ArticleNature communications2023
Integrative omics identifies conserved and pathogen-specific responses of sepsis-causing bacteria.
Open access · goldFull text read
In one paragraph
Article in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers, 1 of them a synthesis that pooled it.
0numbers the graph read from it
0cells of the map it votes in
46citing papers in PubMed, 1 pooled it
8.8field-weighted citation impact, top 2% of its field
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
46 citing papers in PubMed, 1 synthesis or guideline pooled it, 58 citations in OpenAlex.
- Molecular exploration of host-pathogen interactions in severeFrontiers in medicine · 2025Pooled it
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- AnACS omega · 2026Article
- Integrated multi-omics reveals coordinatedmSystems · 2026Article
- Waterborne pathogen mitigation: Decoding techno-ecological synergies in multiscale transmission networks.Innovation (Cambridge (Mass.)) · 2026Review
- Systemic Inflammatory Response Index (SIRI) Among Patients With Sepsis: A Retrospective Observational Study.Cureus · 2026Article
- CRISPR in MOF Formulation with Enhanced Stability, Activity, and Altered PAM Specificity for Broad-Spectrum Diagnosis of Bacterial Sepsis.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Artificial Intelligence Drives Advances in Multi-Omics Analysis and Precision Medicine for Sepsis.Biomedicines · 2026Review
- Fighting the invader: strategies against intracellular bacteria.Frontiers in pharmacology · 2026Review
- Genome-informed metabolomic re-analysis identifies serum-associated amino acid signatures in sepsis-associated bacterial pathogens.Frontiers in medicine · 2026Article
- Neutrophil-derived ROS as a rapid functional biomarker: diagnostic and prognostic performance of the Leukocyte ImmunoTest in infection and sepsis.Frontiers in immunology · 2026Observational
- Genetic associations in sepsis and ARDS.Frontiers in pharmacology · 2026Review
- Targeting proBDNF in neutrophil subsets: Sepsis biomarker discovery and insights into mitochondrial hyperactivation.iScience · 2025Article
- Understanding the regulatory grammar of sepsis-causing Staphylococcus aureus bacteria using contexualised DNA language models.Scientific reports · 2025Article
- Non-invasive urinary proteomic biomarkers for prognostic assessment in sepsis.Scientific reports · 2025Article
- A multi-hospital, clinician-initiated bacterial genomics programme to investigate treatment failure in severe Staphylococcus aureus infections.Nature communications · 2025Article
- Plasma metabolomic signatures for copy number variants and COVID-19 risk loci in Northern Finland populations.Scientific reports · 2025Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
91 authors at 14 institutions in 3 countries.
Andre Mu *Department of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.ORCID 0000-0002-0853-9743
William P Klare *Charles Perkins Centre and School of Life and Environmental Sciences, The University of Sydney, Sydney, NSW, Australia.ORCID 0000-0002-1490-9704
Sarah L Baines *Department of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.ORCID 0000-0002-0557-0518
C N Ignatius Pang *Ramaciotti Centre for Genomics, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, NSW, Australia.ORCID 0000-0001-9703-5741
Romain Guérillot *Department of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.ORCID 0000-0001-9915-1420
Nichaela Harbison-Price *Australian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.ORCID 0000-0002-5794-1923
Nadia KellerAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.
Jonathan WilkschDepartment of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.
Nguyen Thi Khanh NhuAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.ORCID 0000-0002-0158-850X
Minh-Duy PhanAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.ORCID 0000-0002-3426-1044
Bernhard KellerAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.
Brunda NijagalMetabolomics Australia, Bio21 Institute, The University of Melbourne, Melbourne, Australia.
Dedreia TullMetabolomics Australia, Bio21 Institute, The University of Melbourne, Melbourne, Australia.
Saravanan DayalanMetabolomics Australia, Bio21 Institute, The University of Melbourne, Melbourne, Australia.
Hwa Huat Charlie ChuaMetabolomics Australia, Bio21 Institute, The University of Melbourne, Melbourne, Australia.
Dominik SkonecznyMetabolomics Australia, Bio21 Institute, The University of Melbourne, Melbourne, Australia.
Jason KovalRamaciotti Centre for Genomics, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, NSW, Australia.
Abderrahman HachaniDepartment of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.ORCID 0000-0001-8032-2154
Anup D ShahMonash Proteomics and Metabolomics Facility, Monash Biomedicine Discovery Institute, Monash University, Melbourne, VIC, Australia.
Nitika NehaMetabolomics Australia, Bio21 Institute, The University of Melbourne, Melbourne, Australia.
Snehal JadhavMetabolomics Australia, Bio21 Institute, The University of Melbourne, Melbourne, Australia.
Sally R PartridgeCentre for Infectious Diseases and Microbiology, Westmead Hospital/ Westmead Institute, and Sydney ID, University of Sydney, Sydney, NSW, Australia.ORCID 0000-0002-0666-8330
Amanda J CorkAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.ORCID 0000-0003-2207-6877
Kate PetersAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.
