Author Topic: origin  (Read 68 times)

gsgs

  • Administrator
  • Full Member
  • *****
  • Posts: 196
    • View Profile
origin
« on: January 30, 2020, 10:53:17 pm »
https://flutrackers.com/forum/forum/the-pandemic-discussion-forum/824572-discussion-chinese-academy-of-sciences-cas-in-wuhan-has-been-working-with-bats-and-coronavirus-for-many-years-dna-manipulations-cloning

[after WIV1 in 2012]
The sampling of this bat cave in Yunnan continued for another 5 years. From these samples,
the research team isolated 3 live viruses in succession, and obtained the full-length genomic
sequences of a total of 15 bat SARS-like coronaviruses. Surprisingly, the 15 strains contained
all the genome components of the SARS virus.
Hu Ben, an assistant researcher at the Wuhan Institute of Virology, Chinese Academy of Sciences:
Shi Zhengli
...
fuchsia line
the highest similarity between SARS-like coronaviruses found in bat caves and their respective
genes is above 97%,
After 13 years of virus tracing, the origin of the SARS virus was finally found.

[ one of those Yunnan cave viruses must have been RaTG13 ,  96% similar to 2019-nCoV ]

Share on Facebook Share on Twitter


gsgs

  • Administrator
  • Full Member
  • *****
  • Posts: 196
    • View Profile
Re: origin
« Reply #1 on: January 30, 2020, 10:54:06 pm »

So far, the nCoV-2019 has been reported to share 96% sequence identity to the RaTG13
genome (EPI_ISL_402131). However, the S1 Receptor Binding Domain (RBD) of the nCoV-2019
genome was noticeably divergent between the two at amino acid residues 350 to 550 Figure 1A.
We aimed to identity coronaviruses related to nCoV-2019 in viral metagenomics datasets available
in the public domain. In a recently published dataset describing viral diversity in
Malayan pangolins (PRJNA573298 10) we used VirMAP 11 to reconstruct a coronavirus genome
(approximately 84% complete from samples SRR10168377 2 and SRR10168378 1) that
shared 97% amino acid identity across the same RBD segment Figure 1B. This result
indicates a potential recombination event for nCoV-2019.

pangolin=Schuppentier , https://en.wikipedia.org/wiki/Pangolin

gsgs

  • Administrator
  • Full Member
  • *****
  • Posts: 196
    • View Profile
Re: origin
« Reply #2 on: February 02, 2020, 07:42:45 pm »
Coronavirus conspiracy debunked by Wuhan researcher
By Zhang Zhihao | chinadaily.com.cn | Updated: 2020-02-02 19:29
A scientist from the Wuhan Institute of Virology of the Chinese Academy of Sciences has
debunked a recent conspiracy which claimed the novel coronavirus was manufactured and
escaped from the institute’s most advanced biocontainment facility.
Shi Zhengli, a researcher from the institute, said on her social media on Sunday the virus
was the result of "nature punishing the uncivilized habits and customs of humans",
and she is willing to "bet my life that [the outbreak] has nothing to do with the lab."
Shi was the leading scientist who made the discovery the novel coronavirus can enter
cells through ACE2 receptors and may have originated from bats.
Her comments came after Indian scientists recently published a non-peer reviewed
paper suggesting scientists had artificially inserted genes from the HIV virus into the
coronavirus, thus making it susceptible to anti-HIV treatments.
The paper was immediately panned by experts around the world and retracted from
biology journal server bioRxiv on Sunday.
...
http://global.chinadaily.com.cn/a/202002/02/WS5e36b2b7a31012821727432e.ht

