Dmitry A Rodionov

Affiliations

A.A. Kharkevich Institute for Information Transmission Problems, Russian Academy of Sciences, Moscow, Russia.
Bioinformatics and Structural Biology Program, Sanford Burnham Prebys Medical Discovery Institute, La Jolla, CA, United States.

Publications (21)

Community Metabolic Interactions, Vitamin Production and Prebiotic Potential of Medicinal Herbs Used for Immunomodulation.

Frontiers in genetics

Avec: Christine T Peterson , Stanislav N Iablokov , Sasha Uchitel , Deepak Chopra , Josue Perez-Santiago , Dmitry A Rodionov , Scott N Peterson

Micronutrient Requirements and Sharing Capabilities of the Human Gut Microbiome.

Frontiers in microbiology

Avec: Dmitry A Rodionov , Aleksandr A Arzamasov , Matvei S Khoroshkin , Stanislav N Iablokov , Semen A Leyn , Scott N Peterson , Pavel S Novichkov , Andrei L Osterman

Effects of microbiota-directed foods in gnotobiotic animals and undernourished children.

Science (New York, N.Y.)

Avec: Jeanette L Gehrig , Siddarth Venkatesh , Hao-Wei Chang , Matthew C Hibberd , Vanderlene L Kung , Jiye Cheng , Robert Y Chen , Sathish Subramanian , Carrie A Cowardin , Martin F Meier , David O'Donnell , Michael Talcott , Larry D Spears , Clay F Semenkovich , Bernard Henrissat , Richard J Giannone , Robert L Hettich , Olga Ilkayeva , Michael Muehlbauer , Christopher B Newgard , Christopher Sawyer , Richard D Head , Dmitry A Rodionov , Aleksandr A Arzamasov , Semen A Leyn , Andrei L Osterman , Md Iqbal Hossain , Munirul Islam , Nuzhat Choudhury , Shafiqul Alam Sarker , Sayeeda Huq , Imteaz Mahmud , Ishita Mostafa , Mustafa Mahfuz , Michael J Barratt , Tahmeed Ahmed , Jeffrey I Gordon

Novel Metabolic Pathways and Regulons for Hexuronate Utilization in Proteobacteria.

Journal of bacteriology

Avec: Jason T Bouvier , Natalia V Sernova , Salehe Ghasempur , Irina A Rodionova , Matthew W Vetting , Nawar F Al-Obaidi , Steven C Almo , John A Gerlt , Dmitry A Rodionov

Evaluating microbiome-directed fibre snacks in gnotobiotic mice and humans.

Nature

Avec: Omar Delannoy-Bruno , Chandani Desai , Arjun S Raman , Robert Y Chen , Matthew C Hibberd , Jiye Cheng , Nathan Han , Juan J Castillo , Garret Couture , Carlito B Lebrilla , Ruteja A Barve , Vincent Lombard , Bernard Henrissat , Semen A Leyn , Dmitry A Rodionov , Andrei L Osterman , David K Hayashi , Alexandra Meynier , Sophie Vinoy , Kyleigh Kirbach , Tara Wilmot , Andrew C Heath , Samuel Klein , Michael J Barratt , Jeffrey I Gordon

Genomics-Based Reconstruction and Predictive Profiling of Amino Acid Biosynthesis in the Human Gut Microbiome.

Microorganisms

Avec: German A Ashniev , Sergey N Petrov , Stanislav N Iablokov , Dmitry A Rodionov

Alteration of Community Metabolism by Prebiotics and Medicinal Herbs.

Microorganisms

Avec: Christine Tara Peterson , Josué Pérez-Santiago , Stanislav N Iablokov , Dmitry A Rodionov , Scott N Peterson

Bioactive glycans in a microbiome-directed food for malnourished children.

medRxiv : the preprint server for health sciences

Avec: Matthew C Hibberd , Daniel M Webber , Dmitry A Rodionov , Suzanne Henrissat , Robert Y Chen , Cyrus Zhou , Hannah M Lynn , Yi Wang , Hao-Wei Chang , Evan M Lee , Janaki Lelwala-Guruge , Marat D Kazanov , Aleksandr A Arzamasov , Semen A Leyn , Vincent Lombard , Nicolas Terrapon , Bernard Henrissat , Juan J Castillo , Garret Couture , Nikita P Bacalzo , Ye Chen , Carlito B Lebrilla , Ishita Mostafa , Subhasish Das , Mustafa Mahfuz , Michael J Barratt , Andrei L Osterman , Tahmeed Ahmed , Jeffrey I Gordon

Prevotella copri and microbiota members mediate the beneficial effects of a therapeutic food for malnutrition.

