PXD034138-1

PXD034138 is an original dataset announced via ProteomeXchange.

Title	Generation of an Escherichia coli strain growing on methanol as sole energy and carbon source via the ribulose monophosphate cycle
Description	The increasing demand for non-food competitive carbon sources such as methanol for biotechnology has brought methanol-utilizing bacteria, so-called methylotrophs, to focus. The product spectrum of natural methylotrophs and their genetic accessibility is limited and as an alternative approach, the introduction of methylotrophic metabolism into a biotechnologically well-established organism, such as Escherichia coli, represents a promising concept. By performing long-term evolution over 600 days, we obtained an E. coli strain that is able to grow on methanol as its sole carbon source at rates comparable to natural methylotrophic organisms. We confirmed that the strain forms its entire biomass from methanol. Furthermore, we sequenced the genome of the evolved strain and compared it to the genome of its ancestor. Intriguingly, we found several hundreds of mutations targeting genes of various functions, such as catalysis and regulation. Like the comparison of the genome before and after evolution, the investigation of the proteome would be of high interest. Proteomics would reveal the consequences of the regulatory mutations found in the genome and provide an overall picture of the adaptations by the cell enabling it to grow on methanol. The increasing demand for non-food competitive carbon sources such as methanol for biotechnology has brought methanol-utilizing bacteria, so-called methylotrophs, to focus. The product spectrum of natural methylotrophs and their genetic accessibility is limited and as an alternative approach, the introduction of methylotrophic metabolism into a biotechnologically well-established organism, such as Escherichia coli, represents a promising concept. By performing long-term evolution over 600 days, we obtained an E. coli strain that is able to grow on methanol as its sole carbon source at rates comparable to natural methylotrophic organisms. We confirmed that the strain forms its entire biomass from methanol. Furthermore, we sequenced the genome of the evolved strain and compared it to the genome of its ancestor. Intriguingly, we found several hundreds of mutations targeting genes of various functions, such as catalysis and regulation. Like the comparison of the genome before and after evolution, the investigation of the proteome would be of high interest. Proteomics would reveal the consequences of the regulatory mutations found in the genome and provide an overall picture of the adaptations by the cell enabling it to grow on methanol.
HostingRepository	PRIDE
AnnounceDate	2022-08-05
AnnouncementXML	Submission_2022-08-05_15:08:25.087.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD034138
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Lucas Hemmerle
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2022-05-26 01:19:13	ID requested
⏵ 1	2022-08-05 15:08:25	announced

Dataset with its publication pending

submitter keyword: Synthetic Methylotrophy, E.coli, Proteomics

Julia A. Vorholt
contact affiliation	Department of Biology, Institute of Microbiology, ETH Zürich, Switzerland
contact email	jvorholt@ethz.ch
lab head
Lucas Hemmerle
contact affiliation	ETH Zürich
contact email	helucas@ethz.ch
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD034138
     1. Label: PRIDE project
     2. Name: Generation of an Escherichia coli strain growing on methanol as sole energy and carbon source via the ribulose monophosphate cycle