Search PubMed⌕ Search

SEARCH · Search PubMed

Results for “selective sweeps”

Search indexed PubMed citations on genomics, clinical trials, systematic reviews and public health. Explore titles, authors and supplied subject terms, then open the PubMed record.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 343 records · Page 19Linked to original sources
PubMed2005

Functional organization of squirrel monkey primary auditory cortex: responses to frequency-modulation sweeps.

The squirrel monkey twitter call is an exemplar of a broad class of species-specific vocalizations that contain naturally voiced frequency-modulated (FM) sweeps. To investigate how this prominent communication call element is represented in primary auditory cortex (AI), neuronal receptive field properties to pure-tone and synthetic, logarithmically spaced FM-sweep stimuli in 3 barbiturate-anesthetized squirrel monkeys are studied. Responses to pure tones are assessed by using standard measures of frequency response areas, whereas responses to FM sweeps are classified according to direction selectivity, best speed, and speed tuning preferences. Most neuronal clusters respond to FM sweeps in both directions and over a range of FM speeds. Center frequencies calculated from the average of high and low trigger frequency edges of FM response profiles are highly correlated with pure-tone characteristic frequencies (CFs). However, bandwidth estimates are only weakly correlated with their pure-tone counterparts. CF and direction selectivity are negatively correlated. Best speed maps reveal idiosyncratically positioned spatial aggregation of similar values. In contrast, direction selectivity maps show unambiguous spatial organization. Neuronal clusters selective for upward-directed FM sweeps are located in ventral-caudal AI, where CFs range from 0.5 to 1 kHz. Combinations of pure-tone and FM response parameters form 2 significant factors to account for response variations. These results are interpreted in the context of earlier FM investigations and neuronal encoding of dynamic sounds.

Acoustic Stimulation↗
PubMed1992

Processing of pure-tone and FM stimuli in the auditory cortex of the FM bat, Myotis lucifugus.

FM bats perceive their surroundings during echolocation by analyzing frequency-modulated (FM) acoustic signals. Results from this study indicate a cortical organization in Myotis lucifugus which is largely made up of neurons sensitive to FM sounds (FM-sensitive neurons). Three types of neurons were distinguished by their responses to pure-tone and FM stimuli: (1) Type I FM-sensitive units (83%), Type II FM-sensitive units (13%) and pure-tone sensitive units (4%). Type I FM-sensitive units responded to pure tones, but exhibited greater response magnitudes to FM stimuli when the best FM swept through the BF. An orderly frequency representation was found when the frequencies of pure tones essential for response (EPTs) in Type I units were mapped along the cortical surface. The EPTs for Type I neurons were usually found within the last millisecond of a downward FM sweep. As outlined by two neuronal network models, both the responses of Type I and II units could likely result from the convergence of excitatory and inhibitory lower level neurons with slightly differing BFs. Type II units were selective for an FM sweep and showed negligible to no response to pure-tone stimuli. Pure-tone sensitive units exhibited weak or no responses to FM stimuli. These neurons were clustered in a small area located rostrodorsal to the tonotopic zone and had significantly lower best frequencies than adjacent EPT frequencies of Type I FM-sensitive neurons.

Acoustic Stimulation↗
PubMed2003

Determination of ppb levels of tryptophan derivatives by capillary electrophoresis with homogeneous liquid-liquid extraction and sweeping method.

Tryptophan (Trp) derivatives were selectively separated from 24 kinds of amino acid mixture solutions. Capillary electrophoresis (CE) with UV detection using the described pretreatment system was able to separate and determine 4 kinds of Trp derivatives: 5-hydroxy L-tryptophan, 5-methyl L-tryptophan, 1-methyl L-tryptophan and L-tryptophan. The pretreatment system used a combination of a homogeneous liquid-liquid extraction and a sweeping method, the two are different kinds of powerful preconcentration/separation methods. Trp derivatives were thus separated by two different separation systems. First, these derivatives were selectively extracted at 57-100% by a homogeneous liquid-liquid extraction; secondly, they were respectively separated by micellar electrokinetic chromatography (MEKC) with a sweeping effect. The detection limits following complete separation of the Trp derivatives were 10(-8) mol l(-1) levels, respectively. The proposed method provided a more than 10-fold the improvement in sensitivity compared with fluorescence labeling/fluorophotometric analysis; the proposed method was also applied to the component analysis of nutritious medicine.