Nature microbiology

Avec: Hao-Wei Chang , Evan M Lee , Yi Wang , Cyrus Zhou , Kali M Pruss , Suzanne Henrissat , Robert Y Chen , Clara Kao , Matthew C Hibberd , Hannah M Lynn , Daniel M Webber , Marie Crane , Jiye Cheng , Dmitry A Rodionov , Aleksandr A Arzamasov , Juan J Castillo , Garret Couture , Ye Chen , Nikita P Balcazo , Carlito B Lebrilla , Nicolas Terrapon , Bernard Henrissat , Olga Ilkayeva , Michael J Muehlbauer , Christopher B Newgard , Ishita Mostafa , Subhasish Das , Mustafa Mahfuz , Andrei L Osterman , Michael J Barratt , Tahmeed Ahmed , Jeffrey I Gordon

A microbiome-directed therapeutic food for children recovering from severe acute malnutrition.

Science translational medicine

Avec: Steven J Hartman , Matthew C Hibberd , Ishita Mostafa , Nurun N Naila , Md Munirul Islam , Mahabub Uz Zaman , Sayeeda Huq , Mustafa Mahfuz , Md Tazul Islam , Kallol Mukherji , Vaha Akbary Moghaddam , Robert Y Chen , Michael A Province , Daniel M Webber , Suzanne Henrissat , Bernard Henrissat , Nicolas Terrapon , Dmitry A Rodionov , Andrei L Osterman , Michael J Barratt , Tahmeed Ahmed , Jeffrey I Gordon

Bioremediation of a Common Product of Food Processing by a Human Gut Bacterium.

Cell host & microbe

Avec: Ashley R Wolf , Darryl A Wesener , Jiye Cheng , Alexandra N Houston-Ludlam , Zachary W Beller , Matthew C Hibberd , Richard J Giannone , Samantha L Peters , Robert L Hettich , Semen A Leyn , Dmitry A Rodionov , Andrei L Osterman , Jeffrey I Gordon

Transcriptional Regulation of Plant Biomass Degradation and Carbohydrate Utilization Genes in the Extreme Thermophile

mSystems

Avec: Dmitry A Rodionov , Irina A Rodionova , Vladimir A Rodionov , Aleksandr A Arzamasov , Ke Zhang , Gabriel M Rubinstein , Tania N N Tanwee , Ryan G Bing , James R Crosby , Intawat Nookaew , Mirko Basen , Steven D Brown , Charlotte M Wilson , Dawn M Klingeman , Farris L Poole , Ying Zhang , Robert M Kelly , Michael W W Adams

Genome-Scale Metabolic Model of

mSystems

Avec: Ke Zhang , Weishu Zhao , Dmitry A Rodionov , Gabriel M Rubinstein , Diep N Nguyen , Tania N N Tanwee , James Crosby , Ryan G Bing , Robert M Kelly , Michael W W Adams , Ying Zhang

B Vitamins and Their Role in Immune Regulation and Cancer.

Nutrients

Avec: Christine Tara Peterson , Dmitry A Rodionov , Andrei L Osterman , Scott N Peterson

Metabolic Phenotypes as Potential Biomarkers for Linking Gut Microbiome With Inflammatory Bowel Diseases.

Frontiers in molecular biosciences

Avec: Stanislav N Iablokov , Natalia S Klimenko , Daria A Efimova , Tatiana Shashkova , Pavel S Novichkov , Dmitry A Rodionov , Alexander V Tyakht

A systems approach discovers the role and characteristics of seven LysR type transcription factors in Escherichia coli.

Scientific reports

Avec: Irina A Rodionova , Ye Gao , Jonathan Monk , Ying Hefner , Nicholas Wong , Richard Szubin , Hyun Gyu Lim , Dmitry A Rodionov , Zhongge Zhang , Milton H Saier , Bernhard O Palsson

Science translational medicine

Avec: Michael J Barratt , Sharika Nuzhat , Kazi Ahsan , Steven A Frese , Aleksandr A Arzamasov , Shafiqul Alam Sarker , M Munirul Islam , Parag Palit , Md Ridwan Islam , Matthew C Hibberd , Swetha Nakshatri , Carrie A Cowardin , Janaki L Guruge , Alexandra E Byrne , Siddarth Venkatesh , Vinaik Sundaresan , Bethany Henrick , Rebbeca M Duar , Ryan D Mitchell , Giorgio Casaburi , Johann Prambs , Robin Flannery , Mustafa Mahfuz , Dmitry A Rodionov , Andrei L Osterman , David Kyle , Tahmeed Ahmed , Jeffrey I Gordon

Priority effects shape the structure of infant-type Bifidobacterium communities on human milk oligosaccharides.

