Origins of SARS-CoV-1 and SARS-CoV-2 are often poorly explored in leading publications

被引:12
作者
Wenzel, John [1 ]
机构
[1] Carnegie Museum Nat Hist, Powdermill Nat Reserve, 1795 Route 381, Pittsburgh, PA 15677 USA
关键词
EVOLUTION; CORONAVIRUS;
D O I
10.1111/cla.12425
中图分类号
Q [生物科学];
学科分类号
07 ; 0710 ; 09 ;
摘要
In the rush to understand the coronaviruses that threaten human health, authors of many prominent papers have not performed phylogenetic analyses to the standard of the field today. Errors include faulty placement of the root of the phylogeny, outdated methods of reconstruction, poor taxon sampling, inappropriate emphasis on selected functional elements, and inadequate consideration of ambiguity. As a result, certain conclusions regarding the origin of human infections are not supported soundly or are wrong.
引用
收藏
页码:374 / 379
页数:6
相关论文
共 20 条
  • [1] The proximal origin of SARS-CoV-2
    Andersen, Kristian G.
    Rambaut, Andrew
    Lipkin, W. Ian
    Holmes, Edward C.
    Garry, Robert F.
    [J]. NATURE MEDICINE, 2020, 26 (04) : 450 - 452
  • [2] Phylogenetic network analysis of SARS-CoV-2 genomes
    Forster, Peter
    Forster, Lucy
    Renfrew, Colin
    Forster, Michael
    [J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2020, 117 (17) : 9241 - 9243
  • [3] Grant T., 2003, Cladistics, V19, P275
  • [4] Isolation and characterization of viruses related to the SARS coronavirus from animals in Southern China
    Guan, Y
    Zheng, BJ
    He, YQ
    Liu, XL
    Zhuang, ZX
    Cheung, CL
    Luo, SW
    Li, PH
    Zhang, LJ
    Guan, YJ
    Butt, KM
    Wong, KL
    Chan, KW
    Lim, W
    Shortridge, KF
    Yuen, KY
    Peiris, JSM
    Poon, LLM
    [J]. SCIENCE, 2003, 302 (5643) : 276 - 278
  • [5] Discovery of a rich gene pool of bat SARS-related coronaviruses provides new insights into the origin of SARS coronavirus
    Hu, Ben
    Zeng, Lei-Ping
    Yang, Xing-Lou
    Ge, Xing-Yi
    Zhang, Wei
    Li, Bei
    Xie, Jia-Zheng
    Shen, Xu-Rui
    Zhang, Yun-Zhi
    Wang, Ning
    Luo, Dong-Sheng
    Zheng, Xiao-Shuang
    Wang, Mei-Niang
    Daszak, Peter
    Wang, Lin-Fa
    Cui, Jie
    Shi, Zheng-Li
    [J]. PLOS PATHOGENS, 2017, 13 (11)
  • [6] Evolution of genomes, host shifts and the geographic spread of SARS-CoV and related coronaviruses
    Janies, Daniel
    Habib, Farhat
    Alexandrov, Boyan
    Hill, Andrew
    Pol, Diego
    [J]. CLADISTICS, 2008, 24 (02) : 111 - 130
  • [7] Phylogenetic Concepts and Tools Applied to Epidemiologic Investigations of Infectious Diseases
    Janies, Daniel
    [J]. MICROBIOLOGY SPECTRUM, 2019, 7 (04):
  • [8] Identifying SARS-CoV-2-related coronaviruses in Malayan pangolins
    Lam, Tommy Tsan-Yuk
    Jia, Na
    Zhang, Ya-Wei
    Shum, Marcus Ho-Hin
    Jiang, Jia-Fu
    Zhu, Hua-Chen
    Tong, Yi-Gang
    Shi, Yong-Xia
    Ni, Xue-Bing
    Liao, Yun-Shi
    Li, Wen-Juan
    Jiang, Bao-Gui
    Wei, Wei
    Yuan, Ting-Ting
    Zheng, Kui
    Cui, Xiao-Ming
    Li, Jie
    Pei, Guang-Qian
    Qiang, Xin
    Cheung, William Yiu-Man
    Li, Lian-Feng
    Sun, Fang-Fang
    Qin, Si
    Huang, Ji-Cheng
    Leung, Gabriel M.
    Holmes, Edward C.
    Hu, Yan-Ling
    Guan, Yi
    Cao, Wu-Chun
    [J]. NATURE, 2020, 583 (7815) : 282 - +
  • [9] Evolutionary history, potential intermediate animal host, and cross-species analyses of SARS-CoV-2
    Li, Xingguang
    Zai, Junjie
    Zhao, Qiang
    Nie, Qing
    Li, Yi
    Foley, Brian T.
    Chaillon, Antoine
    [J]. JOURNAL OF MEDICAL VIROLOGY, 2020, 92 (06) : 602 - 611
  • [10] Sampling bias and incorrect rooting make phylogenetic network tracing of SARS-COV-2 infections unreliable
    Mavian, Carla
    Pond, Sergei Kosakovsky
    Marini, Simone
    Magalis, Brittany Rife
    Vandamme, Anne-Mieke
    Dellicour, Simon
    Scarpino, Samuel V.
    Houldcroft, Charlotte
    Villabona-Arenas, Julian
    Paisie, Taylor K.
    Trovao, Nidia S.
    Boucher, Christina
    Zhang, Yun
    Scheuermann, Richard H.
    Gascuel, Olivier
    Lam, Tommy Tsan-Yuk
    Suchard, Marc A.
    Abecasis, Ana
    Wilkinson, Eduan
    de Oliveira, Tulio
    Bento, Ana I.
    Schmidt, Heiko A.
    Martin, Darren
    Hadfield, James
    Faria, Nuno
    Grubaugh, Nathan D.
    Neher, Richard A.
    Baele, Guy
    Lemey, Philippe
    Stadler, Tanja
    Albert, Jan
    Crandall, Keith A.
    Leitner, Thomas
    Stamatakis, Alexandros
    Prosperi, Mattia
    Salemi, Marco
    [J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2020, 117 (23) : 12522 - 12523