Bacteria articles within Nature

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  • Article
    | Open Access

    The murine enteropathogen Citrobacter rodentium targets a specific subset of absorptive intestinal epithelial cells in the mid–distal colon, which stimulate T cells to produce sustained IL-22 signals to mitigate further spread of the pathogen.

    • Carlene L. Zindl
    • , C. Garrett Wilson
    •  & Casey T. Weaver

  • Article
    | Open Access

    A study reveals that Fusobacterium nucleatum subspecies animalis is bifurcated into two distinct clades, and shows that only one of these dominates the colorectal cancer niche, probably through increased colonization of the human gastrointestinal tract.

    • Martha Zepeda-Rivera
    • , Samuel S. Minot
    •  & Christopher D. Johnston

  • Article
    | Open Access

    Cultivation of a new anoxygenic phototrophic bacterium from Boreal Shield lake water—representing a transition form in the evolution of photosynthesis—offers insights into how the major modes of phototrophy diversified.

    • J. M. Tsuji
    • , N. A. Shaw
    •  & J. D. Neufeld

  • Article
    | Open Access

    Translation actively dislodges stalled transcription elongation complexes (ECs) from damaged DNA, which enables lesion repair and restoration of transcription activity, and coupled ribosomes discriminate between active ECs and stalled ECs, ensuring destruction of only the latter.

    • Jason Woodgate
    • , Hamed Mosaei
    •  & Nikolay Zenkin

  • Article
    | Open Access

    The prokaryotic non-enzymatic effector protein Cam1 mediates CRISPR immunity by binding tetra-adenylate second messengers and forming a pore in the membrane that induces membrane depolarization and growth arrest.

    • Christian F. Baca
    • , You Yu
    •  & Luciano A. Marraffini

  • Article
    | Open Access

    Staphylococcus CdnE03 cyclase recognizes structured RNA molecules produced by staphylococcal phages, triggering cyclic oligonucleotide production and, thereby, bacterial cell death—a mechanism of antiviral defence conserved across domains of life.

    • Dalton V. Banh
    • , Cameron G. Roberts
    •  & Luciano A. Marraffini

  • Article |

    As well as being the substrate for the lipopolysaccharide transport protein complex comprising LptA–G, lipopolysaccharide binding to Lpt proteins promotes their assembly into a bridge linking the inner and outer membranes of Gram-negative bacteria.

    • Lisa Törk
    • , Caitlin B. Moffatt
    •  & Daniel Kahne

  • Article
    | Open Access

    The Bacteroides fragilis type III CRISPR protein Cmr conjugates ATP to S-adenosyl methionine, generating S-adenosyl methionine (SAM)-AMP, a novel second messenger with a role in antiviral signalling.

    • Haotian Chi
    • , Ville Hoikkala
    •  & Malcolm F. White

  • Article
    | Open Access

    The bacterial effector proteins of the AvrE family function as membrane channels in plant cells, enabling the passage of water and solutes from host cells to support pathogen growth, and disrupting the viability of the host cell.

    • Kinya Nomura
    • , Felipe Andreazza
    •  & Sheng Yang He

  • Article |

    Cryo-electron microscopy structures and biochemical analyses provide insight into how short prokaryotic Argonaute proteins are assembled and activated, and reveal that oligomerization has a key role in driving catalytic activity.

    • Zhangfei Shen
    • , Xiao-Yuan Yang
    •  & Tian-Min Fu

  • Article
    | Open Access

    CRISPR systems lacking Cas4 can use fused or recruited exonucleases for faithful acquisition of new CRISPR immune sequences.

    • Joy Y. Wang
    • , Owen T. Tuck
    •  & Jennifer A. Doudna

  • Article
    | Open Access

    A study examining bacterial gene expression in human-derived samples identifies a gene encoding a small RNA and describes how it orchestrates the transition between chronic and acute infection in Pseudomonas aeruginosa.

    • Pengbo Cao
    • , Derek Fleming
    •  & Marvin Whiteley

  • Article
    | Open Access

    A study demonstrates that specific interactions between the two committed enzymes for the synthesis of lipopolysaccharide and peptidoglycan enable coordinated assembly of the outer membrane and cell wall in the Gram-negative pathogen Pseudomonas aeruginosa.

    • Katherine R. Hummels
    • , Samuel P. Berry
    •  & Thomas G. Bernhardt

  • Article
    | Open Access

    RNA targeting by the Sulfuricurvum type V single-effector nuclease SuCas12a2 drives abortive infection through non-specific cleavage of double-stranded DNA—after recognition of an RNA target through an activating protospacer-flanking sequence, SuCas12a2 efficiently degrades ssRNA, ssDNA and dsDNA.

    • Oleg Dmytrenko
    • , Gina C. Neumann
    •  & Chase L. Beisel

  • Article
    | Open Access

    Cell-specific respiration rates differ by more than 1,000× among prokaryoplankton genera, and the majority of respiration was found to be performed by minority members of prokaryoplankton, whereas cells of the most prevalent lineages had extremely low respiration rates.

    • Jacob H. Munson-McGee
    • , Melody R. Lindsay
    •  & Ramunas Stepanauskas

  • Article
    | Open Access

    Members of the DUF368-containing and DedA transmembrane protein families have conditional roles in undecaprenyl phosphate translocation in Gram-negative and Gram-positive bacteria and may have a widely conserved function in the biogenesis of microbial cell surface glycopolymers.

