FNSC3180 Food Microbiology, Chinese Univ of Hong Kong, by HS Kwan: 2011

Friday, December 30, 2011

Article: FDA draws criticism after U-turn on antibiotics in animal feed

FDA draws criticism after U-turn on antibiotics in animal feed - The Guardian

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Tuesday, December 27, 2011

2012 set to see some heavyweight M&A activity? Definitely, say leading food market analysts

http://www.foodnavigator.com/Financial-Industry/2012-set-to-see-some-heavyweight-M-A-activity-Definitely-say-leading-food-market-analysts?utm_source=AddThisMobile&utm_medium=More&utm_campaign=SocialMedia#.Tvj_DVBLMJ4.gmail

Saturday, December 24, 2011

Article: Giant Microbes Christmas Ornament Sets

Giant Microbes Christmas Ornament Sets - GeekAlerts

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Friday, December 23, 2011

Article: USDA Announces Zero Tolerance E. Coli Policy

USDA Announces Zero Tolerance E. Coli Policy - NewsInferno

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Article: CFIA issues warning to consumers of jalapeno peppers

CFIA issues warning to consumers of jalapeno peppers - Canada.com

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Article: Recalled Eclectic Institute Supplements May be Tainted with Salmonella

Recalled Eclectic Institute Supplements May be Tainted with Salmonella - NewsInferno

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Thursday, December 22, 2011

Article: E. coli 0157:H7 Infections possibly tied to romaine lettuce

E. coli 0157:H7 Infections possibly tied to romaine lettuce - Examiner

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Article: FDA Issues New Safety Rules for Beef

FDA Issues New Safety Rules for Beef - WebMD

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Wednesday, December 21, 2011

Article: Cargill Resumes Ground Turkey Production After 2 Salmonella Incidents

Cargill Resumes Ground Turkey Production After 2 Salmonella Incidents - The Huffington Post

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Article: Review: HandSan

Review: HandSan - Confessions of a Psychotic Housewife

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Article: William Marler: The Twelve Days of Food Safety Christmas

William Marler: The Twelve Days of Food Safety Christmas - HuffPost

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Monday, December 19, 2011

Article: Beautiful, but deadly to salmonella

Beautiful, but deadly to salmonella - PhysOrg

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Saturday, December 17, 2011

Article: Eggs now considered safe beyond their 'best before' dates

Eggs now considered safe beyond their 'best before' dates - The Guardian

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Friday, December 16, 2011

Article: Selfridges' raw milk dispenser 'contravenes food hygiene regulations'

Selfridges' raw milk dispenser 'contravenes food hygiene regulations' - The Guardian

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Article: Alarm as Dutch lab mutates killer virus

Alarm as Dutch lab mutates killer virus - Herald Sun

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Monday, December 12, 2011

Article: E. coli outbreak in raw cookie dough explained

E. coli outbreak in raw cookie dough explained - Examiner

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Article: Cilantro Recall in Indiana

Cilantro Recall in Indiana - NBC Chicago

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Article: How Salmonella forms evil twins to evade the body's defenses

How Salmonella forms evil twins to evade the body's defenses - PhysOrg

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Sunday, December 11, 2011

Article: FDA says it's OK to turn bad food into sellable stuff

FDA says it's OK to turn bad food into sellable stuff - PWW

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Article: Norovirus present in 76% of British oysters, research finds

Norovirus present in 76% of British oysters, research finds - The Guardian

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Saturday, December 10, 2011

Article: Culprit in 2009 cookie dough E. coli outbreak could be raw flour

Culprit in 2009 cookie dough E. coli outbreak could be raw flour - The Sacramento Bee

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Tuesday, December 6, 2011

A Proposal of Genomic Analytical Workflow in a Bacterial Pathogen Outbreak Investigation : Nature Precedings

http://precedings.nature.com/documents/6663/version/1

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Article: St. Louis-based produce company recalls grape tomatoes due to possible salmonella contamination

St. Louis-based produce company recalls grape tomatoes due to possible salmonella contamination - FoodConsumer

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Article: Orange Peels In Cattle Feed May Help Fight Foodborne Illness

Orange Peels In Cattle Feed May Help Fight Foodborne Illness - The Huffington Post

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Monday, December 5, 2011

Article: Do you own your germs? My new piece for the New York Times on micro-bioethics | The Loom

Do you own your germs? My new piece for the New York Times on micro-bioethics | The Loom - Discover Magazine

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Wednesday, November 30, 2011

Article: New FSA research identifies norovirus levels in oysters

New FSA research identifies norovirus levels in oysters - Food & Beverage

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Article: Trans-Ocean Products Recalls Certain Smoked Salmon Lots Due To Listeria Risks

