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F r o m W i k i p e d i a , t h e f r e e e n c y c l o p e d i a
Close relative of SARS-CoV-2 discovered in 2013
Virus
Riboviria
Orthornavirae
Pisuviricota
Pisoniviricetes
Nidovirales
Coronaviridae
Betacoronavirus
Sarbecovirus
Bat coronavirus RaTG13 is a SARS-like betacoronavirus identified in the droppings of the horseshoe bat Rhinolophus affinis [2] [3] Mojiang county in Yunnan , China .[4] [5] SARS-CoV-2 , the virus that causes COVID-19 , sharing 96.1% nucleotide identity .[6] [7] Feuang , Laos, designated as BANAL-52 (96.8% identity), BANAL-103 and BANAL-236 .[8] [9] [10]
History
In the spring of 2012, three miners cleaning bat feces in an abandoned copper mine near the town of Tongguan in Mojiang Hani Autonomous County developed fatal pneumonia .[11] [12] Wuhan Institute of Virology and tested by Shi Zhengli and her group for Ebola virus , Nipah virus , and bat SARSr-CoV Rp3. The samples tested negative.[3] [13] [11]
To uncover a possible cause of the infection, different animals (including bats, rats, and musk shrews ) were also sampled in and around the mining cave. Between 2012 and 2015, Shi Zhengli and her group isolated 293 different coronaviruses (284 alpha- and 9 beta-coronaviruses ) from bat feces samples in the cave. One of the samples collected in 2013 from Rhinolophus affinis [3] [13]
In 2020, Shi and her group retested the serum samples from the miners for SARS-CoV-2. The samples tested negative.[3]
In 2020, the strain identified in the sample was renamed from the original Ra4991 (4991st sample collected from Rhinolophus affinis ) to "RaTG13", to reflect the originating bat species (Ra from Rhinolophus affinis ), geographic location (TG from Tongguan), and year collected (13 from 2013).[14] lab leak theory for the COVID-19 pandemic .[14]
Virology
The sequence of RaTG13 was reconstructed from metagenomic sampling (a common practice in environmental virology),[15] in-silico chimera .[16] [12] [16] [16]
Based on its sequence, RaTG13 is a positive-strand RNA virus with an outer membrane. Its genome is approximately 29,800 nucleotides. The genome encodes a replicase (ORF1a/1b) and four structural proteins; including a spike protein (S ), membrane protein (M ), envelope protein (E ) and nucleocapsid protein (N ); and five viral accessory proteins , including ORF3a (NS3), ORF6 (NS6), ORF7a (NS7a), ORF7b (NS7b) and ORF8 (NS8).[3] [17]
RaTG13 bears strong resemblance to the SARS-CoV-2 genome (it shares 96.1% nucleotide similarity), and its identification in animal droppings is a supporting piece of evidence for SARS-CoV-2's natural origin.[7] S ), which is the portion that binds to the receptor protein on the surface of the host cell and causes infection. The divergence in this domain indicates that, unlike SARS-CoV-2, the RaTG13 virus might not use angiotensin-converting enzyme 2 (ACE2) as its entry site into the cell.[18] furin cleavage motif RRAR↓S.[18]
The binding affinity between RATG13 and hACE2 is lower than that between SARS-CoV-2 RBD and hACE2.[19]
Phylogenetics
Phylogenetic tree
A phylogenetic tree based on whole-genome sequences of SARS-CoV-2 and related coronaviruses is:[20] [21]
SARS‑CoV‑2 related coronavirus
Bat SL-ZC45 , 88% to SARS-CoV-2, Rhinolophus pusillus , Zhoushan, Zhejiang[23]
Pangolin SARSr-CoV-GD, 90.1% to SARS-CoV-2, Manis javanica , smuggled from Southeast Asia[25]
Bat RshSTT200, 92.6% to SARS-CoV-2, Rhinolophus shameli , Steung Treng, Cambodia[26]
(Bat) RmYN02 , 93.3% to SARS-CoV-2, Rhinolophus malayanus Mengla , Yunnan [27]
(Bat) RpYN06 , 94.4% to SARS-CoV-2, Rhinolophus pusillus , Xishuangbanna , Yunnan[20]
(Bat) BANAL-52 , 96.8% to SARS-CoV-2, Rhinolophus malayanus Vientiane , Laos[29]
SARS-CoV-2
SARS-CoV-1 , 79% to SARS-CoV-2
See also
References
^ a b c d e Zhou P, Yang XL, Wang XG, Hu B, Zhang L, Zhang W, et al. (December 2020). "Addendum: A pneumonia outbreak associated with a new coronavirus of probable bat origin" . Nature . 588 (7836): E6. Bibcode :2020Natur.588E...6Z . doi :10.1038/s41586-020-2951-z PMC 9744119 PMID 33199918 .
