Jair Theodoro Filho’s research while affiliated with Hospital das Clínicas da Faculdade de Medicina da Universidade de São Paulo and other places

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Publications (8)


Histopathological analysis of the cardiovascular system in severe COVID-19
  • Chapter

January 2025

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6 Reads

Amaro Nunes Duarte-Neto

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Imaging Studies of the Stifle Joint in Puma concolor (Linnaeus, 1771)

November 2024

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12 Reads

Although the stifle joint of wild felines shares several characteristics observed in domestic cats, others are specific to each species. This study aimed to evaluate the stifle joints of eight Puma concolor, including two young and six adults, through different imaging examinations. All stifles were assessed using radiographs and computed tomography (CT). Magnetic resonance imaging (MRI) was performed on the stifles of one animal using 7 Tesla equipment. In all imaging modalities, the four sesamoid bones were detected. Meniscal mineralization was identified in the stifles of three adult animals and one young animal. The cruciate ligaments and menisci were identified on CT, with MRI providing better visualization. The mean values of CT measurements (cm2) in the sagittal section included patella (2.475), medial fabella (0.481), lateral fabella (0.772), popliteal sesamoid (0.222), and medial meniscus (0.051). No differences were found in HU values between the central trabecular bone of the patella and popliteal sesamoid, cortical bone of the patella and lateral and medial fabellas, or cortical bone of the patella and popliteal sesamoid. In conclusion, the descriptions of the stifle of Puma concolor in the different imaging methods contribute to understanding the species and can serve as a basis for identifying alterations.