Trans-Ocean Products Recalls Certain Smoked Salmon Lots Due To Listeria Risks - FinanzNachrichten

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Monday, November 28, 2011

Food Safety and Quality Information - FoodHACCP.com

http://www.foodhaccp.com/

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Article: Whittington's beef jerky may be contaminated with Salmonella

Whittington's beef jerky may be contaminated with Salmonella - The Post Chronicle

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Article: Turkish pine nuts recall

Turkish pine nuts recall - www.postchronicle.com

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Friday, November 25, 2011

Article: The raw milk revolution

The raw milk revolution - The Guardian

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Article: Cause of antibiotic-resistance found

Cause of antibiotic-resistance found - Examiner

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Wednesday, November 23, 2011

Article: Salmonella Outbreaks in many states

Salmonella Outbreaks in many states - Examiner

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Article: Pasteurized Shell Eggs Give Consumers Safe, Salmonella-Free Option During Holiday Meal Season

Pasteurized Shell Eggs Give Consumers Safe, Salmonella-Free Option During Holiday Meal Season - PR Newswire

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Tuesday, November 22, 2011

Article: Raw milk in E. coli recall in Calif.

Raw milk in E. coli recall in Calif. - UPI

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Article: Ready Packed Salad Product Recalled By Ready Pac Foods Due To E. Coli

Ready Packed Salad Product Recalled By Ready Pac Foods Due To E. Coli - Medical News Today

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Monday, November 21, 2011

Article: More tests for raw milk dairy after E. coli illnesses

More tests for raw milk dairy after E. coli illnesses - USA TODAY

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Article: AvidBiotics' Targeted Antibacterial Proteins Show Potential to Address Food-Borne Bacterial Infections, Provide Antibiotic Alternative

AvidBiotics' Targeted Antibacterial Proteins Show Potential to Address Food-Borne Bacterial Infections, Provide Antibiotic Alternative - Business Wire

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Friday, November 18, 2011

Article: CFIA recalls ginger beef sold at Costco

CFIA recalls ginger beef sold at Costco - CTV.ca

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Article: Smucker's recalls 300 cases of peanut butter for possible Salmonella

Smucker's recalls 300 cases of peanut butter for possible Salmonella - Examiner

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Article: USDA to enforce regulation of Shiga toxin-producing E. coli

USDA to enforce regulation of Shiga toxin-producing E. coli - Food & Beverage

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Article: Local organic raw milk, butter, cream, colostrum & qhephor recalled

Local organic raw milk, butter, cream, colostrum & qhephor recalled - Examiner

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Wednesday, November 9, 2011

Article: An 'Operating System' That Runs on Cells Could Create Whole New Life Forms | Popular Science

An 'Operating System' That Runs on Cells Could Create Whole New Life Forms | Popular Science - www.popsci.com

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Monday, November 7, 2011

Article: Health warning: Pine nuts may contain salmonella bacteria

Health warning: Pine nuts may contain salmonella bacteria - BayToday.ca

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Health warning: Pine nuts may contain salmonella bacteria

By Kate Adams
BayToday.ca
Saturday, November 05, 2011

Canadian Food Inspection Agency
News Release

*********************

OTTAWA - The Canadian Food Inspection Agency (CFIA) and David Roberts Food Corporation are warning the public not to consume certain David Roberts brand and Sysco brand pine nuts, described below, because the products may be contaminated with Salmonella.

The following pine nuts products are affected by this alert:

Sysco Plastic bag 1.5 kg 00734730026268 Lot 1323

David Roberts Plastic tubs 90 g 0 67261 24656 1 Lot 1323
Best Before Aug 17, 2012

David Roberts * Plastic bags 1.5 kg None Lot 1323

None* Plastic tubs Variable
90-100 g None Pack date: AU 17, 2011

* Sold only at David Roberts Food Corporation retail store: 426 Watline Avenue, Mississauga, ON.

These products have been distributed to food service accounts in Ontario and sold at the David Roberts Food Corporation retail store located at 426 Watline Avenue, Mississauga, ON.

There have been no reported illnesses associated with the consumption of these products.

Food contaminated with Salmonella may not look or smell spoiled. Consumption of food contaminated with this bacteria may cause salmonellosis, a foodborne illness. In young children, the elderly and people with weakened immune systems, salmonellosis may cause serious and sometimes deadly infections. In otherwise healthy people, salmonellosis may cause short-term symptoms such as high fever, severe headache, vomiting, nausea, abdominal pain and diarrhea. Long-term complications may include severe arthritis.

