Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains

A.B. Canelas; N. Harrison; A. Fazio; J. Zhang; J.-P. Pitkanen; J. van der Brink; B.M. Bakker; L. Bogner; J. Bouwman; J.I. Castrillo; A. Cankorur; P. Chumnanpuen; P. Daran-Lapujade; D. Dikicioglu; K. van Eunen; J.C. Ewald; J.J. Heijnen; B. Kirdar; I. Mattila; F.I.C. Mensonides; A. Niebel; M. Pentilla; J.T. Pronk; M. Reuss; L. Salusjarvi; U. Sauer; D. Sherman; M. Siemann-Herzberg; H.V. Westerhoff; J.H. de Winde; D. Petranovi; S.G. Oliver; T. Workman; N. Zamboni; J. Nielsen

doi:10.1038/ncomms1150

Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains

A.B. Canelas, N. Harrison, A. Fazio, J. Zhang, J.-P. Pitkanen, J. van der Brink, B.M. Bakker, L. Bogner, J. Bouwman, J.I. Castrillo, A. Cankorur, P. Chumnanpuen, P. Daran-Lapujade, D. Dikicioglu, K. van Eunen, J.C. Ewald, J.J. Heijnen, B. Kirdar, I. Mattila, F.I.C. MensonidesA. Niebel, M. Pentilla, J.T. Pronk, M. Reuss, L. Salusjarvi, U. Sauer, D. Sherman, M. Siemann-Herzberg, H.V. Westerhoff, J.H. de Winde, D. Petranovi, S.G. Oliver, T. Workman, N. Zamboni, J. Nielsen

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Abstract

The field of systems biology is often held back by difficulties in obtaining comprehensive, high-quality, quantitative data sets. In this paper, we undertook an interlaboratory effort to generate such a data set for a very large number of cellular components in the yeast Saccharomyces cerevisiae, a widely used model organism that is also used in the production of fuels, chemicals, food ingredients and pharmaceuticals. With the current focus on biofuels and sustainability, there is much interest in harnessing this species as a general cell factory. In this study, we characterized two yeast strains, under two standard growth conditions. We ensured the high quality of the experimental data by evaluating a wide range of sampling and analytical techniques. Here we show significant differences in the maximum specific growth rate and biomass yield between the two strains. On the basis of the integrated analysis of the high-throughput data, we hypothesize that differences in phenotype are due to differences in protein metabolism. © 2010 Macmillan Publishers Limited. All rights reserved.

Original language	English
Article number	145
Journal	Nature Communications
Volume	1
DOIs	https://doi.org/10.1038/ncomms1150
Publication status	Published - 2010

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Canelas, A. B., Harrison, N., Fazio, A., Zhang, J., Pitkanen, J.-P., van der Brink, J., Bakker, B. M., Bogner, L., Bouwman, J., Castrillo, J. I., Cankorur, A., Chumnanpuen, P., Daran-Lapujade, P., Dikicioglu, D., van Eunen, K., Ewald, J. C., Heijnen, J. J., Kirdar, B., Mattila, I., ... Nielsen, J. (2010). Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains. Nature Communications, 1, Article 145. https://doi.org/10.1038/ncomms1150

@article{cd233b48a3d84eadb0c37f0c5e300035,

title = "Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains",

abstract = "The field of systems biology is often held back by difficulties in obtaining comprehensive, high-quality, quantitative data sets. In this paper, we undertook an interlaboratory effort to generate such a data set for a very large number of cellular components in the yeast Saccharomyces cerevisiae, a widely used model organism that is also used in the production of fuels, chemicals, food ingredients and pharmaceuticals. With the current focus on biofuels and sustainability, there is much interest in harnessing this species as a general cell factory. In this study, we characterized two yeast strains, under two standard growth conditions. We ensured the high quality of the experimental data by evaluating a wide range of sampling and analytical techniques. Here we show significant differences in the maximum specific growth rate and biomass yield between the two strains. On the basis of the integrated analysis of the high-throughput data, we hypothesize that differences in phenotype are due to differences in protein metabolism. {\textcopyright} 2010 Macmillan Publishers Limited. All rights reserved.",

author = "A.B. Canelas and N. Harrison and A. Fazio and J. Zhang and J.-P. Pitkanen and {van der Brink}, J. and B.M. Bakker and L. Bogner and J. Bouwman and J.I. Castrillo and A. Cankorur and P. Chumnanpuen and P. Daran-Lapujade and D. Dikicioglu and {van Eunen}, K. and J.C. Ewald and J.J. Heijnen and B. Kirdar and I. Mattila and F.I.C. Mensonides and A. Niebel and M. Pentilla and J.T. Pronk and M. Reuss and L. Salusjarvi and U. Sauer and D. Sherman and M. Siemann-Herzberg and H.V. Westerhoff and {de Winde}, J.H. and D. Petranovi and S.G. Oliver and T. Workman and N. Zamboni and J. Nielsen",