Chromatography, Micellar Electrokinetic Capillary↗
PubMed2026

3D chromatin remodeling during domestication defines novel targets for crop improvement.

Three-dimensional (3D) genome folding shapes gene regulation, yet the genetic underpinnings linking 3D genome evolution to phenotypic innovation during domestication remain elusive. Using population-scale Hi-C profiling of 34 semi-wild and 267 cultivated allotetraploid cottons, we generated a pan-3D genome atlas capturing extensive diversity in topologically associating domains (TADs) and chromatin loops. Chromatin interactome-wide association studies identified 105 TAD reconfigurations and 58 loop rewirings that were established as the 3D chromatin basis of fiber quality, boosting heritability estimates for fiber strength by 16% and fiber length by 20%. We reveal that domestication selection within sequence-defined sweeps fixed 57% of 3D conformation signatures, thereby decoupling sequence-level from chromatin-level selection and shifting the subgenome expression balance of 39 homoeologs in cultivated cotton. Sequence-based modeling and mutational analyses identified the C2H2 zinc-finger protein YY1 as a conserved mediator of 3D genome organization. This study provides a resource for redefining precision-breeding paradigms by harnessing cryptic 3D chromatin targets.

3D genome↗
PubMed1993

Functional topography of cat primary auditory cortex: responses to frequency-modulated sweeps.

The spatial distribution of neuronal responses to frequency-modulated (FM) sweeps was mapped with microelectrodes in the primary auditory cortex (AI) of barbiturate-anesthetized cats. Increasing and decreasing FM sweeps (upward- and downward-directed FM sweeps, respectively) covering a range of 0.25-64.0 kHz were presented at three different rates of frequency change over time (i.e, sweep speed). Using multiunit recordings, the high-frequency domain (between 3.2 and 26.3 kHz) of AI was mapped over most of its dorsoventral extent (as determined by the distribution of the excitatory bandwidth, Q10dB) for all six cases studied. The spatial distributions of the preferred sweep speed and the preferred sweep direction were determined for each case. Neuronal responses for frequency sweeps of different speeds appeared to be systematically distributed along the dorsoventral axis of AI. In the dorsal region, cortical cells typically responded best to fast and/or medium FM sweeps, followed more ventrally by cells that responded best to medium--then slow--, then medium-speed FM sweeps. In the more ventral aspect of AI (which in some cases may also have included cells located in the dorsal region of the second auditory field, AII), neurons generally preferred fast FM sweeps. However, a comparison of maps from different animals showed that there was more variability in the distribution of preferred speed responses in the ventral region of the cortex. The directional preference of units for FM sweeps was determined for the sweep speed producing the strongest response. Direction selectivity appeared to be nonrandomly distributed along the dorsoventral axis of AI. In general, units that responded best to upward-directed FM sweeps were located in the more dorsal and ventral aspects of AI while units that responded best to downward-directed FM sweeps were usually located in the mid-region of AI. Direction selectivity was also determined for multiunit responses at each of the three FM sweep speeds. In general, there was a relatively close agreement between the spatial distributions of direction selectivity determined for the strongest response with those calculated for the fast and medium speeds. The spatial distribution of direction selectivity determined for slow FM sweeps deviated somewhat from that determined for the strongest response. Near the dorsoventral center of the mapped areas, the distribution of units that responded best to downward sweeps tended to overlay the distribution of units that responded best to slow speeds, suggesting some spatial covariance of the two parameters.(ABSTRACT TRUNCATED AT 400 WORDS)

Acoustic Stimulation↗
PubMed2003

Mapping responses to frequency sweeps and tones in the inferior colliculus of house mice.

In auditory maps of the primary auditory cortex, neural response properties are arranged in a systematic way over the cortical surface. As in the visual system, such maps may play a critical role in the representation of sounds for perception and cognition. By recording from single neurons in the central nucleus of the inferior colliculus (ICC) of the mouse, we present the first evidence for spatial organizations of parameters of frequency sweeps (sweep speed, upward/downward sweep direction) and of whole-field tone response patterns together with a map of frequency tuning curve shape. The maps of sweep speed, tone response patterns and tuning curve shape are concentrically arranged on frequency band laminae of the ICC with the representation of slow speeds, build up response types and sharp tuning mainly in the centre of a lamina, and all (including high) speeds, phasic response types and broad tuning mainly in the periphery. Representation of sweep direction shows preferences for upward sweeps medially and laterally and downward sweeps mainly centrally in the ICC (either striped or concentric map). These maps are compatible with the idea of a gradient of decreasing inhibition from the centre to the periphery of the ICC and by gradients of intrinsic neuronal properties (onset or sustained responding). The maps in the inferior colliculus compare favourably with corresponding maps in the primary auditory cortex, and we show how the maps of sweep speed and direction selectivity of the primary auditory cortex could be derived from the here-found maps of the inferior colliculus.

