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PostPosted: Thu Jun 19, 2014 8:33 pm 
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niman wrote:
niman wrote:
NATURE | EDITORIAL

Present danger
There is much hype about predicting and preventing future pandemics, but not enough is being done about a threat sitting under our noses.

18 June 2014

Research groups have tended to compete rather than cooperate.

This competition has led to the hoarding (by the Christian Drosten lab) of almost all 2014 MERS sequences from KSA cases including ALL from Riyadh and Medina.

Of note, hospital-based transmission of MERS-CoV without evidence of changes in the genome of the involved virus has occurred previously, and has been controlled upon enforcement of infection control measures (Assiri 2013, Cotten 2013).

http://www.promedmail.org/direct.php?id=2432140

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PostPosted: Thu Jun 19, 2014 8:39 pm 
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niman wrote:
niman wrote:
niman wrote:
NATURE | EDITORIAL

Present danger
There is much hype about predicting and preventing future pandemics, but not enough is being done about a threat sitting under our noses.

18 June 2014

Research groups have tended to compete rather than cooperate.

This competition has led to the hoarding (by the Christian Drosten lab) of almost all 2014 MERS sequences from KSA cases including ALL from Riyadh and Medina.

........We have sequenced near full genomes of 3 viruses from the early phase of the Jeddah outbreak. The samples were submitted to Jeddah regional laboratory on [3, 5 and 7 Apr 2014], and sent to Germany for external confirmatory testing on [14 Apr 2014] by KSA MOH in Riyadh. Two of the sequenced viruses were from patients treated in the major public hospital in which most cases of the Jeddah outbreak seem to have occurred. A 3rd sequence was from another health care facility in the city. Genome sequences of all 3 viruses are highly similar to each other but not identical, and are highly similar to a large number of known MERS-CoV sequences (consult http://www.virology-bonn.de for a phylogeny; genome overview in Cotten 2014). There are no genome insertions or deletions suggestive of sudden major changes. The receptor-binding domain in the spike protein thought to influence the virus's ability to be transmitted or spread is 100 percent identical to the binding site in a large number of known MERS-CoV genome sequences. Based on genome comparison with other MERS-CoV strains there is no reason to assume that the sequenced viruses from Jeddah have acquired changes increasing their pandemic potential.

As long as the sequences are in the draft stage, we are making them available on our homepage (http://www.virology-bonn.de) and provide them to the epidemic blog (http://epidemic.bio.ed.ac.uk). They will be submitted to GenBank after some curating.

We have sequenced partial spike protein genes from another 25 viruses, showing 100 percent sequence identity with above-mentioned genomes.......

http://www.promedmail.org/direct.php?id=2432140

Lack of Jeddah MERS Transparency Raises Concerns
Recombinomics Commentary 04:00
May 7, 2014
Four men aged 29, 33, 34 and 70 years old from Jeddah.

The above comments from the WHO April 14 MERS update identify the three cases (70M, 34M, 29M) in the April 10 update by the Kingdom of Saudi Arabia Ministry of Health (KSA-MoH), which is the most recent WHO update on Jeddah cases (other than the 6 which were exported to 5 countries – Jordan, Malaysia, Greece, United Arab Emirates, and Egypt). Since these three cases were announced by KSA-MoH on April 10, the same agency has reported 120 more cases in Jeddah, which are included in 237 recent PCR confirmed cases in KSA. WHO has not issued any updates on these recent cases.

Prior to the replacement of Adullah bin Abdulaziz Al Ribiah by Adel Fakeih, the Minister of Health, KSA updates had little information on MERS positive cases. Dates were withheld, as well as hospitals. WHO updates provided disease onset and/or hospitalization dates, which helped understand the spread of the virus. The mild and asymptomatic cases are contacts of confirmed cases because KSA does not test mild or asymptomatic cases unless they are contacts of confirmed cases. It is likely that many of the cases reported the KSA-MoH were delayed and released in a control manner, which created problems for WHO because the dates would have revealed these delays.

The lack of any information by WHO on the earlier cases has been extended to all of the cases, leading to no information from WHO on the 237 most recent MERS confirmed cases.