The importer, David Roberts Food Corporation, Mississauga, ON, is voluntarily recalling the affected products from the marketplace. The CFIA is monitoring the effectiveness of the recall.

For more information, consumers and industry can call one of the following numbers:

David Roberts Food Corporation at 905-502-7700;

CFIA at 1-800-442-2342 / TTY 1-800-465-7735 (8:00 a.m. to 8:00 p.m. Eastern time, Monday to Friday).

For information on Salmonella, visit the Food Facts web page at: http://www.inspection.gc.ca/english/fssa/concen/cause/salmonellae.shtml

For information on all food recalls, visit the CFIA�s Food Recall Report at: http://active.inspection.gc.ca/eng/corp/recarapp_dbe.asp.

To find out more about receiving recalls by e-mail, and other food safety facts, visit: www.foodsafety.gc.ca. Food and consumer product recalls are also available at http://www.healthycanadians.gc.ca.

*********************

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Article: Number of confirmed St. Louis area E. coli cases rises to 27

Number of confirmed St. Louis area E. coli cases rises to 27 - STLtoday

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Thursday, November 3, 2011

Are Gut Bacteria In Charge? - Discovery News

http://news.discovery.com/human/gut-bacteria-obesity-111026.html

Are Gut Bacteria In Charge?

27 October, 2011 4:07:00 AM
Jessica Marshall)

The bacteria in our gut may be controlling our lives more than we ever realized.

In the latest findings, published today in Nature, researchers report a link between gut bacteria and the development of multiple sclerosis in mice. Studies in mice have also examined gut bacteria in relation to obesity, depression and much more.

More human studies are emerging hinting at the role the bacteria in our guts may play well beyond helping us to digest our food.

NEWS: Is Obesity A Disease?

"What has been observed in humans with regard to obesity is that there seems to be a difference in the number of kinds of bacteria in the gut," said Rob Knight of the University of Colorado, Boulder. "That number is much lower in obese people than in healthy people."

Researchers have also seen differences in bacteria between mice bred to be obese versus those of normal weight. In one experiment, researchers found that an obese mouse's gut microbes extracted more of the calories from a given parcel of food than did those of non-obese mice.

This caused the obese mice to gain more body fat than the non-obese mice did.

But even stranger, in a type of mouse with a different mutation that leads to obesity, transferring gut microbes from the obese mice into other mice led the non-obese mice to eat more.

"They're not any better at extracting energy from the food. They're just hungrier apparently," Knight said. "There are more microbial cells in your body than there are brain cells. They may be outvoting you when it comes time to order (at the restaurant)."

If gut microbes can tell mouse brains to eat more, could they have other effects on the brain? Researchers are finding that the answer is yes.

"We're now starting to see direct impacts of the gut microbial community on host behavior," Knight said.

Experiments have shown that mice with no gut microbes show differences in how much they move and in their anxiety-like behavior than mice with normal gut bacteria. Mice treated with "probiotic" Lactobacillus bacteria showed a different gene expression in the brain, reduced anxiety behavior and stress hormone levels than untreated mice.

The effects may extend to diseases that are seemingly unrelated to the digestive system. In the work published today, researchers studied mice bred to develop a disease similar to multiple sclerosis.

Those raised in an environment with no bacteria never developed symptoms. Once typical gut bacteria were introduced, the mice began to show signs of the disease.

"I think what our study really shows is the importance of the gut microbiota in the initial phase of the disease," said Gurumoorthy Krishnamoorthy of the Max Planck Institute of Immunobiology and Epigenetics in Freiburg, Germany who led the study with colleague Hartmut Wekerle.

Of course, it's impossible for humans to live a microbe-free lifestyle, but the findings suggest the microbial community may play a role in human multiple sclerosis. The team will now look for specific microbes that may be responsible for triggering symptoms.

NEWS: Animals Getting Fatter, Too

If a healthy gut microbial community proves important for different aspects of our health, what could we do to encourage the bacteria that would prevent obesity or disease?

One option might be to take probiotics, eat a particular diet, or minimize antibiotic use, Krishnamoorthy said.

But others are investigating transferring gut bacteria from the other end-through "fecal transplants" from healthy people to those with illness. "The potential is very high, but the actual amount of research is relatively low," Knight said.

In trials of patients with Clostridium difficile infections -- a gut-wrenching intestinal problem -- more than 90 percent of patients have been cured, and their microbial communities restored to normal.

In preliminary work with huge public health implications, a study last year showed improved insulin sensitivity among patients with metabolic syndrome who received stool transfers from lean individuals.