year = "2010",

doi = "10.1038/ncomms1150",

language = "English",

volume = "1",

journal = "Nature Communications",

issn = "2041-1723",

publisher = "Nature Publishing Group",

}

Canelas, AB, Harrison, N, Fazio, A, Zhang, J, Pitkanen, J-P, van der Brink, J, Bakker, BM, Bogner, L, Bouwman, J, Castrillo, JI, Cankorur, A, Chumnanpuen, P, Daran-Lapujade, P, Dikicioglu, D, van Eunen, K, Ewald, JC, Heijnen, JJ, Kirdar, B, Mattila, I, Mensonides, FIC, Niebel, A, Pentilla, M, Pronk, JT, Reuss, M, Salusjarvi, L, Sauer, U, Sherman, D, Siemann-Herzberg, M, Westerhoff, HV, de Winde, JH, Petranovi, D, Oliver, SG, Workman, T, Zamboni, N & Nielsen, J 2010, 'Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains', Nature Communications, vol. 1, 145. https://doi.org/10.1038/ncomms1150

TY - JOUR

T1 - Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains

AU - Canelas, A.B.

AU - Harrison, N.

AU - Fazio, A.

AU - Zhang, J.

AU - Pitkanen, J.-P.

AU - van der Brink, J.

AU - Bakker, B.M.

AU - Bogner, L.

AU - Bouwman, J.

AU - Castrillo, J.I.

AU - Cankorur, A.

AU - Chumnanpuen, P.

AU - Daran-Lapujade, P.

AU - Dikicioglu, D.

AU - van Eunen, K.

AU - Ewald, J.C.

AU - Heijnen, J.J.

AU - Kirdar, B.

AU - Mattila, I.

AU - Mensonides, F.I.C.

AU - Niebel, A.

AU - Pentilla, M.

AU - Pronk, J.T.

AU - Reuss, M.

AU - Salusjarvi, L.

AU - Sauer, U.

AU - Sherman, D.

AU - Siemann-Herzberg, M.

AU - Westerhoff, H.V.

AU - de Winde, J.H.

AU - Petranovi, D.

AU - Oliver, S.G.

AU - Workman, T.

AU - Zamboni, N.

AU - Nielsen, J.

PY - 2010

Y1 - 2010

N2 - The field of systems biology is often held back by difficulties in obtaining comprehensive, high-quality, quantitative data sets. In this paper, we undertook an interlaboratory effort to generate such a data set for a very large number of cellular components in the yeast Saccharomyces cerevisiae, a widely used model organism that is also used in the production of fuels, chemicals, food ingredients and pharmaceuticals. With the current focus on biofuels and sustainability, there is much interest in harnessing this species as a general cell factory. In this study, we characterized two yeast strains, under two standard growth conditions. We ensured the high quality of the experimental data by evaluating a wide range of sampling and analytical techniques. Here we show significant differences in the maximum specific growth rate and biomass yield between the two strains. On the basis of the integrated analysis of the high-throughput data, we hypothesize that differences in phenotype are due to differences in protein metabolism. © 2010 Macmillan Publishers Limited. All rights reserved.

AB - The field of systems biology is often held back by difficulties in obtaining comprehensive, high-quality, quantitative data sets. In this paper, we undertook an interlaboratory effort to generate such a data set for a very large number of cellular components in the yeast Saccharomyces cerevisiae, a widely used model organism that is also used in the production of fuels, chemicals, food ingredients and pharmaceuticals. With the current focus on biofuels and sustainability, there is much interest in harnessing this species as a general cell factory. In this study, we characterized two yeast strains, under two standard growth conditions. We ensured the high quality of the experimental data by evaluating a wide range of sampling and analytical techniques. Here we show significant differences in the maximum specific growth rate and biomass yield between the two strains. On the basis of the integrated analysis of the high-throughput data, we hypothesize that differences in phenotype are due to differences in protein metabolism. © 2010 Macmillan Publishers Limited. All rights reserved.

U2 - 10.1038/ncomms1150

DO - 10.1038/ncomms1150

M3 - Article

SN - 2041-1723

VL - 1

JO - Nature Communications

JF - Nature Communications

M1 - 145

ER -

Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains

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