From pulsenetafrica at lists.wits.ac.za  Mon Apr 15 06:55:20 2019
From: pulsenetafrica at lists.wits.ac.za (pulsenetafrica at lists.wits.ac.za)
Date: Mon, 15 Apr 2019 04:55:20 +0000
Subject: [PulseNet Africa] Multistate outbreak of E. coli O103 in the US
In-Reply-To: <9e6b902d5c484f12a2aab03afb856e1e@cdc.gov>
References: <9e6b902d5c484f12a2aab03afb856e1e@cdc.gov>
Message-ID: <mailman.7220.1555303772.10460.pulsenetafrica@lists.wits.ac.za>

FYI.


Dr. Anthony Smith
Principal Medical Scientist
Centre for Enteric Diseases (Bacteriology Division)
National Institute for Communicable Diseases
South Africa
E-mail: anthonys at nicd.ac.za<mailto:anthonys at nicd.ac.za>
Tel: +27-11-5550348 | Cell: +27-83-4612145
Website: www.nicd.ac.za<http://www.nicd.ac.za/>



From: Concepcion Acevedo, Jeniffer (CDC/DDID/NCEZID/DFWED) <ypi5 at cdc.gov>
Sent: 12 April 2019 09:46 PM
To: Nadon, Celine (PHAC/ASPC) <celine.nadon at canada.ca>; Isabel Chinen <ichinen at anlis.gov.ar>; Joseph Kai Man Kam, Prof. (CEID) <kmkam at cuhk.edu.hk>; Anthony Smith <anthonys at nicd.ac.za>; Perez, Dr. Enrique (WDC) <pereze at paho.org>; Amina AlJardani <aksaljardani at gmail.com>; Rajesh Kumar <rajeshverma2005 at gmail.com>; 'Josefina Campos' <jocampos05 at gmail.com>; Brent Gilpin <Brent.Gilpin at esr.cri.nz>; Ivo Van Walle <Ivo.Van.Walle at ecdc.europa.eu>; Johanna.Takkinen at ecdc.europa.eu
Cc: Freeman, Molly (CDC/DDID/NCEZID/DFWED) <evy7 at cdc.gov>; Gerner-Smidt, Peter (CDC/DDID/NCEZID/DFWED) <plg5 at cdc.gov>; Trees, Eija (CDC/DDID/NCEZID/DFWED) <eih9 at cdc.gov>; Schroeder, Morgan (CDC/DDID/NCEZID/DFWED) <vgl0 at cdc.gov>; PulseNet (CDC) <pulsenet at cdc.gov>; Ribot, Efrain (CDC/DDID/NCEZID/DFWED) <eyr4 at cdc.gov>
Subject: Multistate outbreak of E. coli O103 in the US

Dear all:
CDC, several states, and the U.S. Department of Agriculture?s Food Safety and Inspection Service are investigating a multistate outbreak of Shiga toxin-producing Escherichia coli O103 infections. Below please epi and lab data associated with this investigation and SRR numbers from a subset of outbreak related sequences.
Please, share with participants in your region and let us know if you have matches on your databases. Thanks for any information you can share with us to help with this investigation.
Multistate outbreak of E. coli O103
Epidemiological Information: As of April 12, 2019, 109 people infected with the outbreak strain of E. coli O103 have been reported from six states. CDC is reporting the 109 illnesses that the PulseNet<https://wwwdev.cdc.gov/pulsenet/index.html> laboratory network has confirmed are part of this outbreak. States are investigating additional illnesses that might be a part of this outbreak.
Illnesses started on dates from March 2, 2019, to March 26, 2019. Ill people range in age from less than 1 year to 83 years, with a median age of 18. Fifty-three percent are female. Of 81 people with information available, 17 (21%) have been hospitalized. No deaths and no cases of hemolytic uremic syndrome have been reported. Illnesses that occurred after March 20, 2019, might not yet be reported due to the time it takes between when a person becomes ill with E. coli and when the illness is reported.
Preliminary information suggests that ground beef is the source of this outbreak. This investigation is ongoing.
Laboratory Information: The serotype is E. coli O103:H2, and all sequences have stx1, eae, and ehxA. The sequences are highly related and cluster within 0-2 alleles by cgMLST. No resistance genes were found using ResFinder.
WGS_id

SRR_ID

PNUSAE022392

SRR8763201

PNUSAE023031

SRR8843791

PNUSAE023047

SRR8847607


Web Post:  https://www.cdc.gov/ecoli/2019/o103-04-19/index.html
Thank you,
Jeny
Jeniffer Concepci?n-Acevedo, PhD
PulseNet International Coordinator