The ISME journal

Avec: Miriam N Ojima , Lin Jiang , Aleksandr A Arzamasov , Keisuke Yoshida , Toshitaka Odamaki , Jinzhong Xiao , Aruto Nakajima , Motomitsu Kitaoka , Junko Hirose , Tadasu Urashima , Toshihiko Katoh , Aina Gotoh , Douwe van Sinderen , Dmitry A Rodionov , Andrei L Osterman , Mikiyasu Sakanaka , Takane Katayama

In vivo manipulation of human gut Bacteroides fitness by abiotic oligosaccharides.

Nature chemical biology

Avec: Darryl A Wesener , Zachary W Beller , Megan F Hill , Han Yuan , David B Belanger , Cheryl Frankfater , Nicolas Terrapon , Bernard Henrissat , Dmitry A Rodionov , Semen A Leyn , Andrei Osterman , Johan E T van Hylckama Vlieg , Jeffrey I Gordon

Identifying determinants of bacterial fitness in a model of human gut microbial succession.

Proceedings of the National Academy of Sciences of the United States of America

Avec: Lihui Feng , Arjun S Raman , Matthew C Hibberd , Jiye Cheng , Nicholas W Griffin , Yangqing Peng , Semen A Leyn , Dmitry A Rodionov , Andrei L Osterman , Jeffrey I Gordon

Combined Prebiotic and Microbial Intervention Improves Oral Cholera Vaccination Responses in a Mouse Model of Childhood Undernutrition.

Cell host & microbe

Avec: Blanda Di Luccia , Philip P Ahern , Nicholas W Griffin , Jiye Cheng , Janaki L Guruge , Alexandra E Byrne , Dmitry A Rodionov , Semen A Leyn , Andrei L Osterman , Tahmeed Ahmed , Marco Colonna , Michael J Barratt , Nicolas F Delahaye , Jeffrey I Gordon

