Illuminating COVID-19 lung disease through autopsy studies
Bibliographic record
Abstract
Since the start of the twenty-first century, three zoonotic coronaviruses (CoVs) have caused disease outbreaks in humans. Severe acute respiratory syndrome-CoV (SARS-CoV) emerged in China as a pneumonia outbreak from 2002 to 2003 with a mortality rate of 9.6% and nearly 800 confirmed deaths [[1]Peiris J.S. Yuen K.Y. Osterhaus A.D. Stohr K The severe acute respiratory syndrome.N Engl J Med. 2003; 349: 2431-2441Crossref PubMed Scopus (1010) Google Scholar]. Cases of Middle East respiratory syndrome-CoV (MERS-CoV) first appeared as respiratory disease in Saudi Arabia and Jordan during 2012 and it remains endemic in Saudi Arabia and the Arabian peninsula with an estimated mortality rate of 34.3% and 858 confirmed fatalities [[2]Memish Z.A. Perlman S. Van Kerkhove M.D. Zumla A Middle East respiratory syndrome.Lancet. 2020; 395: 1063-1077Summary Full Text Full Text PDF PubMed Scopus (283) Google Scholar]. While each of these outbreaks caused regional epidemics, they also revealed the potential for a local outbreak to spread globally via air transportation. Remarkably, coronavirus disease 2019 (COVID-19) emerged in Wuhan China in December 2019 and was declared a global pandemic by the World Health Organization (WHO). In just six months, COVID-19 infection has already left a lasting effect across the globe with over 200 affected countries and more than seven million positive cases confirmed by the WHO (www.who.int – accessed June 9, 2020). The cause of COVID-19 was identified as a novel coronavirus now called SARS-CoV-2, a betacoronavirus as are SARS-CoV and MERS-CoV [[3]Coronaviridae Study Group of the International Committee on Taxonomy of VThe species Severe acute respiratory syndrome-related coronavirus: classifying 2019-nCoV and naming it SARS-CoV-2.Nat Microbiol. 2020; 5: 536-544Crossref PubMed Scopus (4665) Google Scholar]. In contrast to SARS-CoV or MERS-CoV, SARS-CoV-2 has a lower estimated case fatality rate of 0.8–1.4%, [[4]Roussel Y. Giraud-Gatineau A. Jimeno M.T. et al.SARS-CoV-2: fear versus data.Int J Antimicrob Agents. 2020; 55105947Crossref PubMed Scopus (49) Google Scholar] but due to its highly efficient transmission between naive individuals and its potential to overwhelm local healthcare facilities, the global death toll attributed to SARS-CoV-2 already exceeds 400,000 (www.who.int – accessed June 9, 2020). Like SARS and MERS, respiratory disease is a common clinical feature of COVID-19; however, observations of involvement by other organ systems and systemic manifestations have complicated our understanding of COVID-19 pathogenesis as well as potential therapeutic options. SARS-CoV-2 uses angiotensin converting enzyme 2 (ACE2) as its cellular receptor, just like SARS-CoV [[5]Zhou P. Yang X.L. Wang X.G. et al.A pneumonia outbreak associated with a new coronavirus of probable bat origin.Nature. 2020; 579: 270-273Crossref PubMed Scopus (13506) Google Scholar]. Surprisingly, the clinical disease caused by these viruses, which share the same receptor, are increasingly recognized as not identical, and thus these differences warrant further study. One of the factors limiting our understanding of COVID-19 has been a lack of published autopsy reports [[6]Pomara C. Li Volti G. Cappello F COVID-19 deaths: are we sure it is pneumonia? Please, autopsy, autopsy, autopsy.J Clin Med. 2020; 9Crossref Scopus (68) Google Scholar]. Autopsy (meaning in Greek: "to see for oneself") is a fundamental element of pathology, a specialized discipline in medicine that studies disease. Pathologists perform autopsies to evaluate tissues for lesions at the macroscopic, microscopic, ultrastructural, and molecular levels. Autopsy is the gold standard for determining how and why deaths happen, and help to clarify pathophysiologic mechanisms underlying clinical disease. For highly contagious and lethal diseases such as COVID-19, biosafety/biosecurity, expertise, technical resources, and cultural practices are some of the potential challenges to safe and effective autopsy performance. Sometimes in these situations, pathologists can only perform a partial autopsy to collect essential organs (e.g. lungs). While these limited autopsies can provide insightful data, COVID-19′s multiorgan to systemic involvement clinically requires a broader picture autopsy to gain a comprehensive view of the disease process. Importantly, study of autopsy reports from multiple institutions and regions are useful to validate commonalities of COVID-19 pathogenesis as well as to distinguish the nonspecific influences of medical therapies, time on ventilator, comorbidities, etc. that can vary between patient, institution, and even stages of the pandemic. In the current issue of EBioMedicine, Wang and colleagues report their investigation of two autopsy cases (a female and a male) from Wuhan China [[7]Wang C. e. al. Alveolar macrophage dysfunction and cytokine storm in the pathogenesis of two severe COVID-19 patients.EBioMedicine. 