Dr Patrick Harris
Dr

Patrick Harris

Email: 
Phone: 
+61 7 334 65476

Background

Dr Patrick Harris is an Infectious Disease Physician, Medical Microbiologist and NHMRC Early Career Fellow at The University of Queensland Centre for Clinical Research (UQCCR).

Dr. Harris obtained a BSc in Psychology and Anthropology from Durham University, prior to acquiring his medical degree from University College London Medical School. Following postgraduate training in the UK, he worked as a clinical lecturer at the College of Medicine in Malawi, before completing specialist training in infectious diseases and microbiology in Australia. For his final year of training he was a Senior Visiting Fellow in Infectious Disease at the National University Hospital in Singapore. He completed his PhD in 2018 under the supervision of Prof. David Paterson, with a focus on multi-drug resistant Gram-negative bacteria.

Availability

Dr Patrick Harris is:
Available for supervision

Qualifications

  • Bachelor of Medicine and Surgery and Medical Science, University of London
  • Doctor of Philosophy, The University of Queensland

Research interests

  • Clinical trials

    Assessing the clinical impact of novel antibiotic treatment strategies for bloodstream infections

  • Antibiotic resistance

    Resistance in gram-negative pathogens such as E. coli, Klebsiella and Enterobacter

  • Clinical application of genomics

    Use of whole genome sequencing in clinical microbiology

Research impacts

He has published more than 150 peer-reviewed articles, many as first or senior author, including JAMA, the Lancet, Lancet Infectious Diseases and Clinical Infectious Diseases. He was a lead investigator for the MERINO trial: an international multicentre study to compare carbapenem-sparing treatment options for ESBL and AmpC-producing species. This has been the first large RCT to specifically address this question, using a protocol developed and endorsed by the Australasian Society for Infectious Diseases Clinical Research Network (ASID-CRN). https://clinicaltrials.gov/ct2/show/NCT02176122. This was followed by the MERINO-2 trial: a randomised controlled trial of meropenem versus piperacillin-tazobactam for treatment of bloodstream infections due to AmpC-producing Enterobacter, Citrobacter, Serratia, Providencia and Morganella: https://clinicaltrials.gov/ct2/show/NCT02437045. His other main research interest includes the application of whole genome sequencing to clinical microbiology. He was the clinical lead for the Queensland Genomics Clinical Demonstration Project: Whole genome sequencing to track, treat and prevent nosocomial infections. This project has successfuly integrated a genomics workflow within Queensland health, to support outbreak response and surveillance of hospital acqured multi-drug resistant infections: Hospital acquired infections – Queensland Genomics

Search Professor Patrick Harris’s works on UQ eSpace

235 works between 2009 and 2024
All (235) Journal Article (212) Book Chapter (2) Conference Publication (19) Other Outputs (2)

21 - 40 of 235 works

2024

Journal Article

Differences in antimicrobial resistance gene abundance and microbial diversity of the gut microbiome in patients on antibiotics enrolled in a clinical trial

Stewart, Adam G., Harris, Patrick N.A., Graham, Rikki M.A., Jennison, Amy V., Schlebusch, Sanmarie, Harris-Brown, Tiffany, Paterson, David L. and Forde, Brian M. (2024). Differences in antimicrobial resistance gene abundance and microbial diversity of the gut microbiome in patients on antibiotics enrolled in a clinical trial. Pathology, 56, S36-S37. doi: 10.1016/j.pathol.2023.12.137

Differences in antimicrobial resistance gene abundance and microbial diversity of the gut microbiome in patients on antibiotics enrolled in a clinical trial

2024

Journal Article

Rapid nanopore sequencing and predictive susceptibility testing of positive blood cultures from intensive care patients with sepsis

Harris, Patrick N. A., Bauer, Michelle J., Lüftinger, Lukas, Beisken, Stephan, Forde, Brian M., Balch, Ross, Cotta, Menino, Schlapbach, Luregn, Raman, Sainath, Shekar, Kiran, Kruger, Peter, Lipman, Jeff, Bialasiewicz, Seweryn, Coin, Lachlan, Roberts, Jason A., Paterson, David L. and Irwin, Adam D. (2024). Rapid nanopore sequencing and predictive susceptibility testing of positive blood cultures from intensive care patients with sepsis. Microbiology spectrum, 12 (2) e0306523, e0306523. doi: 10.1128/spectrum.03065-23

