{"entity": "researcher", "timestamp": "2026-08-20T21:34:41.020Z", "family": "Crang", "given": "Nick", "initials": "N", "orcid": "0000-0002-7569-6597", "affiliations": [], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/26cd5ec03dd2404a8de98cef8ab06187.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/26cd5ec03dd2404a8de98cef8ab06187"}}, "publications": [{"entity": "publication", "iuid": "6dc34cffa3b541debd879bf76b2c05a7", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/6dc34cffa3b541debd879bf76b2c05a7.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/6dc34cffa3b541debd879bf76b2c05a7"}}, "title": "The energy metabolism of Cupriavidus necator in different trophic conditions.", "authors": [{"family": "Jahn", "given": "Michael", "initials": "M", "orcid": "0000-0002-3913-153X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5ce2ef4c47b24946876c12a549785e36.json"}}, {"family": "Crang", "given": "Nick", "initials": "N", "orcid": "0000-0002-7569-6597", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/26cd5ec03dd2404a8de98cef8ab06187.json"}}, {"family": "Gynn\u00e5", "given": "Arvid H", "initials": "AH", "orcid": "0000-0001-8087-7715", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a6ad0db3cd4e4c0cba5eff0e6d31ec81.json"}}, {"family": "Kabova", "given": "Deria", "initials": "D", "orcid": "0009-0002-6457-4807", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/fd59d01239cd4b6ca69637f04f4cb856.json"}}, {"family": "Frielingsdorf", "given": "Stefan", "initials": "S", "orcid": "0000-0002-4141-7836", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/48fac1c479784ea7bf9e32506b41ad21.json"}}, {"family": "Lenz", "given": "Oliver", "initials": "O", "orcid": "0000-0003-4550-5128", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/796800418771409fae0b5038b4ea33e9.json"}}, {"family": "Charpentier", "given": "Emmanuelle", "initials": "E", "orcid": "0000-0002-0254-0778", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3fd6ecf54edf4f068a3b51387a0ad67b.json"}}, {"family": "Hudson", "given": "Elton P", "initials": "EP", "orcid": "0000-0003-1899-7649", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3b1c894d4c8b48569b9879d0342b91dd.json"}}], "type": "journal article", "published": "2024-10-23", "journal": {"title": "Applied and environmental microbiology", "issn": "1098-5336", "volume": "90", "issue": "10", "pages": "e0074824", "issn-l": "0099-2240"}, "abstract": "The \"knallgas\" bacterium Cupriavidus necator is attracting interest due to its extremely versatile metabolism. C. necator can use hydrogen or formic acid as an energy source, fixes CO2 via the Calvin-Benson-Bassham (CBB) cycle, and grows on organic acids and sugars. Its tripartite genome is notable for its size and duplications of key genes (CBB cycle, hydrogenases, and nitrate reductases). Little is known about which of these isoenzymes and their cofactors are actually utilized for growth on different substrates. Here, we investigated the energy metabolism of C. necator H16 by growing a barcoded transposon knockout library on succinate, fructose, hydrogen (H2/CO2), and formic acid. The fitness contribution of each gene was determined from enrichment or depletion of the corresponding mutants. Fitness analysis revealed that (i) some, but not all, molybdenum cofactor biosynthesis genes were essential for growth on formate and nitrate respiration. (ii) Soluble formate dehydrogenase (FDH) was the dominant enzyme for formate oxidation, not membrane-bound FDH. (iii) For hydrogenases, both soluble and membrane-bound enzymes were utilized for lithoautotrophic growth. (iv) Of the six terminal respiratory complexes in C. necator H16, only some are utilized, and utilization depends on the energy source. (v) Deletion of hydrogenase-related genes boosted heterotrophic growth, and we show that the relief from associated protein cost is responsible for this phenomenon. This study evaluates the contribution of each of C. necator's genes to fitness in biotechnologically relevant growth regimes. Our results illustrate the genomic redundancy of this generalist bacterium and inspire future engineering strategies.IMPORTANCEThe soil bacterium Cupriavidus necator can grow on gas mixtures of CO2, H2, and O2. It also consumes formic acid as carbon and energy source and various other