Ncov Cock Li

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1 Department of Pulmonary and Critical Care Medicine, China-Japan Friendship Hospital, Center of Respiratory Medicine, National Clinical Research Center for Respiratory Diseases, Beijing, China; Institute of Respiratory Medicine, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China.
2 Department of Forensic Medicine, Tongji Medical College of Huazhong University of Science and Technology, Wuhan, China.
3 Wuhan Jinyintan Hospital, Wuhan, China.
4 Department of Basic Medical Sciences, Tsinghua University School of Medicine, Beijing, China.
5 National Institute of Biological Sciences, Beijing, China.
6 Institute Pasteur of Shanghai, Chinese Academy of Sciences, Shanghai, China.
7 Department of Pulmonary and Critical Care Medicine, China-Japan Friendship Hospital, Center of Respiratory Medicine, National Clinical Research Center for Respiratory Diseases, Beijing, China; Institute of Respiratory Medicine, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China. Electronic address: caobin_ben@163.com.
Affiliations
1 Department of Pulmonary and Critical Care Medicine, China-Japan Friendship Hospital, Center of Respiratory Medicine, National Clinical Research Center for Respiratory Diseases, Beijing, China; Institute of Respiratory Medicine, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China.
2 Department of Forensic Medicine, Tongji Medical College of Huazhong University of Science and Technology, Wuhan, China.
3 Wuhan Jinyintan Hospital, Wuhan, China.
4 Department of Basic Medical Sciences, Tsinghua University School of Medicine, Beijing, China.
5 National Institute of Biological Sciences, Beijing, China.
6 Institute Pasteur of Shanghai, Chinese Academy of Sciences, Shanghai, China.
7 Department of Pulmonary and Critical Care Medicine, China-Japan Friendship Hospital, Center of Respiratory Medicine, National Clinical Research Center for Respiratory Diseases, Beijing, China; Institute of Respiratory Medicine, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China. Electronic address: caobin_ben@163.com.
Since the outbreak of coronavirus disease 2019 (COVID-19), clinicians have tried every effort to understand the disease, and a brief portrait of its clinical features have been identified. In clinical practice, we noticed that many severe or critically ill COVID-19 patients developed typical clinical manifestations of shock, including cold extremities and weak peripheral pulses, even in the absence of overt hypotension. Understanding the mechanism of viral sepsis in COVID-19 is warranted for exploring better clinical care for these patients. With evidence collected from autopsy studies on COVID-19 and basic science research on severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and SARS-CoV, we have put forward several hypotheses about SARS-CoV-2 pathogenesis after multiple rounds of discussion among basic science researchers, pathologists, and clinicians working on COVID-19. We hypothesise that a process called viral sepsis is crucial to the disease mechanism of COVID-19. Although these ideas might be proven imperfect or even wrong later, we believe they can provide inputs and guide directions for basic research at this moment.
Copyright © 2020 Elsevier Ltd. All rights reserved.
Occurrence and outcome of severe acute…
Occurrence and outcome of severe acute respiratory syndrome coronavirus 2 viral sepsis
Occurrence and outcome of severe acute respiratory syndrome coronavirus 2 viral sepsis
Dharsandiya M, Shah K, Patel K, Patel T, Patel A, Patel A. Dharsandiya M, et al. Indian J Med Microbiol. 2020 Apr-Jun;38(2):219-221. doi: 10.4103/ijmm.IJMM_20_291. Indian J Med Microbiol. 2020. PMID: 32883938 Free PMC article.
Nevzorov I, Tulamo R, Albäck A, Lassila R. Nevzorov I, et al. J Vasc Surg. 2020 Sep;72(3):1148-1150. doi: 10.1016/j.jvs.2020.05.047. Epub 2020 Jun 1. J Vasc Surg. 2020. PMID: 32497749 Free PMC article. No abstract available.
