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"In silico"


From Wikipedia
If the target host* of a phage therapy treatment is not an animal the term "biocontrol" (as in phage-mediated biocontrol of bacteria) is usually employed, rather than "phage therapy".

In silico
From:"Genomics,Proteomics and Clinical Bacteriology",N.Woodford and Alan P.Johnson

Phrase that emphasizes the fact that many molecular biologists spend increasing amounts of their time in front of a computer screen, generating hypotheses that can subsequently be tested and (hopefully) confirmed in the laboratory.


Phage Therapy is influenced by:

Phage therapy is influenced by:

Country : the epidemiological situation is different from country to country in terms of circulating bacteria and bacteriophages. Example: lytic phages from Italy may be no active on the same bacteria (genus and species) isolated from another country and vice versa.
Temporariness
Mutation rate
Phenotypical delay
Phage cocktail

My point of view

Tuesday 24 February 2009

Methods for Typing Pseudomonas aeruginosa strains




Complete genome sequence of Pseudomonas aeruginosa PA01

Pseudomonas aeruginosa PA01 Genome Page


Gene assigned a role category

Pseudomonas Genome Data Base

Genome Data base


PFGE

Pseudomonas aeruginosa PFGE protocol (HPA.UK)

ARPAC Pseudomonas aeruginosa Typing Database

PFGE method

Organism-------Pseudomonas aeruginosa

Recommended lysis enzyme--proteinase K

Restriction enzyme----------------SpeI,XbaI

Approximate no. of-----------2025,4050
restriction Fragments

Fragments size-------------10700,10300
range (kb)



Identification of glucose non-fermenting Gram-negative rods

Pseudomonas


Pseudomonas species is a ubiquitous, aerobic gram-negative bacillus.

Reservoirs in nature
include soil, vegetation, and water.

Reservoirs in a hospital
include sinks, toilets, mops, respiratory therapy, and dialysis equipment.

It exhibits
intrinsic resistance to many antibiotics and disinfectants.
Pseudomonas adheres to host cells by pili and nonpili adhesins. It produces a polysaccharide capsule that allows the organism to adhere to epithelial cells, inhibits phagocytosis,and confers protection against antibiotic activity.

Patients with cystic fibrosis are more likely to be infected with a strain whose colony appears mucoid because of the presence of the capsule.
Pseudomonas produces multiple toxins and enzymes, which contribute to its virulence.Its lipopolysaccharide endotoxin and exotoxin A appear to cause most of the systemic manifestations of Pseudomonas disease. Exotoxin A blocks protein synthesis in host cells, causing direct cytotoxicity. It mediates systemic toxic effects as well. It is similar in function to diphtheria toxin but is structurally and immunologically distinct. Endotoxin contributes to the development of many of the symptoms and signs of sepsis, including fever, leukocytosis, and hypotension.

Antibiotic resistance is another important aspect of its virulence. It is intrinsically resistant to numerous antibiotics and has acquired resistance to others through various means. The polysaccharide capsule prevents the penetration of many antibiotics into Pseudomonas. Penetration of antibiotic into the Pseudomonas cell is usually through pores in the outer membrane. Mutation of these porin proteins appears to be a primary mechanism of its antibiotic resistance. Multidrug efflux pumps and b-lactamase production also contribute to the antibiotic resistance that so frequently complicates the treatment of Pseudomonas infections.

Some P. aeruginosa strains produce a diffusable pigment: pyocyanin, which gives the colonies a blue color; fluorescein, which gives them a yellow color; or pyorubin, which gives them a red-brown color. Pyocyanin also
seems to aid in the virulence of the organism by stimulating an inflammatory response and by producing toxic oxygen radicals.

Clinically significant infections
with P. aeruginosa should not be treated with single-drug therapy, because the bacteria can develop resistance when single drugs are employed. The newer quinolones, including ciprofloxacin, are active against Pseudomonas. Quinolones inhibit bacterial DNA synthesis by blocking DNA gyrase. The fluorinated forms of ciprofloxacin and norfloxacin have low toxicity and greater antibacterial activity than the earlier forms. Plasmids code for enzymes that determine the active transport of various antimicrobials across the cell membrane.