Figure 1. H&E-stained lung biopsies from ultrasound-guided minimally invasive autopsies confirm typical pulmonary histological findings of fatal cases of COVID-19. (A) Exudative diffuse alveolar damage with hyaline membranes (arrows) in the alveolar space, alveolar oedema, and congestion. (B) Mixed pattern of diffuse alveolar damage showing the combination of areas of haemorrhage and thickened alveolar septa with loose collagen deposition. Asterisks show the septal thickening. (C) Proliferative phase of diffuse alveolar damage showing thickened alveolar septa with deposition of collagen, lymphocytic infiltrate, and reactive and proliferative type II pneumocytes during alveolar reepithelization. Circled area shows the lymphocytic infiltrate; arrow points to collagen deposition and arrowheads indicate the proliferation of type II pneumocytes. (D) Secondary suppurative bacterial pneumonia characterized by intra alveolar exudation with macrophages and polymorphonuclear infiltrate, indicated by the asterisks. (E) Pulmonary artery with thrombus, indicated by the asterisk. Scale bar = 100 µm.
Figure 3. Multiplex imaging identifies complex patchworks of parallel histopathological microenvironments as a common feature in fatal COVID-19: Exemplification of the histopathological heterogeneity by combined H&E and multiplex IHC imaging in a single COVID-19 lung biopsy. (A) Low power image from a COVID-19 lung biopsy where the main structural cell markers, neutrophils, and macrophages are highlighted. The other immune cell markers are combined into a blue label to reduce the visual complexity. The marked patchy and compartmentalized histopathological heterogeneity is seen as distinct microenvironments with concomitant exudative DAD areas, localized neutrophilia (PMN), hemorrhage and necrosis (HN), macrophage and fibroblast-rich clusters (MQC), alveolar epithelial hyperplasia (EPH) and fibrotic lung tissue in advanced DAD areas. (B-H) Zoomed-in pairwise images with routine H&E staining (upper panel) and corresponding multiplex IHC image (lower panel). (B) Area with exudative DAD and marked ongoing shedding of the alveolar epithelium (green, arrowheads). (C) Exudative DAD with almost complete denudation of epithelial cells (asterisk) and mild early influx of neutrophils (yellow). (D) Pulmonary blood vessel with focal loss of endothelium. (E) Blood vessel occluded with neutrophils (yellow) and monocytes (red) in an area with alveolar epithelial and vascular disarray. (F) Intermediate DAD with epithelial hyperplasia accompanied by macrophages (red) and fibroblasts (brown; asterisks denote intraluminal fibrosis; arrowheads denote microthrombosis). (G) Neutrophil and hemorrhage space (asterisk) flanked with dense macrophage and fibroblast sheets (bracket). (H) Advanced DAD with epithelial hyperplasia (Hep) and emergence of organized fibroblasts, solitary smooth muscle cells, and myofibroblasts (asterisks). (I-K) High power images exemplifying fibroblasts (I), solitary smooth muscle cells (J), and aSMA + , vimentin + double-positive myofibroblast (K) associated with COVID-19 associated advanced DAD. BV= blood vessel, Alv = alveolar space, Hep = Hyperplastic epithelium. Scale bars: A = 0.6 mm; B-H = 70 µm; I-K = 20 µm.
Figure 4. Formation of heterogeneous and compartmentalized immune cell niches in COVID lungs. (A) Adjusted coefficient of spatial variation across the IHC multiplex markers. Each dot represents the mean coefficient of variation per marker for the hundreds of analyzed pre-defined 1000 £ 1000-pixel lung tissue areas explored per sample. Statistical differences between markers (see p-values in the text) were determined by a non-parametric Dunns test for all pairs with Bonferroni adjustment. (B) Different spatial distribution patterns among immune cell populations. Panels exemplify color-coded weighted spatial density maps for B-lymphocytes, neutrophils, monocytes/macrophages, myeloid DCs, eosinophils, and CD8 T-lymphocytes. The density plots are based on cell x,y coordinates within the same tissue section and display density gradients from low (blue) to high (red). (C-D) Example of AI-based non-supervised identification of spatial immune cell patterns in a single lung section. The analysis was performed by the CytoMAP platform 7 using marker identity and x,y coordinates for individual immune cells. The spatial distribution of regions with identified and color-coded immune cell neighborhoods is shown in C, whereas the corresponding relative immune cell compositions are shown in panel D. (E-H) Corresponding multiplex micrograph images from AI-identified tissue regions are outlined in panel C. (E) Intermediate DAD; (F) marked epithelial hyperplasia and neutrophil infiltration; (G) advanced DAD, (H) region with pigmented macrophages and lymphoid tissue. AP = anthracotic pigment, ECP = the eosinophil marker eosinophil cationic protein, Trypt/ Chym = Mast cell markers, Lang = langerin/CD207 DCs, MPO = neutrophil marker, vim = the fibroblast marker vimentin, Glycoph = red blood cell marker, Cytoker = epithelial marker, SMA smooth muscle actin, vim = the fibroblast marker vimentin, Collag = Collagen 1, AL=alveolar lumen, FT= fibrotic tissue, LT = lymphoid tissue. Scale bars: E and F = 65 µm; G and H = 50 µm.
Figure 5. Decoding of cell marker compositions during DAD progression. (A-C) Zoomed-in micrographs of diffuse alveolar damage (DAD) patterns, as viewed by traditional H&E staining and corresponding multiplex immunohistochemistry. Panels A-C show paired H&E and multiplex images and typical patterns during exudative, intermediate, and advanced DAD, respectively. (D-E) Quantitative data on the density of immune cells (D) and structural cell markers (E) across the DAD patterns. The data are from marker density analysis in 95 multiplex-stained tissue regions of interest (ROIs) that were selected from H&E-stained sections with the criteria of having a uniform and distinct DAD histopathology. Statistical comparisons were determined by a non-parametric KruskalÀWallis test, followed by Bonferroni post-hoc test. (F) Multivariate analysis of individual DAD region marker content and identification of 3 clusters of marker constellations by principal component analysis (PCA) and unsupervised K-mean clustering (Clusters 1-3). Individual ROIs within the PCA-defined clusters are color-coded according to previously H&E-confirmed DAD patterns. (G) Individual ROIs sorted for increasing abundance of the 4 markers that had the most statistical influence on initial cluster identification, again individual ROIs are color-coded according to DAD category. (H) Cell plots with relative marker densities across the identified clusters. Each horizontal line represents one DAD region; with its DAD category color-coding to the right. *p<0¢05 and **p<0¢01.
Number of DEGs in exudative DAD and mixed/advanced
Diffuse alveolar damage patterns reflect the immunological and molecular heterogeneity in fatal COVID-19
  • Article
  • Full-text available

