbial diversity and distinct metagenomic functions

Mehrbod Estaki (284755)
Jason Pither (3274305)
Peter Baumeister (260277)
Jonathan Little (3455462)
Sandeep Gill (3455456)
Sanjoy Ghosh (284750)
Zahra Ahmadi-Vand (781456)
Katelyn Marsden (3455459)
Deanna Gibson (3455465)

August 2016

Sampling depth rarefaction curves. Rarefaction curves of all subjects at 97Â % similarity levels sho...

Additional file 4: of Characterization of the upper and lower respiratory tract microbiota in Piedmontese calves

Isabella Nicola (4605823)
Francesco Cerutti (337235)
Elena Grego (4605820)
Iride Bertone (4605811)
Paola Gianella (4605805)
Antonio D’Angelo (4605814)
Simone Peletto (4605817)
Claudio Bellino (4605808)

November 2017

A table reporting the differential abundances of operational taxonomic units (OTUs) found in the nas...

Additional file 1: of Characterization of the upper and lower respiratory tract microbiota in Piedmontese calves

Isabella Nicola (4605823)
Francesco Cerutti (337235)
Elena Grego (4605820)
Iride Bertone (4605811)
Paola Gianella (4605805)
Antonio DâAngelo (4605826)
Simone Peletto (4605817)
Claudio Bellino (4605808)

November 2017

Geographical distribution of the farms. Maps were adapted from Google Maps. (PDF 158Â kb

Additional file 1 of Host-specific probiotics feeding influence growth, gut microbiota, and fecal biomarkers in buffalo calves

Vinay Venkatesh Varada (12196813)
Sachin Kumar (13796353)
Supriya Chhotaray (11454463)
Amrish Kumar Tyagi (12196828)

September 2022

Additional file 1: Figure S1. Compatibility tests between Ligilactobacillus salivarius BF-17 and Lim...

Additional file 4: Table S3. of Relationship between nasopharyngeal and bronchoalveolar microbial communities in clinically healthy feedlot cattle

Mohamed Zeineldin (4170922)
James Lowe (57330)
Elsbeth Grimmer (4170919)
Maria Godoy (4170910)
Mohamed Ghanem (4170916)
Yassein Abd El-Raof (4170925)
Brian Aldridge (4170913)

June 2017

Correlation between the most prevalent bacterial genera in the nasopharyngeal swab samples. Table S4...

Additional file 3 of A global phylogenomic and metabolic reconstruction of the large intestine bacterial community of domesticated cattle

S. Teseo (13862894)
S. Otani (13862897)
C. Brinch (13862900)
S. Leroy (7752674)
P. Ruiz (660773)
M. Desvaux (13862903)
E. Forano (13862906)
F. M. Aarestrup (8559435)
P. Sapountzis (13862909)

September 2022

Additional file 3: Table S3. A: Summary of the assembled contig classification: Number and proportio...

Additional file 5: Table S5. of Relationship between nasopharyngeal and bronchoalveolar microbial communities in clinically healthy feedlot cattle

Mohamed Zeineldin (4170922)
James Lowe (57330)
Elsbeth Grimmer (4170919)
Maria Godoy (4170910)
Mohamed Ghanem (4170916)
Yassein Abd El-Raof (4170925)
Brian Aldridge (4170913)

June 2017

Correlation between the most prevalent bacterial genera in the bronchoalveolar lavage samples. Table...

Additional file 6: of Skin and gut microbiomes of a wild mammal respond to different environmental cues

Anton Lavrinienko (5699762)
Eugene Tukalenko (5699765)
Tapio Mappes (208603)
Phillip Watts (541434)

November 2018

Statistical comparison of alpha diversity estimates by Kruskal–Wallis tests using Dunn’s post hoc te...

Additional file 3: of Dietary energy drives the dynamic response of bovine rumen viral communities

Christopher Anderson (120673)
Matthew Sullivan (83956)
Samodha Fernando (4622947)

November 2017

Rarefaction curves of species richness (Chao1 index) in bacterial (A) and viral (B) communities disp...