substrates. This metabolic flexibility comes at a price, for example, a comparatively large genome (6.6 Mb) and a significant background expression of lowly utilized genes. In this study, we mutated every non-essential gene in C. necator using barcoded transposons in order to determine their effect on fitness. We grew the mutant library in various trophic conditions including hydrogen and formate as the sole energy source. Fitness analysis revealed which of the various energy-generating iso-enzymes are actually utilized in which condition. For example, only a few of the six terminal respiratory complexes are used, and utilization depends on the substrate. We also show that the protein cost for the various lowly utilized enzymes represents a significant growth disadvantage in specific conditions, offering a route to rational engineering of the genome. All fitness data are available in an interactive app at https://m-jahn.shinyapps.io/ShinyLib/.", "doi": "10.1128/aem.00748-24", "pmid": "39320125", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC11540253"}], "notes": [], "created": "2026-08-20T12:00:00.340Z", "modified": "2026-08-20T12:00:00.483Z"}, {"entity": "publication", "iuid": "27d51d0f172a4377b7951ed6c01d3ad8", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/27d51d0f172a4377b7951ed6c01d3ad8.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/27d51d0f172a4377b7951ed6c01d3ad8"}}, "title": "The energy metabolism of Cupriavidus necator in different trophic conditions", "authors": [{"family": "Jahn", "given": "Michael", "initials": "M", "orcid": "0000-0002-3913-153X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5ce2ef4c47b24946876c12a549785e36.json"}}, {"family": "Crang", "given": "Nick", "initials": "N", "orcid": "0000-0002-7569-6597", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/26cd5ec03dd2404a8de98cef8ab06187.json"}}, {"family": "Gynn\u00e5", "given": "Arvid H", "initials": "AH", "orcid": "0000-0001-8087-7715", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a6ad0db3cd4e4c0cba5eff0e6d31ec81.json"}}, {"family": "Kabova", "given": "Deria", "initials": "D", "orcid": "0009-0002-6457-4807", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/fd59d01239cd4b6ca69637f04f4cb856.json"}}, {"family": "Frielingsdorf", "given": "Stefan", "initials": "S", "orcid": "0000-0002-4141-7836", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/48fac1c479784ea7bf9e32506b41ad21.json"}}, {"family": "Lenz", "given": "Oliver", "initials": "O", "orcid": "0000-0003-4550-5128", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/796800418771409fae0b5038b4ea33e9.json"}}, {"family": "Charpentier", "given": "Emmanuelle", "initials": "E", "orcid": "0000-0002-0254-0778", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3fd6ecf54edf4f068a3b51387a0ad67b.json"}}, {"family": "Hudson", "given": "Elton P", "initials": "EP", "orcid": "0000-0003-1899-7649", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3b1c894d4c8b48569b9879d0342b91dd.json"}}], "type": "posted-content", "published": "2024-02-26", "journal": {"issn-l": null}, "abstract": null, "doi": "10.1101/2024.02.26.582058", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-08-20T10:52:24.239Z", "modified": "2026-08-20T10:52:24.462Z"}, {"entity": "publication", "iuid": "528655f581ae4d1b9b8554c427c8e589", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/528655f581ae4d1b9b8554c427c8e589.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/528655f581ae4d1b9b8554c427c8e589"}}, "title": "Thermodynamic limitations of metabolic strategies for PHB production from formate and fructose in Cupriavidus necator", "authors": [{"family": "Janasch", "given": "Markus", "initials": "M", "orcid": "0000-0001-7745-720X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/115ab90674ba4090be1b3ef9a01549e4.json"}}, {"family": "Crang", "given": "Nick", "initials": "N", "orcid": "0000-0002-7569-6597", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/26cd5ec03dd2404a8de98cef8ab06187.json"}}, {"family": "Bruch", "given": "Manuel", "initials": "M"}, {"family": "Asplund-Samuelsson", "given": "Johannes", "initials": "J", "orcid": "0000-0001-8077-5305", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e1cf0c49cbb849b194b0b46582441d09.json"}}, {"family": "Gynn\u00e5", "given": "Arvid", "initials": "A", "orcid": "0000-0001-8087-7715", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a6ad0db3cd4e4c0cba5eff0e6d31ec81.json"}}, {"family": "Jahn", "given": "Michael", "initials": "M", "orcid": "0000-0002-3913-153X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5ce2ef4c47b24946876c12a549785e36.json"}}, {"family": "Hudson", "given": "Elton