^ Zhou P, Yang XL, Wang XG, Hu B, Zhang L, Zhang W, et al. (December 2020). "Addendum: A pneumonia outbreak associated with a new coronavirus of probable bat origin" . Nature . 588 (7836): E6. Bibcode :2020Natur.588E...6Z . doi :10.1038/s41586-020-2951-z . PMC 9744119 PMID 33199918 .
^ Zhou P, Yang XL, Wang XG, Hu B, Zhang L, Zhang W, et al. (March 2020). "A pneumonia outbreak associated with a new coronavirus of probable bat origin" . Nature . 579 (7798): 270–273. Bibcode :2020Natur.579..270Z . doi :10.1038/s41586-020-2012-7 . PMC 7095418 PMID 32015507 .
^ Poudel U, Subedi D, Pantha S, Dhakal S (October 2020). "Animal coronaviruses and coronavirus disease 2019: Lesson for One Health approach" . Open Veterinary Journal . 10 3 ): 239–251. doi :10.4314/ovj.v10i3.1 PMC 7703617 PMID 33282694 .
^ a b Hakim MS (November 2021). "SARS-CoV-2, Covid-19, and the debunking of conspiracy theories" . Reviews in Medical Virology (Review). 31 6 ): e2222. doi :10.1002/rmv.2222 PMC 7995093 PMID 33586302 .
^ Temmam S, Vongphayloth K, Baquero E, Munier S, Bonomi M, Regnault B, et al. (April 2022). "Bat coronaviruses related to SARS-CoV-2 and infectious for human cells" . Nature . 604 (7905): 330–336. Bibcode :2022Natur.604..330T . doi :10.1038/s41586-022-04532-4 PMID 35172323 . S2CID 246902858 .
^ Mallapaty S (September 2021). "Closest known relatives of virus behind COVID-19 found in Laos" . Nature . 597 (7878): 603. Bibcode :2021Natur.597..603M . doi :10.1038/d41586-021-02596-2 PMID 34561634 . S2CID 237626322 .
^ "Newly Discovered Bat Viruses Give Hints to Covid's Origins" . New York Times . 2021-10-14.
^ a b Wu Z, Yang L, Yang F, Ren X, Jiang J, Dong J, et al. (June 2014). "Novel Henipa-like virus, Mojiang Paramyxovirus, in rats, China, 2012" . Emerging Infectious Diseases . 20 6 ): 1064–1066. doi :10.3201/eid2006.131022 PMC 4036791 PMID 24865545 .
^ a b "The 'Occam's Razor Argument' Has Not Shifted in Favor of a Lab Leak" . Snopes.com . Snopes. 16 July 2021. Retrieved 18 July 2021 .
^ a b Ge XY, Wang N, Zhang W, Hu B, Li B, Zhang YZ, et al. (February 2016). "Coexistence of multiple coronaviruses in several bat colonies in an abandoned mineshaft" . Virologica Sinica . 31 1 ): 31–40. doi :10.1007/s12250-016-3713-9 . PMC 7090819 PMID 26920708 .
^ a b "The 'Occam's Razor Argument' Has Not Shifted in Favor of a COVID Lab Leak" . Snopes.com . Snopes. 16 July 2021.
