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MFA for overdetermined systems reviewed and compared with RNA expression data to elucidate the difference in shikimate yield between carbon- and phosphate-limited continuous cultures of E. coli W3110.shik1

Lequeux, Gaspard ; Johansson, Louise LU ; Maertens, Jo ; Vanrolleghem, Peter A. and Lidén, Gunnar LU (2006) In Biotechnology Progress 22(4). p.1056-1070
Abstract
The present contribution focuses on the mathematical techniques used to solve steady state metabolic models for the case of an overdetermined system. Even when parts of the system are underdetermined it is possible to solve the model partially and obtain statistically meaningful results. This is illustrated with data gathered from a set of E. coli W3110.shik1 phosphate- or carbon-limited continuous cultures. It is shown that the low yield in shikimate for C-limited cultures is not due to a lower flux going to the shikimate pathway but is caused by a high secretion of byproducts. Carbon-limited cultures could be better for shikimate production than carbon-abundant cultures provided the byproduct secretion is reduced. Finally, flux... (More)
The present contribution focuses on the mathematical techniques used to solve steady state metabolic models for the case of an overdetermined system. Even when parts of the system are underdetermined it is possible to solve the model partially and obtain statistically meaningful results. This is illustrated with data gathered from a set of E. coli W3110.shik1 phosphate- or carbon-limited continuous cultures. It is shown that the low yield in shikimate for C-limited cultures is not due to a lower flux going to the shikimate pathway but is caused by a high secretion of byproducts. Carbon-limited cultures could be better for shikimate production than carbon-abundant cultures provided the byproduct secretion is reduced. Finally, flux calculations are compared with RNA expression data. (Less)
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author
; ; ; and
organization
publishing date
type
Contribution to journal
publication status
published
subject
in
Biotechnology Progress
volume
22
issue
4
pages
1056 - 1070
publisher
The American Chemical Society (ACS)
external identifiers
  • wos:000239493200019
  • scopus:33747198765
  • pmid:16889381
ISSN
1520-6033
DOI
10.1021/bp060014u
language
English
LU publication?
yes
id
0567e8b9-9737-4a43-9b99-033d4d78f2a4 (old id 399218)
date added to LUP
2016-04-01 17:13:19
date last changed
2021-02-17 04:48:54
@article{0567e8b9-9737-4a43-9b99-033d4d78f2a4,
  abstract     = {The present contribution focuses on the mathematical techniques used to solve steady state metabolic models for the case of an overdetermined system. Even when parts of the system are underdetermined it is possible to solve the model partially and obtain statistically meaningful results. This is illustrated with data gathered from a set of E. coli W3110.shik1 phosphate- or carbon-limited continuous cultures. It is shown that the low yield in shikimate for C-limited cultures is not due to a lower flux going to the shikimate pathway but is caused by a high secretion of byproducts. Carbon-limited cultures could be better for shikimate production than carbon-abundant cultures provided the byproduct secretion is reduced. Finally, flux calculations are compared with RNA expression data.},
  author       = {Lequeux, Gaspard and Johansson, Louise and Maertens, Jo and Vanrolleghem, Peter A. and Lidén, Gunnar},
  issn         = {1520-6033},
  language     = {eng},
  number       = {4},
  pages        = {1056--1070},
  publisher    = {The American Chemical Society (ACS)},
  series       = {Biotechnology Progress},
  title        = {MFA for overdetermined systems reviewed and compared with RNA expression data to elucidate the difference in shikimate yield between carbon- and phosphate-limited continuous cultures of E. coli W3110.shik1},
  url          = {http://dx.doi.org/10.1021/bp060014u},
  doi          = {10.1021/bp060014u},
  volume       = {22},
  year         = {2006},
}