    • Brandon Sit
    • , Veerasak Srisuknimit
    •  & Matthew K. Waldor

  • Article |

    Enterococci enhance the fitness and pathogenesis of Clostridioides difficile in the gut by altering the amino acid composition and providing signals that increase its virulence towards the host.

    • Alexander B. Smith
    • , Matthew L. Jenior
    •  & Joseph P. Zackular

  • Article
    | Open Access

    Cryo-electron tomography is used to reveal the structural dynamics and functional diversity of translating ribosomes in Mycoplasma pneumoniae, providing insight into the translation elongation cycle inside cells and how it is reshaped by antibiotics.

    • Liang Xue
    • , Swantje Lenz
    •  & Julia Mahamid

  • Article |

    A bacterial antiviral defence system generates a cyclic tri-adenylate that binds to a TIR–SAVED effector, inducing formation of a superhelical structure with adjacent TIR domains organizing into an active site, allowing NAD+ degradation.

    • Gaëlle Hogrel
    • , Abbie Guild
    •  & Malcolm F. White

  • Article
    | Open Access

    Overall, this study describes the molecular mechanism of a druggable pathway that recapitulates in cellular assays the immunomodulatory effects associated with Akkermansia muciniphila, a prominent member of the gut microbiota.

    • Munhyung Bae
    • , Chelsi D. Cassilly
    •  & Jon Clardy

  • Article
    | Open Access

    Through structural analysis of the activation of bacterial STING, the molecular basis of STING filament formation and TIR effector domain activation in antiphage signalling is defined.

    • Benjamin R. Morehouse
    • , Matthew C. J. Yip
    •  & Philip J. Kranzusch

  • Article |

    The cryo-electron microscopy structure of the filamentous hydrogen-dependent CO2 reductase (HDCR) enzyme from Thermoanaerobacter kivui, together with enzymatic analysis and in situ cryo-electron tomography, provides insight into the high catalytic activity of HDCR.

    • Helge M. Dietrich
    • , Ricardo D. Righetto
    •  & Jan M. Schuller

  • Article
    | Open Access

    The Csu pili of the multidrug-resistant nosocomial pathogen Acinetobacter baumannii assemble into an ultrathin zigzag architecture secured by a clinch mechanism that provides the pilus with high mechanical stability and superelasticity.

    • Natalia Pakharukova
    • , Henri Malmi
    •  & Anton V. Zavialov

  • Article |

    Retron-Sen2 of Salmonella Typhimurium encodes a toxin and a reverse transcriptase, which, together with the Sen2 multi-copy single-stranded DNA synthesized by the reverse transcriptase make up a tripartite toxin–antitoxin system that functions in anti-phage defence.

    • Jacob Bobonis
    • , Karin Mitosch
    •  & Athanasios Typas

  • Article |

    Cryo-electron microscopy structures of the bacterial O-antigen ligase WaaL, combined with genetics, biochemistry and molecular dynamics simulations, provide insight into the mechanism by which WaaL catalyses the biosynthesis of lipopolysaccharide.

    • Khuram U. Ashraf
    • , Rie Nygaard
    •  & Filippo Mancia

  • Article |

    A bacterial enzyme is characterized and demonstrated to have Ni2+-dependent activity and high specificity for free guanidine enabling the bacteria to use guanidine as the sole nitrogen source for growth.

    • D. Funck
    • , M. Sinn
    •  & J. S. Hartig

  • Article
    | Open Access

    Methicillin-resistant strains of Staphylococcus aureus appeared in European hedgehogs in the pre-antibiotic era as a co-evolutionary adaptation to antibiotic-producing dermatophytes and have spread within the local hedgehog populations and between hedgehogs and secondary hosts.

    • Jesper Larsen
    • , Claire L. Raisen
    •  & Anders R. Larsen

  • Article
    | Open Access

    A cryo-electron microscopy structure of the inner membrane complex of the ESX-5 type VII secretion system of Mycobacterium tuberculosis reveals an important role of interactions with MycP5 protease for complex integrity.

    • Catalin M. Bunduc
    • , Dirk Fahrenkamp
    •  & Thomas C. Marlovits

  • Article |

    In Staphylococcus epidermidis and Staphylococcus aureus, non-specific DNase activity of the type III-A CRISPR–Cas system increases the rate of mutations in the host and accelerates the evolution of resistance to antibiotics and to phage.

    • Charlie Y. Mo
    • , Jacob Mathai
    •  & Luciano A. Marraffini

  • Article
    | Open Access

    ‘Candidatus Azoamicus ciliaticola’ transfers energy to its ciliate host in the form of ATP and enables this host to breathe nitrate, demonstrating that eukaryotes with remnant mitochondria can secondarily acquire energy-providing endosymbionts.

    • Jon S. Graf
    • , Sina Schorn
    •  & Jana Milucka

  • Article |

    X-ray crystallography and cryo-electron microscopy structures of the transcriptional repressor of the methylomycin gene cluster, MmfR, reveal the molecular basis for regulation of antibiotic biosynthesis by AHFCA hormones in Actinobacteria.

    • Shanshan Zhou
    • , Hussain Bhukya
    •  & Christophe Corre

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