P", "initials": "EP", "orcid": "0000-0003-1899-7649", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3b1c894d4c8b48569b9879d0342b91dd.json"}}], "type": "posted-content", "published": "2022-02-23", "journal": {"issn-l": null}, "abstract": null, "doi": "10.1101/2022.02.22.481442", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-08-20T10:09:48.833Z", "modified": "2026-08-20T10:09:48.921Z"}, {"entity": "publication", "iuid": "60cd3a459c71424794afa8c155ef529b", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/60cd3a459c71424794afa8c155ef529b.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/60cd3a459c71424794afa8c155ef529b"}}, "title": "Protein allocation and utilization in the versatile chemolithoautotroph Cupriavidus necator.", "authors": [{"family": "Jahn", "given": "Michael", "initials": "M", "orcid": "0000-0002-3913-153X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5ce2ef4c47b24946876c12a549785e36.json"}}, {"family": "Crang", "given": "Nick", "initials": "N", "orcid": "0000-0002-7569-6597", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/26cd5ec03dd2404a8de98cef8ab06187.json"}}, {"family": "Janasch", "given": "Markus", "initials": "M", "orcid": "0000-0001-7745-720X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/115ab90674ba4090be1b3ef9a01549e4.json"}}, {"family": "Hober", "given": "Andreas", "initials": "A", "orcid": "0000-0001-8947-2562", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/06cbc187628340278395a00ab9dd6c89.json"}}, {"family": "Forsstr\u00f6m", "given": "Bj\u00f6rn", "initials": "B", "orcid": "0000-0002-5248-8568", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a6982072448e4e8889c71fc14d214fed.json"}}, {"family": "Kimler", "given": "Kyle", "initials": "K"}, {"family": "Mattausch", "given": "Alexander", "initials": "A"}, {"family": "Chen", "given": "Qi", "initials": "Q"}, {"family": "Asplund-Samuelsson", "given": "Johannes", "initials": "J", "orcid": "0000-0001-8077-5305", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e1cf0c49cbb849b194b0b46582441d09.json"}}, {"family": "Hudson", "given": "Elton Paul", "initials": "EP", "orcid": "0000-0003-1899-7649", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3b1c894d4c8b48569b9879d0342b91dd.json"}}], "type": "journal article", "published": "2021-11-01", "journal": {"title": "Elife", "issn": "2050-084X", "volume": "10", "issn-l": "2050-084X"}, "abstract": "Bacteria must balance the different needs for substrate assimilation, growth functions, and resilience in order to thrive in their environment. Of all cellular macromolecules, the bacterial proteome is by far the most important resource and its size is limited. Here, we investigated how the highly versatile 'knallgas' bacterium Cupriavidus necator reallocates protein resources when grown on different limiting substrates and with different growth rates. We determined protein quantity by mass spectrometry and estimated enzyme utilization by resource balance analysis modeling. We found that C. necator invests a large fraction of its proteome in functions that are hardly utilized. Of the enzymes that are utilized, many are present in excess abundance. One prominent example is the strong expression of CBB cycle genes such as Rubisco during growth on fructose. Modeling and mutant competition experiments suggest that CO2-reassimilation through Rubisco does not provide a fitness benefit for heterotrophic growth, but is rather an investment in readiness for autotrophy.", "doi": "10.7554/eLife.69019", "pmid": "34723797", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC8591527"}, {"db": "pii", "key": "69019"}], "notes": [], "created": "2026-08-20T13:53:53.482Z", "modified": "2026-08-20T13:53:53.584Z"}, {"entity": "publication", "iuid": "99b513d8cf5f44f980f027a612c4eaa7", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/99b513d8cf5f44f980f027a612c4eaa7.