# Multi-omics analyses of evolved Corynebacterium glutamicum mutants reveal the molecular responses to formaldehyde stress

**Authors:** Liwen Fan, Qichen Cao, Zhihui Zhang, Xiaomeng Ni, Yu Lei, Tuo Shi, Jiuzhou Chen, Shengping Zhang, Wenjuan Zhou, Yu Wang, Ping Zheng, Jibin Sun

PMC · DOI: 10.1016/j.synbio.2026.01.020 · Synthetic and Systems Biotechnology · 2026-02-10

## TL;DR

Scientists evolved a strain of Corynebacterium glutamicum to tolerate higher levels of formaldehyde and found molecular responses linked to this tolerance.

## Contribution

The study identifies specific genetic mutations and molecular mechanisms that enhance formaldehyde tolerance in C. glutamicum.

## Key findings

- Formaldehyde tolerance in evolved C. glutamicum is linked to upregulated cell wall biosynthesis and DNA repair.
- Mutations in Cgl1199 and Cgl1590 are crucial for formaldehyde resistance and cell morphology regulation.
- The findings provide insights into improving microbial tolerance to formaldehyde for biotransformation processes.

## Abstract

Formaldehyde serves as a crucial intermediate metabolite during C1 compounds biotransformation. To optimize C1 utilization efficiency, it is essential to identify genes related to formaldehyde tolerance and enhance microbial resistance. Hence, we developed an evolved Corynebacterium glutamicum strain, FM-3, capable of withstanding 2.6 mM formaldehyde—a significant improvement over the parental strain. Integrated transcriptomic and proteomic analyses revealed that the enhanced formaldehyde tolerance correlated with the upregulation of cell wall biosynthesis proteins and DNA repair machinery. Genetic mutations identified in the evolved strains indicated that mutations in Cgl1199 (transcription termination factor Rho), and Cgl1590 (putative gluconeogenesis factor) played a pivotal role in formaldehyde tolerance. Further studies showed that Cgl1590 was involved in cell morphology regulation. This study enriches the understanding of formaldehyde tolerance mechanisms in C. glutamicum and provides guidance for enhancing strain tolerance to formaldehyde.

## Linked entities

- **Chemicals:** formaldehyde (PubChem CID 712)
- **Species:** Corynebacterium glutamicum (taxon 1718)

## Full-text entities

- **Genes:** replication protein A [NCBI Gene 18157933], Cgl1590 [NCBI Gene 1019558], gap [NCBI Gene 47940970]
- **Diseases:** ALE (MESH:D007757), cytotoxic (MESH:D064420), FM-3 (MESH:C537153)
- **Chemicals:** polyhydroxyalkanoates (MESH:D054813), ATP (MESH:D000255), CO2 (MESH:D002245), acetylacetone (MESH:C008790), FMN (MESH:D005486), l-glutamine (MESH:D005973), zirconia (MESH:C028541), ammonium acetate (MESH:C018824), cysteine (MESH:D003545), agarose (MESH:D012685), glutaraldehyde (MESH:D005976), thioproline (MESH:C003438), l-tryptophan (MESH:D014364), Formaldehyde (MESH:D005557), Glucose (MESH:D005947), chloramphenicol (MESH:D002701), l-threonine (MESH:D013912), ROS (MESH:D017382), C1 (MESH:C400149), 15N (-), mycothiol (MESH:C089265), sodium phosphate (MESH:C018279), thiol (MESH:D013438), urea (MESH:D014508), homocysteine (MESH:D006710), amino acid (MESH:D000596), ammonium bicarbonate (MESH:C027043), starch (MESH:D013213), l-serine (MESH:D012694), l-arginine (MESH:D001120), fatty acid (MESH:D005227), carbohydrate (MESH:D002241), phosphatidylcholine (MESH:D010713), -leucine (MESH:D007930), l-tyrosine (MESH:D014443), water (MESH:D014867), phospholipid (MESH:D010743), peptides (MESH:D010455), IAM (MESH:D007460), lipid II (MESH:C069249), DTT (MESH:D004229), SDS (MESH:D012967), acetic acid (MESH:D019342), l-glutamate (MESH:D018698), HCl (MESH:D006851), S-adenosyl-l-homocysteine (MESH:D012435), ethanol (MESH:D000431), Kanamycin (MESH:D007612), glyoxylate (MESH:C031150), pyrimidine (MESH:C030986), Pt (MESH:D010984), l-methionine (MESH:D008715), pyruvate (MESH:D019289), l-proline (MESH:D011392), methanol (MESH:D000432), formate (MESH:C030544), osmic acid (MESH:D009993), aromatic amino acid (MESH:D024322), glycan (MESH:D011134), l-homoserine (MESH:D006714)
- **Species:** Mycobacterium tuberculosis (species) [taxon 1773], [Candida] boidinii (species) [taxon 5477], Corynebacterium glutamicum ATCC 13032 (strain) [taxon 196627], Nostoc sp. I (species) [taxon 66957], Escherichia coli (E. coli, species) [taxon 562], Corynebacterium glutamicum (species) [taxon 1718], Caenorhabditis elegans (species) [taxon 6239], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932]
- **Mutations:** P179S, 0754391-411del, 1590754-1023del, 2278insC, R324H, 11991015-1032del, C-to-G, T1226A, T176S, T98C, inserted at nucleotide 535, 750insC, C-to-A, G761T, V265V, 1590750insG, A279S, C535T, G6163T, G148V, A409N, 1590535insC, G254V, M208C, G443T, I169N, V116D, T400S, 0942G443T, T506A, 0754574-579del, T347A, G260V, A1198T, 1590541-1023del, V182F, C929A, 0752G761T, A130S, 1199339-344del, 686insG, F216L, A2055S, C648A, C1277A, A526T, G971A, 535insC, G795T, G624T, A310D, 0752C929A, inserted at nucleotide 750, G388T, 323insG, G779T, A2054S, G544T, A426D, V33A
- **Cell lines:** ALE — Homo sapiens (Human), Spontaneously immortalized cell line (CVCL_5G48), FM-1 — Homo sapiens (Human), Diffuse large B-cell lymphoma, Cancer cell line (CVCL_UI98), ATCC 13032 — Homo sapiens (Human), Transformed cell line (CVCL_UH42), FM-2 — Homo sapiens (Human), Cutaneous melanoma, Cancer cell line (CVCL_C576), MX-1 — Homo sapiens (Human), Breast carcinoma, Cancer cell line (CVCL_4774), pEC-XK99E — Mus musculus (Mouse), Embryonic stem cell (CVCL_QB26), FM-3 — Homo sapiens (Human), Cutaneous melanoma, Cancer cell line (CVCL_2046)

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## Figures

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## References

67 references — full list in the complete paper: https://tomesphere.com/paper/PMC12914118/full.md

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Source: https://tomesphere.com/paper/PMC12914118