Genomics & Evolution in Microbiology - Mathgon
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Cyber-attaque : Israël assure avoir limité l’impact de l’assaut Anonymous

Cyber-attaque : Israël assure avoir limité l’impact de l’assaut Anonymous | Genomics & Evolution in Microbiology - Mathgon | Scoop.it
Samedi, le réseau de hacktivistes avait annoncé une méga-attaque contre Israël en guise de solidarité avec le peuple palestinien. Mais les autorités du pays ont minoré l'impact.
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Les LED poussent à relocaliser la production d’éclairage

Les LED poussent à relocaliser la production d’éclairage | Genomics & Evolution in Microbiology - Mathgon | Scoop.it
Technos et Innovations :
Samsung, Toshiba, Panasonic, LG… Autant d’industriels qui ont fait irruption dans l’éclairage en France et en Europe ces...
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Bigelow Laboratory for Ocean Sciences :: Baines-Twining Nature Geosciences Paper

Bigelow Laboratory for Ocean Sciences :: Baines-Twining Nature Geosciences Paper | Genomics & Evolution in Microbiology - Mathgon | Scoop.it
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Stratos Genomics Receives $2 Million on Achievement of SequencingMilestone

Stratos Genomics Receives $2 Million on Achievement of SequencingMilestone | Genomics & Evolution in Microbiology - Mathgon | Scoop.it
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Structure and function of BamE within the outer mem... [EMBO Rep. 2011] - PubMed - NCBI

Structure and function of BamE within the outer mem... [EMBO Rep. 2011] - PubMed - NCBI | Genomics & Evolution in Microbiology - Mathgon | Scoop.it

Insertion of folded proteins into the outer membrane of Gram-negative bacteria is mediated by the essential β-barrel assembly machine (Bam). Here, we report the native structure and mechanism of a core component of this complex, BamE, and show that it is exclusively monomeric in its native environment of the periplasm, but is able to adopt a distinct dimeric conformation in the cytoplasm. BamE is shown to bind specifically to phosphatidylglycerol, and comprehensive mutagenesis and interaction studies have mapped key determinants for complex binding, outer membrane integrity and cell viability, as well as revealing the role of BamE within the Bam complex.


Via Mark Pallen
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Parallel bacterial evolution within multiple patients identifies candidate pathogenicity genes : Nature Genetics : Nature Publishing Group

Parallel bacterial evolution within multiple patients identifies candidate pathogenicity genes : Nature Genetics : Nature Publishing Group | Genomics & Evolution in Microbiology - Mathgon | Scoop.it
Roy Kishony and colleagues sequenced the genomes of 112 Burkholderia dolosa isolates recovered from 14 individuals with cystic fibrosis as part of a retrospective study from a hospital epidemic monitored over the course of 16 years.

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Craig Venter Wants to Solve the World’s Energy Crisis

Craig Venter Wants to Solve the World’s Energy Crisis | Genomics & Evolution in Microbiology - Mathgon | Scoop.it
There is one version of Craig Venter's life story where he would've been a dutiful scientist at the National Institutes of Health, a respect...
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Comment survit un labo

Comment survit un labo | Genomics & Evolution in Microbiology - Mathgon | Scoop.it

Financements aléatoires, organisation kafkaïenne, précarité permanente... Au pays des Lumières, des scientifiques de renommée internationale peinent à boucler les fins de mois. Plongée dans la vie quotidienne de l'unité de génétique dirigée par Christine Petit, à l'Institut Pasteur

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The 1,000 dollar genome, the 100,000 dollar analysis? Genome Medicine

Having recently attended the Personal Genomes meeting at Cold Spring Harbor Laboratories (I was an organizer this year), I was struck by the number of talks that described the use of whole-genome sequencing and analysis to reveal the genetic basis of disease in patients...

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New insights into the Tyrolean Iceman's origin an... [Nat Commun. 2012] - PubMed - NCBI

The Tyrolean Iceman, a 5,300-year-old Copper age individual, was discovered in 1991 on the Tisenjoch Pass in the Italian part of the Ötztal Alps. Here we report the complete genome sequence of the Iceman and show 100% concordance between the previously reported mitochondrial genome sequence and the consensus sequence generated from our genomic data. We present indications for recent common ancestry between the Iceman and present-day inhabitants of the Tyrrhenian Sea, that the Iceman probably had brown eyes, belonged to blood group O and was lactose intolerant. His genetic predisposition shows an increased risk for coronary heart disease and may have contributed to the development of previously reported vascular calcifications. Sequences corresponding to ~60% of the genome of Borrelia burgdorferi are indicative of the earliest human case of infection with the pathogen for Lyme borreliosis.

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Notre assiette en 2035: un scénario (légèrement) catastrophe

Notre assiette en 2035: un scénario (légèrement) catastrophe | Genomics & Evolution in Microbiology - Mathgon | Scoop.it

Pour le Guardian, Alex Renton a imaginé ce que mangeront deux familles anglaises en 2035, l'une aisée, l'autre fauchée. Tenter de prédire de quoi sera faite notre alimentation dans plus de 20 ans revient à donner sa vision de l'avenir, s ...