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From pulsenetafrica at lists.wits.ac.za  Mon Apr 15 08:12:24 2019
From: pulsenetafrica at lists.wits.ac.za (pulsenetafrica at lists.wits.ac.za)
Date: Mon, 15 Apr 2019 08:12:24 +0200
Subject: [PulseNet Africa] Multistate outbreak of E. coli O103 in the US
In-Reply-To: <mailman.7220.1555303772.10460.pulsenetafrica@lists.wits.ac.za>
References: <9e6b902d5c484f12a2aab03afb856e1e@cdc.gov>
 <mailman.7220.1555303772.10460.pulsenetafrica@lists.wits.ac.za>
Message-ID: <mailman.7222.1555308406.10460.pulsenetafrica@lists.wits.ac.za>

Thanks Anthony for the info
Daniel Lawadi Banda
Senior Lecturer in Medical Microbiology
Department of Medical Laboratory Sciences
College of Medicine
University of Malawi



Mobile:   +265 99 729 5898 For calling
              +265 88 459 6936 For calling
              +27 622946654 For WhatsApp
Skype:daniel.banda3



On Mon, Apr 15, 2019 at 6:55 AM <pulsenetafrica at lists.wits.ac.za> wrote:

> FYI.
>
>
>
>
>
> *Dr. Anthony Smith*
>
> Principal Medical Scientist
>
> Centre for Enteric Diseases (Bacteriology Division)
>
> National Institute for Communicable Diseases
>
> South Africa
>
> E-mail: anthonys at nicd.ac.za
>
> Tel: +27-11-5550348 | Cell: +27-83-4612145
>
> Website: www.nicd.ac.za
>
>
>
>
>
>
>
> *From:* Concepcion Acevedo, Jeniffer (CDC/DDID/NCEZID/DFWED) <ypi5 at cdc.gov>
>
> *Sent:* 12 April 2019 09:46 PM
> *To:* Nadon, Celine (PHAC/ASPC) <celine.nadon at canada.ca>; Isabel Chinen <
> ichinen at anlis.gov.ar>; Joseph Kai Man Kam, Prof. (CEID) <kmkam at cuhk.edu.hk>;
> Anthony Smith <anthonys at nicd.ac.za>; Perez, Dr. Enrique (WDC) <
> pereze at paho.org>; Amina AlJardani <aksaljardani at gmail.com>; Rajesh Kumar <
> rajeshverma2005 at gmail.com>; 'Josefina Campos' <jocampos05 at gmail.com>;
> Brent Gilpin <Brent.Gilpin at esr.cri.nz>; Ivo Van Walle <
> Ivo.Van.Walle at ecdc.europa.eu>; Johanna.Takkinen at ecdc.europa.eu
> *Cc:* Freeman, Molly (CDC/DDID/NCEZID/DFWED) <evy7 at cdc.gov>;
> Gerner-Smidt, Peter (CDC/DDID/NCEZID/DFWED) <plg5 at cdc.gov>; Trees, Eija
> (CDC/DDID/NCEZID/DFWED) <eih9 at cdc.gov>; Schroeder, Morgan
> (CDC/DDID/NCEZID/DFWED) <vgl0 at cdc.gov>; PulseNet (CDC) <pulsenet at cdc.gov>;
> Ribot, Efrain (CDC/DDID/NCEZID/DFWED) <eyr4 at cdc.gov>
> *Subject:* Multistate outbreak of E. coli O103 in the US
>
>
>
> Dear all:
>
> CDC, several states, and the U.S. Department of Agriculture?s Food Safety
> and Inspection Service are investigating a multistate outbreak of Shiga
> toxin-producing *Escherichia coli* O103 infections. Below please epi and
> lab data associated with this investigation and SRR numbers from a subset
> of outbreak related sequences.
>
> Please, share with participants in your region and let us know if you have
> matches on your databases. Thanks for any information you can share with us
> to help with this investigation.
>
> *Multistate outbreak of E. coli O103*
>
> *Epidemiological Information:* As of April 12, 2019, 109 people infected
> with the outbreak strain of *E. coli *O103 have been reported from six
