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PubMed2006

Development of fast Fourier transformation continuous cyclic voltammetry as a highly sensitive detection system for ultra trace monitoring of penicillin V.

Fast continuous cyclic voltammetry was used as a detection method for penicillin V in a flow injection system. Additionally, a special computer-based numerical calculation method (using fast Fourier transformation) providing enhancement of the analyte signal and noise reduction is introduced here. During the measurements, the potential waveform (consisting of the potential steps of cleaning, stripping, and the potential ramp) was continuously applied to an Au disk microelectrode (12.5 microm in radius). In particular, the effects of accumulation potential, sweep rate, and delay time on the sensitivity and selectivity of the method were investigated. Eventually, the stripping time was found to be less than 300 ms, the detection limit of the method was 7.0x10(-12) M, and the associated relative standard deviation at 5.0x10(-6) M penicillin V was 2.3 for eight runs.

Electrochemistry↗
PubMed2026

The Jumonji C domain-containing proteins GmJMJ19 and GmJMJ20 link florigen signaling with epigenetic regulation of photoperiodic flowering and post-flowering plant height in soybean.

Soybean (Glycine max) is a photoperiod-sensitive legume whose latitudinal adaptation depends on the precise control of flowering time and plant height. Histone demethylases of the JmjC domain-containing (JMJ) protein family have been implicated in these processes across plant species, but their specific roles in soybean remain largely unexplored. Here, we identify soybean GmJMJ19 and GmJMJ20, two closely related JMJD5/KDM8 orthologs, as master epigenetic regulators that coordinately control both photoperiodic flowering and post-flowering plant height. Both genes exhibit intrinsic, rhythmic expression peaking at ZT12, and their encoded proteins physically interact with the florigen proteins FT2a and FT5a. Loss-of-function mutants display delayed flowering under long days (LDs) and increased plant height under both LDs and short days (SDs), whereas overexpression phenocopies the mutant flowering phenotype, indicating revealing a critical dosage requirement for proper function. Mechanistically, GmJMJ19 and GmJMJ20 are recruited by the FT/FD transcriptional complex to directly activate AP1a and AP1c expression through chromatin modulation. Population genomic analyses reveal distinct selection signatures: GmJMJ19 underwent sustained directional selection during cultivation, whereas GmJMJ20 experienced an early domestication sweep with limited subsequent change. Haplotype analysis identifies coordinated latitudinal clines, with the JMJ19H1/JMJ20H1 combination predominating at high latitudes to promote early flowering and limit height, while JMJ19H2/JMJ20H2 and wild JMJ19H3/JMJ20H3 alleles prevail at low latitudes, conferring later flowering and increased height. Collectively, our findings establish GmJMJ19 and GmJMJ20 as central chromatin regulators linking florigen signaling to downstream target expression and provide valuable allelic resources for breeding regionally adapted soybean varieties across a wide range of latitudinal environments.

Histone modulation↗
PubMed2004

Construction of robust prognostic predictors by using projective adaptive resonance theory as a gene filtering method.

MOTIVATION: For establishing prognostic predictors of various diseases using DNA microarray analysis technology, it is desired to find selectively significant genes for constructing the prognostic model and it is also necessary to eliminate non-specific genes or genes with error before constructing the model. RESULTS: We applied projective adaptive resonance theory (PART) to gene screening for DNA microarray data. Genes selected by PART were subjected to our FNN-SWEEP modeling method for the construction of a cancer class prediction model. The model performance was evaluated through comparison with a conventional screening signal-to-noise (S2N) method or nearest shrunken centroids (NSC) method. The FNN-SWEEP predictor with PART screening could discriminate classes of acute leukemia in blinded data with 97.1% accuracy and classes of lung cancer with 90.0% accuracy, while the predictor with S2N was only 85.3 and 70.0% or the predictor with NSC was 88.2 and 90.0%, respectively. The results have proven that PART was superior for gene screening. AVAILABILITY: The software is available upon request from the authors. CONTACT: honda@nubio.nagoya-u.ac.jp

Algorithms↗
PubMed2000

Temperature dependence of the electrical resistance of sound and carious teeth.

