Additional file 8: Figure S7. of Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease

Additional file 4: of Gut microbiota of preterm infants supplemented with probiotics: sub-study of the ProPrems trial

Erica Plummer (5961608)
Dieter Bulach (368712)
Gerald Murray (4876939)
Susan Jacobs (5961611)
Sepehr Tabrizi (3638359)
Suzanne Garland (398522)

November 2018

Logistic mixed model regression analysis for examining the effect of time from birth on bacterial ge...

Additional file 1: Figure S1. of Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease

Christopher Stewart (3608402)
Nicholas Embleton (3608411)
Emma Marrs (3608408)
Daniel Smith (6120)
Andrew Nelson (209359)
Bashir Abdulkadir (3608405)
Tom Skeath (3608399)
Joseph Petrosino (39790)
John Perry (3608414)
Janet Berrington (3608417)
Stephen Cummings (1943005)

December 2016

Area charts of infants diagnosed with NEC based on all OTUs. Legend restricted to 8 OTUs for clarity...

Additional file 8: of Early-life skin microbiota in hospitalized preterm and full-term infants

Noelle Younge (5327564)
Félix Araújo-Pérez (103471)
Debra Brandon (5327567)
Patrick Seed (5327570)

May 2018

Figure S4. The environmental microbiota of preterm and full-term infants. A. Relative abundance of t...

Additional file 7: Figure S6. of Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease

Stewart, Christopher
Embleton, Nicholas
Marrs, Emma
Smith, Daniel
Nelson, Andrew
Abdulkadir, Bashir
Skeath, Tom
Petrosino, Joseph
Perry, John
Berrington, Janet
Cummings, Stephen
Teesside University
SHLS Senior Executive Team

December 2016

Shannon diversity indices overtime of all samples grouped according to patient status. Grey shading ...

Additional file 7: Figure S6. of Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease

Stewart, Christopher
Embleton, Nicholas
Marrs, Emma
Smith, Daniel
Nelson, Andrew
Abdulkadir, Bashir
Skeath, Tom
Petrosino, Joseph
Perry, John
Berrington, Janet
Cummings, Stephen
Teesside University
SHLS Senior Executive Team

December 2016

Shannon diversity indices overtime of all samples grouped according to patient status. Grey shading ...

Additional file 3: Figure S2. of Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease

Christopher Stewart (3608402)
Nicholas Embleton (3608411)
Emma Marrs (3608408)
Daniel Smith (6120)
Andrew Nelson (209359)
Bashir Abdulkadir (3608405)
Tom Skeath (3608399)
Joseph Petrosino (39790)
John Perry (3608414)
Janet Berrington (3608417)
Stephen Cummings (1943005)

December 2016

Longitudinal development of the core (dashed lines) and satellite (solid lines) communities in each ...

Additional file 8: of Neonatal gut and respiratory microbiota: coordinated development through time and space

Alex Grier (4676719)
Andrew McDavid (393555)
Bokai Wang (5901923)
Xing Qiu (560143)
James Java (5901926)
Sanjukta Bandyopadhyay (4676731)
Hongmei Yang (175776)
Jeanne Holden-Wiltse (440496)
Haeja Kessler (4676707)
Ann Gill (4676734)
Heidie Huyck (4676716)
Ann Falsey (5901929)
David Topham (4847803)
Kristin Scheible (4676704)
Mary Caserta (4676740)
Gloria Pryhuber (4676710)
Steven Gill (392102)

October 2018

Figure S7. Visualizations of models relating CST occurrence probability to post-natal and gestationa...

Additional file 7: of The developing premature infant gut microbiome is a major factor shaping the microbiome of neonatal intensive care unit rooms

Brandon Brooks (3170784)
Matthew Olm (5431706)
Brian Firek (627650)
Robyn Baker (627651)
David Geller-McGrath (5431709)
Sophia Reimer (5431703)
Karina Soenjoyo (5431712)
Jennifer Yip (5166962)
Dylan Dahan (5228936)
Brian Thomas (3179601)
Michael Morowitz (3608423)
Jillian Banfield (4238992)

June 2018

Episodic increases in persistent taxa. The “average” panel represents 16S rRNA gene amplicon data av...

Additional file 6: of The developing premature infant gut microbiome is a major factor shaping the microbiome of neonatal intensive care unit rooms

Brandon Brooks (3170784)
Matthew Olm (5431706)
Brian Firek (627650)
Robyn Baker (627651)
David Geller-McGrath (5431709)
Sophia Reimer (5431703)
Karina Soenjoyo (5431712)
Jennifer Yip (5166962)
Dylan Dahan (5228936)
Brian Thomas (3179601)
Michael Morowitz (3608423)
Jillian Banfield (4238992)

June 2018

Fecal sample community composition. Plotted in each panel is the community composition of each infan...

