Microbial Forensics
55 views | +0 today
Follow
Your new post is loading...
Your new post is loading...
Rescooped by Carla Garzon from The science toolbox
Scoop.it!

Untangling whole genomes of individual species from a microbial mix

Untangling whole genomes of individual species from a microbial mix | Microbial Forensics | Scoop.it

Scientists at the University of Washington have developed a new approach to study microbes in the wild, which will allow researchers to sequence the genomes of individual species from highly complex mixtures. It marks a big advance for understanding the enormous diversity of microbial communities —including the human microbiome. This new method can cluster sequence fragments from a mixed sample of yeasts into species. In the shown graph, each of the 12 species with a substantial presence in the mix are represented by a cluster. Each fragment is shown as a dot, with size indicating length, colored by species. Line widths represent the densities of links between the fragment shown.

 

The work is described in an article published May 22 in Early Online form in the journal G3: Genes|Genomes|Genetics, published by the Genetics Society of America.


"This new method will allow us to discover many currently unknown microbial species that can't be grown in the lab, while simultaneously assembling their genome sequences," says co-author Maitreya Dunham, a biologist at the University of Washington's Department of Genome Sciences.

 

Microbial communities, whether sampled from the ocean floor or a human mouth, are made up of many different species living together. Standard methods for sequencing these communities combine the information from all the different types of microbes in the sample. The result is a hodgepodge of genes that is challenging to analyze, and unknown species in the sample are difficult to discover.

 

"Our approach tells us which sequence fragments in a mixed sample came from the same genome, allowing us to construct whole genome sequences for individual species in the mix," says co-author Jay Shendure, also of the University of Washington's Department of Genome Sciences.

 

The key advance was to combine standard approaches with a method that maps out which fragments of sequence were once near each other inside a cell. The cells in the sample are first treated with a chemical that links together DNA strands that are in close proximity. Only strands that are inside the same cell will be close enough to link. The DNA is then chopped into bits, and the linked portions are isolated and sequenced.


Reference:

Species-Level Deconvolution of Metagenome Assemblies with Hi-C-Based Contact Probability Maps Joshua N. Burton, Ivan Liachko, Maitreya J. Dunham, and Jay Shendure. G3: Genes|Genomes|Genetics g3.114.011825; Early Online May 22, 2014, DOI: 10.1534/g3.114.011825 ; PMID 24855317


Via Dr. Stefan Gruenwald, Niklaus Grunwald
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

WHO Issues Roadmap to Scale Up International Response to the Ebola Outbreak in West Africa

WHO Issues Roadmap to Scale Up International Response to the Ebola Outbreak in West Africa | Microbial Forensics | Scoop.it
  The World Health Organization (WHO) has issued a statement regarding a roadmap to scale up the international response to the Ebola viruses disease outbreak: The aim is to stop ongoing Ebola transmission worldwide within six to nine months, while...

Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

PositiveID Developing Handheld PCR for Space, Biodefense with Eye Toward Clinical Apps | PCR Insider | PCR/Sample Prep | GenomeWeb

“ (PositiveID Developing Handheld PCR for Space, Biodefense with Eye Toward Clinical Apps http://t.co/acKoEldNDY)”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Europe’s 2011 Killer Pathogen Could Have Been Spread on Purpose or Accidentally

Europe’s 2011 Killer Pathogen Could Have Been Spread on Purpose or Accidentally | Microbial Forensics | Scoop.it
“A new analysis applied to Northern Europe’s deadly 2011 E.”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Local residents air concerns at Fort Detrick biosafety expo - Frederick News Post (subscription)

Local residents air concerns at Fort Detrick biosafety expo - Frederick News Post (subscription) | Microbial Forensics | Scoop.it
“Local residents air concerns at Fort Detrick biosafety expoFrederick News Post (subscription)Representatives from USAMRIID, Frederick County's Division of Emergency Management, the U.S.”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Texas A&M FAZD now the Institute for Infectious Animal Diseases

Texas A&M FAZD now the Institute for Infectious Animal Diseases | Microbial Forensics | Scoop.it
“FAZD now the Institute for Infectious Animal DiseasesBovine VeterinarianThe Institute will continue to focus on developing solutions for transboundary, emerging and zoonotic animal diseases.”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Scientists do not want to destroy last stockpile of smallpox virus. Why? - Tech Times

Scientists do not want to destroy last stockpile of smallpox virus. Why? - Tech Times | Microbial Forensics | Scoop.it
“Tech TimesScientists do not want to destroy last stockpile of smallpox virus. Why?Tech Times...”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

MERS Shows That The Next Pandemic Is Only a Plane Flight Away - TIME

MERS Shows That The Next Pandemic Is Only a Plane Flight Away - TIME | Microbial Forensics | Scoop.it
“MERS Shows That The Next Pandemic Is Only a Plane Flight Away TIME SARS had been confined to southern China for months, but once Liu checked into the Metropole Hotel, it was only a matter of time before the first new infectious disease of the 21st...”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Fungal Infection That Causes Deadly Disease Being Studied at UAB

Fungal Infection That Causes Deadly Disease Being Studied at UAB | Microbial Forensics | Scoop.it
“Bacterial and viral are the more prevalent and commonly discussed forms of meningitis, but one infectious disease expert at the University of Alabama at Birmingham says fungal meningitis stemming from Cryptococcus is the true “hidden epidemic”...”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Worldwide scientists convene in Marseille to tackle deadly viruses - New Zealand Doctor Online

“AIDS.gov blog Worldwide scientists convene in Marseille to tackle deadly viruses New Zealand Doctor Online Toulon, France (MMD Newswire): Worldwide experts on some of the most critical viral threats facing humanity today will gather in Marseille,...”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Q&A: Will MERS Become a Pandemic?