Maiese A, Passaro G, Matteis A, Fazio V, Raffaele R, Paolo MD. Maiese A, et al. Med Leg J. 2020 Jul;88(2):78-80. doi: 10.1177/0025817220926915. Epub 2020 Jun 3. Med Leg J. 2020. PMID: 32490726
Bordallo B, Bellas M, Cortez AF, Vieira M, Pinheiro M. Bordallo B, et al. Adv Rheumatol. 2020 Sep 22;60(1):50. doi: 10.1186/s42358-020-00151-7. Adv Rheumatol. 2020. PMID: 32962761 Free PMC article.
Colling ME, Kanthi Y. Colling ME, et al. Vasc Med. 2020 Oct;25(5):471-478. doi: 10.1177/1358863X20932640. Epub 2020 Jun 19. Vasc Med. 2020. PMID: 32558620 Free PMC article. Review.
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Shirey KA, Blanco JCG, Vogel SN. Shirey KA, et al. Front Immunol. 2021 Jul 2;12:705080. doi: 10.3389/fimmu.2021.705080. eCollection 2021. Front Immunol. 2021. PMID: 34282358 Free PMC article. Review.
Kritselis M, Yambayev I, Prilutskiy A, Shevtsov A, Vadlamudi C, Zheng H, Elsadwai M, Ma L, Aniskovich E, Kataria Y, Higgins S, Sarita-Reyes C, Zuo T, Zhao Q, Quillen K, Burks EJ. Kritselis M, et al. Hum Pathol. 2021 Jul 14:S0046-8177(21)00122-2. doi: 10.1016/j.humpath.2021.06.008. Online ahead of print. Hum Pathol. 2021. PMID: 34273395 Free PMC article.
Wang W, Li SS, Xu XF, Yang C, Niu XG, Yin SX, Pan XY, Xu W, Hu GD, Wang C, Liu SW. Wang W, et al. Acta Pharmacol Sin. 2021 Jul 15:1-10. doi: 10.1038/s41401-021-00714-4. Online ahead of print. Acta Pharmacol Sin. 2021. PMID: 34267343 Free PMC article.
Hammoudeh SM, Hammoudeh AM, Bhamidimarri PM, Al Safar H, Mahboub B, Künstner A, Busch H, Halwani R, Hamid Q, Rahmani M, Hamoudi R. Hammoudeh SM, et al. Front Immunol. 2021 Jun 28;12:595150. doi: 10.3389/fimmu.2021.595150. eCollection 2021. Front Immunol. 2021. PMID: 34262555 Free PMC article.
Alirezaei S, Vatanchi A, Pourali L, Aminzadeh B, Latifnejad Roudsari R. Alirezaei S, et al. BMC Infect Dis. 2021 Jul 13;21(1):678. doi: 10.1186/s12879-021-06175-8. BMC Infect Dis. 2021. PMID: 34256733 Free PMC article.

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Subject: 1 selected item: 32027035 - PubMed
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Affiliations
1 Hubei Engineering Research Center of Viral Vector, Wuhan University of Bioengineering, Wuhan, China.
2 Department of Spleen and Stomach Diseases, First Affiliated Hospital of Guangxi University of Chinese Medicine, Nanning, China.
3 Department of Science and Technology, Ruikang Hospital Affiliated to Guangxi University of Chinese Medicine, Nanning, China.
4 Immunology Innovation Team, School of Medicine, Ningbo University, Ningbo, China.
5 Precision Cancer Center Airport Center, Tianjin Cancer Hospital Airport Hospital, Tianjin, China.
6 Department of Medicine, University of California San Diego, La Jolla, California.
Xingguang Li et al. J Med Virol. 2020 May.
Affiliations
1 Hubei Engineering Research Center of Viral Vector, Wuhan University of Bioengineering, Wuhan, China.
2 Department of Spleen and Stomach Diseases, First Affiliated Hospital of Guangxi University of Chinese Medicine, Nanning, China.
3 Department of Science and Technology, Ruikang Hospital Affiliated to Guangxi University of Chinese Medicine, Nanning, China.
