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Article ; Online: Reply to Pati et al.

Pérez-García, Felipe / Martín-Vicente, María / Bermejo-Martín, Jesús F / Resino, Salvador / Martínez, Isidoro

2022 Volume 225, Issue 10, Page(s) 1866–1868

MeSH term(s)	COVID-19 ; Chemokine CCL5 ; Humans ; Research ; SARS-CoV-2
Chemical Substances	CCL5 protein, human ; Chemokine CCL5
Language	English
Publishing date	2022-01-27
Publishing country	United States
Document type	Editorial ; Research Support, Non-U.S. Gov't ; Comment
ZDB-ID	3019-3
ISSN	1537-6613 ; 0022-1899
ISSN (online)	1537-6613
ISSN	0022-1899
DOI	10.1093/infdis/jiac027
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Article ; Online: Prime-time for clinical use of transcriptomics for differentiating viral from bacterial respiratory infection.

de la Fuente, Amanda / García-Mateo, Nadia / Bermejo-Martin, Jesús F

European journal of clinical investigation

2023 Volume 53, Issue 5, Page(s) e13967

MeSH term(s)	Humans ; Transcriptome ; Bacterial Infections/diagnosis ; Bacterial Infections/genetics ; Bacterial Infections/microbiology ; Respiratory Tract Infections/diagnosis ; Respiratory Tract Infections/genetics
Language	English
Publishing date	2023-02-21
Publishing country	England
Document type	Editorial ; Comment
ZDB-ID	186196-7
ISSN	1365-2362 ; 0014-2972 ; 0960-135X
ISSN (online)	1365-2362
ISSN	0014-2972 ; 0960-135X
DOI	10.1111/eci.13967
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Zs.A 677: Show issues

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Article ; Online: Quantification of bacterial DNA in blood using droplet digital PCR: a pilot study.

Tedim, Ana P / Merino, Irene / Ortega, Alicia / Domínguez-Gil, Marta / Eiros, José Maria / Bermejo-Martín, Jesús F

Diagnostic microbiology and infectious disease

2023 Volume 108, Issue 1, Page(s) 116075

Abstract: We used droplet digital PCR (ddPCR) assays to detect/quantify DNA from Escherichia coli, Klebsiella pneumoniae, Staphylococcus aureus, and Enterococcus spp. in blood samples. Bacterial DNA from clinical strains (4 < n < 12) was extracted, quantified and ... ...

Abstract	We used droplet digital PCR (ddPCR) assays to detect/quantify DNA from Escherichia coli, Klebsiella pneumoniae, Staphylococcus aureus, and Enterococcus spp. in blood samples. Bacterial DNA from clinical strains (4 < n < 12) was extracted, quantified and diluted (10-0.0001 ng/µL) and ddPCR assays were performed in triplicate. These ddPCR assays showed low replication variability, low detection limit (1-0.1 pg/µL), and genus/species specificity. ddPCR assays were also used to quantify bacterial DNA obtained from spiked blood (1 × 10
MeSH term(s)	Humans ; DNA, Bacterial/genetics ; Pilot Projects ; Polymerase Chain Reaction/methods ; Escherichia coli/genetics ; Staphylococcus aureus/genetics ; Sepsis
Chemical Substances	DNA, Bacterial
Language	English
Publishing date	2023-09-04
Publishing country	United States
Document type	Journal Article
ZDB-ID	604920-5
ISSN	1879-0070 ; 0732-8893
ISSN (online)	1879-0070
ISSN	0732-8893
DOI	10.1016/j.diagmicrobio.2023.116075
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Article ; Online: Tolerance versus resistance to infection in sepsis - Authors' reply.

Rubio, Ignacio / Bermejo-Martin, Jesus F

The Lancet. Infectious diseases

2020 Volume 20, Issue 3, Page(s) 281–282

MeSH term(s)	Humans ; Immune Tolerance ; Sepsis ; Translational Medical Research
Language	English
Publishing date	2020-03-19
Publishing country	United States
Document type	Letter ; Comment
ZDB-ID	2061641-7
ISSN	1474-4457 ; 1473-3099
ISSN (online)	1474-4457
ISSN	1473-3099
DOI	10.1016/S1473-3099(20)30062-1
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Article ; Online: Digital PCR applications for the diagnosis and management of infection in critical care medicine.