Rapid nanopore sequencing and predictive susceptibility testing of positive blood cultures from intensive care patients with sepsis

2024

Journal Article

Vibrio species bloodstream infections in Queensland, Australia

Davidson, Natalie, Edwards, Felicity, Harris, Patrick N.A. and Laupland, Kevin B. (2024). Vibrio species bloodstream infections in Queensland, Australia. Internal Medicine Journal, 54 (1), 157-163. doi: 10.1111/imj.16187

Vibrio species bloodstream infections in Queensland, Australia

2024

Journal Article

Mortality, hospital length of stay and recurrent bloodstream infections associated with extended-spectrum beta-lactamase producing Escherichia coli (ESBL-Ec) in a low prevalence region: a 20-year population-based large cohort study

Ling, Weiping, Paterson, David L., Harris, Patrick N. A., Furuya-Kanamori, Luis, Edwards, Felicity and Laupland, Kevin B. (2024). Mortality, hospital length of stay and recurrent bloodstream infections associated with extended-spectrum beta-lactamase producing Escherichia coli (ESBL-Ec) in a low prevalence region: a 20-year population-based large cohort study. International Journal of Infectious Diseases, 138, 84-90. doi: 10.1016/j.ijid.2023.11.007

Mortality, hospital length of stay and recurrent bloodstream infections associated with extended-spectrum beta-lactamase producing Escherichia coli (ESBL-Ec) in a low prevalence region: a 20-year population-based large cohort study

2024

Journal Article

Host response signature trends in bacteraemia–authors’ response

Peri, Anna Maria, Harris, Patrick N. A. and Paterson, David L. (2024). Host response signature trends in bacteraemia–authors’ response. Infectious Diseases, 56 (5), 1-3. doi: 10.1080/23744235.2024.2326591

Host response signature trends in bacteraemia–authors’ response

2023

Journal Article

Host response signature trends in persistent bacteraemia and metastatic infection due to Staphylococcus aureus and Gram-negative bacilli: a prospective multicentre observational study

Peri, Anna Maria, Rafiei, Nastaran, O’Callaghan, Kevin, Brischetto, Anna, Graves, Bianca, Sinclair, Holly, Eustace, Matthew, Lim, Karen, Parkes-Smith, Jill, Stewart, Adam, Davidson, Natalie, Tabah, Alexis, Bergh, Haakon, Chatfield, Mark D., Harris, Patrick N. A. and Paterson, David L. (2023). Host response signature trends in persistent bacteraemia and metastatic infection due to Staphylococcus aureus and Gram-negative bacilli: a prospective multicentre observational study. Infectious Diseases, 56 (4), 268-276. doi: 10.1080/23744235.2023.2294122

Host response signature trends in persistent bacteraemia and metastatic infection due to Staphylococcus aureus and Gram-negative bacilli: a prospective multicentre observational study

2023

Journal Article

Evaluation of Illumina® COVIDSeq™ as a Tool for Omicron SARS-CoV-2 Characterisation

Lowry, Kym, Bauer, Michelle J., Buckley, Cameron, Wang, Claire, Bordin, Amanda, Badman, Steven, Harris, Patrick N.A., Mackay, Ian and Whiley, David (2023). Evaluation of Illumina® COVIDSeq™ as a Tool for Omicron SARS-CoV-2 Characterisation. Journal of Virological Methods, 322 114827, 1-5. doi: 10.1016/j.jviromet.2023.114827

Evaluation of Illumina® COVIDSeq™ as a Tool for Omicron SARS-CoV-2 Characterisation

2023

Journal Article

Breaking Down the Breakpoints: Rationale for the 2022 Clinical and Laboratory Standards Institute Revised Piperacillin-Tazobactam Breakpoints Against Enterobacterales

Tamma, Pranita D., Harris, Patrick N. A., Mathers, Amy J., Wenzler, Eric and Humphries, Romney M. (2023). Breaking Down the Breakpoints: Rationale for the 2022 Clinical and Laboratory Standards Institute Revised Piperacillin-Tazobactam Breakpoints Against Enterobacterales. Clinical Infectious Diseases, 77 (11), 1585-1590. doi: 10.1093/cid/ciac688