Additional file 9: of Intestinal dysbiosis in preterm infants preceding necrotizing enterocolitis: a systematic review and meta-analysis

Mohan Pammi (3822313)
Julia Cope (103124)
Phillip Tarr (3416615)
Barbara Warner (3822322)
Ardythe Morrow (3822325)
Volker Mai (288569)
Katherine Gregory (3608483)
J. Kroll (3427700)
Valerie McMurtry (3822319)
Michael Ferris (347884)
Lars Engstrand (48331)
Helene Lilja (3822316)
Emily Hollister (3548546)
James Versalovic (158351)
Josef Neu (200821)

March 2017

Comparison of microbiota profiles in NEC and control infants subgrouped by mode of delivery. Observe...

Additional file 1: Table S1. of Influence of maternal breast milk ingestion on acquisition of the intestinal microbiome in preterm infants

Katherine Gregory (3608483)
Buck Samuel (3608492)
Pearl Houghteling (3608489)
Guru Shan (3608486)
Frederick Ausubel (3497291)
Ruslan Sadreyev (3497282)
W. Walker (2170972)

December 2016

Per sample key metadata parameters. Table S2. Per sample Shannon diversity indices. Table S3. Mean t...

Additional file 5: of Neonatal gut and respiratory microbiota: coordinated development through time and space

Alex Grier (4676719)
Andrew McDavid (393555)
Bokai Wang (5901923)
Xing Qiu (560143)
James Java (5901926)
Sanjukta Bandyopadhyay (4676731)
Hongmei Yang (175776)
Jeanne Holden-Wiltse (440496)
Haeja Kessler (4676707)
Ann Gill (4676734)
Heidie Huyck (4676716)
Ann Falsey (5901929)
David Topham (4847803)
Kristin Scheible (4676704)
Mary Caserta (4676740)
Gloria Pryhuber (4676710)
Steven Gill (392102)

October 2018

Figure S4. Distribution of samples into community state types by PMA for (A) throat, (B) nasal, and ...

Additional file 4: of The developing premature infant gut microbiome is a major factor shaping the microbiome of neonatal intensive care unit rooms

Brandon Brooks (3170784)
Matthew Olm (5431706)
Brian Firek (627650)
Robyn Baker (627651)
David Geller-McGrath (5431709)
Sophia Reimer (5431703)
Karina Soenjoyo (5431712)
Jennifer Yip (5166962)
Dylan Dahan (5228936)
Brian Thomas (3179601)
Michael Morowitz (3608423)
Jillian Banfield (4238992)

June 2018

Alpha diversity in a NICU. 16S rRNA gene amplicon data was used to calculate number of OTUs per envi...

Additional file 7: of Neonatal gut and respiratory microbiota: coordinated development through time and space

Alex Grier (4676719)
Andrew McDavid (393555)
Bokai Wang (5901923)
Xing Qiu (560143)
James Java (5901926)
Sanjukta Bandyopadhyay (4676731)
Hongmei Yang (175776)
Jeanne Holden-Wiltse (440496)
Haeja Kessler (4676707)
Ann Gill (4676734)
Heidie Huyck (4676716)
Ann Falsey (5901929)
David Topham (4847803)
Kristin Scheible (4676704)
Mary Caserta (4676740)
Gloria Pryhuber (4676710)
Steven Gill (392102)

October 2018

Figure S6. Associations between CST membership and post-menstrual age. The posterior probability of ...

Additional file 8: of Genome-resolved metaproteomic characterization of preterm infant gut microbiota development reveals species-specific metabolic shifts and variabilities during early life

Weili Xiong (1348971)
Christopher Brown (258061)
Michael Morowitz (3608423)
Jillian Banfield (4238992)
Robert Hettich (3455141)

July 2017

Gut metabolic modules (GMMs) and abundance inferred from studied gut communities. (XLSX 100 kb

Additional file 4: of Gut microbiota of preterm infants supplemented with probiotics: sub-study of the ProPrems trial

Erica Plummer (5961608)
Dieter Bulach (368712)
Gerald Murray (4876939)
Susan Jacobs (5961611)
Sepehr Tabrizi (3638359)
Suzanne Garland (398522)

November 2018

Logistic mixed model regression analysis for examining the effect of time from birth on bacterial ge...

Additional file 1: Figure S1. of Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease

Christopher Stewart (3608402)
Nicholas Embleton (3608411)
Emma Marrs (3608408)
Daniel Smith (6120)
Andrew Nelson (209359)
Bashir Abdulkadir (3608405)
Tom Skeath (3608399)
Joseph Petrosino (39790)
John Perry (3608414)
Janet Berrington (3608417)
Stephen Cummings (1943005)

December 2016

Area charts of infants diagnosed with NEC based on all OTUs. Legend restricted to 8 OTUs for clarity...

