Adam M Feist

Affiliations

Department of Bioengineering, University of California, San Diego, La Jolla, CA, 92093, USA. afeist@ucsd.edu.
Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Building 220, Kemitorvet, 2800, Kgs. Lyngby, Denmark. afeist@ucsd.edu.

Publications (21)

Causal mutations from adaptive laboratory evolution are outlined by multiple scales of genome annotations and condition-specificity.

BMC genomics

Avec: Patrick V Phaneuf , James T Yurkovich , David Heckmann , Muyao Wu , Troy E Sandberg , Zachary A King , Justin Tan , Bernhard O Palsson , Adam M Feist

The genetic basis for adaptation of model-designed syntrophic co-cultures.

PLoS computational biology

Avec: Colton J Lloyd , Zachary A King , Troy E Sandberg , Ying Hefner , Connor A Olson , Patrick V Phaneuf , Edward J O'Brien , Jon G Sanders , Rodolfo A Salido , Karenina Sanders , Caitriona Brennan , Gregory Humphrey , Rob Knight , Adam M Feist

Adaptive laboratory evolution of tolerance to dicarboxylic acids in Saccharomyces cerevisiae.

Metabolic engineering

Avec: Rui Pereira , Yongjun Wei , Elsayed Mohamed , Mohammad Radi , Carl Malina , Markus J Herrgård , Adam M Feist , Jens Nielsen , Yun Chen

The emergence of adaptive laboratory evolution as an efficient tool for biological discovery and industrial biotechnology.

Metabolic engineering

Avec: Troy E Sandberg , Michael J Salazar , Liam L Weng , Bernhard O Palsson , Adam M Feist

Selection for Cell Yield Does Not Reduce Overflow Metabolism in Escherichia coli.

Molecular biology and evolution

Avec: Iraes Rabbers , Willi Gottstein , Adam M Feist , Bas Teusink , Frank J Bruggeman , Herwig Bachmann

ACS synthetic biology

Avec: Patrick V Phaneuf , Daniel C Zielinski , James T Yurkovich , Josefin Johnsen , Richard Szubin , Lei Yang , Se Hyeuk Kim , Sebastian Schulz , Muyao Wu , Christopher Dalldorf , Emre Ozdemir , Rebecca M Lennen , Bernhard O Palsson , Adam M Feist

Laboratory evolution of synthetic electron transport system variants reveals a larger metabolic respiratory system and its plasticity.

Nature communications

Avec: Amitesh Anand , Arjun Patel , Ke Chen , Connor A Olson , Patrick V Phaneuf , Cameron Lamoureux , Ying Hefner , Richard Szubin , Adam M Feist , Bernhard O Palsson

Have you tried turning it off and on again? Oscillating selection to enhance fitness-landscape traversal in adaptive laboratory evolution experiments.

Metabolic engineering communications

Avec: Alexander C Carpenter , Adam M Feist , Fergus S M Harrison , Ian T Paulsen , Thomas C Williams

Kinetic profiling of metabolic specialists demonstrates stability and consistency of in vivo enzyme turnover numbers.

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

Avec: David Heckmann , Anaamika Campeau , Colton J Lloyd , Patrick V Phaneuf , Ying Hefner , Marvic Carrillo-Terrazas , Adam M Feist , David J Gonzalez , Bernhard O Palsson

Laboratory evolution reveals a two-dimensional rate-yield tradeoff in microbial metabolism.

PLoS computational biology

Avec: Chuankai Cheng , Edward J O'Brien , Douglas McCloskey , Jose Utrilla , Connor Olson , Ryan A LaCroix , Troy E Sandberg , Adam M Feist , Bernhard O Palsson , Zachary A King

Coupling S-adenosylmethionine-dependent methylation to growth: Design and uses.

PLoS biology

Avec: Hao Luo , Anne Sofie L Hansen , Lei Yang , Konstantin Schneider , Mette Kristensen , Ulla Christensen , Hanne B Christensen , Bin Du , Emre Özdemir , Adam M Feist , Jay D Keasling , Michael K Jensen , Markus J Herrgård , Bernhard O Palsson

Enzyme promiscuity shapes adaptation to novel growth substrates.