September 2022

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131 Reads

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18 Citations

EBioMedicine

Background Severe COVID-19 lung disease exhibits a high degree of spatial and temporal heterogeneity, with different histological features coexisting within a single individual. It is important to capture the disease complexity to support patient management and treatment strategies. We provide spatially decoded analyses on the immunopathology of diffuse alveolar damage (DAD) patterns and factors that modulate immune and structural changes in fatal COVID-19. Methods We spatially quantified the immune and structural cells in exudative, intermediate, and advanced DAD through multiplex immunohistochemistry in autopsy lung tissue of 18 COVID-19 patients. Cytokine profiling, viral, bacteria, and fungi detection, and transcriptome analyses were performed. Findings Spatial DAD progression was associated with expansion of immune cells, macrophages, CD8+ T cells, fibroblasts, and (lymph)angiogenesis. Viral load correlated positively with exudative DAD and negatively with disease/hospital length. In all cases, enteric bacteria were isolated, and Candida parapsilosis in eight cases. Cytokines correlated mainly with macrophages and CD8+T cells. Pro-coagulation and acute repair were enriched pathways in exudative DAD whereas intermediate/advanced DAD had a molecular profile of elevated humoral and innate immune responses and extracellular matrix production. Interpretation Unraveling the spatial and molecular immunopathology of COVID-19 cases exposes the responses to SARS-CoV-2-induced exudative DAD and subsequent immune-modulatory and remodeling changes in proliferative/advanced DAD that occur side-by-side together with secondary infections in the lungs. These complex features have important implications for disease management and the development of novel treatments. Funding CNPq, Bill and Melinda Gates Foundation, HC-Convida, FAPESP, Regeneron Pharmaceuticals, and the Swedish Heart & Lung Foundation.

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Figure 2. A, Macroscopic view of pulmonary fragment sampled from a late coronavirus disease 2019 case obtained by a small thoracotomy guided by ultrasound image. Red arrows indicate thromboembolic event. B, Microscopic view showing areas of overinflation and disrupted alveolar septa (corresponding to white arrow and red dotted line rectangle marked in A). C, Foci of subpleural condensation with fibrotic bundle deposition and reactive epithelium (corresponding to black arrows and solid red line rectangle marked in A). D, Macroscopic view of a pulmonary thrombus. E, Tricuspid valve leaflet of the same patient showing a valvular thrombus. F, Skin and chest wall incision. G. Instruments used to insert optics and forceps for dissections. H, Segment of the intestines obtained with the dissection technique. Scale bar for microscopic images = 500 µm.
Figure 5. Extrapulmonary histological features of 80 fatal cases of coronavirus disease 2019, autopsied by the ultrasound-guided minimally invasive tissue sampling method. A, Epicarditis and myocarditis related to severe acute respiratory syndrome coronavirus 2 infection. B, Discrete interstitial lymphocytic myocarditis. Scale bar = 100 µm. C, Cerebral vessel exhibiting dilation, with perivascular mononuclear infiltrate, hemosiderin deposition, and tiny fibrin thrombi. Scale bar = 50 µm.
Ultrasound-Guided Minimally Invasive Tissue Sampling: A Minimally Invasive Autopsy Strategy During the COVID-19 Pandemic in Brazil, 2020