Temperature variations are expected to influence measurement error in electrical resistance of teeth. It was the aim of this study to determine the changes in electrical behavior of extracted human teeth due to temperature changes in the range of room temperature to intra-oral temperature. Nine extracted teeth were selected, and the occlusal or an approximal surface was chosen for measurement. Carious involvement of the surfaces ranged from sound to cavitated. Electrical impedance spectroscopy sweeps in a frequency range of about 100 kHz to 10 Hz were completed at selected temperatures between 22 degrees C and 40 degrees C. After fitting the data to equivalent circuits that yielded parameter values for components of the equivalent circuit, we calculated the dc bulk resistance (Rh). The temperature dependence of Rb of the surfaces with different carious involvement was very similar, and the mean drop of Rb from 20 to 35 degrees C was 45% (SD 2%). It was concluded that the electrical resistance of sound and carious tooth surfaces is inversely related to temperature.

Dental Caries↗
PubMed1994

Automatic detection method of P300 waveform in the single sweep records by using a neural network.

Event-related potentials (ERPs) are responses related to the recognition of certain stimuli. P300 is the most important positive component in the ERP and appears around 300 ms after the target stimulus in the oddball paradigm. In our previous work, we proposed a method for the automatic detection of the P300 waveform in single-sweep records by using a correlation technique. However, determination of the threshold values of the P300 waveform for the correlation study was not an easy task. In skirting this problem, we developed an automatic method of detecting a single-sweep P300 waveform by using an artificial neural network. We selected appropriate characteristic parameters of positive peaks as input signals for the input layer units, and the weights between the layers were determined by using the back-propagation algorithm. The neural network for P300 detection was obtained automatically, based on the data of ERPs obtained from 11 healthy males, and gave substantial accuracy for P300 detection. Furthermore, by using this neural network we clarified the way in which the P300 waveform is judged visually by each inspector.

Acoustic Stimulation↗
PubMed1997

Detection of enterotoxigenic Bacteroides fragilis by PCR.

Strains of enterotoxigenic Bacteroides fragilis (ETBF) are associated with diarrhea in young farm animals and, at least in particular settings, in children. Enterotoxin production by ETBF is currently detected by a tissue culture assay with HT-29 cells. We have developed a PCR assay based on the detection of the enterotoxin gene to identify ETBF in culture and in stool samples. Overall, 113 bacterial strains were examined, including 3 B. fragilis reference strains, 75 B. fragilis isolates (comprising 40 ETBF isolates), 20 Bacteroides spp. other than B. fragilis, and 15 strains belonging to other genera. Complete agreement was found between the results of the tissue culture assay and those of the PCR for our strains. PCR was also used to detect ETBF directly in fecal samples. Stools from two healthy volunteers were spiked with known numbers of ETBF and were processed by three different methods. A culture method, which required inoculation of the stools on selective plates and the collection of the whole bacterial growth ("sweeps"), was found to be the most sensitive. PCR performed with the plate sweeps yielded amplification products with a detection limit of 10(5) to 10(4) CFU/g of feces. By this method 18 samples of diarrheic stools (10 positive and 8 negative for ETBF) were examined. The results of the PCR were in accordance with the culture results in all cases. The proposed PCR assay represents a diagnostic tool for the rapid identification of ETBF in culture as well as in fecal samples.

Bacterial Toxins↗
PubMed2025

Efficient Detection and Characterization of Targets of Natural Selection Using Transfer Learning.