"Then the question is which other conditions are there that could also benefit from stool transplants," Knight said.

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Article: FDA to launch major Salmonella screening of pet foods in 2012

FDA to launch major Salmonella screening of pet foods in 2012 - Examiner

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Article: Recalls & Withdrawals

Recalls & Withdrawals - www.fda.gov

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Article: FDA begins testing pet food products for salmonella

FDA begins testing pet food products for salmonella - Examiner

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ABCNews.com: St. Louis E. Coli Probe Focuses on Grocery Salads

http://abcnews.go.com/US/wireStory/st-louis-coli-probe-focuses-grocery-salads-14861531

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Article: E. coli outbreak in Missouri investigated

E. coli outbreak in Missouri investigated - UPI

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Wednesday, November 2, 2011

Article: And Now, an E. coli Bacterium That's Fifteen Feet Long

And Now, an E. coli Bacterium That's Fifteen Feet Long - io9

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Tuesday, November 1, 2011

Article: States vary widely in reporting foodborne illnesses

States vary widely in reporting foodborne illnesses - The Washington Post

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Monday, October 31, 2011

Article: E.Coli Outbreak Linked To North Carolina State Fair

E.Coli Outbreak Linked To North Carolina State Fair - FinanzNachrichten

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Sunday, October 30, 2011

Article: US food store recalls pine nuts

US food store recalls pine nuts - Shanghai Daily

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Article: Salmonella Outbreak Forces Recall of Pine Nuts

Salmonella Outbreak Forces Recall of Pine Nuts - ABC News

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Thursday, October 27, 2011

Article: New Liquid Crystal-Based Technology Rapidly Detects Multiple Pathogens in Food

New Liquid Crystal-Based Technology Rapidly Detects Multiple Pathogens in Food - Business Wire

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Article: German E. coli outbreak: Closer look at bacterium's new strain

German E. coli outbreak: Closer look at bacterium's new strain - The Chicago Tribune

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Tuesday, October 25, 2011

Article: Fridge Salad Drawers May Contain 750 Times More Bacteria Than "Clean" Level, Research Shows

Fridge Salad Drawers May Contain 750 Times More Bacteria Than "Clean" Level, Research Shows - Sbwire Press Releases

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Article: Yale Innovates New E. Coli Test That Could Save Thousands Of Lives

Yale Innovates New E. Coli Test That Could Save Thousands Of Lives - The Huffington Post

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Article: 'Green' reusable bags carry germs along with groceries

'Green' reusable bags carry germs along with groceries - The Washington Times

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Wednesday, October 5, 2011

Article: Death toll from tainted cantaloupe jumps to 18, at least 100 sickened

Death toll from tainted cantaloupe jumps to 18, at least 100 sickened - Examiner

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Thursday, September 29, 2011

Article: FDA: Cantaloupe Listeria Outbreak Not Over Yet

FDA: Cantaloupe Listeria Outbreak Not Over Yet - Cbs4.com

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Article: Listeria found in cantaloupe has killed at least 13; number is expected to grow

Listeria found in cantaloupe has killed at least 13; number is expected to grow - Examiner

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Tuesday, September 27, 2011

Article: The Microbial Immune System Can Be Likened To A Vaccination Program

The Microbial Immune System Can Be Likened To A Vaccination Program - Medical News Today

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Article: Spies could hide messages in gene-modified microbes

Spies could hide messages in gene-modified microbes - New Scientist

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Friday, September 23, 2011

Article: Michele Bachmann's Latest Job Creation Idea: Less Food Safety Regulation, More E. Coli

Michele Bachmann's Latest Job Creation Idea: Less Food Safety Regulation, More E. Coli - Think Progress

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Article: FDA Creates a Foodborne Illness Response Network Due to Recent Outbreaks

FDA Creates a Foodborne Illness Response Network Due to Recent Outbreaks - InjuryBoard

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Thursday, September 22, 2011

Biomedical Literature Search Tools

http://www.ncbi.nlm.nih.gov/CBBresearch/Lu/search/

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Article: USDA Announces Increased E. Coli Testing in Beef

USDA Announces Increased E. Coli Testing in Beef - Webwire

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Article: BioMed Central | Full text | Systems analysis of multiple regulator perturbations allows discovery of virulence factors in Salmonella

BioMed Central | Full text | Systems analysis of multiple regulator perturbations allows discovery of virulence factors in Salmonella - www.biomedcentral.com

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Friday, September 9, 2011

Article: Recall expanded for walnuts over possible E. coli contamination

Recall expanded for walnuts over possible E. coli contamination - CTV.ca

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Saturday, September 3, 2011

Article from Science News: Mind-Altering Bugs...