Molecular systems biology

Avec: Gabriela I Guzmán , Troy E Sandberg , Ryan A LaCroix , Ákos Nyerges , Henrietta Papp , Markus de Raad , Zachary A King , Ying Hefner , Trent R Northen , Richard A Notebaart , Csaba Pál , Bernhard O Palsson , Balázs Papp , Adam M Feist

Characterization of CA-MRSA TCH1516 exposed to nafcillin in bacteriological and physiological media.

Scientific data

Avec: Saugat Poudel , Hannah Tsunemoto , Michael Meehan , Richard Szubin , Connor A Olson , Anne Lamsa , Yara Seif , Nicholas Dillon , Alison Vrbanac , Joseph Sugie , Samira Dahesh , Jonathan M Monk , Pieter C Dorrestein , Joseph Pogliano , Rob Knight , Victor Nizet , Bernhard O Palsson , Adam M Feist

Elucidating aromatic acid tolerance at low pH in

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

Avec: Rui Pereira , Elsayed T Mohamed , Mohammad S Radi , Markus J Herrgård , Adam M Feist , Jens Nielsen , Yun Chen

Identifying the effect of vancomycin on health care-associated methicillin-resistant Staphylococcus aureus strains using bacteriological and physiological media.

GigaScience

Avec: Akanksha Rajput , Saugat Poudel , Hannah Tsunemoto , Michael Meehan , Richard Szubin , Connor A Olson , Yara Seif , Anne Lamsa , Nicholas Dillon , Alison Vrbanac , Joseph Sugie , Samira Dahesh , Jonathan M Monk , Pieter C Dorrestein , Rob Knight , Joe Pogliano , Victor Nizet , Adam M Feist , Bernhard O Palsson

Directed Metabolic Pathway Evolution Enables Functional Pterin-Dependent Aromatic-Amino-Acid Hydroxylation in

ACS synthetic biology

Avec: Hao Luo , Lei Yang , Se Hyeuk Kim , Tune Wulff , Adam M Feist , Markus Herrgard , Bernhard Ø Palsson

Revealing oxidative pentose metabolism in new Pseudomonas putida isolates.

Environmental microbiology

Avec: Mee-Rye Park , Rahul Gauttam , Bonnie Fong , Yan Chen , Hyun Gyu Lim , Adam M Feist , Aindrila Mukhopadhyay , Christopher J Petzold , Blake A Simmons , Steven W Singer

Adaptive evolution of a minimal organism with a synthetic genome.

iScience

Avec: Troy E Sandberg , Kim S Wise , Christopher Dalldorf , Richard Szubin , Adam M Feist , John I Glass , Bernhard O Palsson

Advancing the scale of synthetic biology via cross-species transfer of cellular functions enabled by iModulon engraftment.

Nature communications

Avec: Donghui Choe , Connor A Olson , Richard Szubin , Hannah Yang , Jaemin Sung , Adam M Feist , Bernhard O Palsson

Diagnosis and mitigation of the systemic impact of genome reduction in

mBio

Avec: Antoine Champie , Jean-Christophe Lachance , Anand Sastry , Dominick Matteau , Colton J Lloyd , Frédéric Grenier , Cameron R Lamoureux , Simon Jeanneau , Adam M Feist , Pierre-Étienne Jacques , Bernhard O Palsson , Sébastien Rodrigue

Adaptive evolution reveals a tradeoff between growth rate and oxidative stress during naphthoquinone-based aerobic respiration.

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

Avec: Amitesh Anand , Ke Chen , Laurence Yang , Anand V Sastry , Connor A Olson , Saugat Poudel , Yara Seif , Ying Hefner , Patrick V Phaneuf , Sibei Xu , Richard Szubin , Adam M Feist , Bernhard O Palsson