4 Immunology Innovation Team, School of Medicine, Ningbo University, Ningbo, China.
5 Precision Cancer Center Airport Center, Tianjin Cancer Hospital Airport Hospital, Tianjin, China.
6 Department of Medicine, University of California San Diego, La Jolla, California.
To investigate the time origin, genetic diversity, and transmission dynamics of the recent 2019-nCoV outbreak in China and beyond, a total of 32 genomes of virus strains sampled from China, Thailand, and the USA with sampling dates between 24 December 2019 and 23 January 2020 were analyzed. Phylogenetic, transmission network, and likelihood-mapping analyses of the genome sequences were performed. On the basis of the likelihood-mapping analysis, the increasing tree-like signals (from 0% to 8.2%, 18.2%, and 25.4%) over time may be indicative of increasing genetic diversity of 2019-nCoV in human hosts. We identified three phylogenetic clusters using the Bayesian inference framework and three transmission clusters using transmission network analysis, with only one cluster identified by both methods using the above genome sequences of 2019-nCoV strains. The estimated mean evolutionary rate for 2019-nCoV ranged from 1.7926 × 10-3 to 1.8266 × 10-3 substitutions per site per year. On the basis of our study, undertaking epidemiological investigations and genomic data surveillance could positively impact public health in terms of guiding prevention efforts to reduce 2019-nCOV transmission in real-time.
Keywords: 2019-nCoV; TMRCA; evolutionary rate; phylogenetic cluster; time to most recent common ancestor; transmission cluster.
The authors declare that there are no conflict of interests.
Likelihood‐mapping analyses of 2019‐nCOV. Likelihoods…
Likelihood‐mapping analyses of 2019‐nCOV. Likelihoods of three tree topologies for each possible quartet…
Likelihood‐mapping analyses of 2019‐nCOV. Likelihoods of three tree topologies for each possible quartet (or for a random sample of quartets) are denoted by a data point in an equilateral triangle. The distribution of points in seven areas of triangle reflects tree‐likeness of data. Specifically, three corners represent fully resolved tree topologies; center represents an unresolved (star) phylogeny; and sides represent support for conflicting tree topologies. Results of likelihood‐mapping analyses of four datasets (A, “dataset_14”; B, “dataset_24”; C, “dataset_30”; and D, “dataset_32”) are shown
Estimated maximum‐likelihood phylogenies of 2019‐nCOV.…
Estimated maximum‐likelihood phylogenies of 2019‐nCOV. Colors indicate different sampling locations. The tree is…
Estimated maximum‐likelihood phylogenies of 2019‐nCOV. Colors indicate different sampling locations. The tree is midpoint rooted. Results of maximum‐likelihood phylogenetic analyses of four datasets (A, “dataset_14”; B, “dataset_24”; C, “dataset_30”; and D, “dataset_32”) are shown
Regression of root‐to‐tip genetic distance…
Regression of root‐to‐tip genetic distance against the year of sampling for 2019‐nCOV. Colors…
Regression of root‐to‐tip genetic distance against the year of sampling for 2019‐nCOV. Colors indicate different sampling locations. Gray indicates the linear regression line. Results of linear regression analyses of four datasets (A, “dataset_14”; B, “dataset_24”; C, “dataset_30”; and D, “dataset_32”) are shown
Estimated maximum clade credibility tree…
Estimated maximum clade credibility tree of 2019‐nCOV using constrained evolutionary rate. Colors indicate…
Estimated maximum clade credibility tree of 2019‐nCOV using constrained evolutionary rate. Colors indicate different sampling locations. Nodes are labeled with posterior probability values. Estimated maximum clade credibility tree of four datasets (A, “dataset_14”; B, “dataset_24”; C, “dataset_30”; and D, “dataset_32”) are shown
Estimated maximum clade credibility tree…
Estimated maximum clade credibility tree of 2019‐nCOV using the tip‐dating method. Colors indicate…
Estimated maximum clade credibility tree of 2019‐nCOV using the tip‐dating method. Colors indicate different sampling locations. Nodes are labeled with posterior probability values. Estimated maximum clade credibility tree of four datasets (A, “dataset_30”; and B, “dataset_32”) are shown
Transmission clusters of 2019‐nCOV. Structure…
Transmission clusters of 2019‐nCOV. Structure of inferred 2019‐nCOV transmission clusters from full dataset…
Transmission clusters of 2019‐nCOV. Structure of inferred 2019‐nCOV transmission clusters from full dataset (“dataset_32”) using genetic distances of less than 0.01% and less than 0.001% substitutions/site are illustrated in (A) and (B), respectively. Nodes (circles) represent connected individuals in the overall network, and putative transmission linkages are represented by edges (lines). Nodes are color‐coded by sampling locations
Nie Q, Li X, Chen W, Liu D, Chen Y, Li H, Li D, Tian M, Tan W, Zai J. Nie Q, et al. Virus Res. 2020 Oct 2;287:198098. doi: 10.1016/j.virusres.2020.198098. Epub 2020 Jul 17. Virus Res. 2020. PMID: 32687861 Free PMC article.