I thought you might be interested in this article from Science News:

Mind-Altering Bugs

http://news.sciencemag.org/sciencenow/2011/08/mind-altering-bugs.html?ref=wp

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Friday, August 26, 2011

Article: Coriander oil kills harmful bacteria, says study

Coriander oil kills harmful bacteria, says study - Food & Beverage

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Article: Dirtier -- kitchen sink or floor?

Dirtier -- kitchen sink or floor? - CNN

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Tuesday, August 23, 2011

Article: STEC Surveillance: UR DOING IT WRONG?

STEC Surveillance: UR DOING IT WRONG? - Scienceblogs

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Monday, August 22, 2011

Article: Journal of AOAC International publishes data on SDIX RapidChek® SELECT™ Salmonella Enteritidis Test System

Journal of AOAC International publishes data on SDIX RapidChek® SELECT™ Salmonella Enteritidis Test System - www.businesswire.com

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Friday, August 19, 2011

Article: Ground turkey salmonella toll climbs to 111

Ground turkey salmonella toll climbs to 111 - MSNBC

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Article: Battle of the Bacteria: Genetically Modified E.coli vs. P.aeruginosa

Battle of the Bacteria: Genetically Modified E.coli vs. P.aeruginosa - Medagadget

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Thursday, August 11, 2011

Article: E. Coli Found In Strawberries At Oregon Farm

E. Coli Found In Strawberries At Oregon Farm - NewsOXY

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Sunday, August 7, 2011

Article: Turkey recall raises U.S. food safety questions

Turkey recall raises U.S. food safety questions - Reuters

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Saturday, August 6, 2011

Open-Source Genomic Analysis of Shiga-Toxin–Producing E. coli O104:H4 — NEJM

http://www.nejm.org/doi/full/10.1056/NEJMoa1107643#t=articleTop

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Microbial Genomics and Infectious Diseases — NEJM

http://www.nejm.org/doi/full/10.1056/NEJMra1003071

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Wednesday, August 3, 2011

Article: Many public taps fail water quality test

Many public taps fail water quality test - The Local

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Saturday, July 30, 2011

Article: University of Maryland School of Medicine Institute for Genome Sciences Cracks Genomic Code of Deadly German E. coli Outbreak

University of Maryland School of Medicine Institute for Genome Sciences Cracks Genomic Code of Deadly German E. coli Outbreak - BioSpace

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Article: Recall Notification Report 056-2011 | USDA Food Safety and Inspection Service

Recall Notification Report 056-2011 | USDA Food Safety and Inspection Service - www.fsis.usda.gov

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Article: As E. Coli Sequencing Data Accumulates, Teams Disagree on Evolutionary Origins of Outbreak Strain

As E. Coli Sequencing Data Accumulates, Teams Disagree on Evolutionary Origins of Outbreak Strain - GenomeWeb

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Article: The pros and cons of irradiated food

The pros and cons of irradiated food - Boing Boing

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Tuesday, July 26, 2011

Article: Only 1 deadly strain of E. coli is illegal, but that may change

Only 1 deadly strain of E. coli is illegal, but that may change - USA Today

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Article: Early IV reduces renal risk after E. coli

Early IV reduces renal risk after E. coli - UPI

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Software for Genomics, Proteomics, Metabolomics & Transcriptomics: Genedata AG

http://www.genedata.com/products/expressionist.html

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Saturday, July 23, 2011

Article: Space shuttle may have planted seed for MRSA, salmonella vaccines

Space shuttle may have planted seed for MRSA, salmonella vaccines - ZDNet

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Article: AP Exclusive: US victim of German food poisoning outbreak describes '30 days of hell'

AP Exclusive: US victim of German food poisoning outbreak describes '30 days of hell' - The Washington Post

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Article: Bill Marler To Sprout Industry: Face Reality, Sprouts Can Sicken and Kill

Bill Marler To Sprout Industry: Face Reality, Sprouts Can Sicken and Kill - PRWeb

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Article: Seattle Lab Finds Tainted Grocery Store Chickens

Seattle Lab Finds Tainted Grocery Store Chickens - www.foodsafetynews.com

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Friday, July 22, 2011

Article: Spanish eggs linked to salmonella outbreak

Spanish eggs linked to salmonella outbreak - The Daily Mirror

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Article: Neogen Corp. (NEOG) Reports E. coli Detection Breakthrough for NeoSEEK

Neogen Corp. (NEOG) Reports E. coli Detection Breakthrough for NeoSEEK - StreetInsider

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Tuesday, July 19, 2011

Combating E. Coli: Can a Peptide Block the Bug?