Breaking Down the Breakpoints: Rationale for the 2022 Clinical and Laboratory Standards Institute Revised Piperacillin-Tazobactam Breakpoints Against Enterobacterales

2023

Conference Publication

Elizabethkingia species: an emerging cause of healthcare-associated bloodstream infection among immunocompromised hosts

Stewart, Adam, Laupland, Kevin, Edwards, Felicity, Paterson, David and Harris, Patrick N. A. (2023). Elizabethkingia species: an emerging cause of healthcare-associated bloodstream infection among immunocompromised hosts. IDWeek 2023, Boston, MA USA, 11-15 October 2023. Oxford, United Kingdom: Oxford University Press. doi: 10.1093/ofid/ofad500.310

Elizabethkingia species: an emerging cause of healthcare-associated bloodstream infection among immunocompromised hosts

2023

Conference Publication

Assessment of in vitro synergy between piperacillin-tazobactam-meropenem and imipenem-meropenem against OXA-48 producing Klebsiella pneumoniae using time-kill assays

Demir, Mervenur, Aslan, Abdullah Tarik, Seren Tanrıverdi, Elif, Otlu, Barış, Akova, Murat, Paterson, David, Harris, Patrick N. A. and Hazırolan, Gülşen (2023). Assessment of in vitro synergy between piperacillin-tazobactam-meropenem and imipenem-meropenem against OXA-48 producing Klebsiella pneumoniae using time-kill assays. IDWeek 2023, Boston, MA USA, 11-15 October 2023. Oxford, United Kingdom: Oxford University Press. doi: 10.1093/ofid/ofad500.2357

Assessment of in vitro synergy between piperacillin-tazobactam-meropenem and imipenem-meropenem against OXA-48 producing Klebsiella pneumoniae using time-kill assays

2023

Journal Article

The opportunities and challenges for artificial intelligence to improve sepsis outcomes in the paediatric intensive care unit

Aslan, Abdullah Tarik, Permana, Budi, Harris, Patrick N. A., Naidoo, Kuban D., Pienaar, Michael A. and Irwin, Adam D. (2023). The opportunities and challenges for artificial intelligence to improve sepsis outcomes in the paediatric intensive care unit. Current Infectious Disease Reports, 25 (11), 243-253. doi: 10.1007/s11908-023-00818-4

The opportunities and challenges for artificial intelligence to improve sepsis outcomes in the paediatric intensive care unit

2023

Journal Article

Bugs in floods

Blaskovich, Mark A. T. and Harris, Patrick N. A. (2023). Bugs in floods. Microbiology Australia, 44 (4), 176-180. doi: 10.1071/ma23051

Bugs in floods

2023

Journal Article

Melioidosis Queensland: an analysis of clinical outcomes and genomic factors

Gassiep, Ian, Burnard, Delaney, Permana, Budi, Bauer, Michelle J., Cuddihy, Thom, Forde, Brian M., Chatfield, Mark D., Ling, Weiping, Norton, Robert and Harris, Patrick N. A. (2023). Melioidosis Queensland: an analysis of clinical outcomes and genomic factors. PLoS Neglected Tropical Diseases, 17 (10) e0011697, 1-13. doi: 10.1371/journal.pntd.0011697

Melioidosis Queensland: an analysis of clinical outcomes and genomic factors

2023

Journal Article

Bloodstream infections in neutropenic and non-neutropenic patients with haematological malignancies: epidemiological trends and clinical outcomes in Queensland, Australia over the last 20 years

Peri, Anna Maria, Edwards, Felicity, Henden, Andrea, Harris, Patrick N. A., Chatfield, Mark D., Paterson, David L. and Laupland, Kevin B. (2023). Bloodstream infections in neutropenic and non-neutropenic patients with haematological malignancies: epidemiological trends and clinical outcomes in Queensland, Australia over the last 20 years. Clinical and Experimental Medicine, 23 (8), 4563-4573. doi: 10.1007/s10238-023-01206-x

Bloodstream infections in neutropenic and non-neutropenic patients with haematological malignancies: epidemiological trends and clinical outcomes in Queensland, Australia over the last 20 years

2023

Journal Article

In vitro, in vivo and clinical studies comparing the efficacy of ceftazidime-avibactam monotherapy with ceftazidime-avibactam-containing combination regimens against carbapenem-resistant Enterobacterales and multidrug-resistant Pseudomonas aeruginosa isolates or infections: a scoping review