Li X, Zai J, Zhao Q, Nie Q, Li Y, Foley BT, Chaillon A. Li X, et al. J Med Virol. 2020 Jun;92(6):602-611. doi: 10.1002/jmv.25731. Epub 2020 Mar 11. J Med Virol. 2020. PMID: 32104911 Free PMC article.
Benvenuto D, Giovanetti M, Salemi M, Prosperi M, De Flora C, Junior Alcantara LC, Angeletti S, Ciccozzi M. Benvenuto D, et al. Pathog Glob Health. 2020 Mar;114(2):64-67. doi: 10.1080/20477724.2020.1725339. Epub 2020 Feb 12. Pathog Glob Health. 2020. PMID: 32048560 Free PMC article.
Lvov DK, Alkhovsky SV, Kolobukhina LV, Burtseva EI. Lvov DK, et al. Vopr Virusol. 2020;65(1):6-15. doi: 10.36233/0507-4088-2020-65-1-6-15. Vopr Virusol. 2020. PMID: 32496715 Review. Russian.
Yang C, Ma QY, Zheng YH, Yang YX. Yang C, et al. Zhonghua Yu Fang Yi Xue Za Zhi. 2020 Apr 6;54(4):374-377. doi: 10.3760/cma.j.cn112150-20200216-0016. Zhonghua Yu Fang Yi Xue Za Zhi. 2020. PMID: 32268644 Review. Chinese.
Khateeb J, Li Y, Zhang H. Khateeb J, et al. Crit Care. 2021 Jul 12;25(1):244. doi: 10.1186/s13054-021-03662-x. Crit Care. 2021. PMID: 34253247 Free PMC article. Review.
Grimaudo S, Amodio E, Pipitone RM, Maida CM, Pizzo S, Prestileo T, Tramuto F, Sardina D, Vitale F, Casuccio A, Craxì A. Grimaudo S, et al. Front Cell Dev Biol. 2021 Jun 23;9:627914. doi: 10.3389/fcell.2021.627914. eCollection 2021. Front Cell Dev Biol. 2021. PMID: 34249902 Free PMC article.
Díaz-Vélez C, Urrunaga-Pastor D, Romero-Cerdán A, Peña-Sánchez ER, Fernández Mogollon JL, Cossio Chafloque JD, Marreros Ascoy GC, Benites-Zapata VA. Díaz-Vélez C, et al. F1000Res. 2021 Mar 19;10:224. doi: 10.12688/f1000research.51474.1. eCollection 2021. F1000Res. 2021. PMID: 34211701 Free PMC article.
Feng T, Sun H, Zhang H, Sun M, Wang Y, Sun C, Li K, Wang Y, Chai R, Zheng P, Chen Y, Pan P, Bi C, Zhang Y, Yao Y, Liu S. Feng T, et al. Medicine (Baltimore). 2021 Jul 2;100(26):e26298. doi: 10.1097/MD.0000000000026298. Medicine (Baltimore). 2021. PMID: 34190148 Free PMC article.
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