Merino, Irene / de la Fuente, Amanda / Domínguez-Gil, Marta / Eiros, José María / Tedim, Ana P / Bermejo-Martín, Jesús F

Critical care (London, England)

2022 Volume 26, Issue 1, Page(s) 63

Abstract: Infection (either community acquired or nosocomial) is a major cause of morbidity and mortality in critical care medicine. Sepsis is present in up to 30% of all ICU patients. A large fraction of sepsis cases is driven by severe community acquired ... ...

Abstract	Infection (either community acquired or nosocomial) is a major cause of morbidity and mortality in critical care medicine. Sepsis is present in up to 30% of all ICU patients. A large fraction of sepsis cases is driven by severe community acquired pneumonia (sCAP), which incidence has dramatically increased during COVID-19 pandemics. A frequent complication of ICU patients is ventilator associated pneumonia (VAP), which affects 10-25% of all ventilated patients, and bloodstream infections (BSIs), affecting about 10% of patients. Management of these severe infections poses several challenges, including early diagnosis, severity stratification, prognosis assessment or treatment guidance. Digital PCR (dPCR) is a next-generation PCR method that offers a number of technical advantages to face these challenges: it is less affected than real time PCR by the presence of PCR inhibitors leading to higher sensitivity. In addition, dPCR offers high reproducibility, and provides absolute quantification without the need for a standard curve. In this article we reviewed the existing evidence on the applications of dPCR to the management of infection in critical care medicine. We included thirty-two articles involving critically ill patients. Twenty-three articles focused on the amplification of microbial genes: (1) four articles approached bacterial identification in blood or plasma; (2) one article used dPCR for fungal identification in blood; (3) another article focused on bacterial and fungal identification in other clinical samples; (4) three articles used dPCR for viral identification; (5) twelve articles quantified microbial burden by dPCR to assess severity, prognosis and treatment guidance; (6) two articles used dPCR to determine microbial ecology in ICU patients. The remaining nine articles used dPCR to profile host responses to infection, two of them for severity stratification in sepsis, four focused to improve diagnosis of this disease, one for detecting sCAP, one for detecting VAP, and finally one aimed to predict progression of COVID-19. This review evidences the potential of dPCR as a useful tool that could contribute to improve the detection and clinical management of infection in critical care medicine.
MeSH term(s)	COVID-19/diagnosis ; Critical Care ; Humans ; Real-Time Polymerase Chain Reaction/methods ; Reproducibility of Results
Language	English
Publishing date	2022-03-21
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	2041406-7
ISSN	1466-609X ; 1364-8535
ISSN (online)	1466-609X
ISSN	1364-8535
DOI	10.1186/s13054-022-03948-8
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Zs.A 5517: Show issues

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Article ; Online: Transcriptomics reveals shared immunosuppressive landscapes in ventilator-associated lower respiratory tract infections (VA-LRTI) patients.

Martin-Loeches, Ignacio / Sganzerla Martinez, Gustavo / Garduno, Alexis / Cusack, Rachel / Andaluz-Ojeda, David / Lopez-Campos, Guillermo / Kelvin, David / Ramirez, Paula / Lomas Lorenzo, Luis Tamayo / Socias Crespi, Lorenzo / Bermejo-Martín, Jesús F

Expert review of anti-infective therapy

2023 Volume 21, Issue 10, Page(s) 1135–1141

Abstract: Background: Ventilator-associated pneumonia (VAP) represents a transitory status of immunoparalysis, and we hypothesized that ventilator-associated tracheobronchitis (VAT) could share also some degree of immune response to a respiratory infection.: ... ...

