Rc-o319

Rc-o319
Virus classification
(unranked): Virus
Realm: Riboviria
Kingdom: Orthornavirae
Phylum: Pisuviricota
Class: Pisoniviricetes
Order: Nidovirales
Family: Coronaviridae
Genus: Betacoronavirus
Subgenus: Sarbecovirus
Species:
Severe acute respiratory syndrome–related coronavirus
Strain:
Rc-o319

Rc-o319 is a bat-derived strain of severe acute respiratory syndrome–related coronavirus collected in Little Japanese horseshoe bats (Rhinolophus cornutus) from sites in Iwate, Japan.[1][2] Its has 81% similarity to SARS-CoV-2 and is the earliest strain branch of the SARS-CoV-2 related coronavirus.

A phylogenetic tree based on whole-genome sequences of SARS-CoV-2 and related coronaviruses is:[3][4]

SARS‑CoV‑2 related coronavirus
 

(Bat) Rc-o319, 81% to SARS-CoV-2, Rhinolophus cornutus, Iwate, Japan[1]

 
 
 
 

Bat SL-ZXC21, 88% to SARS-CoV-2, Rhinolophus pusillus, Zhoushan, Zhejiang[5]

 
 

Bat SL-ZC45, 88% to SARS-CoV-2, Rhinolophus pusillus, Zhoushan, Zhejiang[5]

 
 
 
 

Pangolin SARSr-CoV-GX, 89% to SARS-CoV-2, Manis javanica, smuggled from Southeast Asia[6]

 
 
 

Pangolin SARSr-CoV-GD, 91% to SARS-CoV-2, Manis javanica, smuggled from Southeast Asia[7]

 
 
 
 

Bat RshSTT182, 92.6% to SARS-CoV-2, Rhinolophus shameli, Steung Treng, Cambodia[8]

 
 

Bat RshSTT200, 92.6% to SARS-CoV-2, Rhinolophus shameli, Steung Treng, Cambodia[8]

 
 
 
 

(Bat) RacCS203, 91.5% to SARS-CoV-2, Rhinolophus acuminatus, Chachoengsao, Thailand[4]

 
 

(Bat) RmYN02, 93.3% to SARS-CoV-2, Rhinolophus malayanus, Mengla, Yunnan[9]

 
 
 

(Bat) RpYN06, 94.4% to SARS-CoV-2, Rhinolophus pusillus, Xishuangbanna, Yunnan[3]

 
 
 

(Bat) RaTG13, 96.1% to SARS-CoV-2, Rhinolophus affinis, Mojiang, Yunnan

 
 

SARS-CoV-2

 
 
 
 
 
 
 
 

SARS-CoV-1, 79% to SARS-CoV-2

 

References

  1. 1 2 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.
  2. ↑ Mallapaty, Smriti (2020-11-23). "Coronaviruses closely related to the pandemic virus discovered in Japan and Cambodia". Nature. 588 (7836): 15–16. doi:10.1038/d41586-020-03217-0.
  3. 1 2 Zhou H, Ji J, Chen X, Bi Y, Li J, Wang Q, et al. (June 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.
  4. 1 2 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.
  5. 1 2 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.
  6. ↑ 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.
  7. ↑ Liu P, Jiang JZ, Wan XF, Hua Y, Li L, Zhou J, et al. (May 2020). "Are pangolins the intermediate host of the 2019 novel coronavirus (SARS-CoV-2)?". PLOS Pathogens. 16 (5): e1008421. doi:10.1371/journal.ppat.1008421. PMC 7224457. PMID 32407364.
  8. 1 2 Delaune, Deborah; Hul, Vibol; Karlsson, Erik A.; Hassanin, Alexandre; Ou, Tey Putita; Baidaliuk, Artem; Gámbaro, Fabiana; Prot, Matthieu; Tu, Vuong Tan; Chea, Sokha; Keatts, Lucy; Mazet, Jonna; Johnson, Christine K.; Buchy, Philippe; Dussart, Philippe; Goldstein, Tracey; Simon-Lorière, Etienne; Duong, Veasna (9 November 2021). "A novel SARS-CoV-2 related coronavirus in bats from Cambodia". Nature Communications. 12 (1): 6563. doi:10.1038/s41467-021-26809-4. ISSN 2041-1723.
  9. ↑ 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.


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