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PubMed1985

Microcomputer assisted identification of Bacillus species.

A microcomputer based system for the identification of unknown isolates of Bacillus species is described. The identification matrix includes 78 test probabilities for 38 recognised species and other groups in the genus Bacillus and it is based on the work of Logan and Berkeley (1984). Morphological characters together with the results of tests using API 20E and API 50CHB, read after 24 and 48 h incubation, are used to obtain a probabilistic identification of an unknown aerobic endospore forming rod. Any differences between the observed and expected results for any identified organism are listed. Identification can be attempted on the basis of a limited set of test results, although this is rarely if ever done with this largely API based system, and if the unknown cannot be successfully identified then a set of additional tests can be selected which should permit identification. The computer system can store and recall test results entered for any isolate. This feature allows the accumulation of data on isolates which could be used to update the identification matrix in future taxonomic studies.

Bacillus↗
PubMed1987

Expert systems: frames, rules or logic for species identification?

The role of expert systems in species identification, with particular reference to the problems posed by damaged specimens and inexperienced taxonomists, is discussed. Of the three main types of expert systems available, the frame-based system is shown to provide the most appropriate model for a taxonomic expert system rather than a logic- or rule-based system. The advantages of an expert system over other computer-aided methods of identification are considered. A rule-based system requires the original knowledge (species descriptions) to be structured into rules, whereas a frame-based system can store the generic and specific descriptions in a series of frames. The frames fall into a hierarchy which closely resembles the taxonomic hierarchy, and down which information can be inherited. Two aspects of frame-based systems considered are the use of probabilities in identification, and the optimum structure of the knowledge base. The conventional use of probabilities is to provide an indication of the correctness of the result. However, in some studies involving the identification of many specimens, the speed of identification may be increased (with a reduction in accuracy) if identifications are made to a predetermined probability level. Although frames allow accurate representation of the taxonomic hierarchy, a semantic net, incorporating structures of the organism and/or details of the habitat may result in a more efficient expert system.

Animals↗
PubMed2006

Experience-induced changes in taste identification of monosodium glutamate (MSG) are reversible.

A few studies have reported experience-inducible changes in human taste and olfactory sensitivities. However, no study thus far has systematically characterized the stability of the enhanced sensitivities. In our previous study, we found increases in taste identification ability for monosodium glutamate (MSG) in subjects who had been briefly exposed to MSG in food for 10 days. Here, we tested the temporal stability of the enhanced taste identification ability. First, we exposed a group of 20 subjects to MSG in food and then compared their sensitivities to MSG with those of a control group. When tested on day 11 or 12, the mean MSG taste identification ability of the MSG-exposed group was significantly higher than the control group. Next, 11 of the subjects who were exposed to MSG in food initially, and then stopped being exposed performed significantly poorer in identifying MSG after 10 days of the nonexposure than they did 10 days before. In contrast, nine subjects who were exposed to MSG initially and continued being exposed maintained their high identification levels. These results support earlier finding of the plasticity in the taste identification of MSG and show that the enhanced identification ability can be reversed rapidly when MSG exposure is not sustained.

Adult↗
PubMed2006

Development of a smell identification test using a novel stick-type odor presentation kit.

The odor identification is strongly influenced by the social and cultural factors; therefore, the odorants used in a smell identification test should be familiar to the test population. In addition, the device used in the test is desired to be simply handled and retain odor quality over time. We developed a novel stick-type odor presentation kit that consists of microcapsules of odorant incorporated into stable cream and the smell identification test using it. Thirteen odorants were selected to be familiar to the test population. In the test, we used two identification methods: one was a modified forced-choice paradigm with "detectable but not recognizable" and "no smell detected" added as choices and the other was a two-step identification paradigm where the participant first selected one of eight odor categories and then chose the specific odor name from the selected category. We verified the performance of the odor stick and the test by stability, using a test-retest paradigm, comparing this test with another smell test, and testing Japanese people from a range of age groups. We conclude that this kit is a useful odor presentation device, and the test using it works effectively as a smell identification test.

Adult↗
PubMed1998

Delays in the identification of non-natural mortality.

Rapid and accurate identification of non-natural deaths is an important component of a good forensic service. To study the identification process and quantify delays in the identification of non-natural deaths in Cape Town, South Africa, we conducted a retrospective review of identification rates between 1980 and 1995 and a descriptive study of time to identification stratified by manner and cause of death for 1995. The mean yearly number of unidentified cases between 1980 and 1995 was 137 (range, 75-280), constituting about 3% of total admissions. There has been no substantial change in the proportion of unidentified cases during this period. Suicides and homicides were most rapidly identified; 84% of suicides and 75% of homicides identified within 3 days. Pedestrian and railway deaths accounted for 72% of the unidentified accident admissions in 1995. Delays in the identification of various categories of deceased victims of violence and unintentional injury reflect the social impact of poverty and impose an unnecessary hardship on next-of-kin. Forensic pathologists should devote both scientific and administrative efforts to reducing such delays.