December 2021

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62 Reads

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14 Citations

Clinical Infectious Diseases

Background: Minimally invasive autopsies, also known as minimally invasive tissue sampling (MITS), have proven to be an alternative to complete diagnostic autopsies (CDAs) in places or situations where this procedure cannot be performed. During the coronavirus disease 2019 (COVID-19) pandemic, CDAs were suspended by March 2020 in Brazil to reduce biohazard. To contribute to the understanding of COVID-19 pathology, we have conducted ultrasound (US)-guided MITS as a strategy. Methods: This case series study includes 80 autopsies performed in patients with COVID-19 confirmed by laboratorial tests. Different organs were sampled using a standardized MITS protocol. Tissues were submitted to histopathological analysis as well as immunohistochemical and molecular analysis and electron microscopy in selected cases. Results: US-guided MITS proved to be a safe and highly accurate procedure; none of the personnel were infected, and accuracy ranged from 69.1% for kidney, up to 90.1% for lungs, and reaching 98.7% and 97.5% for liver and heart, respectively. US-guided MITS provided a systemic view of the disease, describing the most common pathological findings and identifying viral and other infectious agents using ancillary techniques, and also allowed COVID-19 diagnosis confirmation in 5% of the cases that were negative in premortem and postmortem nasopharyngeal/oropharyngeal swab real-time reverse-transcription polymerase chain reaction. Conclusions: Our data showed that US-guided MITS has the capacity similar to CDA not only to identify but also to characterize emergent diseases.




Figure 1. Ultrasound-guided minimally invasive autopsy (MIA-US) in fatal cases of coronavirus disease 19 (COVID-19). A, Lung ultrasonographic image from a COVID-19 case. The dark lines represent the interference of ribs with the ultrasound waves (dashed line). The pulmonary parenchyma shows different degrees of consolidation, in this case ranging from severe (triangles) up to intense consolidated areas (star), characterised by an uneven echogenic pattern. In this situation, it is possible to orient the sampling to areas showing distinct degrees of pulmonary involvement. B, Ultrasonographic aspect of the liver and kidney and the point of entrance of the Tru-cut needle (white arrow). This image shows that even a retroperitoneal organ can be assessed via the anterior abdominal wall. This increases the safety of MIA-US, as it avoids the dislocation of the body to a lateral position, reducing the contact with a potentially infected body surface. C, Macroscopy of lung biopsy samples. D, Pulmonary tissue samples obtained by MIA-US, showing consolidation and few haemorrhagic areas (arrows, haematoxylin and eosin, low magnification).
Figure 2. Pulmonary histological features of 10 fatal cases of coronavirus disease 19 (COVID-19), autopsied by the use of ultrasound-guided minimally invasive autopsy. A, Exudative diffuse alveolar damage with hyaline membranes in the alveolar space (arrow). B, Proliferative diffuse alveolar damage. C, Squamous metaplasia of the respiratory epithelium. D, Alveolar epithelium with squamous metaplasia. E, Alveolar cells with cytopathic changes, including enlarged cells and multinucleation (arrow and inset). F, Morphological changes in alveolar cells in COVID-19 pneumonia with large single (black arrows) or multinucleated (inset) cells with eosinophilic central nucleoli, resembling cytomegalovirus cytopathic effects. G, A fibrinous thrombus within a septal arteriole (arrow). H, Numerous megakaryocytes within septal vessels are common in COVID-19 pneumonia (arrows and inset). I, Suppurative bronchopneumonia associated with COVID-19 viral pneumonia.
Figure 3. Epithelial markers in pulmonary tissue. A-B, Intense cytopathic effects in thyroid transcription factor-1-positive (B) alveolar cells. C-D, Alveolar squamous metaplasia. The positive p63 staining (D) indicates that the metaplasia is probably the result of bronchiolar basal cell proliferation in response to epithelial insult. E-F, Ki67 expression in alveolar (E) and bronchiolar (F) cells indicates a high index of epithelial cell proliferation.
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Pulmonary and systemic involvement of COVID‐19 assessed by ultrasound‐guided minimally invasive autopsy