Aslan, Abdullah Tarık, Ezure, Yukiko, Horcajada, Juan Pablo, Harris, Patrick N. A. and Paterson, David L. (2023). In vitro, in vivo and clinical studies comparing the efficacy of ceftazidime-avibactam monotherapy with ceftazidime-avibactam-containing combination regimens against carbapenem-resistant Enterobacterales and multidrug-resistant Pseudomonas aeruginosa isolates or infections: a scoping review. Frontiers in Medicine, 10 1249030, 1-16. doi: 10.3389/fmed.2023.1249030

In vitro, in vivo and clinical studies comparing the efficacy of ceftazidime-avibactam monotherapy with ceftazidime-avibactam-containing combination regimens against carbapenem-resistant Enterobacterales and multidrug-resistant Pseudomonas aeruginosa isolates or infections: a scoping review

2023

Journal Article

Scedosporium species and Lomentospora prolificans fungaemia is uniformly fatal in patients with haematological malignancy

Stewart, Adam G., Heney, Claire, Paterson, David L., Harris, Patrick N.A., Edwards, Felicity and Laupland, Kevin B. (2023). Scedosporium species and Lomentospora prolificans fungaemia is uniformly fatal in patients with haematological malignancy. Internal Medicine Journal, 53 (8), 1489-1491. doi: 10.1111/imj.16198

Scedosporium species and Lomentospora prolificans fungaemia is uniformly fatal in patients with haematological malignancy

2023

Journal Article

Higher rates of cefiderocol resistance among NDM producing Klebsiella bloodstream isolates applying EUCAST over CLSI breakpoints

Isler, Burcu, Vatansever, Cansel, Özer, Berna, Çınar, Güle, Aslan, Abdullah Tarık, Falconer, Caitlin, Bauer, Michelle J., Forde, Brian, Şimşek, Funda, Tülek, Necla, Demirkaya, Hamiyet, Menekşe, Şirin, Akalin, Halis, Balkan, İlker İnanç, Aydın, Mehtap, Tigen, Elif Tükenmez, Demir, Safiye Koçulu, Kapmaz, Mahir, Keske, Şiran, Doğan, Özlem, Arabacı, Çiğdem, Yağcı, Serap, Hazırolan, Gülşen, Bakır, Veli Oğuzalp, Gönen, Mehmet, Saltoğlu, Neşe, Azap, Alpay, Azap, Özlem, Akova, Murat ... Harris, Patrick N. A. (2023). Higher rates of cefiderocol resistance among NDM producing Klebsiella bloodstream isolates applying EUCAST over CLSI breakpoints. Infectious Diseases, 55 (9), 607-613. doi: 10.1080/23744235.2023.2226709

Higher rates of cefiderocol resistance among NDM producing Klebsiella bloodstream isolates applying EUCAST over CLSI breakpoints

2023

Journal Article

Non-inferiority trial of a shorter (7 days) compared with a longer (14 days) duration of antimicrobial therapy for the treatment of bacteraemic urinary sepsis, measured by microbiological success after the completion of therapy: a substudy protocol for the Bacteraemia Antibiotic Length Actually Needed for Clinical Effectiveness (BALANCE) multicentre randomised controlled trial

Rogers, Benjamin A., Fowler, Robert, Harris, Patrick N. A., Davis, Joshua S., Pinto, Ruxandra L., Bhatia Dwivedi, Dhiraj, Rishu, Asgar, Shehabi, Yahya and Daneman, Nick (2023). Non-inferiority trial of a shorter (7 days) compared with a longer (14 days) duration of antimicrobial therapy for the treatment of bacteraemic urinary sepsis, measured by microbiological success after the completion of therapy: a substudy protocol for the Bacteraemia Antibiotic Length Actually Needed for Clinical Effectiveness (BALANCE) multicentre randomised controlled trial. BMJ Open, 13 (6) e069708. doi: 10.1136/bmjopen-2022-069708

Non-inferiority trial of a shorter (7 days) compared with a longer (14 days) duration of antimicrobial therapy for the treatment of bacteraemic urinary sepsis, measured by microbiological success after the completion of therapy: a substudy protocol for the Bacteraemia Antibiotic Length Actually Needed for Clinical Effectiveness (BALANCE) multicentre randomised controlled trial