http://www.foodsafetynews.com/2011/07/peptide-could-be-new-combatant-to-e-coli/

Tuesday, July 12, 2011

Article: The end of E. coli | Thoughtomics, Scientific American Blog Network

The end of E. coli | Thoughtomics, Scientific American Blog Network - blogs.scientificamerican.com

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Article: Five Experiments Underway in Space

Five Experiments Underway in Space - Epochtimes

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Monday, July 11, 2011

Article: E.Coli and your health

E.Coli and your health - Examiner

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Sunday, July 10, 2011

Article: Strangest Passengers in NASA History

Strangest Passengers in NASA History - US From Newser

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Saturday, July 9, 2011

Article: Preventing E. Coli Infection, Research Suggests New Strategy

Preventing E. Coli Infection, Research Suggests New Strategy - Medical News Today

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Friday, July 8, 2011

Article: China dogged by ongoing food safety breaches

China dogged by ongoing food safety breaches - Food Magazine

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Thursday, July 7, 2011

Article: In final mission, space shuttle Atlantis carries vaccine research

In final mission, space shuttle Atlantis carries vaccine research - FierceVaccines

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A Parallel Clinical Pattern to O104:H4

http://www.foodsafetynews.com/2011/07/a-parallel-clinical-pattern-to-o104h4/

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Two Studies Analyze the Unusually Deadly Outbreak of E. Coli in Germanty - - TIME Healthland

http://healthland.time.com/2011/06/24/why-the-german-e-coli-outbreak-was-so-deadly/

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Pacific Biosciences Contributes Whole Genome Sequence Data for German E. Coli Outbreak Strain and 11 Related Strains for Comparative Analysis - MarketWatch

http://www.marketwatch.com/story/pacific-biosciences-contributes-whole-genome-sequence-data-for-german-e-coli-outbreak-strain-and-11-related-strains-for-comparative-analysis-2011-07-06?reflink=MW_news_stmp

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Wednesday, July 6, 2011

Article: The 2011 E. Coli Diagnostics Market: US, Europe, Japan - Test Volume and Sales Forecasts by Country Profiles Leading Suppliers and Recent Market Entrants

The 2011 E. Coli Diagnostics Market: US, Europe, Japan - Test Volume and Sales Forecasts by Country Profiles Leading Suppliers and Recent Market Entrants - FinanzNachrichten

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Article: A food safety ‘who done it'

A food safety 'who done it' - The Globe and Mail

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Article: Final space shuttle to carry five CU-Boulder-built payloads

Final space shuttle to carry five CU-Boulder-built payloads - Physorg

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Article: Phage on the Rampage

Phage on the Rampage - Cornucopia Institute

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Tuesday, July 5, 2011

Article: E. coli bacteria ehec traced to Sweden

E. coli bacteria ehec traced to Sweden - Stockholm News

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Monday, July 4, 2011

Article: Budget cuts threaten testing of produce for pathogens

Budget cuts threaten testing of produce for pathogens - Seattlepi

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'Megapixel' DNA replication technology promises faster, more precise diagnostics

http://www.sciencedaily.com/releases/2011/07/110703133842.htm?utm_source=feedburner&utm_medium=feed&utm_campaign=Feed%3A+sciencedaily+%28ScienceDaily%3A+Latest+Science+News%29&utm_content=Google+International

Article: The 15 Most Terrifying Food Scares

The 15 Most Terrifying Food Scares - www.businessinsider.com

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Sunday, July 3, 2011

Article: Cornell gets grant to start food safety training

Cornell gets grant to start food safety training - Ithaca Journal

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NGSLeaders :: Blogs

http://www.ngsleaders.org/blogs.aspx?id=825&blogid=79

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Article: China wrestles with food safety problems

China wrestles with food safety problems - Los Angeles Times

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Article: Human Belly Button Is Home to Hundreds of Never-Before-Seen Species

Human Belly Button Is Home to Hundreds of Never-Before-Seen Species - Popular Science

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Article: A Decade of Inaction at USDA on Non-O157 E. coli

A Decade of Inaction at USDA on Non-O157 E. coli - www.foodsafetynews.com

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Saturday, July 2, 2011

Article: France E. coli outbreak: One dead

France E. coli outbreak: One dead - BBC

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Article: Under pressure, Idaho producer recalls sprouts

Under pressure, Idaho producer recalls sprouts - San Francisco Chronicle

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Article: Update On E. Coli O104 Outbreak In Germany And Cluster Of Cases In France

Update On E. Coli O104 Outbreak In Germany And Cluster Of Cases In France - Medical News Today