Acoustic Stimulation↗
PubMed1991

Obesity Stereotypes Among Physicians, Medical and College Students, Bariatric Surgery Patients and Families.

Cultural indoctrination throughout childhood largely defines adult value systems including stereotypic attitudes towards the obese. It is possible that medical education may alter physicians' earlier stereotypes of obesity. 156 subjects, comprising sex distinct adult groups, morbidly obese persons, their family members and significant others. college undergraduates, medical students, medical and surgical residents, and medical school faculty, were surveyed with a questionnaire. It required that each of 32 bipolar adjectives describing obese persons be answered on a -0 to 9-point scale. The adjectives were selected to provide a sweeping array of attributes used commonly to note differences among people (e.g. intelligent-unintelligent, happy-sad, complex-simple) with low values corresponding to the first, usually more favorable, adjective of each pair. Discriminant analysis identified only 5 of 32 adjective pairs (16%) as useful (p < 0.05) in isolating the respondent groups. Although it reached statistical significance, the magnitudes of these differences were not very substantive with reference to a 9-point scale. We conclude that obesity appears to carry a burdensome degree of societal prejudice, as reflected by negative stereotypes, which is largely unaffected by undergraduate or postgraduate medical education.

Journal Article↗
PubMed1995

Periodic selection and hitchhiking in a bacterial population.

The accumulation of a neutral marker in a bacterial population under balanced growth in a chemostat follows a jagged curve as adaptive variants continuously appear and sweep the population. Such periodic selection curves are simulated in the present work using deterministic equations that, in contrast to previous models, take full account of the stochastic character of the process. The uncertainties due to the appearance time, the survival probability, and the extent of early growth at small numbers are included as stochastic initial conditions for every new variant--adaptive or neutral--that appears. The model is used to calculate the substitution rate via hitchhiking where a neutral or weakly selected mutation is carried along when a new adaptive one takes over the population. The expected ratio for the probabilities of the presence or absence of a weakly selected or counterselected mutation in the population is also calculated. This can be related to the standard result without hitchhiking if the average time between adaptive shifts is interpreted as an effective population size.

Bacteria↗
PubMed1985

Sensitivity of cat primary auditory cortex (AI) neurons to the direction and rate of frequency modulation.

Responses of 65 single auditory cortex (AI) neurons to frequency-modulated (FM) sweeps with different rates and direction of frequency change were examined quantitatively. Most units responded differentially depending on the characteristics of the FM sweep stimulus. Sixty-five percent of the units encountered responded at least twice as well for one direction of the FM sweep as for the other direction. Of these direction selective neurons, 67% preferred downward-directed FM sweeps (i.e. changing from high to low frequencies) while only 33% preferred upward-directed FM sweeps. The preference for downward-directed FM sweeps was especially clear in EI cells. In addition, cortical neurons often displayed sensitivity to the rate of frequency modulation (speed sensitivity).

Acoustic Stimulation↗
PubMed2004

Broadband and band-selective IMPRESS-gHMBC: compensation of refocusing inefficiency with synchronized inversion sweep.

Compensation of refocusing inefficiency in a gHMBC experiment by replacing the rectangular pi pulse with a pair of adiabatic pulses with synchronized inversion sweep (CRISIS) significantly improves the performance of the gHMBC experiment. The CRISIS-gHMBC experiment retains the pure absorptive shapes in F1 and hence results in better lineshape and higher resolution than the current versions of magnitude mode gHMBC spectra. When used as a broadband experiment, CRISIS-gHMBC, owing to better refocusing efficiency of the adiabatic pulse pairs, gives improved performance across the 13C spectral width. Moreover, it is shown that CRISIS-gHMBC is a robust and improved alternative and when used along with the IMPRESS (Improved Resolution using Symmetrically Shifted pulses) technique further increases the sensitivity and resolution without additional experimental time. The IMPRESS-CRISIS combination is demonstrated for broadband gHMBC and band-selective gHMBC experiments. The ICbs-gHMBC [IMPRESS-CRISIS-band-selective gHMBC] experiment is an attractive and better alternative to individual band-selective gHMBC.