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/99b513d8cf5f44f980f027a612c4eaa7"}}, "title": "Author response: Protein allocation and utilization in the versatile chemolithoautotroph Cupriavidus necator", "authors": [{"family": "Jahn", "given": "Michael", "initials": "M", "orcid": "0000-0002-3913-153X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5ce2ef4c47b24946876c12a549785e36.json"}}, {"family": "Crang", "given": "Nick", "initials": "N", "orcid": "0000-0002-7569-6597", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/26cd5ec03dd2404a8de98cef8ab06187.json"}}, {"family": "Janasch", "given": "Markus", "initials": "M", "orcid": "0000-0001-7745-720X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/115ab90674ba4090be1b3ef9a01549e4.json"}}, {"family": "Hober", "given": "Andreas", "initials": "A", "orcid": "0000-0001-8947-2562", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/06cbc187628340278395a00ab9dd6c89.json"}}, {"family": "Forsstr\u00f6m", "given": "Bj\u00f6rn", "initials": "B", "orcid": "0000-0002-5248-8568", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a6982072448e4e8889c71fc14d214fed.json"}}, {"family": "Kimler", "given": "Kyle", "initials": "K"}, {"family": "Mattausch", "given": "Alexander", "initials": "A"}, {"family": "Chen", "given": "Qi", "initials": "Q"}, {"family": "Asplund-Samuelsson", "given": "Johannes", "initials": "J", "orcid": "0000-0001-8077-5305", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e1cf0c49cbb849b194b0b46582441d09.json"}}, {"family": "Hudson", "given": "Elton Paul", "initials": "EP", "orcid": "0000-0003-1899-7649", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3b1c894d4c8b48569b9879d0342b91dd.json"}}], "type": "peer-review", "published": "2021-09-15", "journal": {"issn-l": null}, "abstract": null, "doi": "10.7554/elife.69019.sa2", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-08-20T13:53:55.324Z", "modified": "2026-08-20T13:53:55.418Z"}, {"entity": "publication", "iuid": "3eb84a1927c8461a98b0b8ef04f69512", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/3eb84a1927c8461a98b0b8ef04f69512.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/3eb84a1927c8461a98b0b8ef04f69512"}}, "title": "Protein allocation and utilization in the versatile chemolithoautotroph Cupriavidus necator", "authors": [{"family": "Jahn", "given": "Michael", "initials": "M", "orcid": "0000-0002-3913-153X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5ce2ef4c47b24946876c12a549785e36.json"}}, {"family": "Crang", "given": "Nick", "initials": "N", "orcid": "0000-0002-7569-6597", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/26cd5ec03dd2404a8de98cef8ab06187.json"}}, {"family": "Janasch", "given": "Markus", "initials": "M", "orcid": "0000-0001-7745-720X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/115ab90674ba4090be1b3ef9a01549e4.json"}}, {"family": "Hober", "given": "Andreas", "initials": "A", "orcid": "0000-0001-8947-2562", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/06cbc187628340278395a00ab9dd6c89.json"}}, {"family": "Forsstr\u00f6m", "given": "Bj\u00f6rn", "initials": "B", "orcid": "0000-0002-5248-8568", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a6982072448e4e8889c71fc14d214fed.json"}}, {"family": "Kimler", "given": "Kyle", "initials": "K", "orcid": "0000-0003-4735-9064", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f919fe867feb48acb57913bbc1fde0de.json"}}, {"family": "Mattausch", "given": "Alexander", "initials": "A", "orcid": "0000-0003-0901-8701", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/6ea370e86d354873ba74124ceddaf561.json"}}, {"family": "Chen", "given": "Qi", "initials": "Q", "orcid": "0000-0002-0606-2048", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0acd5c7de3824e88a8c565d45840dbbf.json"}}, {"family": "Asplund-Samuelsson", "given": "Johannes", "initials": "J", "orcid": "0000-0001-8077-5305", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e1cf0c49cbb849b194b0b46582441d09.json"}}, {"family": "Hudson", "given": "Elton P", "initials": "EP", "orcid": "0000-0003-1899-7649", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3b1c894d4c8b48569b9879d0342b91dd.json"}}], "type": "posted-content", "published": "2021-03-22", "journal": {"issn-l": null}, "abstract": null, "doi": "10.1101/2021.03.21.436304", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-08-20T10:03:22.592Z", "modified": "2026-08-20T10:03:22.846Z"}]}