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Friday, July 1, 2011

Article: Irradiating organic food would save lives - health - 28 June 2011 - New Scientist

Irradiating organic food would save lives - health - 28 June 2011 - New Scientist - www.newscientist.com

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Article: Bill Marler To Sprout Industry: Face Reality, Sprouts Can Sicken and Kill

Bill Marler To Sprout Industry: Face Reality, Sprouts Can Sicken and Kill - PRWeb

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Thursday, June 30, 2011

Article: New salmonella-based 'clean vaccines' aid the fight against infectious disease

New salmonella-based 'clean vaccines' aid the fight against infectious disease - Physorg

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Article: EU investigating if Egypt seeds common link in E. coli outbreak in Germany and France

EU investigating if Egypt seeds common link in E. coli outbreak in Germany and France - The Washington Post

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Wednesday, June 29, 2011

Article: Decoding Genomes Of Microbe Ecosystems Could Deliver Untold Benefits

Decoding Genomes Of Microbe Ecosystems Could Deliver Untold Benefits - Fast Company

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Article from Science News: Mutated Bacteria Drives Scarle...

I thought you might be interested in this article from Science News:

Mutated Bacteria Drives Scarlet Fever Outbreak

http://news.sciencemag.org/scienceinsider/2011/06/mutated-bacteria-drives-scarlet.html?ref=wp

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Article: Alfalfa Sprouts Salmonella Risk Warning Issued By FDA

Alfalfa Sprouts Salmonella Risk Warning Issued By FDA - Medical News Today

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Article: Understanding the E. coli outbreak part four

Understanding the E. coli outbreak part four - Examiner

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Tuesday, June 28, 2011

Article: The long and winding road to a PhD [infographic] - Holy Kaw!

The long and winding road to a PhD [infographic] - Holy Kaw! - holykaw.alltop.com

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Article: Tyson Bribery Case Reveals Gaps in Meat Inspection Policy, White Collar Crime Law

Tyson Bribery Case Reveals Gaps in Meat Inspection Policy, White Collar Crime Law - The Huffington Post

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Article: Epidemiology and social media: conference fail : Aetiology

Epidemiology and social media: conference fail : Aetiology - scienceblogs.com

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Article: The E. coli O104:H4 Outbreak Gets More Confusing--and Potentially More Disturbing

The E. coli O104:H4 Outbreak Gets More Confusing--and Potentially More Disturbing - Scienceblogs

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Monday, June 27, 2011

Article: Understanding the E. coli outbreak part three

Understanding the E. coli outbreak part three - Examiner

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Article: French E.coli Strain Is The Same As Germany's

French E.coli Strain Is The Same As Germany's - The Huffington Post

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Article: Tips to Prevent Illness from Clostridium Perfringens

Tips to Prevent Illness from Clostridium Perfringens - FoodConsumer

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Sunday, June 26, 2011

Article: Spoonful of Medicine: As E. coli continues to claim lives, new approaches offer hope

Spoonful of Medicine: As E. coli continues to claim lives, new approaches offer hope - blogs.nature.com

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Article: E.coli: consumers advised not to eat raw bean sprouts

E.coli: consumers advised not to eat raw bean sprouts - The Daily Telegraph

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Saturday, June 25, 2011

Article: Science's 10 hottest fields

Science's 10 hottest fields - Financial Times

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Article: Will budget cuts spell the end for "Team D"?

Will budget cuts spell the end for "Team D"? - Consumer Reports

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Article: France halt sales of 3 seed types linked to British vendor after E. coli outbreak

France halt sales of 3 seed types linked to British vendor after E. coli outbreak - The Washington Post

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International Activities > Foreign Food Inspection Program Questions and Answers

FDA list of high risk food.

http://www.fda.gov/Food/InternationalActivities/ucm211823.htm#q2

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Article: Sickening Shopping Carts

Sickening Shopping Carts - Glamchic

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Article: E. coli: Some Answers, Many Questions Still

E. coli: Some Answers, Many Questions Still - Wired

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Article: MiSeq Aims for Ion Torrent

MiSeq Aims for Ion Torrent - Omics! Omics!