Natural selection leaves detectable patterns of altered spatial diversity within genomes, and identifying affected regions is crucial for understanding species evolution. Recently, machine learning approaches applied to raw population genomic data have been developed to uncover these adaptive signatures. Convolutional neural networks (CNNs) are particularly effective for this task, as they handle large data arrays while maintaining element correlations. However, shallow CNNs may miss complex patterns due to their limited capacity, while deep CNNs can capture these patterns but require extensive data and computational power. Transfer learning addresses these challenges by utilizing a deep CNN pretrained on a large dataset as a feature extraction tool for downstream classification and evolutionary parameter prediction. This approach reduces extensive training data generation requirements and computational needs while maintaining high performance. In this study, we developed TrIdent, a tool that uses transfer learning to enhance detection of adaptive genomic regions from image representations of multilocus variation. We evaluated TrIdent across various genetic, demographic, and adaptive settings, in addition to unphased data and other confounding factors. TrIdent demonstrated improved detection of adaptive regions compared to recent methods using similar data representations. We further explored model interpretability through class activation maps and adapted TrIdent to infer selection parameters for identified adaptive candidates. Using whole-genome haplotype data from European and African populations, TrIdent effectively recapitulated known sweep candidates and identified novel cancer, and other disease-associated genes as potential sweeps.

Selection, Genetic↗
PubMed1991

Single-sweep polarographic investigation of concanavalin A and its interaction with polysaccharide.

A simple, rapid, and sensitive single-sweep polarographic method has been developed for investigation of concanavalin A (con A) and its interaction with selected polysaccharides. In a solution containing 0.001 M 2,2'-bipyridine, 0.015 M hexamethylenetetramine, and 0.1 M sodium chloride, con A exhibits a single-sweep polarographic wave, and the cathodic peak potential is -1.50 V (vs SCE). The peak current varies linearly with con A concentration over a range of 1.0 x 10(-8) to 1.2 x 10(-7) M by derivative single sweep polarography. A preliminary discussion on properties of the con A polarographic wave has been made. In addition, it has been demonstrated that single sweep polarography can be a useful method for studies on interactions of con A with its complementary polysaccharides in solution.

Concanavalin A↗
PubMed2000

An extralemniscal component of the mustached bat inferior colliculus selective for direction and rate of linear frequency modulations.

Frequency modulations (FMs) are prevalent in human speech, and are important acoustic cues for the categorical discrimination of phonetic contrasts. For bats, FM sweeps are also important for communication and are often the only component in echolocation calls. Auditory neurons tuned to the direction and rate of FM might underlie the encoding of rapid frequency transitions. In the mustached bat, we have discovered a population of such FM selective cells in an area interposed between the central nucleus of the inferior colliculus (ICC) and the nuclei of the lateral lemniscus (NLL). We believe this area to be the ventral extent of the external nucleus of the inferior colliculus (ICXv). To describe FM selectivity of neurons in the ICXv and to compare it to other midbrain nuclei, up- and down-sweeping linear FM stimuli were presented at different modulation rates. Extracellular recordings were made from 171 single units in the ICC, ICXv, and NLL of 10 mustached bats. In the ICXv, there was a much higher degree of FM selectivity than in ICC or NLL and a consistent preference for upward over downward FM sweeps. Anterograde and retrograde transport was examined following focal injections of wheatgerm agglutinin-horseradish peroxidase (WGA-HRP) into ICXv. The main targets of anterograde transport were the deep layers of the superior colliculus and the suprageniculate division of the medial geniculate body. The primary site of retrograde transport was the nucleus of the central acoustic tract in the brainstem. Thus, the ICXv appears to be a part of the central acoustic tract, an extralemniscal pathway linking the auditory brainstem directly to a multimodal nucleus of the thalamus.

Acoustic Stimulation↗
PubMed2006

Statistical tests for detecting positive selection by utilizing high-frequency variants.