Abstract	Background: Ventilator-associated pneumonia (VAP) represents a transitory status of immunoparalysis, and we hypothesized that ventilator-associated tracheobronchitis (VAT) could share also some degree of immune response to a respiratory infection. Research design and methods: A prospective observational study in five medical ICUs to evaluate immunological alterations of patients with VA-LRTI. Immunological gene expression profiles in the blood using whole transcriptome microarrays in the first 24 hours following diagnosis. The area under the receiver operating characteristic curve (AUROC) was used to assess the accuracy of mRNA levels to differentiate VA-LRTI and lack of infection. A principal component analysis (PCA) was employed for analyzing the impact of each genetic expression footprint variable in explaining the variance of the cohort. Results: There was overlapping between the three classes of patients encompassing gene expression levels of 8 genes (i.e. HLA, IL2RA, CD40LG, ICOS, CCR7, CD1C, CD3E). HLA-DRA was equally low among VAT and VAP patients characterizing immune depression, and significantly lower than the control group. Conclusions: Our findings suggest that VAP and VAT are not so different regarding gene expression levels suggesting a degree of immunosuppression. Our results indicate a state of immunoparalysis in respiratory infections in critically ill patients.
MeSH term(s)	Humans ; Transcriptome ; Respiratory Tract Infections/complications ; Pneumonia, Ventilator-Associated/diagnosis ; Bronchitis/complications ; Bronchitis/diagnosis ; Tracheitis/complications ; Tracheitis/diagnosis ; Ventilators, Mechanical ; Immunosuppressive Agents ; Respiration, Artificial
Chemical Substances	Immunosuppressive Agents
Language	English
Publishing date	2023-09-11
Publishing country	England
Document type	Observational Study ; Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2181279-2
ISSN	1744-8336 ; 1478-7210
ISSN (online)	1744-8336
ISSN	1478-7210
DOI	10.1080/14787210.2023.2256979
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Article ; Online: As COVID-19 cases, deaths and fatality rates surge in Italy, underlying causes require investigation.

Rubino, Salvatore / Kelvin, Nikki / Bermejo-Martin, Jesús F / Kelvin, David

Journal of infection in developing countries

2020 Volume 14, Issue 3, Page(s) 265–267

Abstract: COVID-19 case fatalities surged during the month of March 2020 in Italy, reaching over 10,000 by 28 March 2020. This number exceeds the number of fatalities in China (3,301) recorded from January to March, even though the number of diagnosed cases was ... ...

Abstract	COVID-19 case fatalities surged during the month of March 2020 in Italy, reaching over 10,000 by 28 March 2020. This number exceeds the number of fatalities in China (3,301) recorded from January to March, even though the number of diagnosed cases was similar (85,000 Italy vs. 80,000 China). Case Fatality Rates (CFR) could be somewhat unreliable because the estimation of total case numbers is limited by several factors, including insufficient testing and limitations in test kits and materials, such as NP swabs and PPE for testers. Sero prevalence of SARS-CoV-2 antibodies may help in more accurate estimations of the total number of cases. Nevertheless, the disparity in the differences in the total number of fatalities between Italy and China suggests investigation into several factors, such as demographics, sociological interactions, availability of medical equipment (ICU beds and PPE), variants in immune proteins (e.g., HLA, IFNs), past immunity to related CoVs, and mutations in SARS-CoV-2, could impact survival of severe COVID-19 illness survival and the number of case fatalities.
MeSH term(s)	Adaptive Immunity ; Antibodies, Viral ; Betacoronavirus/immunology ; Betacoronavirus/pathogenicity ; COVID-19 ; COVID-19 Testing ; China/epidemiology ; Clinical Laboratory Techniques ; Coronavirus Infections/diagnosis ; Coronavirus Infections/mortality ; Epidemiological Monitoring ; Health Services Accessibility ; Humans ; Italy/epidemiology ; Mortality ; Pandemics ; Pneumonia, Viral/diagnosis ; Pneumonia, Viral/mortality ; Reproducibility of Results ; SARS-CoV-2 ; Seroepidemiologic Studies
Chemical Substances	Antibodies, Viral
Keywords	covid19
Language	English
Publishing date	2020-03-31
Publishing country	Italy
Document type	Journal Article
ZDB-ID	2394024-4
ISSN	1972-2680 ; 2036-6590
ISSN (online)	1972-2680
ISSN	2036-6590
DOI	10.3855/jidc.12734
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Article ; Online: New Organ Failure as an Alternative Endpoint to Develop Diagnostic Criteria for Sepsis.