2020; Summary Full Text Full Text PDF Scopus (235) Google Scholar]. Both patients had terminal pulmonary/circulatory failure and were confirmed SARS-CoV-2 positive by polymerase chain reaction in lung tissues. The lung tissues had classic features of diffuse alveolar damage (DAD) by computed tomography (CT) and histopathology, similar to that previously seen in SARS and MERS outbreaks [[1]Peiris J.S. Yuen K.Y. Osterhaus A.D. Stohr K The severe acute respiratory syndrome.N Engl J Med. 2003; 349: 2431-2441Crossref PubMed Scopus (1010) Google Scholar,[2]Memish Z.A. Perlman S. Van Kerkhove M.D. Zumla A Middle East respiratory syndrome.Lancet. 2020; 395: 1063-1077Summary Full Text Full Text PDF PubMed Scopus (283) Google Scholar]. Additionally, these lung tissues had increased cytokines, macrophages, mucus and desquamated epithelium, with thrombi in vessels. Interestingly, they provide evidence that the SARS-CoV-2 S protein may bind to the surface of macrophages. The field awaits definitive evidence of whether or not this virus enters and completes its replication cycle in alveolar macrophages. These data add an important piece of the puzzle to the understanding of severe COVID-19. For example, animal model studies have suggested that exuberant cytokine responses to respiratory coronaviruses could cause excessive infiltration by inflammatory monocyte-macrophages into the lungs resulting in severe lung pathology such as DAD [[8]Channappanavar R. Fehr A.R. Vijay R. et al.Dysregulated Type I interferon and inflammatory monocyte-macrophage responses cause lethal pneumonia in SARS-CoV-infected mice.Cell Host Microbe. 2016; 19: 181-193Summary Full Text Full Text PDF PubMed Scopus (1057) Google Scholar]. Likewise, Wang, et al. [[7]Wang C. e. al. Alveolar macrophage dysfunction and cytokine storm in the pathogenesis of two severe COVID-19 patients.EBioMedicine. 2020; Summary Full Text Full Text PDF Scopus (235) Google Scholar] showed increased cytokines and macrophages in autopsy lungs. The same authors also detected thrombi in some vessels, supporting recent reports of vascular inflammation and thrombi in other autopsy studies [[9]Ackermann M. Verleden S.E. Kuehnel M. et al.Pulmonary vascular endothelialitis, thrombosis, and angiogenesis in COVID-19.N Engl J Med. 2020; Crossref PubMed Scopus (3552) Google Scholar]. Uniquely, Wang and colleagues show that COVID-19 lungs have airspaces partially filled with mucus and desquamated epithelium; some of these features (e.g. mucus) have not been reported by other much larger autopsy studies suggesting it could be related to other factors such as COVID-19 treatments or pre-existing conditions [[10]Edler C. Schroder A.S. Aepfelbacher M. et al.Dying with SARS-CoV-2 infection-an autopsy study of the first consecutive 80 cases in Hamburg, Germany.Int J Legal Med. 2020; Google Scholar]. Finally, we need to continue to acquire more autopsy reports and compare these in triangulation with investigational animal models and clinical studies to gain a more accurate understanding and description of COVID-19 pathophysiology. Authors declare no competing interests. DKM and PBM acknowledge the support of NIH P01 AI-60699. DKM and PBM wrote the manuscript, revised the final manuscript, and are responsible for summarizing all the data. Alveolar macrophage dysfunction and cytokine storm in the pathogenesis of two severe COVID-19 patientsInfection of alveolar macrophage by SARS-CoV-2 might be drivers of the “cytokine storm”, which might result in damages in pulmonary tissues, heart and lung, and lead to the failure of multiple organs . Full-Text PDF Open Access
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How this classification was reachedexpand
Full frame distilled prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.
Codex and Gemma teacher scores by category
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.000 | 0.006 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.001 | 0.000 |
| Bibliometrics | 0.000 | 0.001 |
| Science and technology studies | 0.000 | 0.001 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.000 | 0.000 |
| Insufficient payload (model declined to judge) | 0.000 | 0.000 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one teacher head, not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".