> states. CDC is reporting the 109 illnesses that the PulseNet
> <https://wwwdev.cdc.gov/pulsenet/index.html> laboratory network has
> confirmed are part of this outbreak. States are investigating additional
> illnesses that might be a part of this outbreak.
>
> Illnesses started on dates from March 2, 2019, to March 26, 2019. Ill
> people range in age from less than 1 year to 83 years, with a median age of
> 18. Fifty-three percent are female. Of 81 people with information
> available, 17 (21%) have been hospitalized. No deaths and no cases of
> hemolytic uremic syndrome have been reported. Illnesses that occurred after
> March 20, 2019, might not yet be reported due to the time it takes between
> when a person becomes ill with E. coli and when the illness is reported.
>
> Preliminary information suggests that ground beef is the source of this
> outbreak. This investigation is ongoing.
>
> *Laboratory Information:* The serotype is *E. coli* O103:H2, and all
> sequences have stx1, eae, and ehxA. The sequences are highly related and
> cluster within 0-2 alleles by cgMLST. No resistance genes were found using
> ResFinder.
>
> WGS_id
>
> SRR_ID
>
> PNUSAE022392
>
> SRR8763201
>
> PNUSAE023031
>
> SRR8843791
>
> PNUSAE023047
>
> SRR8847607
>
>
>
> *Web Post:*  https://www.cdc.gov/ecoli/2019/o103-04-19/index.html
>
> Thank you,
>
> Jeny
>
> *Jeniffer Concepci?n-Acevedo, PhD*
>
> *PulseNet International Coordinator*
>
>
>
>
>
>
>
>
>
>
> _______________________________________________
> Pulsenetafrica mailing list
> Pulsenetafrica at lists.wits.ac.za
> http://lists.wits.ac.za/mailman/listinfo/pulsenetafrica
> This communication is intended for the addressee only. It is confidential.
> If you have received this communication in error, please notify us
> immediately and destroy the original message. You may not copy or
> disseminate this communication without the permission of the University.
> Only authorised signatories are competent to enter into agreements on
> behalf of the University and recipients are thus advised that the content
> of this message may not be legally binding on the University and may
> contain the personal views and opinions of the author, which are not
> necessarily the views and opinions of The University of the Witwatersrand,
> Johannesburg. All agreements between the University and outsiders are
> subject to South African Law unless the University agrees in writing to the
> contrary.
>
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From pulsenetafrica at lists.wits.ac.za  Mon Apr 15 11:36:39 2019
From: pulsenetafrica at lists.wits.ac.za (pulsenetafrica at lists.wits.ac.za)
Date: Mon, 15 Apr 2019 12:36:39 +0300
Subject: [PulseNet Africa] PulseNet Quick Tips: Organism Summary Chart
 for WGS
In-Reply-To: <mailman.5692.1553671927.10460.pulsenetafrica@lists.wits.ac.za>
References: <16055309e0c24d21ac626ecc50ca7539@cdc.gov>
 <mailman.5692.1553671927.10460.pulsenetafrica@lists.wits.ac.za>
Message-ID: <mailman.7266.1555320684.10460.pulsenetafrica@lists.wits.ac.za>