Journal Article↗
PubMed2005

Chirp imaging vibro-acoustography for removing the ultrasound standing wave artifact.

Vibro-acoustography (VA) is an imaging technique that uses the dynamic (oscillatory) radiation force of two continuous-wave (CW) ultrasound to image objects at low frequency (within the kHz range). In this technique, the dynamic radiation force is created by means of a confocused transducer emitting two ultrasound beams at slightly-shifted frequencies f1 and f2 = f1 + deltaf. It has been demonstrated previously that high-resolution images of various types of inclusions and tissues can be obtained using this technique. However, if the targeted object reflects ultrasound directly back to the transducer, standing waves are produced that result in an artifact in the VA image. The goal of this study is to remove the standing wave artifact and improve VA images by means of a new process called chirp imaging. The procedure consists of sweeping the frequencies of the primary ultrasound beams in a selected bandwidth while keeping deltaf constant during the sweep. The chirp image is produced by averaging the amplitude of the acoustic emission produced during the sweep. Vibro-acoustography chirp imaging experiments are performed on a stainless-steel sphere attached to a latex sheet in a tank of degassed water. The resulting chirp images demonstrate remarkable reduction of the standing wave artifact compared to the "fixed frequency" VA images.

Acoustics↗
PubMed1996

Punctuated evolution caused by selection of rare beneficial mutations.

For more than two decades there has been intense debate over the hypothesis that most morphological evolution occurs during relatively brief episodes of rapid change that punctuate much longer periods of stasis. A clear and unambiguous case of punctuated evolution is presented for cell size in a population of Escherichia coli evolving for 3000 generations in a constant environment. The punctuation is caused by natural selection as rare, beneficial mutations sweep successively through the population. This experiment shows that the most elementary processes in population genetics can give rise to punctuated evolution dynamics.

Alleles↗
PubMed2003

Topography and synaptic shaping of direction selectivity in primary auditory cortex.

The direction of frequency-modulated (FM) sweeps is an important temporal cue in animal and human communication. FM direction-selective neurons are found in the primary auditory cortex (A1), but their topography and the mechanisms underlying their selectivity remain largely unknown. Here we report that in the rat A1, direction selectivity is topographically ordered in parallel with characteristic frequency (CF): low CF neurons preferred upward sweeps, whereas high CF neurons preferred downward sweeps. The asymmetry of 'inhibitory sidebands', suppressive regions flanking the tonal receptive field (TRF) of the spike response, also co-varied with CF. In vivo whole-cell recordings showed that the direction selectivity already present in the synaptic inputs was enhanced by cortical synaptic inhibition, which suppressed the synaptic excitation of the non-preferred direction more than that of the preferred. The excitatory and inhibitory synaptic TRFs had identical spectral tuning, but with inhibition delayed relative to excitation. The spectral asymmetry of the synaptic TRFs co-varied with CF, as had direction selectivity and sideband asymmetry, and thus suggested a synaptic mechanism for the shaping of FM direction selectivity and its topographic ordering.

Acoustic Stimulation↗
PubMed2005

Soft sweeps: molecular population genetics of adaptation from standing genetic variation.

A population can adapt to a rapid environmental change or habitat expansion in two ways. It may adapt either through new beneficial mutations that subsequently sweep through the population or by using alleles from the standing genetic variation. We use diffusion theory to calculate the probabilities for selective adaptations and find a large increase in the fixation probability for weak substitutions, if alleles originate from the standing genetic variation. We then determine the parameter regions where each scenario-standing variation vs. new mutations-is more likely. Adaptations from the standing genetic variation are favored if either the selective advantage is weak or the selection coefficient and the mutation rate are both high. Finally, we analyze the probability of "soft sweeps," where multiple copies of the selected allele contribute to a substitution, and discuss the consequences for the footprint of selection on linked neutral variation. We find that soft sweeps with weaker selective footprints are likely under both scenarios if the mutation rate and/or the selection coefficient is high.