Olivia BertollaAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.
Stephan BrouwerAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.ORCID 0000-0002-9777-2992
Steven J HancockAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.
Laura Álvarez-FragaAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.ORCID 0000-0003-3920-5866
David M P De OliveiraAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.ORCID 0000-0002-5085-7163
Brian FordeAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.ORCID 0000-0002-2264-4785
Ashleigh DaleCharles Perkins Centre and School of Life and Environmental Sciences, The University of Sydney, Sydney, NSW, Australia.
Warasinee MujchariyakulDepartment of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.
Calum J WalshDepartment of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.
Ian MonkDepartment of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.ORCID 0000-0001-6982-8074
Anna FitzgeraldBioplatforms Australia Ltd., Sydney, NSW, Australia.
Mabel LumBioplatforms Australia Ltd., Sydney, NSW, Australia.ORCID 0000-0002-4712-0603
Carolina Correa-OspinaRamaciotti Centre for Genomics, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, NSW, Australia.
Piklu Roy ChowdhuryAustralian Institute for Microbiology and Infection, University of Technology Sydney, Sydney, NSW, Australia.
Robert G PartonInstitute for Molecular Bioscience, The University of Queensland, Brisbane, QLD, Australia.ORCID 0000-0002-7494-5248
James De VossAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.ORCID 0000-0002-2659-5140
James BeckettAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.
Francois MontyAustralian Genome Research Facility Ltd., Melbourne, VIC, Australia.
Jessica McKinnonAustralian Institute for Microbiology and Infection, University of Technology Sydney, Sydney, NSW, Australia.
Xiaomin SongAustralian Proteome Analysis Facility, Macquarie University, Sydney, Australia.
John R StephenAustralian Genome Research Facility Ltd., Melbourne, VIC, Australia.
Marie EverestAustralian Genome Research Facility Ltd., Melbourne, VIC, Australia.
Matt I BellgardOffice of eResearch, Queensland University of Technology, Brisbane, QLD, Australia.ORCID 0000-0002-6303-9469
Matthew TinningAustralian Genome Research Facility Ltd., Melbourne, VIC, Australia.
Michael LeemingMetabolomics Australia, Bio21 Institute, The University of Melbourne, Melbourne, Australia.
Dianna HockingDepartment of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.ORCID 0000-0002-3485-0586
Leila JebeliDepartment of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.ORCID 0000-0003-4240-9528
Nancy WangDepartment of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.ORCID 0000-0001-7623-1858
Nouri Ben ZakourCentre for Infectious Diseases and Microbiology, Westmead Hospital/ Westmead Institute, and Sydney ID, University of Sydney, Sydney, NSW, Australia.ORCID 0000-0002-6949-1755
Serhat A YasarRamaciotti Centre for Genomics, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, NSW, Australia.ORCID 0000-0002-3176-8376
Stefano VecchiarelliRamaciotti Centre for Genomics, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, NSW, Australia.
Tonia RussellRamaciotti Centre for Genomics, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, NSW, Australia.
Thiri ZawAustralian Proteome Analysis Facility, Macquarie University, Sydney, Australia.
Tyrone ChenDepartment of Infectious Diseases, The Alfred Hospital and Central Clinical School, Monash University, Melbourne, VIC, Australia.ORCID 0000-0002-9207-0385
Don TengMetabolomics Australia, Bio21 Institute, The University of Melbourne, Melbourne, Australia.
Zena KassirRamaciotti Centre for Genomics, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, NSW, Australia.
Trevor LithgowCentre to Impact AMR and Infection Program, Monash Biomedicine Discovery Institute and Department of Microbiology, Monash University, Melbourne, VIC, Australia.ORCID 0000-0002-0102-7884
Adam JenneyCentre to Impact AMR and Infection Program, Monash Biomedicine Discovery Institute and Department of Microbiology, Monash University, Melbourne, VIC, Australia.
Jason N ColeDepartment of Pediatrics, School of Medicine, University of California at San Diego, La Jolla, CA, 92093, USA.
Victor NizetDepartment of Pediatrics, School of Medicine, University of California at San Diego, La Jolla, CA, 92093, USA.ORCID 0000-0003-3847-0422
Tania C SorrellCentre for Infectious Diseases and Microbiology, Westmead Hospital/ Westmead Institute, and Sydney ID, University of Sydney, Sydney, NSW, Australia.ORCID 0000-0001-9460-0960
Anton Y PelegDepartment of Infectious Diseases, The Alfred Hospital and Central Clinical School, Monash University, Melbourne, VIC, Australia.ORCID 0000-0002-2296-2126
David L PatersonCentre for Clinical Research, The University of Queensland, Brisbane, QLD, Australia.
Scott A BeatsonAustralian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.ORCID 0000-0002-1806-3283
Jemma WuAustralian Proteome Analysis Facility, Macquarie University, Sydney, Australia.