Réseau de co-auteurs

Bernhard O Palsson 14 collaborations

Richard Szubin 7 collaborations

Patrick V Phaneuf 6 collaborations

Troy E Sandberg 6 collaborations

Connor A Olson 6 collaborations

Ying Hefner 5 collaborations

Zachary A King 4 collaborations

Colton J Lloyd 3 collaborations

Rob Knight 3 collaborations

Markus J Herrgård 3 collaborations

Lei Yang 3 collaborations

Saugat Poudel 3 collaborations

Yara Seif 3 collaborations

James T Yurkovich 2 collaborations

David Heckmann 2 collaborations

Muyao Wu 2 collaborations

Edward J O'Brien 2 collaborations

Rui Pereira 2 collaborations

Jens Nielsen 2 collaborations

Yun Chen 2 collaborations

Se Hyeuk Kim 2 collaborations

Christopher Dalldorf 2 collaborations

Amitesh Anand 2 collaborations

Ke Chen 2 collaborations

Ryan A LaCroix 2 collaborations

Hao Luo 2 collaborations

Hannah Tsunemoto 2 collaborations

Michael Meehan 2 collaborations

Anne Lamsa 2 collaborations

Nicholas Dillon 2 collaborations

Alison Vrbanac 2 collaborations

Joseph Sugie 2 collaborations

Samira Dahesh 2 collaborations

Jonathan M Monk 2 collaborations

Pieter C Dorrestein 2 collaborations

Victor Nizet 2 collaborations

Justin Tan 1 collaboration

Jon G Sanders 1 collaboration

Rodolfo A Salido 1 collaboration

Karenina Sanders 1 collaboration

Caitriona Brennan 1 collaboration

Gregory Humphrey 1 collaboration

Yongjun Wei 1 collaboration

Elsayed Mohamed 1 collaboration

Mohammad Radi 1 collaboration

Carl Malina 1 collaboration

Michael J Salazar 1 collaboration

Liam L Weng 1 collaboration

Iraes Rabbers 1 collaboration

Willi Gottstein 1 collaboration

Bas Teusink 1 collaboration

Frank J Bruggeman 1 collaboration

Herwig Bachmann 1 collaboration

Daniel C Zielinski 1 collaboration

Josefin Johnsen 1 collaboration

Sebastian Schulz 1 collaboration

Emre Ozdemir 1 collaboration

Rebecca M Lennen 1 collaboration

Arjun Patel 1 collaboration

Cameron Lamoureux 1 collaboration

Alexander C Carpenter 1 collaboration

Fergus S M Harrison 1 collaboration

Ian T Paulsen 1 collaboration

Thomas C Williams 1 collaboration

Anaamika Campeau 1 collaboration

Marvic Carrillo-Terrazas 1 collaboration

David J Gonzalez 1 collaboration

Chuankai Cheng 1 collaboration

Douglas McCloskey 1 collaboration

Jose Utrilla 1 collaboration

Connor Olson 1 collaboration

Anne Sofie L Hansen 1 collaboration

Konstantin Schneider 1 collaboration

Mette Kristensen 1 collaboration

Ulla Christensen 1 collaboration

Hanne B Christensen 1 collaboration

Bin Du 1 collaboration

Emre Özdemir 1 collaboration

Jay D Keasling 1 collaboration

Michael K Jensen 1 collaboration

Gabriela I Guzmán 1 collaboration

Ákos Nyerges 1 collaboration

Henrietta Papp 1 collaboration

Markus de Raad 1 collaboration

Trent R Northen 1 collaboration

Richard A Notebaart 1 collaboration

Csaba Pál 1 collaboration

Balázs Papp 1 collaboration

Joseph Pogliano 1 collaboration

Elsayed T Mohamed 1 collaboration

Mohammad S Radi 1 collaboration

Akanksha Rajput 1 collaboration

Joe Pogliano 1 collaboration

Tune Wulff 1 collaboration

Markus Herrgard 1 collaboration

Bernhard Ø Palsson 1 collaboration

Mee-Rye Park 1 collaboration

Rahul Gauttam 1 collaboration

Bonnie Fong 1 collaboration

Yan Chen 1 collaboration

Hyun Gyu Lim 1 collaboration

Aindrila Mukhopadhyay 1 collaboration

Christopher J Petzold 1 collaboration

Blake A Simmons 1 collaboration

Steven W Singer 1 collaboration

Kim S Wise 1 collaboration

John I Glass 1 collaboration

Donghui Choe 1 collaboration

Hannah Yang 1 collaboration

Jaemin Sung 1 collaboration

Antoine Champie 1 collaboration

Jean-Christophe Lachance 1 collaboration

Anand Sastry 1 collaboration

Dominick Matteau 1 collaboration

Frédéric Grenier 1 collaboration

Cameron R Lamoureux 1 collaboration

Simon Jeanneau 1 collaboration

Pierre-Étienne Jacques 1 collaboration

Sébastien Rodrigue 1 collaboration

Laurence Yang 1 collaboration

Anand V Sastry 1 collaboration

Sibei Xu 1 collaboration