Accidents↗
PubMed2007

Sound-direction identification with bilateral cochlear implants.

OBJECTIVE: The purpose of this study was to compare the accuracy of sound-direction identification in the horizontal plane by bilateral cochlear implant users when localization was measured with pink noise and with speech stimuli. DESIGN: Eight adults who were bilateral users of Nucleus 24 Contour devices participated in the study. All had received implants in both ears in a single surgery. Sound-direction identification was measured in a large classroom by using a nine-loudspeaker array. Localization was tested in three listening conditions (bilateral cochlear implants, left cochlear implant, and right cochlear implant), using two different stimuli (a speech stimulus and pink noise bursts) in a repeated-measures design. RESULTS: Sound-direction identification accuracy was significantly better when using two implants than when using a single implant. The mean root-mean-square error was 29 degrees for the bilateral condition, 54 degrees for the left cochlear implant, and 46.5 degrees for the right cochlear implant condition. Unilateral accuracy was similar for right cochlear implant and left cochlear implant performance. Sound-direction identification performance was similar for speech and pink noise stimuli. CONCLUSIONS: The data obtained in this study add to the growing body of evidence that sound-direction identification with bilateral cochlear implants is better than with a single implant. The similarity in localization performance obtained with the speech and pink noise supports the use of either stimulus for measuring sound-direction identification.

Acoustic Stimulation↗
PubMed1997

Top-down processes in object identification: evidence from experimental psychology, neuropsychology and functional anatomy.

Many models of object identification are bottom-up and serial in nature; processing at a first stage needs to be complete before it is passed on to a subsequent stage, and there is no top-down feedback from the later to the earlier stages. However, data on picture identification in normal observers contradict a strict serial account of processing, since effects of variables on early and late stages of object identification combine in an interactive rather than an additive manner. Recent neuropsychological and functional anatomical data also indicate that object identification involves top-down activation of earlier stages of visual processing. In neuropsychological patients, subtle perceptual deficits can produce naming problems, even when there is good access to associated semantic knowledge; in functional activation studies, there is increased activity in visual processing areas when conditions require object naming relative to object recognition. These studies provide evidence that increased visual processing occurs in identification tasks, suggesting that there is re-current feedback during the identification process.

Form Perception↗
PubMed2005

Molecular and phenotypic features for identification of the opportunistic pathogens Ochrobactrum spp.

Among the six species characterized within the genus Ochrobactrum, Ochrobactrum anthropi and Ochrobactrum intermedium are currently reported as opportunistic pathogens in humans. Since the species identification is mainly based on 16S rDNA analysis, the aim of this study was to search for other characteristics useful for Ochrobactrum species discrimination. Ribotyping, morphological and biochemical analyses, and antimicrobial susceptibility testing were performed for a panel of 35 clinical isolates, first identified to the species level using 16S rDNA sequencing. Type and reference strains of five Ochrobactrum species were comparatively analysed. Commercial identification systems such as API 20NE and VITEK 2 were tested for their ability to identify Ochrobactrum anthropi and to detect other members of the genus Ochrobactrum. An improved protocol for the identification of Ochrobactrum spp. by routine medical microbiology practices is proposed: isolation of a non-fastidious non-fermenting oxidase-positive Gram-negative rod resistant to all beta-lactams except imipenem indicates the genus Ochrobactrum, and the API 20NE system confirms the genus identification for most strains, whereas the VITEK 2 system using ID-GNB cards was less powerful. Urease activity, the mucoidy of the colonies, growth at 45 degrees C on tryptic soy agar, and susceptibility to colistin, tobramycin and netilmicin should be considered as differential characteristics for identification of O. anthropi and O. intermedium to the species level. However, definitive identification depends on genotyping methods.

Anti-Bacterial Agents↗
PubMed2006

Diagnostic application of genotypic identification of mycobacteria.