Adaptation, Physiological↗
PubMed2006

Comparison of the use of anionic and cationic surfactants for the separation of steroids based on MEKC and sweeping-MEKC modes.

In attempts to improve the selectivity and sensitivity of steroid separation and to determine their migration order, a comparison of the use of anionic and cationic surfactants based on the MEKC and sweeping-MEKC modes was made. A mixture of six steroids (progesterone, 17-hydroxy progesterone, 11-deoxycortisol, corticosterone, cortisone, and cortisol) could be separated and detected by means of the CE/UV-absorption method. The order of migration time for these steroids was compared under various conditions, including acidic/alkaline buffers, anionic/cationic surfactants, and positive/negative applied voltage, causing the direction of the EOF and the migration of micelles to change. The major rules for generally predicting the migration order of steroids are summarized. The detection limits were significantly improved when the sweeping-MEKC mode was applied.

Anions↗
PubMed1998

Can we decrease postdatism in women with an unfavorable cervix and a negative fetal fibronectin test result at term by serial membrane sweeping?

OBJECTIVE: Our purpose was to determine whether the risk for postdatism can be reduced by serial membrane sweeping in women with an unfavorable cervix at 39 weeks' gestation and a negative fetal fibronectin test result. STUDY DESIGN: Women with uncomplicated pregnancies, who were candidates for a vaginal delivery with an unfavorable cervix at 39 weeks' gestation and a negative fetal fibronectin test result were asked to participate in this investigation. Patients were chosen at random and assigned to a group for membrane sweeping every 3 days or to a control group who received gentle examinations every 3 days. RESULTS: Sixty-five women were selected at random for serial membrane sweeping (n = 33) or for the control group (n = 32). Although gestational age and Bishop score at study entry were similar, the gestational age on admission for delivery was earlier in the membrane sweeping group (39.9 +/- 0.3) versus the control group (41.5 +/- 0.6, P < .0001). The Bishop score on admission to labor and delivery was greater (8.8 +/- 2.1) in the membrane sweeping group than in the control group (6.2 +/- 2.7, P < .0001). The number of women admitted for labor inductions at 42 weeks' gestation was 18 of 32 (56%) in the control group versus none (0 of 24) in the membrane-sweeping group (P < .0001). CONCLUSIONS: Women with an unfavorable cervix at 39 weeks' gestation and a negative fetal fibronectin test result are at risk for not being delivered by 41 completed weeks and thus may require postdates induction or antenatal testing. Serial membrane sweeping significantly reduces the risk of postdatism and induction of labor.

Cervical Ripening↗
PubMed2005

Externally controlled attractor selection in a high-dimensional system.

A high-dimensional dynamical system with global couplings that can serve as a prototype for systems with very large numbers of attractors like memory is investigated and shown to be controllable by external inputs. By changing the duration that noise is added, final attractors are selected as the number of degrees of freedom of the nonsynchronized elements decreases one by one over time. Furthermore, it is found that this selection of attractors is also possible by controlling the sweeping speed of a parameter. The mechanism for this controlled selection is explained and shown to be rather general. Applications to attractor switching are given.

Journal Article↗
PubMed2003

Large-scale adaptive hitchhiking upon high recombination in Drosophila simulans.

Natural selection is expected to leave a characteristic footprint on neighboring nucleotide variation through the effects of genetic linkage. The size of the region affected is proportional to the strength of selection and greatly reduced with the recombinational distance from the selected site. Thus, the genomic footprint of selection is generally believed to be restricted to a small DNA stretch in normal and highly recombining regions. Here, we study the effect of selection on linked polymorphism (hitchhiking effect) by surveying nucleotide variation across a highly recombining approximately 88-kb genomic fragment in an African population of Drosophila simulans. We find a core region of up to 38 kb with a major haplotype at intermediate frequency. The extended haplotype structure that gradually vanishes until disappearing is unusual for a highly recombining region. Both the presence in the structured genomic domain of a single major haplotype depleted of variability and the detected spatial pattern of variation along the approximately 88-kb fragment are incompatible with neutral predictions in a panmictic population. A major role of demographic effects could also be discarded. The observed pattern of variation clearly provides evidence that directional selection has acted recently on this region, sweeping out variation around a strongly adaptive mutation. Our findings suggest a major role of positive selection in shaping DNA variability even in highly recombining regions.

Adaptation, Biological↗