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

Andŕ B. Canelas, Nicola Harrison, Alessandro Fazio, Jie Zhang, Juha Pekka Pitkänen, Joost Van Den Brink, Barbara M. Bakker, Lara Bogner, Jildau Bouwman, Juan I. Castrillo, Ayca Cankorur, Pramote Chumnanpuen, Pascale Daran-Lapujade, Duygu Dikicioglu, Karen Van Eunen, Jennifer C. Ewald, Joseph J. Heijnen, Betul Kirdar, Ismo Mattila, Femke I.C. Mensonides & 15 others Anja Niebel, Merja Penttilä, Jack T. Pronk, Matthias Reuss, Laura Salusjärvi, Uwe Sauer, David Sherman, Martin Siemann-Herzberg, Hans Westerhoff, Johannes De Winde, Dina Petranovic, Stephen G. Oliver, Christopher T. Workman, Nicola Zamboni, Jens Nielsen

Research output: Contribution to journalArticleScientificpeer-review

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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.

Original languageEnglish
Article number145
JournalNature Communications
Volume1
Issue number9
DOIs
Publication statusPublished - 1 Dec 2010
MoE publication typeA1 Journal article-refereed

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protein metabolism
Systems Biology
yeast
biology
Metabolism
Yeast
chemical fuels
Yeasts
saccharomyces
phenotype
Biofuels
biomass
Growth
industrial plants
organisms
food
ingredients
Biomass
Saccharomyces cerevisiae
Proteins

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Canelas, A. B., Harrison, N., Fazio, A., Zhang, J., Pitkänen, J. P., Van Den Brink, J., ... Nielsen, J. (2010). Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains. Nature Communications, 1(9), [145]. https://doi.org/10.1038/ncomms1150
Canelas, Andŕ B. ; Harrison, Nicola ; Fazio, Alessandro ; Zhang, Jie ; Pitkänen, Juha Pekka ; Van Den Brink, Joost ; Bakker, Barbara M. ; Bogner, Lara ; Bouwman, Jildau ; Castrillo, Juan I. ; Cankorur, Ayca ; Chumnanpuen, Pramote ; Daran-Lapujade, Pascale ; Dikicioglu, Duygu ; Van Eunen, Karen ; Ewald, Jennifer C. ; Heijnen, Joseph J. ; Kirdar, Betul ; Mattila, Ismo ; Mensonides, Femke I.C. ; Niebel, Anja ; Penttilä, Merja ; Pronk, Jack T. ; Reuss, Matthias ; Salusjärvi, Laura ; Sauer, Uwe ; Sherman, David ; Siemann-Herzberg, Martin ; Westerhoff, Hans ; De Winde, Johannes ; Petranovic, Dina ; Oliver, Stephen G. ; Workman, Christopher T. ; Zamboni, Nicola ; Nielsen, Jens. / Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains. In: Nature Communications. 2010 ; Vol. 1, No. 9.
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Canelas, AB, Harrison, N, Fazio, A, Zhang, J, Pitkänen, JP, Van Den 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, Penttilä, M, Pronk, JT, Reuss, M, Salusjärvi, L, Sauer, U, Sherman, D, Siemann-Herzberg, M, Westerhoff, H, De Winde, J, Petranovic, D, Oliver, SG, Workman, CT, Zamboni, N & Nielsen, J 2010, 'Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains', Nature Communications, vol. 1, no. 9, 145. https://doi.org/10.1038/ncomms1150

Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains. / Canelas, Andŕ B.; Harrison, Nicola; Fazio, Alessandro; Zhang, Jie; Pitkänen, Juha Pekka; Van Den Brink, Joost; Bakker, Barbara M.; Bogner, Lara; Bouwman, Jildau; Castrillo, Juan I.; Cankorur, Ayca; Chumnanpuen, Pramote; Daran-Lapujade, Pascale; Dikicioglu, Duygu; Van Eunen, Karen; Ewald, Jennifer C.; Heijnen, Joseph J.; Kirdar, Betul; Mattila, Ismo; Mensonides, Femke I.C.; Niebel, Anja; Penttilä, Merja; Pronk, Jack T.; Reuss, Matthias; Salusjärvi, Laura; Sauer, Uwe; Sherman, David; Siemann-Herzberg, Martin; Westerhoff, Hans; De Winde, Johannes; Petranovic, Dina; Oliver, Stephen G.; Workman, Christopher T.; Zamboni, Nicola; Nielsen, Jens (Corresponding Author).

In: Nature Communications, Vol. 1, No. 9, 145, 01.12.2010.

Research output: Contribution to journalArticleScientificpeer-review

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

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AU - Harrison, Nicola

AU - Fazio, Alessandro

AU - Zhang, Jie

AU - Pitkänen, Juha Pekka

AU - Van Den Brink, Joost

AU - Bakker, Barbara M.

AU - Bogner, Lara

AU - Bouwman, Jildau

AU - Castrillo, Juan I.

AU - Cankorur, Ayca

AU - Chumnanpuen, Pramote

AU - Daran-Lapujade, Pascale

AU - Dikicioglu, Duygu

AU - Van Eunen, Karen

AU - Ewald, Jennifer C.

AU - Heijnen, Joseph J.

AU - Kirdar, Betul

AU - Mattila, Ismo

AU - Mensonides, Femke I.C.

AU - Niebel, Anja

AU - Penttilä, Merja

AU - Pronk, Jack T.

AU - Reuss, Matthias

AU - Salusjärvi, Laura

AU - Sauer, Uwe

AU - Sherman, David

AU - Siemann-Herzberg, Martin

AU - Westerhoff, Hans

AU - De Winde, Johannes

AU - Petranovic, Dina

AU - Oliver, Stephen G.

AU - Workman, Christopher T.

AU - Zamboni, Nicola

AU - Nielsen, Jens

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