This study evaluated conventional methods, GLC and three molecular tests, including 16S rRNA sequencing, for the identification of mycobacteria, and the experiences of the authors with the integration of these methods into a diagnostic clinical laboratory were also recorded. Of 1067 clinical isolates of mycobacteria identified by conventional tests, 365 were tested by Accuprobe hybridization assays and PCRs specific for Mycobacterium tuberculosis (MTB) complex or Mycobacterium avium complex (MAC), 202 were tested by 16S rRNA sequencing, and 142 were tested by GLC. Three runs of all tests were performed on a weekly basis. The identifications for 209 MTB complex and 118 MAC isolates obtained by species-specific PCR were in complete agreement with AccuProbe hybridization and conventional test results. The 16S rRNA sequence-based identification, at a similarity of > or =99 %, for 132 of 142 isolates was concordant with the identifications made by the biochemical methods, and for 134 isolates was concordant with the identifications made by GLC at species, group or complex level. 16S rRNA sequencing resulted in fewer incorrectly identified or unidentified organisms than GLC or conventional tests. For the slowly growing non-tuberculous mycobacteria, the mean turnaround times for identification were 4-5 days for 16S rRNA sequencing, 14-29 days for GLC and 22-23 days for conventional methods. Considering the large proportion of some species among clinical isolates, a strategy of initial screening with species-specific PCR (or AccuProbe assays) for the MTB complex and MAC, followed by direct sequencing of the strains that yield negative results, should make 16S rRNA sequencing more affordable for routine application in diagnostic laboratories.

Algorithms↗
PubMed2003

Rapid identification of Gram-positive anaerobic coccal species originally classified in the genus Peptostreptococcus by multiplex PCR assays using genus- and species-specific primers.

Here, a rapid and reliable two-step multiplex PCR assay for identifying 14 Gram-positive anaerobic cocci (GPAC) species originally classified in the genus Peptostreptococcus (Anaerococcus hydrogenalis, Anaerococcus lactolyticus, Anaerococcus octavius, Anaerococcus prevotii, Anaerococcus tetradius, Anaerococcus vaginalis, Finegoldia magna, Micromonas micros, Peptostreptococcus anaerobius, Peptoniphilus asaccharolyticus, Peptoniphilus harei, Peptoniphilus indolicus, Peptoniphilus ivorii and Peptoniphilus lacrimalis) is reported. Fourteen type strains representing 14 GPAC species were first identified to the genus level by multiplex PCR (multiplex PCR-G). Since three of these genera (Finegoldia, Micromonas and Peptostreptococcus) contain only a single species, F. magna, M. micros and P. anaerobius, respectively, these organisms were identified to the species level directly by using the multiplex PCR-G. Then six species of the genus Anaerococcus (A. hydrogenalis, A. lactolyticus, A. octavius, A. prevotii, A. vaginalis and A. tetradius) were further identified to the species level using multiplex PCR assays (multiplex PCR-Ia and multiplex PCR-Ib). Similarly, five species of the genus Peptoniphilus (Pn. asaccharolyticus, Pn. harei, Pn. indolicus, Pn. ivorii and Pn. lacrimalis) were identified to the species level using multiplex PCR-IIa and multiplex PCR-IIb. The established two-step multiplex PCR identification scheme was applied to the identification of 190 clinical isolates of GPAC species that had been identified previously to the species level by 16S rRNA sequencing and phenotypic tests. The identification obtained from multiplex PCR assays showed 100 % agreement with 16S rDNA sequencing identification, but only 65 % (123/190) agreement with the identification obtained by phenotypic tests. The multiplex PCR scheme established in this study is a simple, rapid and reliable method for the identification of GPAC species. It will permit a more accurate assessment of the role of various GPAC species in infection and of the degree of antimicrobial resistance in each of the group members.

Base Sequence↗
PubMed2001

Identification and its relation to identity development.

Two meanings of identification-as a developmental process and as a mechanism of defense-were investigated as they relate to identity status. Identification with parents was assessed by comparing participants' "ideal self" Adjective Q-sort (Block, 1978) with the same Q-sort done for either mother or father. Defense identification was assessed from TAT stories using Cramer's (1991a) Defense Mechanism Manual. Marcia's (1966, 1980) categories of identity status were determined from Mallory's (1989) prototypes based on the California Adult Q-sort (Block, 1961/1978). The results indicated that the four identity statuses are differentially predicted by parent identification, by defense identification, and by an interaction between the two types of identification. Further, the nature of these relations differs by gender. Caution should be used in applying these findings to other populations.

Adolescent↗
PubMedDate not supplied

Paradoxical association between smoking and olfactory identification in psychosis versus controls.