Additional file 8: of Early-life skin microbiota in hospitalized preterm and full-term infants

Noelle Younge (5327564)
Félix Araújo-Pérez (103471)
Debra Brandon (5327567)
Patrick Seed (5327570)

May 2018

Figure S4. The environmental microbiota of preterm and full-term infants. A. Relative abundance of t...

Additional file 7: Figure S6. of Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease

Stewart, Christopher
Embleton, Nicholas
Marrs, Emma
Smith, Daniel
Nelson, Andrew
Abdulkadir, Bashir
Skeath, Tom
Petrosino, Joseph
Perry, John
Berrington, Janet
Cummings, Stephen
Teesside University
SHLS Senior Executive Team

December 2016

Shannon diversity indices overtime of all samples grouped according to patient status. Grey shading ...

Additional file 7: Figure S6. of Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease

Stewart, Christopher
Embleton, Nicholas
Marrs, Emma
Smith, Daniel
Nelson, Andrew
Abdulkadir, Bashir
Skeath, Tom
Petrosino, Joseph
Perry, John
Berrington, Janet
Cummings, Stephen
Teesside University
SHLS Senior Executive Team

December 2016

Shannon diversity indices overtime of all samples grouped according to patient status. Grey shading ...

Additional file 3: Figure S2. of Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease

Christopher Stewart (3608402)
Nicholas Embleton (3608411)
Emma Marrs (3608408)
Daniel Smith (6120)
Andrew Nelson (209359)
Bashir Abdulkadir (3608405)
Tom Skeath (3608399)
Joseph Petrosino (39790)
John Perry (3608414)
Janet Berrington (3608417)
Stephen Cummings (1943005)

December 2016

Longitudinal development of the core (dashed lines) and satellite (solid lines) communities in each ...

Additional file 8: of Neonatal gut and respiratory microbiota: coordinated development through time and space

Alex Grier (4676719)
Andrew McDavid (393555)
Bokai Wang (5901923)
Xing Qiu (560143)
James Java (5901926)
Sanjukta Bandyopadhyay (4676731)
Hongmei Yang (175776)
Jeanne Holden-Wiltse (440496)
Haeja Kessler (4676707)
Ann Gill (4676734)
Heidie Huyck (4676716)
Ann Falsey (5901929)
David Topham (4847803)
Kristin Scheible (4676704)
Mary Caserta (4676740)
Gloria Pryhuber (4676710)
Steven Gill (392102)

October 2018

Figure S7. Visualizations of models relating CST occurrence probability to post-natal and gestationa...

Additional file 7: of The developing premature infant gut microbiome is a major factor shaping the microbiome of neonatal intensive care unit rooms

Brandon Brooks (3170784)
Matthew Olm (5431706)
Brian Firek (627650)
Robyn Baker (627651)
David Geller-McGrath (5431709)
Sophia Reimer (5431703)
Karina Soenjoyo (5431712)
Jennifer Yip (5166962)
Dylan Dahan (5228936)
Brian Thomas (3179601)
Michael Morowitz (3608423)
Jillian Banfield (4238992)

June 2018

Episodic increases in persistent taxa. The “average” panel represents 16S rRNA gene amplicon data av...

Additional file 6: of The developing premature infant gut microbiome is a major factor shaping the microbiome of neonatal intensive care unit rooms

Brandon Brooks (3170784)
Matthew Olm (5431706)
Brian Firek (627650)
Robyn Baker (627651)
David Geller-McGrath (5431709)
Sophia Reimer (5431703)
Karina Soenjoyo (5431712)
Jennifer Yip (5166962)
Dylan Dahan (5228936)
Brian Thomas (3179601)
Michael Morowitz (3608423)
Jillian Banfield (4238992)

June 2018

Fecal sample community composition. Plotted in each panel is the community composition of each infan...

Additional file 9: of Intestinal dysbiosis in preterm infants preceding necrotizing enterocolitis: a systematic review and meta-analysis

Mohan Pammi (3822313)
Julia Cope (103124)
Phillip Tarr (3416615)
Barbara Warner (3822322)
Ardythe Morrow (3822325)
Volker Mai (288569)
Katherine Gregory (3608483)
J. Kroll (3427700)
Valerie McMurtry (3822319)
Michael Ferris (347884)
Lars Engstrand (48331)
Helene Lilja (3822316)
Emily Hollister (3548546)
James Versalovic (158351)
Josef Neu (200821)

March 2017

Comparison of microbiota profiles in NEC and control infants subgrouped by mode of delivery. Observe...