By comparing the low-, intermediate-, and high-frequency parts of the frequency spectrum, we gain information on the evolutionary forces that influence the pattern of polymorphism in population samples. We emphasize the high-frequency variants on which positive selection and negative (background) selection exhibit different effects. We propose a new estimator of theta (the product of effective population size and neutral mutation rate), thetaL, which is sensitive to the changes in high-frequency variants. The new thetaL allows us to revise Fay and Wu's H-test by normalization. To complement the existing statistics (the H-test and Tajima's D-test), we propose a new test, E, which relies on the difference between thetaL and Watterson's thetaW. We show that this test is most powerful in detecting the recovery phase after the loss of genetic diversity, which includes the postselective sweep phase. The sensitivities of these tests to (or robustness against) background selection and demographic changes are also considered. Overall, D and H in combination can be most effective in detecting positive selection while being insensitive to other perturbations. We thus propose a joint test, referred to as the DH test. Simulations indicate that DH is indeed sensitive primarily to directional selection and no other driving forces.

Animals↗
PubMed2004

Design of symmetric-sweep spectral-spatial RF pulses for spectral editing.

Spectral-spatial RF (SSRF) pulses allow simultaneous selection in both frequency and spatial domains. These pulses are particularly important for clinical and research MR spectroscopy (MRS) applications for suppression of large water and lipid resonances. Also, the high bandwidth of the subpulses (5-10 kHz) greatly reduces the spatial-shift errors associated with different chemical shifts. However, the use of high-bandwidth subpulses along with enough spectral bandwidth to measure a typical range of metabolite frequencies (e.g., 300 Hz at 3 T) can require RF amplitudes beyond the limits of the RF amplifier of a typical scanner. In this article, a new method is described for designing nonlinear-phase 180 degrees SSRF pulses that can be used for spectral editing. The novel feature of the pulses is that the spectral profile develops as a symmetric sweep, from the outside edges of the spectral window towards the middle, so that coupled components are tipped simultaneously and over a short interval. Pulses were designed for lactate editing at 1.5 T and 3 T. The spectral and spatial spin-echo profiles of the new pulses were measured experimentally. Spectra acquired in phantom experiments showed a well-resolved, edited lactate doublet, with 91% to 93% editing efficiency.

Image Enhancement↗
PubMed2001

Direction-specific changes of sensitivity after brief apparent motion stimuli.

Direction-specific losses in sensitivity were found for a test grating which was superimposed on a stationary contrast pedestal and which moved either in the same or opposite direction as a prior biasing stimulus. Three types of biasing stimuli were employed: a grating swept through 270 degrees in 45 degrees steps, a single 90 degrees step of a grating, and a single 90 degrees step of a grating which contained a blank IFI and whose perceived direction was reversed. For the biasing sweep and the single 90 degrees step, the response of directionally selective mechanisms (directional motion energy) is greatest for the direction which corresponds to the actual physical displacement of the stimulus. For the biasing step with an IFI, the response is maximum for the opposite direction. For all three types of biasing stimuli, directional sensitivity for a test stimulus was reduced most when it moved in the biasing direction, i.e. the direction which produced the strongest signal in directionally selective mechanisms. Unlike the effects of the same types of biasing stimuli on the perceived direction of a suprathreshold 180 degrees step of a grating [Pinkus, A., & Pantle, A. (1997). Probing motion signals with a priming paradigm. Vision Research, 37, 541-52; Pantle, A., Gallogly, D.P., & Piehler, O.C. (2000). Direction biasing by brief apparent motion stimuli. Vision Research, 40, 1979-91], all the direction-specific losses of sensitivity can be explained by changes in the response characteristics of directionally selective mechanisms.

Contrast Sensitivity↗
PubMed1999

Release-independent depression at pyramidal inputs onto specific cell targets: dual recordings in slices of rat cortex.