Mark P MolloyAustralian Proteome Analysis Facility, Macquarie University, Sydney, Australia.ORCID 0000-0003-4679-5868
Anna E SymeMelbourne Bioinformatics, The University of Melbourne, Melbourne, VIC, Australia.
Robert J A GoodeMonash Proteomics and Metabolomics Facility, Monash Biomedicine Discovery Institute, Monash University, Melbourne, VIC, Australia.
Adam A HunterCenter for Comparative Genomics, Murdoch University, Perth, WA, Australia.
Grahame BowlandCenter for Comparative Genomics, Murdoch University, Perth, WA, Australia.
Nicholas P West *Australian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.ORCID 0000-0003-0955-9890
Marc R Wilkins *Ramaciotti Centre for Genomics, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, NSW, Australia.ORCID 0000-0002-5700-5684
Steven P Djordjevic *Australian Institute for Microbiology and Infection, University of Technology Sydney, Sydney, NSW, Australia.ORCID 0000-0001-9301-5372
Mark R Davies *Department of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.ORCID 0000-0001-6141-5179
Torsten Seemann *Department of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.ORCID 0000-0001-6046-610X
Benjamin P Howden *Department of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.ORCID 0000-0003-0237-1473
Dana Pascovici *Australian Proteome Analysis Facility, Macquarie University, Sydney, Australia.
Sonika Tyagi *Department of Infectious Diseases, The Alfred Hospital and Central Clinical School, Monash University, Melbourne, VIC, Australia.ORCID 0000-0003-0181-6258
Ralf B Schittenhelm *Monash Proteomics and Metabolomics Facility, Monash Biomedicine Discovery Institute, Monash University, Melbourne, VIC, Australia.ORCID 0000-0001-8738-1878
David P De Souza *Metabolomics Australia, Bio21 Institute, The University of Melbourne, Melbourne, Australia.ORCID 0000-0002-7225-2632
Malcolm J McConville *Department of Biochemistry and Molecular Biology, Bio21 Molecular Science and Biotechnology Institute, University of Melbourne, Melbourne, VIC, Australia.ORCID 0000-0002-7107-7887
Jonathan R Iredell *Centre for Infectious Diseases and Microbiology, Westmead Hospital/ Westmead Institute, and Sydney ID, University of Sydney, Sydney, NSW, Australia.
Stuart J Cordwell *Charles Perkins Centre and School of Life and Environmental Sciences, The University of Sydney, Sydney, NSW, Australia.
Richard A Strugnell *Department of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.ORCID 0000-0003-0614-5641
Timothy P Stinear *Department of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia.ORCID 0000-0003-0150-123X
Mark A Schembri *Australian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia.ORCID 0000-0003-4863-9260
Mark J Walker *Australian Infectious Diseases Research Centre and School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia. mark.walker@uq.edu.au.ORCID 0000-0001-7423-2769
The University of Melbourne · AUThe University of Queensland · AUAGRF Ltd · AUThe University of Sydney · AUUNSW Sydney · AUMonash University · AUThe Alfred Hospital · AUUniversity of Technology Sydney · AUBioplatforms Australia · AUMurdoch University · AUUniversity of California San Diego · USChildren's Medical Research Institute · AUCommonwealth Scientific and Industrial Research Organisation · AUQueensland University of Technology · AU
Funding
Identifying the Most Effective Adjuvant(s) for Leading Group A Streptococcal Vaccine Antigens in Preclinical Mouse and Nonhuman Primate ModelsR01AI173689 · NIAID · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Victor Nizet, Mark Joseph Walker · 2023 to 2026
$2.8MNIAID NIH HHS R01 AI173689Wellcome Trust
Abstract
Even in the setting of optimal resuscitation in high-income countries severe sepsis and septic shock have a mortality of 20-40%, with antibiotic resistance dramatically increasing this mortality risk. To develop a reference dataset enabling the identification of common bacterial targets for therapeutic intervention, we applied a standardized genomic, transcriptomic, proteomic and metabolomic technological framework to multiple clinical isolates of four sepsis-causing pathogens: Escherichia coli, Klebsiella pneumoniae species complex, Staphylococcus aureus and Streptococcus pyogenes. Exposure to human serum generated a sepsis molecular signature containing global increases in fatty acid and lipid biosynthesis and metabolism, consistent with cell envelope remodelling and nutrient adaptation for osmoprotection. In addition, acquisition of cholesterol was identified across the bacterial species. This detailed reference dataset has been established as an open resource to support discovery and translational research.
Indexed as
SepsisStaphylococcal InfectionsAnti-Bacterial AgentsBacteriaEscherichia coliHumansKlebsiellaMicrobial Sensitivity TestsProteomicsAnti-Bacterial Agents
Identifiers
What OpenQuestion holds
Textfull text, public
LicenceCC BY
measurements read155
table measurements read6
reference markers read1
Read underepoch 390
Registered trials
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.