Typing

About: Typing is a research topic. Over the lifetime, 5010 publications have been published within this topic receiving 146539 citations.

Sequencing-based molecular typing of treponema pallidum strains in the Czech Republic: all identified genotypes are related to the sequence of the SS14 strain.

Abstract: A set of 415 clinical samples isolated from 294 patients suspected of having syphilis collected in the Czech Republic between 2004 and 2010 was tested for the presence of treponemal DNA. Standard serological tests showed that 197 patients were syphilis-seropositive and 97 patients were syphilis-seronegative. In each sample, PCR tests for polA (TP0105), tmpC (TP0319), TP0136, TP0548 and 23S rRNA genes were performed. Samples taken from 91 patients were PCR-positive. Molecular typing of treponemal DNA was based on the sequencing of TP0136, TP0548 and 23S rRNA genes. Treponemal DNA was typeable in samples taken from 64 PCR-positive patients and 9 different genotypes were found. The proportion of treponemal strains resistant to macrolide antibiotics was 37.3%. In the DNA samples taken from 39 patients, a parallel treponemal typing approved by Centers for Disease Control and Prevention was performed. The variants of arp and tpr genes appear to combine independently with sequence variants of TP0136, TP0548 and 23S rRNA genes.

Plasmid replicon typing.

Abstract: To facilitate the study of plasmids and their roles in human and animal health, environmental processes, and microbial adaptation and evolution, plasmid classification has been an important focus of plasmid biologists over the years. Initial schemes were based on the ability of a plasmid to inhibit F fertility, but due to certain limitations, these methods were superseded by incompatibility or Inc typing. Inc typing classifies plasmids by their ability to stably coexist with other plasmids in the same bacterial strain, a trait that is dependent on their replication machinery. Coresident plasmids are incompatible when they share the same replication mechanisms. Since plasmid replicon type determines Inc group, the terms Inc and Rep type to describe plasmid types are used interchangeably. Initially, Inc typing relied on introduction of a plasmid into a strain carrying another plasmid and determining whether both plasmids were stably maintained in the progeny. However, physical Inc typing is time consuming and not easily used in large-scale applications. Some of these shortcomings were addressed through development of a classification scheme based on identification of basic replicons using DNA hybridization and of a polymerase chain reaction (PCR)-based method of replicon typing enabling plasmid typing on a large scale. Here, we elaborate on a recently described PCR-based typing method that streamlines the typing of plasmids occurring among the Enterobacteriaceae; we believe the method will prove applicable to the study of plasmids on a large scale.

Epidemiological typing of Stenotrophomonas (Xanthomonas) maltophilia by PCR.

Abstract: We used two PCR methods for epidemiological typing of Stenotrophomonas (Xanthomonas) maltophilia with either arbitrary primers (random amplified polymorphic DNA) or enterobacterial repetitive intergenic consensus sequences as primers (ERIC-PCR). The analysis was performed with 38 isolates of S. maltophilia, comprising 9 nosocomial isolates from a burn unit, 20 other clinical isolates epidemiologically unrelated, and 9 isolates from one cystic fibrosis patient. Both methods indicated that all of the nosocomial episodes were independent. In contrast, the nine isolates from the cystic fibrosis patient were assigned to very closely related profiles, especially by ERIC-PCR. We conclude that random amplified polymorphic DNA and ERIC-PCR have comparable reproducible and discriminatory powers for epidemiological typing of S. maltophilia, but ERIC-PCR profiles can be more easily evaluated.

High resolution DNA fingerprinting of Acinetobacter outbreak strains

Abstract: AFLPTM is a novel high resolution fingerprinting method that can be used to delineate intraspecific relationships among a large variety of organisms, including bacteria. In the present study, this method was tested for its usefulness in the epidemiological typing of Acinetobacter strains. A total of 25 Acinetobacter strains originating from five hospital outbreaks in three countries were used. Isolates from the same outbreak displayed identical banding patterns and each set of outbreak strains could be found in one particular AFLP cluster. These data are in good agreement with the results obtained by other typing methods previously used on the same set of strains, indicating that AFLP analysis may be a valuable alternative in epidemiological typing.

The one-row keyboard and approximate typing

Abstract: In one aspect, the present invention comprises an apparatus for character entry on an electronic device, comprising: a keyboard with one row of keys; and an electronic display device in communication with the keyboard; wherein one or more keys on the keyboard has a correspondence with a plurality of characters, and wherein the correspondence enables QWERTY-based typing. In another aspect, the invention comprises an apparatus for character entry on an electronic device, comprising: a keyboard with a plurality of keys; and an electronic display device in communication with the keyboard; wherein one or more keys on the keyboard has a correspondence with a plurality of characters, and wherein, for each of the one or more keys, the plurality of characters comprises: (a) a home row character associated with a particular finger when touch typing; and (b) a non-home-row character associated with the particular finger when touch typing.