Q&A: Will MERS Become a Pandemic? | Microbial Forensics | Scoop.it
“Spillover author David Quammen discusses how zoonotic diseases like MERS become pandemics.”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Biodefense expert urges international collaboration

Biodefense expert urges international collaboration | Microbial Forensics | Scoop.it
“via @BioPrepWatch Biodefense expert urges international collaboration http://t.co/SZCUEAOI8w”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

* The “visiting foreign scientist” from Egypt and Sudan was provided ...

* The “visiting foreign scientist” from Egypt and Sudan was provided ... | Microbial Forensics | Scoop.it
““The release of such agents as biological weapons could be catastrophic in light of the fact that such diseases will readily spread the air. In light of the foregoing discussion, it becomes ... The December 1999 article being referred to by Dr.”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Synthetic virus to deliver a new generation of medicines

Synthetic virus to deliver a new generation of medicines | Microbial Forensics | Scoop.it
Researchers have developed a synthetic virus. This can be used in the future to 'package' new generations of medicines consisting of large biomolecules and to deliver them into diseased cells, by a natural process.

Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from The Plant Microbiome
Scoop.it!

Microbiology: Microbiome science needs a healthy dose of scepticism

Microbiology: Microbiome science needs a healthy dose of scepticism | Microbial Forensics | Scoop.it
To guard against hype, those interpreting research on the body's microscopic communities should ask five questions, says William P. Hanage.

Via Francis Martin, Stéphane Hacquard
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

3 Pinoy nurses may have MERS - Philippine Star

3 Pinoy nurses may have MERS - Philippine Star | Microbial Forensics | Scoop.it
“Rappler 3 Pinoy nurses may have MERS Philippine Star Lyndon Lee Suy, DOH program manager for Emerging and Re-emerging Infectious Diseases, said the multi-agency Task Force MERS-CoV has not yet contacted 10 of the 414 passengers of the Etihad...”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Larry Brilliant is humanity's best hope against the next pandemic

Larry Brilliant is humanity's best hope against the next pandemic | Microbial Forensics | Scoop.it
“On November 16, 2002, a 45-year-old man was admitted to hospitalin Foshan City in Guangdong, China. His condition was consistentwith pneumonia, a high fever, muscle aches, shortness of breath,coughing and respiratory difficulties.”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Aerosol Spray Could Shield Lungs from Deadly Pathogens

Aerosol Spray Could Shield Lungs from Deadly Pathogens | Microbial Forensics | Scoop.it
“Researchers at the Texas A&M Health Science Center (TAMHSC) and the University of Texas MD Anderson Cancer Center have developed a new therapy to stimulate the body’s natural immune system, thereby providing effective protection against a wide...”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Pandora Report 5.2.14

Pandora Report 5.2.14 | Microbial Forensics | Scoop.it
“Highlights this week include Smallpox Redux, Antibiotic Resistance, and MERS in America.”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Bio-weapons could lead to 'apocalypse' - Press TV

Bio-weapons could lead to 'apocalypse' - Press TV | Microbial Forensics | Scoop.it
“Press TV Bio-weapons could lead to 'apocalypse' Press TV A mock victim is helped by emergency personnel during a biological preparedness drill being led by members of the Chemical Biological Incident Response Force (CBIRF), a unit in the US Marine...”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Ten-year research reveals new leads for anthrax vaccine

Ten-year research reveals new leads for anthrax vaccine | Microbial Forensics | Scoop.it
“Anthrax occupies a special role as a feared and potentially lethal disease, but the culmination of a ten-year research project has identified a section of its toxin that could produce an effective new…”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Second MERS Case in the U.S. is Confirmed

Second MERS Case in the U.S. is Confirmed | Microbial Forensics | Scoop.it
“A second imported case of Middle East Respiratory Syndrome (MERS) was confirmed late night on May 11 in a traveler to the United States. This patient is a healthcare worker who resides and works in Saudi Arabia.”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Ohio measles outbreak largest in USA since 1996

Ohio measles outbreak largest in USA since 1996 | Microbial Forensics | Scoop.it
“A measles outbreak in Ohio has reached 68 cases, giving the state the dubious distinction of having the most cases reported in any state since 1996, health officials say. (Measles upsurge: how worried should we be?”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

CONOP 8888: The Pentagon Has a Plan to Stop the Zombie Apocalypse. Seriously.

CONOP 8888: The Pentagon Has a Plan to Stop the Zombie Apocalypse. Seriously. | Microbial Forensics | Scoop.it
“Everything you need to know about the U.S. military’s defense strategy to protect humanity from the walking dead.”
Via Biodefense News
more...
No comment yet.
Rescooped by Carla Garzon from Biodefense News
Scoop.it!

Penn Develops Scalable Bio-Chemical Nanosensors

“Finely tuned over millions of years of evolution, the body’s different receptors are shaped to accept certain target chemicals.”
Via Biodefense News
more...
No comment yet.