Additional file 1 of The association of hyperketonemia with fecal and rumen microbiota at time of diagnosis in a case-control cohort of early lactation cows

Asha M. Miles (11704916)
Jessica A. A. McArt (14174373)
Svetlana F. Lima (14174376)
Rafael C. Neves (9352088)
Erika Ganda (14174379)

November 2022

Additional file 1: Supplementary Fig. 1. Alpha diversity metrics by health status group. Boxplots sh...

Additional file 2: of Culture-enriched human gut microbiomes reveal core and accessory resistance genes

Frédéric Raymond (51256)
Maurice Boissinot (59036)
Amin Ouameur (6561317)
Maxime Déraspe (3480068)
Pier-Luc Plante (604214)
Sewagnouin Kpanou (6561320)
Ève Bérubé (6561323)
Ann Huletsky (2418028)
Paul Roy (6561326)
Marc Ouellette (51263)
Michel Bergeron (6561329)
Jacques Corbeil (51262)

April 2019

Figure S1. Diversity and abundance distribution of bacterial families in culture-independent or cult...

Additional file 1: Figure S1. of Comparison of rumen bacteria distribution in original rumen digesta, rumen liquid and solid fractions in lactating Holstein cows

Shoukun Ji (3706237)
Hongtao Zhang (167639)
Hui Yan (117134)
Arash Azarfar (3706243)
Haitao Shi (291654)
Gibson Alugongo (3706240)
Shengli Li (420941)
Zhijun Cao (395358)
Yajing Wang (447120)

February 2017

Microbial diversity in different fractions of rumen content. a, the OTU numbers in original, solid o...

Additional file 4: of Enrichment of beneficial bacteria in the skin microbiota of bats persisting with white-nose syndrome

Virginie Lemieux-LabontĂŠ (4411555)
Anouk Simard (677107)
Craig Willis (3260376)
FranĂ§ois-Joseph Lapointe (3522548)

September 2017

Rarefaction curves of alpha diversity calculated on multiple rarefied data table for each of the 66 ...

Additional file 1: Figure S1. of The rumen microbiome as a reservoir of antimicrobial resistance and pathogenicity genes is directly affected by diet in beef cattle

Marc Auffret (4676683)
Richard Dewhurst (4676686)
Carol-Anne Duthie (2147329)
John Rooke (3439619)
R. John Wallace (633583)
Tom Freeman (3440)
Robert Stewart (34430)
Mick Watson (533792)
Rainer Roehe (2147326)

December 2017

Relative abundance (%) of 20 groups of functional genes representing 204 selected genes (number of a...

Additional file 3: of Species-level bacterial community profiling of the healthy sinonasal microbiome using Pacific Biosciences sequencing of full-length 16S rRNA genes

Joshua Earl (2795311)
Nithin Adappa (5890682)
Jaroslaw Krol (5684675)
Archana Bhat (342707)
Sergey Balashov (5684681)
Rachel Ehrlich (5890685)
James Palmer (1752628)
Alan Workman (5890688)
Mariel Blasetti (5890691)
Bhaswati Sen (4599163)
Jocelyn Hammond (5890694)
Noam Cohen (319186)
Garth Ehrlich (4599154)
Joshua Mell (2795317)

October 2018

Figure S1. Effect of primary filters on the number of reads. Figure S2. Insert size distribution. Fi...

Additional file 3: of Cardiorespiratory fitness as a predictor of intestinal microbial diversity and distinct metagenomic functions

Mehrbod Estaki (284755)
Jason Pither (3274305)
Peter Baumeister (260277)
Jonathan Little (3455462)
Sandeep Gill (3455456)
Sanjoy Ghosh (284750)
Zahra Ahmadi-Vand (781456)
Katelyn Marsden (3455459)
Deanna Gibson (3455465)

August 2016

Sampling depth rarefaction curves. Rarefaction curves of all subjects at 97Â % similarity levels sho...

Additional file 3: of Characterization of the upper and lower respiratory tract microbiota in Piedmontese calves

Abstract

Extracted data

Additional file 3: of Characterization of the upper and lower respiratory tract microbiota in Piedmontese calves

Abstract

Extracted data

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