Additional file 1: Table S1. of Influence of maternal breast milk ingestion on acquisition of the intestinal microbiome in preterm infants

Katherine Gregory (3608483)
Buck Samuel (3608492)
Pearl Houghteling (3608489)
Guru Shan (3608486)
Frederick Ausubel (3497291)
Ruslan Sadreyev (3497282)
W. Walker (2170972)

December 2016

Per sample key metadata parameters. Table S2. Per sample Shannon diversity indices. Table S3. Mean t...

Additional file 5: of Neonatal gut and respiratory microbiota: coordinated development through time and space

Alex Grier (4676719)
Andrew McDavid (393555)
Bokai Wang (5901923)
Xing Qiu (560143)
James Java (5901926)
Sanjukta Bandyopadhyay (4676731)
Hongmei Yang (175776)
Jeanne Holden-Wiltse (440496)
Haeja Kessler (4676707)
Ann Gill (4676734)
Heidie Huyck (4676716)
Ann Falsey (5901929)
David Topham (4847803)
Kristin Scheible (4676704)
Mary Caserta (4676740)
Gloria Pryhuber (4676710)
Steven Gill (392102)

October 2018

Figure S4. Distribution of samples into community state types by PMA for (A) throat, (B) nasal, and ...

Additional file 4: of The developing premature infant gut microbiome is a major factor shaping the microbiome of neonatal intensive care unit rooms

Brandon Brooks (3170784)
Matthew Olm (5431706)
Brian Firek (627650)
Robyn Baker (627651)
David Geller-McGrath (5431709)
Sophia Reimer (5431703)
Karina Soenjoyo (5431712)
Jennifer Yip (5166962)
Dylan Dahan (5228936)
Brian Thomas (3179601)
Michael Morowitz (3608423)
Jillian Banfield (4238992)

June 2018

Alpha diversity in a NICU. 16S rRNA gene amplicon data was used to calculate number of OTUs per envi...

Additional file 7: of Neonatal gut and respiratory microbiota: coordinated development through time and space

Alex Grier (4676719)
Andrew McDavid (393555)
Bokai Wang (5901923)
Xing Qiu (560143)
James Java (5901926)
Sanjukta Bandyopadhyay (4676731)
Hongmei Yang (175776)
Jeanne Holden-Wiltse (440496)
Haeja Kessler (4676707)
Ann Gill (4676734)
Heidie Huyck (4676716)
Ann Falsey (5901929)
David Topham (4847803)
Kristin Scheible (4676704)
Mary Caserta (4676740)
Gloria Pryhuber (4676710)
Steven Gill (392102)

October 2018

Figure S6. Associations between CST membership and post-menstrual age. The posterior probability of ...

Additional file 8: of Genome-resolved metaproteomic characterization of preterm infant gut microbiota development reveals species-specific metabolic shifts and variabilities during early life

Weili Xiong (1348971)
Christopher Brown (258061)
Michael Morowitz (3608423)
Jillian Banfield (4238992)
Robert Hettich (3455141)

July 2017

Gut metabolic modules (GMMs) and abundance inferred from studied gut communities. (XLSX 100 kb

Additional file 4: of Gut microbiota of preterm infants supplemented with probiotics: sub-study of the ProPrems trial

Erica Plummer (5961608)
Dieter Bulach (368712)
Gerald Murray (4876939)
Susan Jacobs (5961611)
Sepehr Tabrizi (3638359)
Suzanne Garland (398522)

November 2018

Logistic mixed model regression analysis for examining the effect of time from birth on bacterial ge...

Additional file 1: Figure S1. of Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease

Christopher Stewart (3608402)
Nicholas Embleton (3608411)
Emma Marrs (3608408)
Daniel Smith (6120)
Andrew Nelson (209359)
Bashir Abdulkadir (3608405)
Tom Skeath (3608399)
Joseph Petrosino (39790)
John Perry (3608414)
Janet Berrington (3608417)
Stephen Cummings (1943005)

December 2016

Area charts of infants diagnosed with NEC based on all OTUs. Legend restricted to 8 OTUs for clarity...

Additional file 8: of Early-life skin microbiota in hospitalized preterm and full-term infants

Noelle Younge (5327564)
Félix Araújo-Pérez (103471)
Debra Brandon (5327567)
Patrick Seed (5327570)

May 2018

Figure S4. The environmental microbiota of preterm and full-term infants. A. Relative abundance of t...

Additional file 8: Figure S7. of Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease

Abstract

Extracted data

Additional file 8: Figure S7. of Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease

Abstract

Extracted data

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