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We copied only the amino acid sequences from the coding sequence and constructed a multi-FASTA file for each predictor.
We used BLASTp to compare all results and generate hits to evaluate similarities and differences among the predictions. The tools with the best results in the analyzes of the set of organisms were the same ones that presented better performance in the tests with the gold standard. Keywords: genomic islands, pathogenic islands, mobility genes, genomic signature, virulence factors, horizontal gene transfer Introduction Bacterial genomes have evolved and adapted over time through a variety of processes such as mutation, gene rearrangement, and horizontal gene transfer HGT.
This evolutionary pattern can be observed as increases in specific parts of sequenced genomes. In addition to genes encoding effectors of essential functions, other genes in bacterial genomes are present in many organisms, such as accessory genes acquired by HGT.
The HGT process provides advantages to bacteria, enabling them to adapt to the environment Schmidt and Hensel, Numerous accessory genes were derived from HGT and are atypical regions known as genomic islands GIs , which have appeared in the genomes of many bacteria. GIs play an important role in the evolution, adaptation, and diversification of bacterial genomes, carrying genes that encode proteins with diverse functions Juhas et al. GIs were first described by Hacker et al. These researchers analyzed the genetic basis of virulence in strains of uropathogenic Escherichia coli.
They identified gene sets containing virulence factors which were absent from commensal strains of E.
This group of genes was named as pathogenicity islands PAI Hacker et al. T1-weighted whole brain images were used to anatomically define spherical regions of interest ROIs , including the right and left caudate nucleus, putamen 0. Individually housed animals were not studied with PET. During abstinence, PET scans were conducted in each monkey to measure D2 receptor availability using the D2 receptor radioligand [18F]fluoroclebopride FCP , which does not differentiate among subtypes of the D2-like superfamily i.
The duration of abstinence from cocaine did not differ significantly between dominant and subordinate monkeys Table 1. Details regarding [18F]FCP synthesis, the PET data acquisition protocol, blood sampling procedure, and metabolite analysis have been fully described previously Mach et al.
Briefly, an arterial and a venous catheter were inserted by percutaneous stick for blood sampling and tracer injection, respectively. A paralytic agent 0. Supplemental doses of vecuronium 0.
In a single scan, the Advance NXi provided 35 transverse slices with a 4. The transaxial resolution of the scanner ranges from 3. Its axial resolution ranges from 4.
For more information on the performance of this scanner see DeGrado et al. At the start of the scan, approximately 5 mCi of [18F]FCP was injected, followed by 3 ml of heparinized saline.
Distribution volume ratios DVR for the caudate nucleus and putamen were calculated using the cerebellum as the reference region and the graphical method of Logan et al. Food-maintained responding During abstinence from cocaine, eight monkeys received no other drugs.
Over several months, C had exposure to 4. At least 4. During that time and for the duration of abstinence in all animals, monkeys participated in behavioral studies approximately once per week for the purpose of maintaining operant behavior after discontinuation of self-administration sessions.
Each day, monkeys were separated by partitioning the cage into quadrants.