Translation elicits a growth rate‐dependent, genome‐wide, differential protein production in Bacillus subtilis
Abstract Complex regulatory programs control cell adaptation to environmental changes by setting condition‐specific proteomes. In balanced growth, bacterial protein abundances depend on the dilution rate, transcript abundances and transcript‐specific translation efficiencies. We revisited the curren...
| Main Authors: | , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Springer Nature
2016-05-01
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| Series: | Molecular Systems Biology |
| Subjects: | |
| Online Access: | https://doi.org/10.15252/msb.20156608 |
| _version_ | 1797228397991034880 |
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| author | Olivier Borkowski Anne Goelzer Marc Schaffer Magali Calabre Ulrike Mäder Stéphane Aymerich Matthieu Jules Vincent Fromion |
| author_facet | Olivier Borkowski Anne Goelzer Marc Schaffer Magali Calabre Ulrike Mäder Stéphane Aymerich Matthieu Jules Vincent Fromion |
| author_sort | Olivier Borkowski |
| collection | DOAJ |
| description | Abstract Complex regulatory programs control cell adaptation to environmental changes by setting condition‐specific proteomes. In balanced growth, bacterial protein abundances depend on the dilution rate, transcript abundances and transcript‐specific translation efficiencies. We revisited the current theory claiming the invariance of bacterial translation efficiency. By integrating genome‐wide transcriptome datasets and datasets from a library of synthetic gfp‐reporter fusions, we demonstrated that translation efficiencies in Bacillus subtilis decreased up to fourfold from slow to fast growth. The translation initiation regions elicited a growth rate‐dependent, differential production of proteins without regulators, hence revealing a unique, hard‐coded, growth rate‐dependent mode of regulation. We combined model‐based data analyses of transcript and protein abundances genome‐wide and revealed that this global regulation is extensively used in B. subtilis. We eventually developed a knowledge‐based, three‐step translation initiation model, experimentally challenged the model predictions and proposed that a growth rate‐dependent drop in free ribosome abundance accounted for the differential protein production. |
| first_indexed | 2024-03-13T08:22:02Z |
| format | Article |
| id | doaj.art-d59fef70fd714eb08d535f88d57ba3c0 |
| institution | Directory Open Access Journal |
| issn | 1744-4292 |
| language | English |
| last_indexed | 2024-04-24T14:56:03Z |
| publishDate | 2016-05-01 |
| publisher | Springer Nature |
| record_format | Article |
| series | Molecular Systems Biology |
| spelling | doaj.art-d59fef70fd714eb08d535f88d57ba3c02024-04-02T19:10:38ZengSpringer NatureMolecular Systems Biology1744-42922016-05-01125n/an/a10.15252/msb.20156608Translation elicits a growth rate‐dependent, genome‐wide, differential protein production in Bacillus subtilisOlivier Borkowski0Anne Goelzer1Marc Schaffer2Magali Calabre3Ulrike Mäder4Stéphane Aymerich5Matthieu Jules6Vincent Fromion7Micalis Institute INRA AgroParisTech Université Paris‐Saclay Jouy‐en‐Josas F78350 FranceMaIAGE INRA Université Paris‐Saclay Jouy‐en‐Josas F78350 FranceInterfaculty Institute for Genetics and Functional Genomics University Medicine Greifswald Greifswald GermanyMicalis Institute INRA AgroParisTech Université Paris‐Saclay Jouy‐en‐Josas F78350 FranceInterfaculty Institute for Genetics and Functional Genomics University Medicine Greifswald Greifswald GermanyMicalis Institute INRA AgroParisTech Université Paris‐Saclay Jouy‐en‐Josas F78350 FranceMicalis Institute INRA AgroParisTech Université Paris‐Saclay Jouy‐en‐Josas F78350 FranceMaIAGE INRA Université Paris‐Saclay Jouy‐en‐Josas F78350 FranceAbstract Complex regulatory programs control cell adaptation to environmental changes by setting condition‐specific proteomes. In balanced growth, bacterial protein abundances depend on the dilution rate, transcript abundances and transcript‐specific translation efficiencies. We revisited the current theory claiming the invariance of bacterial translation efficiency. By integrating genome‐wide transcriptome datasets and datasets from a library of synthetic gfp‐reporter fusions, we demonstrated that translation efficiencies in Bacillus subtilis decreased up to fourfold from slow to fast growth. The translation initiation regions elicited a growth rate‐dependent, differential production of proteins without regulators, hence revealing a unique, hard‐coded, growth rate‐dependent mode of regulation. We combined model‐based data analyses of transcript and protein abundances genome‐wide and revealed that this global regulation is extensively used in B. subtilis. We eventually developed a knowledge‐based, three‐step translation initiation model, experimentally challenged the model predictions and proposed that a growth rate‐dependent drop in free ribosome abundance accounted for the differential protein production.https://doi.org/10.15252/msb.20156608Bacillus subtilisglobal regulationgrowth rateprotein productiontranslation efficiency |
| spellingShingle | Olivier Borkowski Anne Goelzer Marc Schaffer Magali Calabre Ulrike Mäder Stéphane Aymerich Matthieu Jules Vincent Fromion Translation elicits a growth rate‐dependent, genome‐wide, differential protein production in Bacillus subtilis Molecular Systems Biology Bacillus subtilis global regulation growth rate protein production translation efficiency |
| title | Translation elicits a growth rate‐dependent, genome‐wide, differential protein production in Bacillus subtilis |
| title_full | Translation elicits a growth rate‐dependent, genome‐wide, differential protein production in Bacillus subtilis |
| title_fullStr | Translation elicits a growth rate‐dependent, genome‐wide, differential protein production in Bacillus subtilis |
| title_full_unstemmed | Translation elicits a growth rate‐dependent, genome‐wide, differential protein production in Bacillus subtilis |
| title_short | Translation elicits a growth rate‐dependent, genome‐wide, differential protein production in Bacillus subtilis |
| title_sort | translation elicits a growth rate dependent genome wide differential protein production in bacillus subtilis |
| topic | Bacillus subtilis global regulation growth rate protein production translation efficiency |
| url | https://doi.org/10.15252/msb.20156608 |
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