OBJECTIVE: Deficits in olfactory identification have been demonstrated in patients with schizophrenia. This study examined the interaction between smoking and olfactory identification in patients with psychotic disorders versus well controls. METHOD: Olfactory identification was assessed in three groups of subjects using the University of Pennsylvania Smell Identification Test (UPSIT). Sixteen patients with affective psychoses, 22 patients with nonaffective psychoses, and 21 well controls were tested. RESULTS: There was a significant interaction between diagnostic classification (patient or control) and smoking. Patients who were smokers scored higher on the UPSIT than non-smokers, while controls who were smokers scored lower than non-smokers. CONCLUSIONS: Smoking may have a 'normalising' effect on olfactory identification in some patients with psychosis. Further studies are needed to examine the relationship between psychosis, olfactory identification and the effects of nicotine.

Adult↗
PubMed1998

Radiology in forensic identification: the Mt Erebus disaster.

Although radiology has exceptional discriminatory power in the identification of individuals, it is not often used for this purpose. This under-utilization stems in part from insufficient appreciation of its potential, and in part from a lack of agreed operational protocols. Descriptions of criteria used for radiological identification are scattered in individual reports and have not been collated. The circumstances in which identification is required are various and pose different problems for which guidelines have not been established. The areas in which radiology has a high capacity for identification of age, sex or identity are reviewed and their strengths and limitations are discussed. A survey of the literature identified three different circumstances in which cadaver identification is needed, and a protocol is suggested to meet the differing requirements of these three situations. The use of these protocols and techniques in the identification of bodies recovered from the Mt Erebus disaster is described. Postmortem radiographs established the identity of 11 bodies not identified by other techniques. There is a need for greater awareness in police and forensic circles of the identifying power of radiology.

Accidents, Aviation↗
PubMed1999

Evaluation of the Rapid ID 32A system for identification of anaerobic Gram-negative bacilli, excluding the Bacteroides fragilis group.

OBJECTIVE: To evaluate the Rapid ID 32A system (bioMérieux, Marcy-l'Etoile, France) for the identification of anaerobic Gram-negative bacilli, excluding the Bacteroides fragilis group. METHODS: Five hundred and twenty-eight identified clinical isolates of non-B. fragilis group anaerobic Gram-negative bacilli were tested in the Rapid ID 32A system, and identifications were compared with those obtained with conventional biochemical tests and gas-liquid chromatography. RESULTS: The Rapid ID 32A system correctly identified 280 (60.9%) of the 460 isolates tested for which taxa were included in the database, without the need for additional testing. A further 97 (21.1%) isolates were correctly identified to species level following the performance of complementary tests recommended by the manufacturer. Fifty-nine (12.8%) isolates were identified at the genus level only, and 21 (4.6%) were misidentified at the species level. Three isolates of Prevotella were not identified by the system. Of the 68 isolates belonging to taxa not included in the database, no identification was obtained for 33 (48.5%), while 35 (51.5%) were misidentified. CONCLUSIONS: The Rapid ID 32A system provided a rapid and reliable method for the identification of non-B. fragilis group, anaerobic Gram-negative bacilli to the genus level, while the success of species-level identification varied with different taxa. There was poor discrimination between Fusobacterium nucleatum and F. necrophorum, between Porphyromonas asaccharolytica and Porphyromonas endodontalis, and between Prevotella buccalis, Prevotella denticola, Prevotella loescheii, Prevotella melaninogenica and Prevotella oralis. The need to perform conventional complementary tests on 149 (32.4%) of the 460 isolates compromised the usefulness of the system for rapid species identification.

Journal Article↗
PubMed1977

Identification of Leishmania spp. by radiorespirometry.

Preliminary investigation of the application of radiorespirometric technic to protozoan parasites of man indicates a potential for rapid identification. This technic, developed for identification of bacteria, was modified for use with culture forms of Leishmania. Five strains of Leishmania were compared: 2 of L. donovani, 2S and K; L. brasilensis, 2936 and B; and 1 of L. tropica, A. Consisent and rapid (approximately 2 hr) identification was obtained by the radiorespirometric procedure. A computer-type analysis of the radiorespirometric profiles of the 5 strains permitted correct identification of each isolate at the strain level 100% of the time. This technic offers several advantages over many current procedures for identification of protozoan parasites: (A) It is simple, rapid and highly reproducible, (B) Since it does not rely on visual or spectrophotometric determination, it may be conducted in the presence of optically complex substances. (C) It requires relatively low numbers of organisms (approximately 2 x 10(5)/14C-labeled substrate). (D) It is based on differential enzymic activity between species and strains of organisms and therefore, ultimately, on inherent genetic determinates of the parasites. (E) Further development of the procedure and accumulation of a data reference "bank" would allow automation of most of the identification process.

Animals↗
PubMed1997

Evaluation of a PCR assay for identification and differentiation of Campylobacter fetus subspecies.