1. Paired intracellular recordings were performed in slices of adult rat neocortex and hippocampus to examine presynaptic depression. A novel form of depression that occurs even in the absence of transmitter release during conditioning activity was observed at a subset of synaptic connections. 2. In each pair studied, a pyramidal neurone was presynaptic and inputs onto a range of morphologically identified postsynaptic target cells were analysed; high probability connections exhibiting the more traditional forms of release-dependent depression, as well as low probability connections exhibiting facilitation, were tested (n = 35). 3. Connections were tested with presynaptic spike pairs and trains of spikes with a range of interspike intervals. Sweeps in which the first action potential elicited no detectable response (apparent failures of transmission) and sweeps in which the first action potential elicited large EPSPs were selected. Second EPSPs that followed apparent failures were then compared with second EPSPs that followed large first EPSPs. 4. Release-independent depression was apparent when second EPSPs at brief interspike intervals (<10-15 ms) were on average smaller than second EPSPs at longer interspike intervals, even following apparent failures and when the second EPSP amplitude at these short intervals was independent of the amplitude of the first EPSP. 5. Release-independent depression appeared selectively expressed. Depressing inputs onto some interneurones, such as CA1 basket-like and bistratified cells, and facilitating inputs onto others, such as some fast spiking neocortical interneurones, exhibited this phenomenon. In contrast, depressing inputs onto 10/10 neocortical pyramids and facilitating inputs onto 7/7 oriens-lacunosum moleculare and 5/5 burst firing, sparsely spiny neocortical interneurones did not.

Action Potentials↗
PubMed1996

Multicomponent acoustic distortion product otoacoustic emission phase in humans. II. Implications for distortion product otoacoustic emissions generation.

Phase characteristics and latency of 2f1-f2, 3f1-2f2, and 2f2-f1 acoustic distortion product otoacoustic emissions (DPOAEs) recorded in normally hearing adults have been described in a companion paper [Moulin and Kemp, "Multicomponent acoustic distortion product otoacoustic emission phase in humans. I. General characteristics," J. Acoust. Soc. Am. 100, 1617-1639 (1996)]. Phase-versus-frequency functions (PFF) have been recorded using two methods, depending whether f1 or f2 was swept in frequency, defining, respectively, an "f1 sweep" and an "f2 sweep" method. The present study compares 2f1-f2, 3f1-2f2, 4f1-3f2, and 2f2-f1 DPOAEs phase characteristics, and latencies obtained by these two methods. For lower sideband DPOAEs, the f2 sweep gave consistently longer latencies than the f1 sweep method, whereas no difference was obtained for the 2f2-f1 DPOAE. This suggests that the lower sideband DPOAEs and the 2f2-f1 DPOAE do not come from the same aspect of the traveling wave. The longer delay obtained with an f2 sweep is suggested to be due to an additional delay added by the proximity of the peak of the f2 traveling wave. The place-fixed and the wave-fixed models of DPOAE generation are discussed, and an "intermediate" model of DPOAE generation is introduced to explain such additional delay and the existence of phase irregularities which were observed in the PFF. The ratio of the latencies obtained by the two sweep methods is frequency dependent and a relation to cochlear frequency selectivity is suggested. Finally, analysis of the differences in latency of the different lower sideband DPOAE components allowed an estimation of the return latency of DPOAEs.

Acoustic Stimulation↗
PubMed1980

Neural adaptations for processing the two-note call of the Puerto Rican treefrog, Eleutherodactylus coqui.

Male Puerto Rican treefrogs, Eleutherodactylus coqui, produce a two-note call: a 100-msec constant frequency 'Co' note, followed by a longer, upward sweeping 'Qui' note. Previous behavioral studies have shown that males respond selectively to natural and synthetic call notes of 100 msec duration, whereas preliminary results suggest that females respond preferentially to the second note in the male's call. In the present study, we first show that the basilar papilla in the inner ear is tuned differentially in males and females. Comparisons were next made between cells in the eighth nerve and midbrain torus semicircularis of firing rate vs. duration functions in order to help determine the underlying neural mechanisms responsible for the behavioral selectivity to notes of 100 msec duration. A model for detection of vocalizations of specific durations is postulated and discussed in the light of the observed calling behavior of the male as well as the response properties of a class of cells found in the torus semicircularis.

Adaptation, Physiological↗
PubMed2003

Diltiazem facilitates inactivation of single L-type calcium channels in guinea pig ventricular myocytes.