Réseau de co-auteurs

Andrei L Osterman 12 collaborations

Jeffrey I Gordon 10 collaborations

Semen A Leyn 8 collaborations

Matthew C Hibberd 8 collaborations

Aleksandr A Arzamasov 7 collaborations

Michael J Barratt 7 collaborations

Jiye Cheng 6 collaborations

Bernard Henrissat 6 collaborations

Tahmeed Ahmed 6 collaborations

Stanislav N Iablokov 5 collaborations

Robert Y Chen 5 collaborations

Mustafa Mahfuz 5 collaborations

Scott N Peterson 4 collaborations

Ishita Mostafa 4 collaborations

Nicolas Terrapon 4 collaborations

Hao-Wei Chang 3 collaborations

Irina A Rodionova 3 collaborations

Juan J Castillo 3 collaborations

Garret Couture 3 collaborations

Carlito B Lebrilla 3 collaborations

Daniel M Webber 3 collaborations

Suzanne Henrissat 3 collaborations

Pavel S Novichkov 2 collaborations

Siddarth Venkatesh 2 collaborations

Carrie A Cowardin 2 collaborations

Richard J Giannone 2 collaborations

Robert L Hettich 2 collaborations

Olga Ilkayeva 2 collaborations

Christopher B Newgard 2 collaborations

Shafiqul Alam Sarker 2 collaborations

Sayeeda Huq 2 collaborations

Arjun S Raman 2 collaborations

Vincent Lombard 2 collaborations

Christine Tara Peterson 2 collaborations

Cyrus Zhou 2 collaborations

Hannah M Lynn 2 collaborations

Yi Wang 2 collaborations

Evan M Lee 2 collaborations

Ye Chen 2 collaborations

Subhasish Das 2 collaborations

Darryl A Wesener 2 collaborations

Zachary W Beller 2 collaborations

Ke Zhang 2 collaborations

Gabriel M Rubinstein 2 collaborations

Tania N N Tanwee 2 collaborations

Ryan G Bing 2 collaborations

Ying Zhang 2 collaborations

Robert M Kelly 2 collaborations

Michael W W Adams 2 collaborations

Janaki L Guruge 2 collaborations

Alexandra E Byrne 2 collaborations

Nicholas W Griffin 2 collaborations

Christine T Peterson 1 collaboration

Sasha Uchitel 1 collaboration

Deepak Chopra 1 collaboration

Josue Perez-Santiago 1 collaboration

Matvei S Khoroshkin 1 collaboration

Jeanette L Gehrig 1 collaboration

Vanderlene L Kung 1 collaboration

Sathish Subramanian 1 collaboration

Martin F Meier 1 collaboration

David O'Donnell 1 collaboration

Michael Talcott 1 collaboration

Larry D Spears 1 collaboration

Clay F Semenkovich 1 collaboration

Michael Muehlbauer 1 collaboration

Christopher Sawyer 1 collaboration

Richard D Head 1 collaboration

Md Iqbal Hossain 1 collaboration

Munirul Islam 1 collaboration

Nuzhat Choudhury 1 collaboration

Imteaz Mahmud 1 collaboration

Jason T Bouvier 1 collaboration

Natalia V Sernova 1 collaboration

Salehe Ghasempur 1 collaboration

Matthew W Vetting 1 collaboration

Nawar F Al-Obaidi 1 collaboration

Steven C Almo 1 collaboration

John A Gerlt 1 collaboration

Omar Delannoy-Bruno 1 collaboration

Chandani Desai 1 collaboration

Nathan Han 1 collaboration

Ruteja A Barve 1 collaboration

David K Hayashi 1 collaboration

Alexandra Meynier 1 collaboration

Sophie Vinoy 1 collaboration

Kyleigh Kirbach 1 collaboration

Tara Wilmot 1 collaboration

Andrew C Heath 1 collaboration

Samuel Klein 1 collaboration

German A Ashniev 1 collaboration

Sergey N Petrov 1 collaboration

Josué Pérez-Santiago 1 collaboration

Janaki Lelwala-Guruge 1 collaboration

Marat D Kazanov 1 collaboration

Nikita P Bacalzo 1 collaboration

Kali M Pruss 1 collaboration

Clara Kao 1 collaboration

Marie Crane 1 collaboration

Nikita P Balcazo 1 collaboration

Michael J Muehlbauer 1 collaboration

Steven J Hartman 1 collaboration

Nurun N Naila 1 collaboration

Md Munirul Islam 1 collaboration

Mahabub Uz Zaman 1 collaboration

Md Tazul Islam 1 collaboration

Kallol Mukherji 1 collaboration

Vaha Akbary Moghaddam 1 collaboration

Michael A Province 1 collaboration

Ashley R Wolf 1 collaboration

Alexandra N Houston-Ludlam 1 collaboration

Samantha L Peters 1 collaboration

Vladimir A Rodionov 1 collaboration

James R Crosby 1 collaboration

Intawat Nookaew 1 collaboration

Mirko Basen 1 collaboration

Steven D Brown 1 collaboration

Charlotte M Wilson 1 collaboration

Dawn M Klingeman 1 collaboration

Farris L Poole 1 collaboration

Weishu Zhao 1 collaboration

Diep N Nguyen 1 collaboration

James Crosby 1 collaboration

Natalia S Klimenko 1 collaboration

Daria A Efimova 1 collaboration

Tatiana Shashkova 1 collaboration

Alexander V Tyakht 1 collaboration

Ye Gao 1 collaboration

Jonathan Monk 1 collaboration

Ying Hefner 1 collaboration

Nicholas Wong 1 collaboration

Richard Szubin 1 collaboration

Hyun Gyu Lim 1 collaboration

Zhongge Zhang 1 collaboration

Milton H Saier 1 collaboration

Bernhard O Palsson 1 collaboration

Sharika Nuzhat 1 collaboration

Kazi Ahsan 1 collaboration

Steven A Frese 1 collaboration

M Munirul Islam 1 collaboration

Parag Palit 1 collaboration

Md Ridwan Islam 1 collaboration

Swetha Nakshatri 1 collaboration

Vinaik Sundaresan 1 collaboration

Bethany Henrick 1 collaboration

Rebbeca M Duar 1 collaboration

Ryan D Mitchell 1 collaboration

Giorgio Casaburi 1 collaboration

Johann Prambs 1 collaboration

Robin Flannery 1 collaboration

David Kyle 1 collaboration

Miriam N Ojima 1 collaboration

Lin Jiang 1 collaboration

Keisuke Yoshida 1 collaboration

Toshitaka Odamaki 1 collaboration

Jinzhong Xiao 1 collaboration

Aruto Nakajima 1 collaboration

Motomitsu Kitaoka 1 collaboration

Junko Hirose 1 collaboration

Tadasu Urashima 1 collaboration

Toshihiko Katoh 1 collaboration

Aina Gotoh 1 collaboration

Douwe van Sinderen 1 collaboration

Mikiyasu Sakanaka 1 collaboration

Takane Katayama 1 collaboration

Megan F Hill 1 collaboration

Han Yuan 1 collaboration

David B Belanger 1 collaboration

Cheryl Frankfater 1 collaboration

Andrei Osterman 1 collaboration

Johan E T van Hylckama Vlieg 1 collaboration

Lihui Feng 1 collaboration

Yangqing Peng 1 collaboration

Blanda Di Luccia 1 collaboration

Philip P Ahern 1 collaboration

Marco Colonna 1 collaboration

Nicolas F Delahaye 1 collaboration