2023

Journal Article

Comparison of low‐level to high‐level disinfection in eliminating microorganisms from ultrasound transducers used on skin : a noninferiority randomized controlled trial

Peters, Nathan, Williamson, Frances, Bauer, Michelle J., Llewellyn, Stacey, Snelling, Peter J., Marsh, Nicole, Harris, Patrick N. A., Stewart, Adam G. and Rickard, Claire M. (2023). Comparison of low‐level to high‐level disinfection in eliminating microorganisms from ultrasound transducers used on skin : a noninferiority randomized controlled trial. Journal of Ultrasound in Medicine, 42 (11), 2525-2534. doi: 10.1002/jum.16286

Comparison of low‐level to high‐level disinfection in eliminating microorganisms from ultrasound transducers used on skin : a noninferiority randomized controlled trial

2023

Journal Article

Using genomics to investigate an outbreak of vancomycin-resistant Enterococcus faecium ST78 at a large tertiary hospital in Queensland

Permana, Budi, Harris, Patrick N. A., Runnegar, Naomi, Lindsay, Margaret, Henderson, Belinda C., Playford, E. G., Paterson, David L., Beatson, Scott A. and Forde, Brian M. (2023). Using genomics to investigate an outbreak of vancomycin-resistant Enterococcus faecium ST78 at a large tertiary hospital in Queensland. Microbiology Spectrum, 11 (3) e0420422, 1-10. doi: 10.1128/spectrum.04204-22

Using genomics to investigate an outbreak of vancomycin-resistant Enterococcus faecium ST78 at a large tertiary hospital in Queensland

Current funding

  • 2025 - 2029
    New diagnostic strategies for antibiotic-resistant infections
    NHMRC Investigator Grants
    Open grant
  • 2024 - 2028
    Unlocking the gut microbiome to track the spread of AMR genes and pathogens
    NHMRC MRFF - Global Health Initiative
    Open grant
  • 2023 - 2026
    New diagnostic strategies for antibiotic-resistant infections
    Queensland Health Clinical Research Fellowships
    Open grant
  • 2023 - 2026
    Accelerating pathogen detection and antibiotic resistance prediction in children with suspected sepsis
    The Children's Hospital Foundation
    Open grant
  • 2023 - 2025
    Development of Wastewater-based epidemiology as a complementary approach for antimicrobial resistance surveillance
    Heidi-CSIRO IDR and AMR Projects
    Open grant
  • 2023 - 2024
    Improving management of fungal infections during blood cancer treatment
    Gilead Australia Fellowship
    Open grant
  • 2018 - 2025
    Investigator Driven Randomized Controlled Trial of Cefiderocol versus Standard Therapy for Healthcare Associated and Hospital Acquired Gram-negative Blood Stream Infection (the GAME CHANGER trial)
    Shionogi & Company, Limited
    Open grant

