Zobrazeno 1 - 10
of 175
pro vyhledávání: '"Adam M Feist"'
Autor:
Jean‐Christophe Lachance, Dominick Matteau, Joëlle Brodeur, Colton J Lloyd, Nathan Mih, Zachary A King, Thomas F Knight, Adam M Feist, Jonathan M Monk, Bernhard O Palsson, Pierre‐Étienne Jacques, Sébastien Rodrigue
Publikováno v:
Molecular Systems Biology, Vol 17, Iss 7, Pp 1-20 (2021)
Abstract Mesoplasma florum, a fast‐growing near‐minimal organism, is a compelling model to explore rational genome designs. Using sequence and structural homology, the set of metabolic functions its genome encodes was identified, allowing the rec
Externí odkaz:
https://doaj.org/article/ffd50eb1a2234bef84adfb826296e9f3
Autor:
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
Publikováno v:
Molecular Systems Biology, Vol 15, Iss 4, Pp 1-14 (2019)
Abstract Evidence suggests that novel enzyme functions evolved from low‐level promiscuous activities in ancestral enzymes. Yet, the evolutionary dynamics and physiological mechanisms of how such side activities contribute to systems‐level adaptat
Externí odkaz:
https://doaj.org/article/7901d7d768264b5c80070c2b98831cce
Autor:
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
Publikováno v:
PLoS Computational Biology, Vol 15, Iss 6, p e1007066 (2019)
Growth rate and yield are fundamental features of microbial growth. However, we lack a mechanistic and quantitative understanding of the rate-yield relationship. Studies pairing computational predictions with experiments have shown the importance of
Externí odkaz:
https://doaj.org/article/4a2feab96b1348f18230f23cfb01b673
Autor:
Jean-Christophe Lachance, Colton J Lloyd, Jonathan M Monk, Laurence Yang, Anand V Sastry, Yara Seif, Bernhard O Palsson, Sébastien Rodrigue, Adam M Feist, Zachary A King, Pierre-Étienne Jacques
Publikováno v:
PLoS Computational Biology, Vol 15, Iss 4, p e1006971 (2019)
Genome-scale metabolic models (GEMs) are mathematically structured knowledge bases of metabolism that provide phenotypic predictions from genomic information. GEM-guided predictions of growth phenotypes rely on the accurate definition of a biomass ob
Externí odkaz:
https://doaj.org/article/1a370b2fe7874bbdbe6b6fc1d0f8fbb2
Autor:
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
Publikováno v:
PLoS Biology, Vol 17, Iss 3, p e2007050 (2019)
We present a selection design that couples S-adenosylmethionine-dependent methylation to growth. We demonstrate its use in improving the enzyme activities of not only N-type and O-type methyltransferases by 2-fold but also an acetyltransferase of ano
Externí odkaz:
https://doaj.org/article/8a014f6bc453477b97b3c4f4f1ca61cc
Autor:
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
Publikováno v:
PLoS Computational Biology, Vol 15, Iss 3, p e1006213 (2019)
Understanding the fundamental characteristics of microbial communities could have far reaching implications for human health and applied biotechnology. Despite this, much is still unknown regarding the genetic basis and evolutionary strategies underl
Externí odkaz:
https://doaj.org/article/0b08cea9e4384dfd9328432a74685e89
Autor:
Ali Ebrahim, Eivind Almaas, Eugen Bauer, Aarash Bordbar, Anthony P Burgard, Roger L Chang, Andreas Dräger, Iman Famili, Adam M Feist, Ronan MT Fleming, Stephen S Fong, Vassily Hatzimanikatis, Markus J Herrgård, Allen Holder, Michael Hucka, Daniel Hyduke, Neema Jamshidi, Sang Yup Lee, Nicolas Le Novère, Joshua A Lerman, Nathan E Lewis, Ding Ma, Radhakrishnan Mahadevan, Costas Maranas, Harish Nagarajan, Ali Navid, Jens Nielsen, Lars K Nielsen, Juan Nogales, Alberto Noronha, Csaba Pal, Bernhard O Palsson, Jason A Papin, Kiran R Patil, Nathan D Price, Jennifer L Reed, Michael Saunders, Ryan S Senger, Nikolaus Sonnenschein, Yuekai Sun, Ines Thiele
Publikováno v:
Molecular Systems Biology, Vol 11, Iss 10, Pp 1-3 (2015)
Graphical Abstract Recent results obtained by Chindelevitch et al (2014) are challenged by Ebrahim et al, illustrating several issues in the reproducibility of computational biology methods.
Externí odkaz:
https://doaj.org/article/889764d4207842bb8d486cb49f32b9c4
Publikováno v:
Molecular Systems Biology, Vol 9, Iss 1, Pp 1-15 (2013)
Abstract The genome‐scale model (GEM) of metabolism in the bacterium Escherichia coli K‐12 has been in development for over a decade and is now in wide use. GEM‐enabled studies of E. coli have been primarily focused on six applications: (1) met
Externí odkaz:
https://doaj.org/article/bf7ca7f167e74169a9fb1ea10b149cca
Autor:
Troy E Sandberg, Christopher P Long, Jacqueline E Gonzalez, Adam M Feist, Maciek R Antoniewicz, Bernhard O Palsson
Publikováno v:
PLoS ONE, Vol 11, Iss 3, p e0151130 (2016)
13C-Metabolic flux analysis (13C-MFA) traditionally assumes that kinetic isotope effects from isotopically labeled compounds do not appreciably alter cellular growth or metabolism, despite indications that some biochemical reactions can be non-neglig
Externí odkaz:
https://doaj.org/article/89364cbe66e8461eb76b3c51c9d497d2
Autor:
Jeffrey D Orth, Tom M Conrad, Jessica Na, Joshua A Lerman, Hojung Nam, Adam M Feist, Bernhard Ø Palsson
Publikováno v:
Molecular Systems Biology, Vol 7, Iss 1, Pp 1-9 (2011)
Abstract The initial genome‐scale reconstruction of the metabolic network of Escherichia coli K‐12 MG1655 was assembled in 2000. It has been updated and periodically released since then based on new and curated genomic and biochemical knowledge.
Externí odkaz:
https://doaj.org/article/987b1a43f1394c708c9009703aa9161c