Diltiazem is a benzothiazepine Ca2+ channel blocker used clinically for its antihypertensive and antiarrhythmic effects. We studied the mechanism of diltiazem blockade by recording L-type Ca2+ channel currents from cell-attached patches in isolated guinea pig ventricular myocytes using Ba2+ as the charge carrier. With diltiazem (200 microM) in the superfusate, multichannel currents showed a use-dependent decline in amplitude reflecting reductions in the numbers of superpositions of channel openings. Analysis of single-channel currents revealed that both open and closed times were little affected by diltiazem (50 and 100 microM). However, the rate of decay of the averaged current during 150-ms depolarization steps was significantly accelerated and the open state probability in current containing-sweeps was significantly decreased by diltiazem, suggesting that the drug accelerates transition from the activated state to the inactivated state. The effect of diltiazem on the slow gating process was studied by repetitively applying 500-1000 step pulses at selected holding potentials. Decreased channel availability by diltiazem was reflected by the increasing number of blank sweeps per run at depolarized holding potentials. These results suggest that diltiazem reduces Ca2+ influx by accelerating inactivation during action potentials, and that the use-dependent blockade is due to increases in the number of channels in a sustained closed state.

Action Potentials↗
PubMed2004

Tonotopic organization of the human auditory cortex probed with frequency-modulated tones.

Using neuromagnetic source imaging, we investigated tonotopic representation and direction sensitivity in the auditory cortex of humans (N = 15). For this purpose, source analysis was undertaken at every single sampling point during the presentation of a frequency-modulated tone (FM) sweeping slowly downward or upward across periods of 3 s duration. Stimuli were selected to target response properties of the central part of the primary auditory cortical field, which has been shown to exhibit sensitivity to distinct FM-sound features as compared to the ventral and dorsal part. Linear mixed-effects model statistics confirm tonotopic gradients in medial-lateral and anterior-posterior directions. The high resolution provided by this method revealed that the relationship between frequency and spatial location of the responding neural tissue is nonlinear. The idea that neurons specifically sensitive to the employed sound characteristics (slow, downward modulation) were activated is supported by the fact that the upward sweep of identical duration produced a different pattern of functional organisation.

Acoustic Stimulation↗
PubMed1998

Processing of frequency-modulated sounds in the cat's posterior auditory field.

Single-neuron activity was recorded from the posterior auditory field (PAF) in the cortex of gas-anesthetized cats. Tone bursts and broadband complex sounds were used for auditory stimulation. Responses to frequency-modulated (FM) sounds, in particular, were studied systematically. Linear FM sweeps were centered around the best frequency (BF) of a neuron and had an excursion large enough to cover its whole frequency tuning range. Rate and direction of change of the FM sweeps were varied. In the majority of PAF neurons (75%) the FM response seemed not to be linear, i.e., their best instantaneous frequency (BIF) varied by more than one octave at different FM rates (FMR). When the difference between BIF and BF at each FMR was used as a measure of linearity, it was within one-third octave only at five or fewer FMR in most PAF neurons (74%). The majority of PAF neurons (70%) preferred moderate FM rates (<200 Hz/ms). Fifty-four percent of all neurons in this area showed band-pass behavior with a clear preference in the middle range of FM rates in at least one direction. Overall, neurons with high-pass behavior in both directions made up only a minor portion (22%) of PAF neurons. When both directions of an FM sweep (low-to-high and high-to-low frequency) were tested, 50% of the neurons were clearly selective for one direction, i.e., the response to one FM direction was at least twice as large as that to the other direction. This selectivity was not necessarily present at the preferred FM rate. In general, FM direction selectivity was equally distributed over FM rates tested. The selectivity of PAF neurons for the rate and direction of FM sounds makes these neurons suitable for the detection and analysis of communication sounds, which often contain FM components with a moderate sweep rate in a particular direction.

Acoustic Stimulation↗