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Patho-Genes.org: a website dedicated to gene sequences of potential bioterror bacteria and PCR primers used to amplify them.

Gardès J, Bachar D, Croce O, Christen R - Microb Biotechnol (2012)

Bottom Line: Pathogenic agents can be very hard to detect, and usually they do not cause illness for several hours or days.To improve the speed and the accuracy of detection tests and satisfy the needs of early diagnosis, molecular biology methods such as PCR are now used.Data generated have been organized in the form of data sheet for each gene, which are available through multiple browser panels and query systems.

View Article: PubMed Central - PubMed

Affiliation: CNRS UMR 7138 Systématique Adaptation et Evolution, Université de Nice-Sophia Antipolis, Parc Valrose BP71, F06108, Nice cedex, 02, France. jgardes@gmail.com

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Related in: MedlinePlus

Example of resources available in Patho‐Genes. After selecting a species, users can find a gene via browsing panel located at the top of the species homepage. Genes can be selected by gene name, protein name, or by rank of most sequenced or most divergent genes. Two query systems allow using either keywords or primers to access the data sheet. From the data sheet, users can download sequences at FASTA format [every sequence (accession numbers), unique sequence (genetic variants) or aligned sequences], published primers (Tm and localization) or relevant articles.
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f1: Example of resources available in Patho‐Genes. After selecting a species, users can find a gene via browsing panel located at the top of the species homepage. Genes can be selected by gene name, protein name, or by rank of most sequenced or most divergent genes. Two query systems allow using either keywords or primers to access the data sheet. From the data sheet, users can download sequences at FASTA format [every sequence (accession numbers), unique sequence (genetic variants) or aligned sequences], published primers (Tm and localization) or relevant articles.

Mentions: Data provided by this website are freely available. One can choose a pathogenic bacterium from the homepage by selecting a species or by providing primers. Table 1 lists the main information available. A browsing system allows consulting the data sheet of a given gene (Fig. 1). Genes can be selected from an alphabetical list of gene or protein names, or from a ranked list of the most sequenced or the most divergent genes. The ranking of most sequenced genes is based on the number of sequences available in INSDC databases (the International Nucleotide Sequence Databases Collaboration between Japanese, European and American nucleotide databases, respectively, DDBJ, ENA and GenBank). The ranking of most divergent genes is based on the number of unique sequences for a gene, giving a rough idea of its intraspecific divergence.


Patho-Genes.org: a website dedicated to gene sequences of potential bioterror bacteria and PCR primers used to amplify them.

Gardès J, Bachar D, Croce O, Christen R - Microb Biotechnol (2012)

Example of resources available in Patho‐Genes. After selecting a species, users can find a gene via browsing panel located at the top of the species homepage. Genes can be selected by gene name, protein name, or by rank of most sequenced or most divergent genes. Two query systems allow using either keywords or primers to access the data sheet. From the data sheet, users can download sequences at FASTA format [every sequence (accession numbers), unique sequence (genetic variants) or aligned sequences], published primers (Tm and localization) or relevant articles.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3815871&req=5

f1: Example of resources available in Patho‐Genes. After selecting a species, users can find a gene via browsing panel located at the top of the species homepage. Genes can be selected by gene name, protein name, or by rank of most sequenced or most divergent genes. Two query systems allow using either keywords or primers to access the data sheet. From the data sheet, users can download sequences at FASTA format [every sequence (accession numbers), unique sequence (genetic variants) or aligned sequences], published primers (Tm and localization) or relevant articles.
Mentions: Data provided by this website are freely available. One can choose a pathogenic bacterium from the homepage by selecting a species or by providing primers. Table 1 lists the main information available. A browsing system allows consulting the data sheet of a given gene (Fig. 1). Genes can be selected from an alphabetical list of gene or protein names, or from a ranked list of the most sequenced or the most divergent genes. The ranking of most sequenced genes is based on the number of sequences available in INSDC databases (the International Nucleotide Sequence Databases Collaboration between Japanese, European and American nucleotide databases, respectively, DDBJ, ENA and GenBank). The ranking of most divergent genes is based on the number of unique sequences for a gene, giving a rough idea of its intraspecific divergence.

Bottom Line: Pathogenic agents can be very hard to detect, and usually they do not cause illness for several hours or days.To improve the speed and the accuracy of detection tests and satisfy the needs of early diagnosis, molecular biology methods such as PCR are now used.Data generated have been organized in the form of data sheet for each gene, which are available through multiple browser panels and query systems.

View Article: PubMed Central - PubMed

Affiliation: CNRS UMR 7138 Systématique Adaptation et Evolution, Université de Nice-Sophia Antipolis, Parc Valrose BP71, F06108, Nice cedex, 02, France. jgardes@gmail.com

Show MeSH
Related in: MedlinePlus