Bermejo-Martin, Jesus F / Almansa, Raquel / Yebenes, Juan Carlos

Chest

2018 Volume 153, Issue 5, Page(s) 1278

MeSH term(s)	Humans ; Organ Dysfunction Scores ; Sepsis ; Systemic Inflammatory Response Syndrome
Language	English
Publishing date	2018-05-05
Publishing country	United States
Document type	Letter ; Comment
ZDB-ID	1032552-9
ISSN	1931-3543 ; 0012-3692
ISSN (online)	1931-3543
ISSN	0012-3692
DOI	10.1016/j.chest.2017.11.046
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Article: Relationship between the structure, function and endothelial damage, and vascular ageing and the biopsychological situation in adults diagnosed with persistent COVID (BioICOPER study). A research protocol of a cross-sectional study.

Gómez-Sánchez, Leticia / Tamayo-Morales, Olaya / Suárez-Moreno, Nuria / Bermejo-Martín, Jesus F / Domínguez-Martín, Andrea / Martín-Oterino, José A / Martín-González, José I / González-Calle, David / García-García, Ángel / Lugones-Sánchez, Cristina / González-Sánchez, Susana / Jiménez-Gómez, Raquel / García-Ortiz, Luis / Gómez-Marcos, Manuel A / Navarro-Matías, Elena

Frontiers in physiology

2023 Volume 14, Page(s) 1236430

Abstract: Background: ...

Abstract	Background:
Language	English
Publishing date	2023-09-12
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2564217-0
ISSN	1664-042X
ISSN	1664-042X
DOI	10.3389/fphys.2023.1236430
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Article ; Online: Synergistic impact of N-antigenemia profiled by a rapid antigen test and low anti-S1 antibodies on the risk of hospitalization in COVID-19.

de la Fuente, Amanda / Postigo, Tamara / Sanus Ferri, Francisco / Domínguez-Gil, Marta / Álvarez-Manzanares, Jesús / Eiros, Jose María / Carbajosa Rodríguez, Virginia / Sanchez Ramon, Susana / Ortega, Alicia / Fadrique Millán, Laura N / Vaquero-Roncero, Luis Mario / Esteban-Velasco, Carmen / Navarro-Matías, Elena / Barbé, Ferran / Bermejo-Martin, Jesús F / Lopez-Izquierdo, Raul

International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases

2024 Volume 140, Page(s) 132–135

Abstract: Objectives: Identifying patients with COVID-19 who are at risk of poor evolution is key to early decide on their hospitalization. We evaluated the combined impact of nucleocapsid (N)-antigenemia profiled by a rapid test and antibodies against the S1 ... ...

Abstract	Objectives: Identifying patients with COVID-19 who are at risk of poor evolution is key to early decide on their hospitalization. We evaluated the combined impact of nucleocapsid (N)-antigenemia profiled by a rapid test and antibodies against the S1 subunit of the SARS-CoV S protein (S1) on the hospitalization risk of patients with COVID-19. Methods: N-antigenemia and anti-S1 antibodies were profiled at admission to the emergency department in 146 patients with COVID-19 using the Panbio® antigen Rapid Test and the SARS-CoV-2 immunoglobulin G II Quant/SARS-CoV-2 immunoglobulin G assay from Abbott. A multivariable analysis was used to evaluate the impact of these factors on hospitalization. Results: Patients with a positive N-antigen test in plasma and anti-S1 levels <2821 arbitrary units/mL needed hospitalization more frequently (20 of 23, 87%). A total of 20 of 71 (28.2%) of those showing a negative N-antigen test and anti-S1 ≥2821 arbitrary units/mL were hospitalized for 18 of 52 (34.6%) of the patients with only one of these conditions. Patients with a positive N-antigen test and low antibody levels showed an odds ratio, 95% confidence interval, and P-value for hospitalization of 18.21, 2.74-121.18, and 0.003, respectively, and exhibited the highest mortality (30.4%). Conclusions: Simultaneous profiling of a rapid N-antigen test in plasma and anti-S1 levels could help to early identify patients with COVID-19 needing hospitalization.
MeSH term(s)	Humans ; COVID-19/diagnosis ; SARS-CoV-2 ; Antibodies, Viral ; Immunoglobulin G ; Hospitalization
Chemical Substances	Antibodies, Viral ; Immunoglobulin G
Language	English
Publishing date	2024-02-02
Publishing country	Canada
Document type	Journal Article
ZDB-ID	1331197-9
ISSN	1878-3511 ; 1201-9712
ISSN (online)	1878-3511
ISSN	1201-9712
DOI	10.1016/j.ijid.2024.01.018
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