----------------------------------------
ahh, "nature punishing the uncivilized habits and customs of humans"
doesn't sound like a scientific, rational, logical arguing to me ...
BTW. the lab was not level IV before 2015
https://en.wikipedia.org/wiki/Wuhan_Institute_of_Virology
« Last Edit: February 02, 2020, 07:45:48 pm by gsgs »

gsgs

  • Administrator
  • Full Member
  • *****
  • Posts: 196
    • View Profile
Re: origin
« Reply #3 on: February 04, 2020, 03:10:48 am »
mutation pictures of coronaviruses,
409 selected viruses from genbank,Dec.2019, close to SARS/nCoV

the ~30000 nucleotides were divided into areas of 3000
so they fit on one page

using my old program designed for influenza (which has segments of <2300 nucleotides)

each black pixel is a nucleotide different from the average at that position
each line is a virus, each column is a position
positions without mutation are left out
rows and columns are re-sorted for maximum connected areas of black pixels

the average = orange rows are mainly human SARS-viruses
(I should remove them and run it again ...)


http://magictour.free.fr/oro5f.GIF
« Last Edit: February 04, 2020, 03:13:58 am by gsgs »

gsgs

  • Administrator
  • Full Member
  • *****
  • Posts: 196
    • View Profile
Re: origin
« Reply #4 on: February 07, 2020, 03:49:35 am »
South China Agricultural University finds pangolin as a potential intermediate host
 for a new coronavirus

Review and release: Chen Chenchen, the propaganda department Source unit and
reviewer: Yang Zhiqun, propaganda department Time: 2020-02-07 Views: 5114

The latest research conducted by South China Agricultural University, Lingnan Modern
Agricultural Science and Technology Guangdong Provincial Laboratory,
Professor Shen Yongyi, and Professor Xiao Lihua, together with Researcher Yang Ruiyu
from the Military Medical Research Institute of the Chinese Academy of Military Sciences
and Chen Wu Senior Veterinarian of the Guangzhou Zoo Research Department, shows
Pangolin is a potential intermediate host for a new coronavirus. This latest discovery
will have great significance for the prevention and control of the origin of the new coronavirus.

https://www.scau.edu.cn/2020/0207/c1300a219015/page.htm


epsilon

  • Newbie
  • *
  • Posts: 27
  • welcome to ncovinfo , here we discuss the pandemic threat from the new 2019 Coronavirus
    • View Profile
Re: origin
« Reply #5 on: February 07, 2020, 06:20:43 am »
@gsgs: What is your opinion on the following article ?

https://jameslyonsweiler.com/2020/02/02/moderately-strong-confirmation-of-a-laboratory-origin-of-2019-ncov/

Normally I am very sceptical about lab origin rumors and wouldn't even bother reading if it were from a random internet blog.
But the author seems to be a cerdible expert (PhD, author of books and peer reviewed papers)

Excerpts:

"Unlike other related coronaviruses, the 2019-nCoV virus has a unique sequence about 1,378 bp (nucleotide base pairs) long that is not found in related coronaviruses."

"The gap in the line shows a lack of sequence homology beween the most similar bat coronavirus and 2019-nCoV."

"The resulting massive alignment confirms a major unique inserted element in 2019-nCoV not found in other bat coronaviruses, nor in SARS in the homologous genomic position"

related: https://jameslyonsweiler.com/2020/01/30/on-the-origins-of-the-2019-ncov-virus-wuhan-china/

gsgs

  • Administrator
  • Full Member
  • *****
  • Posts: 196
    • View Profile
Re: origin
« Reply #6 on: February 07, 2020, 10:52:11 am »
I'll check this later. I have no experience with coronaviruses, but mainly influenza.
I already noticed, how close the envelope protein is and how distant
the spike protein. But is it unusual ?

South China Agricultural University claimed today they have a 99% matching pangolin sequence
to be published soon


-------------------------------------------------

OK, I selected 65 Wuhan-close coronaviruses, spike=protein-area and made my mutation-picture:
http://magictour.free.fr/spike6j.GIF
http://magictour.free.fr/spike6j.l2

the ones close to each other in other areas are closer in the spike-area too -
that looks to me as if it were just mutating much more in that area -
rather than recombination.

-----------------------------------------------
Pangolin paper from Sept.2019 : https://www.mdpi.com/1999-4915/11/11/979/htm
« Last Edit: February 08, 2020, 12:50:10 am by gsgs »