OBJECTIVE: To evaluate a polymerase chain reaction assay for identification of Campylobacter fetus and differentiation of the defined subspecies. DESIGN: Characterisation of bacterial strains by traditional phenotyping, polymerase chain reaction, a probabilistic identification scheme and macrorestriction profiling using pulsed field gel electrophoresis. PROCEDURE: The results of identification of 99 bacterial strains as determined by conventional phenotyping or by polymerase chain reaction were compared. Two of these were type strains of C fetus subsp fetus and C fetus subsp venerealis; the remaining strains were field isolates putatively identified as C fetus. In cases where the subspecies identity was disputed, isolates were identified by means of a probabilistic identification scheme and by macrorestriction profiling. RESULTS: The agreement between strain identities initially suggested by traditional phenotypic methods and the PCR assay was found to be 80.8%. The polymerase chain reaction proved to be a reliable technique for the species and subspecies identification of C fetus; equivocal results were obtained in only two instances. Initial misidentifications by conventional phenotyping methods were attributed to methodological differences used in various laboratories. CONCLUSION: Our results indicate that misidentification of C fetus in routine diagnostic laboratories may be relatively common. The PCR assay evaluated gave rapid and reproducible results and is thus a valuable adjunctive method for the identification of C fetus and subsequent subspecies differentiation.

Animals↗
PubMed2001

Minimum spectral contrast needed for vowel identification by normal hearing and cochlear implant listeners.

The minimum spectral contrast needed for vowel identification by normal-hearing and cochlear implant listeners was determined in this study. In experiment 1, a spectral modification algorithm was used that manipulated the channel amplitudes extracted from a 6-channel continuous interleaved sampling (CIS) processor to have a 1-10 dB spectral contrast. The spectrally modified amplitudes of eight natural vowels were presented to six Med-EI/CIS-link users for identification. Results showed that subjects required a 4-6 dB contrast to identify vowels with relatively high accuracy. A 4-6 dB contrast was needed independent of the individual subject's dynamic range (range 9-28 dB). Some cochlear implant (CI) users obtained significantly higher scores with vowels enhanced to 6 dB contrast compared to the original, unenhanced vowels, suggesting that spectral contrast enhancement can improve the vowel identification scores for some CI users. To determine whether the minimum spectral contrast needed for vowel identification was dependent on spectral resolution (number of channels available), vowels were processed in experiment 2 through n (n =4, 6, 8, 12) channels, and synthesized as a linear combination of n sine waves with amplitudes manipulated to have a 1-20 dB spectral contrast. For vowels processed through 4 channels, normal-hearing listeners needed a 6 dB contrast, for 6 and 8 channels a 4 dB contrast was needed, consistent with our findings with CI listeners, and for 12 channels a 1 dB contrast was sufficient to achieve high accuracy (>80%). The above-mentioned findings with normal-hearing listeners suggest that when the spectral resolution is poor, a larger spectral contrast is needed for vowel identification. Conversely, when the spectral resolution is fine, a small spectral contrast (1 dB) is sufficient. The high identification score (82%) achieved with 1 dB contrast was significantly higher than any of the scores reported in the literature using synthetic vowels, and this can be attributed to the fact that we used natural vowels which contained duration and spectral cues (e.g., formant movements) present in fluent speech. The outcomes of experiments 1 and 2, taken together, suggest that CI listeners need a larger spectral contrast (4-6 dB) than normal-hearing listeners to achieve high recognition accuracy, not because of the limited dynamic range, but because of the limited spectral resolution.

Adult↗
PubMed2006

Material identification of real impact sounds: effects of size variation in steel, glass, wood, and plexiglass plates.

Identification of the material of struck objects of variable size was investigated. Previous studies on this issue assumed recognition to be based on acoustical measures of damping. This assumption was tested, comparing the power of a damping measure in explaining identification data with that of several other acoustical descriptors. Listeners' performance was perfect with respect to gross material categories (steel-glass and wood-plexiglass) comprising materials of vastly different mechanical properties. Impaired performance was observed for materials within the same gross category, identification being based on the size of the objects alone. The damping descriptor accounted for the identification of the gross categories. However other descriptors such as signal duration explained the results equally well. Materials within the same gross category were identified mainly on the basis of signal frequency. Overall poor support for the relevance of damping to material perception was found. An analysis of the acoustical support for perfect material identification was carried out. Sufficient acoustical information for perfect performance was found. Thus, procedural biases for the origin of the effects of size could be discarded, pointing toward their cognitive, rather than methodological nature. Identification performance was explained in terms of the regularities of the everyday acoustical environment.

Adult↗