---------- Forwarded message ---------
From: <pulsenetafrica at lists.wits.ac.za>
Date: Wed, Mar 27, 2019 at 10:38 AM
Subject: [PulseNet Africa] PulseNet Quick Tips: Organism Summary Chart for
WGS
To: pulsenetafrica at lists.wits.ac.za <pulsenetafrica at lists.wits.ac.za>


FYI.







*Dr. Anthony Smith*

Principal Medical Scientist

Centre for Enteric Diseases (Bacteriology Division)

National Institute for Communicable Diseases

South Africa

E-mail: anthonys at nicd.ac.za

Tel: +27-11-5550348 | Cell: +27-83-4612145

Website: www.nicd.ac.za











*From:* PulseNet (CDC) <pulsenet at cdc.gov>
*Sent:* 26 March 2019 10:37 PM
*To:* PulseNet (CDC) <pulsenet at cdc.gov>
*Subject:* PulseNet Quick Tips: Organism Summary Chart for WGS






The views expressed in this email are, unless otherwise stated, those of
the author and not those of the National Health Laboratory Service or its
management. The information in this e-mail is confidential and is intended
solely for the addressee. Access to this e-mail by anyone else is
unauthorized. If you are not the intended recipient, any disclosure,
copying, distribution or any action taken or omitted in reliance on this,
is prohibited and may be unlawful. Whilst all reasonable steps are taken to
ensure the accuracy and integrity of information and data transmitted
electronically and to preserve the confidentiality thereof, no liability or
responsibility whatsoever is accepted if information or data is, for
whatever reason, corrupted or does not reach its intended destination.
_______________________________________________
Pulsenetafrica mailing list
Pulsenetafrica at lists.wits.ac.za
http://lists.wits.ac.za/mailman/listinfo/pulsenetafrica
This communication is intended for the addressee only. It is confidential.
If you have received this communication in error, please notify us
immediately and destroy the original message. You may not copy or
disseminate this communication without the permission of the University.
Only authorised signatories are competent to enter into agreements on
behalf of the University and recipients are thus advised that the content
of this message may not be legally binding on the University and may
contain the personal views and opinions of the author, which are not
necessarily the views and opinions of The University of the Witwatersrand,
Johannesburg. All agreements between the University and outsiders are
subject to South African Law unless the University agrees in writing to the
contrary.
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From pulsenetafrica at lists.wits.ac.za  Wed Apr 17 18:58:20 2019
From: pulsenetafrica at lists.wits.ac.za (pulsenetafrica at lists.wits.ac.za)
Date: Wed, 17 Apr 2019 16:58:20 +0000 (UTC)
Subject: [PulseNet Africa] Multistate outbreak of E. coli O103 in the US
In-Reply-To: <mailman.7220.1555303772.10460.pulsenetafrica@lists.wits.ac.za>
References: <9e6b902d5c484f12a2aab03afb856e1e@cdc.gov>
 <mailman.7220.1555303772.10460.pulsenetafrica@lists.wits.ac.za>
Message-ID: <mailman.7541.1555519949.10460.pulsenetafrica@lists.wits.ac.za>

 Thanks Dr Anthony for your useful informationRegardsAntonio SumbanaMozambique
    Em segunda-feira, 15 de abril de 2019 06:55:48 GMT+2, pulsenetafrica at lists.wits.ac.za <pulsenetafrica at lists.wits.ac.za> escreveu:  
 
  
FYI.
 
 ?
 
 ?
 
Dr. Anthony Smith
 
Principal Medical Scientist
 
Centre for Enteric Diseases (Bacteriology Division)
 
National Institute for Communicable Diseases
 
South Africa
 
E-mail: anthonys at nicd.ac.za
 
Tel: +27-11-5550348 | Cell: +27-83-4612145
 
Website: www.nicd.ac.za
 
 ?
 
 ?
 
 ?
 
From: Concepcion Acevedo, Jeniffer (CDC/DDID/NCEZID/DFWED) <ypi5 at cdc.gov>
Sent: 12 April 2019 09:46 PM
To: Nadon, Celine (PHAC/ASPC) <celine.nadon at canada.ca>; Isabel Chinen <ichinen at anlis.gov.ar>; Joseph Kai Man Kam, Prof. (CEID) <kmkam at cuhk.edu.hk>; Anthony Smith <anthonys at nicd.ac.za>; Perez, Dr. Enrique (WDC) <pereze at paho.org>; Amina AlJardani <aksaljardani at gmail.com>; Rajesh Kumar <rajeshverma2005 at gmail.com>; 'Josefina Campos' <jocampos05 at gmail.com>; Brent Gilpin <Brent.Gilpin at esr.cri.nz>; Ivo Van Walle <Ivo.Van.Walle at ecdc.europa.eu>; Johanna.Takkinen at ecdc.europa.eu
Cc: Freeman, Molly (CDC/DDID/NCEZID/DFWED) <evy7 at cdc.gov>; Gerner-Smidt, Peter (CDC/DDID/NCEZID/DFWED) <plg5 at cdc.gov>; Trees, Eija (CDC/DDID/NCEZID/DFWED) <eih9 at cdc.gov>; Schroeder, Morgan (CDC/DDID/NCEZID/DFWED) <vgl0 at cdc.gov>; PulseNet (CDC) <pulsenet at cdc.gov>; Ribot, Efrain (CDC/DDID/NCEZID/DFWED) <eyr4 at cdc.gov>
Subject: Multistate outbreak of E. coli O103 in the US
 
 ?
 
Dear all:
 
CDC, several states, and the U.S. Department of Agriculture?s Food Safety and Inspection Service are investigating a multistate outbreak of Shiga toxin-producingEscherichia coli O103 infections. Below please epi and lab data associated with this investigation and SRR numbers from a subset of outbreak related sequences.
 
Please, share with participants in your region and let us know if you have matches on your databases. Thanks for any information you can share with us to help with this investigation.
 
Multistate outbreak of E. coli O103
 
Epidemiological Information: As of April 12, 2019, 109 people infected with the outbreak strain ofE. coli O103 have been reported from six states. CDC is reporting the 109 illnesses that thePulseNet laboratory network has confirmed are part of this outbreak. States are investigating additional illnesses that might be a part of this outbreak.
 