^ Harvey E, Holmes EC (June 2022). "Diversity and evolution of the animal virome" . Nature Reviews. Microbiology . 20 6 ): 321–334. doi :10.1038/s41579-021-00665-x PMID 34983966 . S2CID 245703661 .
^ a b c Frutos R, Pliez O, Gavotte L, Devaux CA (May 2022). "There is no "origin" to SARS-CoV-2" . Environmental Research . 207 . Elsevier: 112173. Bibcode :2022ER....20712173F . doi :10.1016/j.envres.2021.112173 . PMC 8493644 PMID 34626592 .
^ "Bat coronavirus RaTG13, complete genome" . NCBI . Retrieved 2020-03-28 .
^ a b Andersen KG, Rambaut A, Lipkin WI, Holmes EC, Garry RF (April 2020). "The proximal origin of SARS-CoV-2" . Nature Medicine . 26 4 ): 450–452. doi :10.1038/s41591-020-0820-9 PMC 7095063 PMID 32284615 .
^ Liu K, Pan X, Li L, Yu F, Zheng A, Du P, et al. (June 2021). "Binding and molecular basis of the bat coronavirus RaTG13 virus to ACE2 in humans and other species" . Cell . 184 (13 ): 3438–3451.e10. doi :10.1016/j.cell.2021.05.031 . PMC 8142884 PMID 34139177 .
^ a b Zhou H, Ji J, Chen X, Bi Y, Li J, Wang Q, et al. (August 2021). "Identification of novel bat coronaviruses sheds light on the evolutionary origins of SARS-CoV-2 and related viruses" . Cell . 184 (17 ): 4380–4391.e14. doi :10.1016/j.cell.2021.06.008 . PMC 8188299 PMID 34147139 .
^ a b Wacharapluesadee S, Tan CW, Maneeorn P, Duengkae P, Zhu F, Joyjinda Y, et al. (February 2021). "Evidence for SARS-CoV-2 related coronaviruses circulating in bats and pangolins in Southeast Asia" . Nature Communications . 12 1 ): 972. Bibcode :2021NatCo..12..972W . doi :10.1038/s41467-021-21240-1 PMC 7873279 PMID 33563978 .
^ Murakami S, Kitamura T, Suzuki J, Sato R, Aoi T, Fujii M, et al. (December 2020). "Detection and Characterization of Bat Sarbecovirus Phylogenetically Related to SARS-CoV-2, Japan" . Emerging Infectious Diseases . 26 12 ): 3025–3029. doi :10.3201/eid2612.203386 . PMC 7706965 PMID 33219796 .
^ a b Zhou H, Chen X, Hu T, Li J, Song H, Liu Y, et al. (June 2020). "A Novel Bat Coronavirus Closely Related to SARS-CoV-2 Contains Natural Insertions at the S1/S2 Cleavage Site of the Spike Protein" . Current Biology . 30 11 ): 2196–2203.e3. doi :10.1016/j.cub.2020.05.023 . PMC 7211627 PMID 32416074 .
^ Lam TT, Jia N, Zhang YW, Shum MH, Jiang JF, Zhu HC, et al. (July 2020). "Identifying SARS-CoV-2-related coronaviruses in Malayan pangolins". Nature . 583 (7815): 282–285. Bibcode :2020Natur.583..282L . doi :10.1038/s41586-020-2169-0 . PMID 32218527 . S2CID 214683303 .
^ Xiao K, Zhai J, Feng Y, Zhou N, Zhang X, Zou JJ, et al. (July 2020). "Isolation of SARS-CoV-2-related coronavirus from Malayan pangolins". Nature . 583 (7815): 286–289. Bibcode :2020Natur.583..286X . doi :10.1038/s41586-020-2313-x . PMID 32380510 . S2CID 256822274 .
^ a b Delaune D, Hul V, Karlsson EA, Hassanin A, Ou TP, Baidaliuk A, et al. (November 2021). "A novel SARS-CoV-2 related coronavirus in bats from Cambodia" . Nature Communications . 12 1 ): 6563. Bibcode :2021NatCo..12.6563D . doi :10.1038/s41467-021-26809-4 . PMC 8578604 PMID 34753934 .