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Notre assiette en 2035: un scénario (légèrement) catastrophe
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Big genomics data, big scientific impact: New challenges for further development of life science

Big genomics data, big scientific impact: New challenges for further development of life science | Genomics & Evolution in Microbiology - Mathgon | Scoop.it
BGI, the world's largest genomics organization, today announced its latest advances in the analysis, management and dissemination of 'Big Genomics Data' at their 3rd bioinformatics software and data release conference.
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Des centaines d'analyses biochimiques sur une seule puce | Technologie | Radio-Canada.ca

Des centaines d'analyses biochimiques sur une seule puce | Technologie | Radio-Canada.ca | Genomics & Evolution in Microbiology - Mathgon | Scoop.it
Une nouvelle invention pourrait bien révolutionner la recherche en biologie moléculaire dans les prochaines années.
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Microbial air contamination in indoor ... [Ann Agric Environ Med. 2012] - PubMed - NCBI

PubMed comprises more than 22 million citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and publisher web sites.
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PLoS ONE: Calculating Orthologs in Bacteria and Archaea: A Divide and Conquer Approach

PLoS ONE: Calculating Orthologs in Bacteria and Archaea: A Divide and Conquer Approach | Genomics & Evolution in Microbiology - Mathgon | Scoop.it

Among proteins, orthologs are defined as those that are derived by vertical descent from a single progenitor in the last common ancestor of their host organisms. Our goal is to compute a complete set of protein orthologs derived from all currently available complete bacterial and archaeal genomes. Traditional approaches typically rely on all-against-all BLAST searching which is prohibitively expensive in terms of hardware requirements or computational time (requiring an estimated 18 months or more on a typical server). Here, we present xBASE-Orth, a system for ongoing ortholog annotation, which applies a “divide and conquer” approach and adopts a pragmatic scheme that trades accuracy for speed. Starting at species level, xBASE-Orth carefully constructs and uses pan-genomes as proxies for the full collections of coding sequences at each level as it progressively climbs the taxonomic tree using the previously computed data. This leads to a significant decrease in the number of alignments that need to be performed, which translates into faster computation, making ortholog computation possible on a global scale. Using xBASE-Orth, we analyzed an NCBI collection of 1,288 bacterial and 94 archaeal complete genomes with more than 4 million coding sequences in 5 weeks and predicted more than 700 million ortholog pairs, clustered in 175,531 orthologous groups. We have also identified sets of highly conserved bacterial and archaeal orthologs and in so doing have highlighted anomalies in genome annotation and in the proposed composition of the minimal bacterial genome. In summary, our approach allows for scalable and efficient computation of the bacterial and archaeal ortholog annotations. In addition, due to its hierarchical nature, it is suitable for incorporating novel complete genomes and alternative genome annotations. The computed ortholog data and a continuously evolving set of applications based on it are integrated in the xBASE database, available at http://www.xbase.ac.uk/.


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NEJM: Microbial Genomics and Infectious Diseases

NEJM: Microbial Genomics and Infectious Diseases | Genomics & Evolution in Microbiology - Mathgon | Scoop.it

The pace of technical advancement in microbial genomics has been breathtaking. Since 1995, when the first complete genome sequence of a free-living organism, Haemophilus influenzae, was published, 1554 complete bacterial genome sequences (the majority of which are from pathogens) and 112 complete archaeal genome sequences have been determined, and more than 4800 and 90, respectively, are in progress. A total of 41 complete eukaryotic genome sequences have been determined (19 from fungi), and more than 1100 are in progress. Complete reference genome sequences are available for 2675 viral species, and for some of these species, a large number of strains have been completely sequenced. Nearly 40,000 strains of influenza virus and more than 300,000 strains of human immunodeficiency virus (HIV) type 1 have been partially sequenced. However, the selection of microbes and viruses for genome sequencing is heavily biased toward the tiny minority that are amenable to cultivation in the laboratory, numerically dominant in particular habitats of interest (e.g., the human body), and associated with disease.


Via Kamoun Lab @ TSL
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L'horreur économique des Jeux olympiques

L'horreur économique des Jeux olympiques | Genomics & Evolution in Microbiology - Mathgon | Scoop.it
Pour Daniel Salvatore Schiffer, les JO modernes sont un véritable symbole du capitalisme contemporain en ce qu'il a parfois de plus indigne.
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Bacteria may help build PCs

Bacteria may help build PCs | Genomics & Evolution in Microbiology - Mathgon | Scoop.it
Magnet-making bacteria may help build biological computers of the future, an international team of researchers says.
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Solving the genomic jigsaw puzzle » Scienceline

Solving the genomic jigsaw puzzle » Scienceline | Genomics & Evolution in Microbiology - Mathgon | Scoop.it

The price of DNA sequencing has fallen precipitously. But at what cost?

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Cave Bacteria Finding Suggests Ancient Origins of Antibiotic-Resistant Superbugs | Observations, Scientific American Blog Network

Cave Bacteria Finding Suggests Ancient Origins of Antibiotic-Resistant Superbugs | Observations, Scientific American Blog Network | Genomics & Evolution in Microbiology - Mathgon | Scoop.it
Our pill-popping culture and over-zealous livestock farmers typically take the blame for the widespread resistance of many harmful strains of bacteria to entire classes of antibiotics.

And ...
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The evolutionary origin of orphan genes. [Nat Rev Genet. 2011] - PubMed - NCBI

Gene evolution has long been thought to be primarily driven by duplication and rearrangement mechanisms. However, every evolutionary lineage harbours orphan genes that lack homologues in other lineages and whose evolutionary origin is only poorly understood. Orphan genes might arise from duplication and rearrangement processes followed by fast divergence; however, de novo evolution out of non-coding genomic regions is emerging as an important additional mechanism. This process appears to provide raw material continuously for the evolution of new gene functions, which can become relevant for lineage-specific adaptations.

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Genomics.energy.gov--genome programs of the U.S. Department of Energy

Genomics.energy.gov--genome programs of the U.S. Department of Energy | Genomics & Evolution in Microbiology - Mathgon | Scoop.it
Site of the U.S. Human Genome Project, Genomic Science Program, and Microbial Genome Program; all sponsored by the U.S. Department of Energy Genome Programs.
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