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Friday, June 24, 2011

The Tree of Life: Fun with Ligercat: pubmed word clouds

http://phylogenomics.blogspot.com/2011/06/fun-with-ligercat-pubmed-word-clouds.html

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Article: Gangrenous Bowel Shows Deadly Risk of German Bug, Study Says

Gangrenous Bowel Shows Deadly Risk of German Bug, Study Says - Business Week

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From Foodborne Pathogen Team Kwan Lab CUHK--German outbreak strains: Alignment-free whole-genome phylogeny suggested that EAEC 55989 is a close relative but not a direct parent

German outbreak strains: Alignment-free whole-genome phylogeny suggested that EAEC 55989 is a close relative but not a direct parent

Introduction:

Accuracy of SNP-based whole-genome phylogeny reconstruction relies heavily on quality of sequence alignment which is particularly hindered by poorly assembled genomes. Alignment-free methods might provide additional insights. Here, we constructed a whole-genome phylogeny of 9 outbreak isolates against existing E. coli genomes using the alignment-free feature frequency profile (FFP) method (Sims et al. 2009).

Datasets:

1. Genome sequences of 30 E. coli isolates from NCBI, and

2. Genome sequences of 9 outbreak isolates, TY2482 from BGI, LB226692 from Life Technologies, 5 isolates from HPA, and 2 isolates from Göttingen.

Method:

1. Genome sequences were converted into an RY (purine/pyrimidine)-coded form.

2. Overlapping features, l-mers of length 24, were counted over each of the whole genomes.

3. Forward and reverse complement features were considered equivalent.

4. Only core features which were present in all 39 isolates were extracted.

5. Features occurring more than 3 times in any of the isolates were removed.

6. Simple cumulative distances were calculated among all feature states in an unordered manner.

7. A neighbor-joining tree was plotted with the resulting distance matrix using MEGA5.

For details, please refer to Sims & Kim (2011).

Results:

The following is the phylogenetic tree produced using the current alignment-free method. Outbreak isolates were highlighted in red.

Our tree generally agrees with that reported by Konrad Paszkiewicz & Kat Holt built using a SNP-based approach, both revealing a high similarity among the outbreak isolates and 55989 being the most closely related isolate sequenced thus far. However, we should note that the genetic difference between 55989 and the outbreak isolates in our FFP tree is greater than that in the tree built based on SNPs.

Linear phylogenetic inference of bacteria might be problematic due to horizontally transferred elements. While Kat Holt tried to remove obviously horizontally transferred DNA by removing SNP calls in genes annotated with keywords like "phage" and "transposase", we removed features likely to be associated with mobile or repetitive DNA by filtering out features with high frequencies and used an unordered character state model to reduce the effect of lateral transfer signal. Both methods seem to work well.

Concluding remarks:
To sum up, using an alignment-free phylogenetic approach, we further confirm 55989 being the most closely related isolate to the outbreak isolates sequenced thus far, again showing an EAEC-origin of the outbreak isolates. However, the genetic difference suggested that 55989 is not a direct parent of the outbreak isolates.

References:

Sims GE, Jun S-R, Wu GA, Kim S-H (2009) Alignment-free genome comparison with feature frequency profiles (FFP) and optimal resolutions. PNAS 106:2677-2682.

Sims GE, Kim S-H (2011) Whole-genome phylogeny of Escherichia coli/Shigella group by feature frequency profiles (FFPs). PNAS 108:8329-8334.

Prepared by Simon CHEUNG, Wenyan NONG, Lei LI & H.S. KWAN

http://www.euro.who.int/en/what-we-do/health-topics/emergencies/international-health-regulations/news/news/2011/06/ehec-outbreak-update-22

Table copied from WHO report linked above:

"
The table shows the reported cases of and deaths from HUS and EHEC infection as of 22 June at 15:00 CET.

Country	HUS		EHEC		Comments
Country	Cases	Deaths	Cases	Deaths
Austria	1	0	3	0
Canada	0	0	1	0
Czech Republic	0	0	1	0	A tourist from the United States who had travelled in Germany
Denmark	9	0	13	0
France	0	0	2	0
Germany	823	29	2865	13
Greece	0	0	1	0	A German tourist
Luxembourg	1	0	1	0
Netherlands	4	0	5	0
Norway	0	0	1	0	Contact with a German in Norway
Poland	2	0	1	0
Spain	1	0	1	0
Sweden	17	1	33	0
Switzerland	0	0	5	0
United Kingdom	3	0	3	0
United States of America	3	0	2	0	3 HUS cases (all confirmed) and 2 EHEC cases (one confirmed and one suspected)
Total	864	30	2938	13

Note. There are 3802 HUS and EHEC cases in total, including 43 fatalities.

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CIDRAP >> German E coli outbreak kills 3 more, reaches 3,800 cases

http://www.cidrap.umn.edu/cidrap/content/fs/food-disease/news/jun2311ehec.html

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Are Gut Bacteria In Charge?

27 October, 2011 4:07:00 AM Jessica Marshall)

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27 October, 2011 4:07:00 AM
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