Past funding

  • 2022 - 2024
    The 3,000 Genomes project: using machine learning and artificial intelligence for robust culture-independent susceptibility testing
    Heidi-CSIRO IDR and AMR Projects
    Open grant
  • 2022 - 2023
    Non-inferiority of low-level (LLD) versus high-level disinfection (HLD) for elimination of bacteria on contaminated ultrasound transducers: A randomised controlled trial (ASUM grant via MNHHS)
    Metro North Hospital and Health Service
    Open grant
  • 2022 - 2024
    Prediction of catheter associated bloodstream infection and hospital-onset sepsis events in critically ill adults
    Heidi-CSIRO IDR and AMR Projects
    Open grant
  • 2021 - 2022
    Improving Diagnosis, Management and Prevention of Invasive Meningococcal Disease
    Metro North Hospital and Health Service
    Open grant
  • 2021 - 2022
    Peripherally inserted central catheter Innovation to reduce Infections and Clots: the PICNIC trial
    NHMRC Project Grant
    Open grant
  • 2020 - 2021
    Assessing the epidemiology and variation of the variable virulence factor BimABM of Burkholderia pseudomallei in Queensland
    European Society of Clinical Microbiology and Infectious Diseases Study Group Research Grant
    Open grant
  • 2020 - 2021
    Assessing the effects of new and old antibiotics on gut microbiota of hospitalized patients
    Avant Mutual Group Limited
    Open grant
  • 2020
    Rapid detection of resistance genes from Gram-negative bacteria isolated from blood in ICU-admitted patients
    Pathology Queensland - Study, Education & Research Trust Fund
    Open grant
  • 2020 - 2021
    Assessing the effects of new and old antibiotics on the gut microbiome of hospitalized patients
    Metro North Hospital and Health Service
    Open grant
  • 2019 - 2022
    A Multicentre, Parallel Group Open-label Randomised Controlled Non-Inferiority Phase 3 Trial, of ceftolozane-tazobactam versus meropenem for definitive treatment [...] MERINO-3
    Merck Sharp & Dohme Australia
    Open grant
  • 2019 - 2021
    Virulence and detection of Escherichia coli that cause neonatal meningitis
    The Children's Hospital Foundation
    Open grant
  • 2019 - 2021
    Rapid point-of-care tests for multidrug resistant bacteria tailored for QLD paediatrics
    The Children's Hospital Foundation
    Open grant
  • 2019 - 2022
    A multifaceted approach to the treatment and prevention of antibiotic-resistant bacterial infections
    NHMRC Early Career Fellowships
    Open grant
  • 2019 - 2023
    Bacteremia Antibiotic Length Actually Needed for Clinical Effectiveness (BALANCE): A Randomized Controlled Clinical Trial (NHMRC Project Grant led by Monash University)
    Monash University
    Open grant
  • 2019 - 2021
    Peripherally inserted central catheter Innovation to reduCe Infections and Clots: the PICNIC trial (NHMRC Project Grant led by Griffith University)
    Griffith University
    Open grant
  • 2019 - 2020
    Rapid detection of resistance genes from gram-negative bacteria isolated from blood in ICU-admitted patients to enable timely and effective treatment
    Metro North Hospital and Health Service
    Open grant
  • 2018 - 2023
    Cluster randomised trial of a multimodal intervention to reduce antimicrobial use in residential aged care facilities
    NHMRC MRFF - Antimicrobial Resistance Targeted Call for Research
    Open grant
  • 2018 - 2019
    Evaluation of cefiderocol (S-649266) against Burkholderia pseudomallei isolates from Queensland, Australia
    Shionogi & Company, Limited
    Open grant
  • 2018
    Rapid characterisation of pathogens for personalised antimicrobial selection in critically ill patients
    Metro North Hospital and Health Service
    Open grant
  • 2017 - 2018
    Pilot Randomised Controlled Trial of Penicillin versus Flucloxacillin for Definitive Treatment of Invasive Penicillin susceptible Staphylococcus aureas
    Metro North Hospital and Health Service
    Open grant
  • 2015
    Pilot randomised controlled trial of meropenem versus piperacillin-tazobactam for the definitive treatment of bloodstream infections caused by AmpC beta-lactamase producing Enterobacter spp, ...
    Royal Brisbane and Women's Hospital
    Open grant

Availability

Dr Patrick Harris is:
Available for supervision

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Supervision history

Current supervision

  • Doctor Philosophy

    Burkholderia pseudomallei: towards rapid diagnosis and management

    Principal Advisor

    Other advisors: Mr Mark Chatfield

  • Doctor Philosophy

    Clinical impact of rapid molecular diagnostics in the diagnosis of bloodstream infections and sepsis

    Principal Advisor

  • Doctor Philosophy

    Novel trial design in evaluation of antibiotics.

    Associate Advisor

    Other advisors: Mr Mark Chatfield

  • Doctor Philosophy

    Randomised controlled trial of ceftolozane-tazobactam vs meropenem for bloodstream infections

    Associate Advisor

    Other advisors: Dr Brian Forde, Mr Mark Chatfield

  • Doctor Philosophy

    Accelerating pathogen detection and antibiotic resistance prediction in children with suspected sepsis.

    Associate Advisor

    Other advisors: Associate Professor Adam Irwin

  • Doctor Philosophy

    Early impact antibiotic therapy for carbapenem resistant organisms, guided by rapid diagnostics

    Associate Advisor

  • Doctor Philosophy

    Clinical and laboratory applications of new and emerging methods of diagnosis of infection

    Associate Advisor

Completed supervision

Enquiries

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