May 2020

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776 Reads

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287 Citations

Histopathology

Aims Brazil ranks high in the number of COVID‐19 cases and COVID‐19’s mortality rate. In this context, autopsies are important to confirm the disease, determine associated conditions, and study the pathophysiology of this novel disease. In order to follow biosafety recommendations, we used Ultrasound‐Guided Minimally Invasive Autopsy (MIA‐US) to assess the systemic involvement of COVID‐19 and present the results of ten initial autopsies. Methods and results We used MIA‐US for tissue sampling of lungs, liver, heart, kidneys, spleen, brain, skin, skeletal muscle and testis for histology and RT‐PCR to detect SARS‐COV‐2‐RNA. All patients presented exudative/proliferative Diffuse Alveolar Damage. There were intense pleomorphic cytopathic effects on the respiratory epithelium, including airway and alveolar cells. Fibrinous thrombi in alveolar arterioles were present in eight patients and all patients presented a high density of alveolar megakaryocytes. Small thrombi were less frequently observed in glomeruli, spleen, heart, dermis, testis, and liver sinusoids. The main systemic findings were associated with comorbidities, age, and sepsis, in addition to possible tissue damage due to the viral infection such as myositis, dermatitis, myocarditis and orchitis. Conclusions MIA‐US is safe and effective for the study of severe COVID‐19. Our findings show that COVID‐19 is a systemic disease with major events in the lungs and involvement of various organs and tissues. Pulmonary changes are the result of severe epithelial injury and microthrombotic vascular phenomena. These findings indicate that both epithelial and vascular injury should be addressed in therapeutic approaches.

Citations (5)


... The elevated levels of inflammatory cytokines and alveolar epithelial injury markers suggest progressive alveolar destruction following COVID-19 infection [17]. Immune cells have been implicated in the rapid destruction of alveoli in patients who have died due to COVID-19 [18,19], suggesting that future treatments may target the immune response. ...

Reference:

A Case of Interstitial Pneumonia Leading to Respiratory Failure Several Months After COVID-19 Infection
Diffuse alveolar damage patterns reflect the immunological and molecular heterogeneity in fatal COVID-19

EBioMedicine

... Neto et al and Rakislova et al evaluated MITS in postmortem studies of COVID-19, with the former incorporating the ultrasoundguided approach among a population in Sao Paulo, Brazil, and the latter evaluating diagnostic performance of MITS compared with complete diagnostic autopsy in a population of the Barcelona metropolitan area, Spain. Both studies demonstrated the safety and utility of MITS for the identification and characterization of COVID-19 and potentially for use in both low-and high-resource settings [27,28]. In Zambia, as part of the research response to the COVID-19 outbreak, Mudenda et al pivoted their existing postmortem research to examine the pathophysiology of COVID-19 through pathological changes, one of few postmortem studies of COVID-19 patients conducted in an LMIC [29]. ...

Ultrasound-Guided Minimally Invasive Tissue Sampling: A Minimally Invasive Autopsy Strategy During the COVID-19 Pandemic in Brazil, 2020

Clinical Infectious Diseases

... This could reflect the non-specific symptomology of COVID-19, that persons were dying from sequelae of the hypercoagulable state associated with severe COVID-19-noting cardiac diseases and strokes were the other common causes of death in this study [30], or limitations of VA in assigning an accurate cause of death [31,32]. While VA algorithms for COVID-19 have been developed and performed well at predicting COVID-19 deaths [33], implementation of algorithms with a COVID-19-specific cause of death have been delayed [17]. Our findings indicated that simply relying on a respiratory underlying cause of death from a VA as a surrogate for COVID-19 deaths might underestimate the true burden, demonstrating the value of also measuring all-cause mortality during pandemics [34][35][36]. ...

Rapid Mortality Surveillance of COVID-19 Using Verbal Autopsy

International Journal of Public Health

... COVID-19 is an infection that can cause both pulmonary and systemic inflammation, leading to multi-organ dysfunction in patients at high risk [3]. Those at high risk of developing severe symptoms if infected with this virus include persons with heart or lung disease, people with poor immune systems, and the elderly [4]. ...

Pulmonary and systemic involvement of COVID‐19 assessed by ultrasound‐guided minimally invasive autopsy

Histopathology

... The first MIA in Brazil was performed in São Paulo, in March 2020, 27 and later in the state of Ceará 24 and then in the state of Bahia. 28 ...

Ultrasound-guided minimally invasive autopsies: A protocol for the study of pulmonary and systemic involvement of COVID-19

Clinics