Illnesses started on dates from March 2, 2019, to March 26, 2019. Ill people range in age from less than 1 year to 83 years, with a median age of 18. Fifty-three percent are female. Of 81 people with information available, 17 (21%) have been hospitalized. No deaths and no cases of hemolytic uremic syndrome have been reported. Illnesses that occurred after March 20, 2019, might not yet be reported due to the time it takes between when a person becomes ill with E. coli and when the illness is reported.
 
Preliminary information suggests that ground beef is the source of this outbreak. This investigation is ongoing.
 
Laboratory Information: The serotype isE. coli O103:H2, and all sequences have stx1, eae, and ehxA. The sequences are highly related and cluster within 0-2 alleles by cgMLST. No resistance genes were found using ResFinder.
 
| 
WGS_id
  | 
SRR_ID
  |
| 
PNUSAE022392
  | 
SRR8763201
  |
| 
PNUSAE023031
  | 
SRR8843791
  |
| 
PNUSAE023047
  | 
SRR8847607
  |


 ?
 
Web Post:?https://www.cdc.gov/ecoli/2019/o103-04-19/index.html
 
Thank you,
 
Jeny
 
Jeniffer Concepci?n-Acevedo, PhD
 
PulseNet International Coordinator
 
 ?
 
 ?
 
 ?
 
 ?
 
 ?
 _______________________________________________
Pulsenetafrica mailing list
Pulsenetafrica at lists.wits.ac.za
http://lists.wits.ac.za/mailman/listinfo/pulsenetafrica
This communication is intended for the addressee only. It is confidential. If you have received this communication in error, please notify us immediately and destroy the original message. You may not copy or disseminate this communication without the permission of the University. Only authorised signatories are competent to enter into agreements on behalf of the University and recipients are thus advised that the content of this message may not be legally binding on the University and may contain the personal views and opinions of the author, which are not necessarily the views and opinions of The University of the Witwatersrand, Johannesburg. All agreements between the University and outsiders are subject to South African Law unless the University agrees in writing to the contrary.
  
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From pulsenetafrica at lists.wits.ac.za  Thu Apr 18 09:57:59 2019
From: pulsenetafrica at lists.wits.ac.za (pulsenetafrica at lists.wits.ac.za)
Date: Thu, 18 Apr 2019 07:57:59 +0000 (UTC)
Subject: [PulseNet Africa] PulseNet Quick Tips: Organism Summary Chart
 for WGS
In-Reply-To: <mailman.7266.1555320684.10460.pulsenetafrica@lists.wits.ac.za>
References: <16055309e0c24d21ac626ecc50ca7539@cdc.gov>
 <mailman.5692.1553671927.10460.pulsenetafrica@lists.wits.ac.za>
 <mailman.7266.1555320684.10460.pulsenetafrica@lists.wits.ac.za>
Message-ID: <mailman.7576.1555573934.10460.pulsenetafrica@lists.wits.ac.za>

 Thank you Anthony.Ariane

    Le lundi 15 avril 2019 ? 10:39:47 UTC+1, pulsenetafrica at lists.wits.ac.za <pulsenetafrica at lists.wits.ac.za> a ?crit :  
 
 



---------- Forwarded message ---------
From: <pulsenetafrica at lists.wits.ac.za>
Date: Wed, Mar 27, 2019 at 10:38 AM
Subject: [PulseNet Africa] PulseNet Quick Tips: Organism Summary Chart for WGS
To: pulsenetafrica at lists.wits.ac.za <pulsenetafrica at lists.wits.ac.za>



FYI.

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Dr. Anthony Smith

Principal Medical Scientist

Centre for Enteric Diseases (Bacteriology Division)

National Institute for Communicable Diseases

South Africa

E-mail:anthonys at nicd.ac.za

Tel: +27-11-5550348 | Cell: +27-83-4612145

Website:www.nicd.ac.za

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?

?

?

From: PulseNet (CDC) <pulsenet at cdc.gov>
Sent: 26 March 2019 10:37 PM
To: PulseNet (CDC) <pulsenet at cdc.gov>
Subject: PulseNet Quick Tips: Organism Summary Chart for WGS

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This communication is intended for the addressee only. It is confidential. If you have received this communication in error, please notify us immediately and destroy the original message. You may not copy or disseminate this communication without the permission of the University. Only authorised signatories are competent to enter into agreements on behalf of the University and recipients are thus advised that the content of this message may not be legally binding on the University and may contain the personal views and opinions of the author, which are not necessarily the views and opinions of The University of the Witwatersrand, Johannesburg. All agreements between the University and outsiders are subject to South African Law unless the University agrees in writing to the contrary.
  
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