^ Zhou H, Chen X, Hu T, Li J, Song H, Liu Y, et al. (June 2020). "A Novel Bat Coronavirus Closely Related to SARS-CoV-2 Contains Natural Insertions at the S1/S2 Cleavage Site of the Spike Protein" . Current Biology . 30 11 ): 2196–2203.e3. doi :10.1016/j.cub.2020.05.023 . PMC 7211627 PMID 32416074 .
^ Zhou P, Yang XL, Wang XG, Hu B, Zhang L, Zhang W, et al. (March 2020). "A pneumonia outbreak associated with a new coronavirus of probable bat origin" . Nature . 579 (7798): 270–273. Bibcode :2020Natur.579..270Z . doi :10.1038/s41586-020-2012-7 . PMC 7095418 PMID 32015507 .
^ Temmam S, Vongphayloth K, Baquero E, Munier S, Bonomi M, Regnault B, et al. (April 2022). "Bat coronaviruses related to SARS-CoV-2 and infectious for human cells". Nature . 604 (7905): 330–336. Bibcode :2022Natur.604..330T . doi :10.1038/s41586-022-04532-4 . PMID 35172323 . S2CID 246902858 .
Lucheng Rn rat coronavirus
Myotis ricketti alphacoronavirus Sax-2011
Rhinolophus bat coronavirus HKU2
Sorex araneus coronavirus T14
Suncus murinus coronavirus X74
Murine coronavirus
Myodes coronavirus 2JL14
Bat Hp-betacoronavirus Zhejiang2013
Pipistrellus bat coronavirus HKU5
Tylonycteris bat coronavirus HKU4
BANAL-52
Bat SARS-like coronavirus WIV1
RacCS203
RaTG13
RmYN02
RpYN06
SHC014-CoV
White-eye coronavirus HKU16
Night heron coronavirus HKU19
NCBI : 2709072
R e t r i e v e d f r o m " https://en.wikipedia.org/w/index.php?title=RaTG13&oldid=1229721737 " C a t e g o r i e s : ● S A R S - C o V - 2 ● B a t v i r o m e ● C o r o n a v i r i d a e ● A n i m a l v i r o l o g y ● S a r b e c o v i r u s ● Z o o n o s e s H i d d e n c a t e g o r i e s : ● A r t i c l e s w i t h s h o r t d e s c r i p t i o n ● S h o r t d e s c r i p t i o n i s d i f f e r e n t f r o m W i k i d a t a ● W i k i p e d i a e x t e n d e d - c o n f i r m e d - p r o t e c t e d p a g e s ● A r t i c l e s w i t h ' s p e c i e s ' m i c r o f o r m a t s ● T a x o n b a r s o n p o s s i b l e n o n - t a x o n p a g e s
● T h i s p a g e w a s l a s t e d i t e d o n 1 8 J u n e 2 0 2 4 , a t 1 1 : 0 2 ( U T C ) . ● T e x t i s a v a i l a b l e u n d e r t h e C r e a t i v e C o m m o n s A t t r i b u t i o n - S h a r e A l i k e L i c e n s e 4 . 0 ;
a d d i t i o n a l t e r m s m a y a p p l y . B y u s i n g t h i s s i t e , y o u a g r e e t o t h e T e r m s o f U s e a n d P r i v a c y P o l i c y . W i k i p e d i a ® i s a r e g i s t e r e d t r a d e m a r k o f t h e W i k i m e d i a F o u n d a t i o n , I n c . , a n o n - p r o f i t o r g a n i z a t i o n . ● P r i v a c y p o l i c y ● A b o u t W i k i p e d i a ● D i s c l a i m e r s ● C o n t a c t W i k i p e d i a ● C o d e o f C o n d u c t ● D e v e l o p e r s ● S t a t i s t i c s ● C o o k i e s t a t e m e n t ● M o b i l e v i e w
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