This lack of transparency by WHO, has extended to the release of sequences from these cases. All of the MERS samples are given to a lab in Germany, which published a letter at ProMED on April 26 explaining delays in the release of sequences (the German lab was closed for Easter and passage through customs created additional delays). However, the lab noted that they had almost thirty samples and had nearly complete sequences from three of the earlier Jeddah cases from early April (Jeddah_C7569, Jeddah_C7149, Jeddah_C7770).

These sequences were available at the lab website and were almost identical, even though the patients were in two different Jeddah hospitals. The identity was said to be due to poor infection control, leading to spread between the two hospitals. However, sequence data on the spike gene from 25 additional cases were said to be identical to each other, as well as the three released sequences.

This large number of identities raised concern that a novel sub-clade had emerged in Jeddah, leading to the explosion of cases and deaths (similar to the emergence of a novel SARS sub-clade with a 29 BP deletion at the Metropole Hotel in Hong Kong in 2003). This concerns was increased by the failure to release any of the spike sequences or any subsequent sequences from the 150 confirmed cases in Jeddah.

Today an interview with the head of the German lab, Christian Drosten was published, which noted that sequences from two more recent Jeddah cases and a Mecca cases were generated, and like the first three sequences from Jeddah, "all looked completely normal”. These comments raised concerns that the three recent sequence matched the three earlier sequencing, confirming the emergence of a novel sub-clade which had now spread to Mecca. However, the failure to release these sequences or any of the 25 spike sequences left some doubt in the relationships between these Jeddah and Mecca sequences. Requests for information from the Drosten and Rambaut labs (which had also been cited in the ProMED letter as a source for information on the Jeddah sequences) have not been answered, and the reasons for the failure to posts these sequences at the Dorsten website are unclear........

http://www.recombinomics.com/News/05071 ... y_NOT.html

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PostPosted: Thu Jun 19, 2014 8:46 pm 
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Jeddah MERS Sub-Clade Sustained Transmission
Recombinomics Commentary 23:30
May 17, 2014
Image

The above MERS phylogenetic tree posted by Andrew Rambaut at his website helps visualize the clonal expansion of the novel Jeddah MERS sub-clade. All eight sequences (six nearly full sequences from cases from four hospitals in Jeddah and Mecca generated by Christian Drosten, (C8826 and C9055) collected on April 12 and April 14 from hospital A and C, respectively, as well as Mecca (C9355) collected on April 15. The three earlier sequences were from two hospitals ((C7149 and C7770 from hospital A collected on April 3 and 7, respectively as well as C7569 from hospital B collected on April 5), 1 complete sequence s generated by the CDC from a Jeddah export case in Orlando, Florida USA, Florida/USA-2_Saudi Arabia_2014, and 1 partial sequence generated by the CDC from another Jeddah export case in Athens, Greece, Spike and N gene sequences, Greece-Saudi Arabia_2014, are all located on the same branch (blue shading).

This branch has no camel sequences because all of the human sequences have a change in the Spike gene (Q833R) and orf8b gene (L6Q) which has never been reported in any camel sequence or any MERS sequence that was not from the Jeddah sub-clade which is defined by 11 polymorphisms. In addition to the eight sequences on the tree, 25 more Spike gene sequences with the two spike gene markers have been generated from patients in Jeddah. Thus, there have been 33 full are partial sequences generated from cases linked to Jeddah or Mecca and all 33 belong to the same sub-clade.......

http://www.recombinomics.com/News/05171 ... ained.html

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PostPosted: Thu Jun 19, 2014 9:46 pm 
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6-16-14 thru 6-22-14


THURSDAY
10 pm EDT
Dr. Henry L. Niman, PhD
MERS Update

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PostPosted: Thu Jun 19, 2014 9:48 pm 
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niman wrote:
6-16-14 thru 6-22-14


THURSDAY
10 pm EDT
Dr. Henry L. Niman, PhD
MERS Update

http://www.renseradio.com/listenlive.htm

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PostPosted: Fri Jun 20, 2014 7:20 am 
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niman wrote:
6-16-14 thru 6-22-14


THURSDAY
10 pm EDT
Dr. Henry L. Niman, PhD
MERS Update

http://rense.gsradio.net:8080/rense/spe ... 061914.mp3

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