The genetic ancestry of African Americans, Latinos, and European Americans across the United States

Over the past 500 years, North America has been the site of ongoing mixing of Native Americans, European settlers, and Africans (brought largely by the trans-Atlantic slave trade), shaping the early history of what became the United States. We studied the genetic ancestry of 5,269 self-described African Americans, 8,663 Latinos, and 148,789 European Americans who are 23andMe customers and show that the legacy of these historical interactions is visible in the genetic ancestry of present-day Americans. We document pervasive mixed ancestry and asymmetrical male and female ancestry contributions in all groups studied. We show that regional ancestry differences reflect historical events, such as early Spanish colonization, waves of immigration from many regions of Europe, and forced relocation of Native Americans within the US. This study sheds light on the fine-scale differences in ancestry within and across the United States and informs our understanding of the relationship between racial and ethnic identities and genetic ancestry.

Web-based, participant-driven studies yield novel genetic associations for common traits

Despite the recent rapid growth in genome-wide data, much of human variation remains entirely unexplained. A significant challenge in the pursuit of the genetic basis for variation in common human traits is the efficient, coordinated collection of genotype and phenotype data. We have developed a novel research framework that facilitates the parallel study of a wide assortment of traits within a single cohort. The approach takes advantage of the interactivity of the Web both to gather data and to present genetic information to research participants, while taking care to correct for the population structure inherent to this study design. Here we report initial results from a participant-driven study of 22 traits. Replications of associations (in the genes OCA2, HERC2, SLC45A2, SLC24A4, IRF4, TYR, TYRP1, ASIP, and MC1R) for hair color, eye color, and freckling validate the Web-based, self-reporting paradigm. The identification of novel associations for hair morphology (rs17646946, near TCHH; rs7349332, near WNT10A; and rs1556547, near OFCC1), freckling (rs2153271, in BNC2), the ability to smell the methanethiol produced after eating asparagus (rs4481887, near OR2M7), and photic sneeze reflex (rs10427255, near ZEB2, and rs11856995, near NR2F2) illustrates the power of the approach.

Strategies that simplify the control of quadrupedal stance. II. Electromyographic activity

1. This study tested the hypothesis that muscle synergies underlie the invariance in the direction of corrective forces observed following stance perturbations in the horizontal plane. Electromyographic activity was recorded from selected forelimb and hindlimb muscles of cats subjected to horizontal translations of the supporting surface in 16 different directions. The responses of muscles were quantified for each perturbation, and tuning curves were constructed that related the amplitude of muscle response to the direction of platform movement. 2. Muscle tuning curves tended to group into one of two regions, corresponding to the two directions of force vectors. A few muscles showed clearly different recruitment patterns. The same direction of correction force vector was produced by different patterns of muscle activity, and the particular EMG pattern depended on the direction of platform movement. Therefore a simple muscle synergy organization could not account for the invariance in force vector generation. 3. It is concluded that there is a hierarchy of control in the maintenance of stance in which the vector of force exerted against the ground is a high level, task-dependent controlled variable and the selection of muscles to activate in order to produce the vector is controlled at a lower level. It is proposed that muscles are controlled using a modified synergy strategy. In this scheme, a synergy is not simply a fixed group of muscles, constrained to act as a unit. Rather, muscles are organized as a task-dependent synergy that is tuned or modified as needed by the addition or subtraction of other muscles.

Pesticide resistance via transposition-mediated adaptive gene truncation in Drosophila

To study adaptation, it is essential to identify multiple adaptive mutations and to characterize their molecular, phenotypic, selective, and ecological consequences. Here we describe a genomic screen for adaptive insertions of transposable elements in Drosophila. Using a pilot application of this screen, we have identified an adaptive transposable element insertion, which truncates a gene and apparently generates a functional protein in the process. The insertion of this transposable element confers increased resistance to an organophosphate pesticide and has spread in D. melanogaster recently.

Strategies that simplify the control of quadrupedal stance. I. Forces at the ground

1. Postural reactions were studied in six cats subjected to small, linear translations of the supporting surface in each of 16 different directions in the horizontal plane. Directions were specified in a polar coordinate system, with posterior translations being 0 degrees and leftward translations, 90 degrees. The data consisted of the forces exerted by each paw of the cat against the ground, measured in three orthogonal directions, vertical (z-axis), longitudinal (y-axis), and lateral (x-axis). 2. The force traces were analyzed by measuring the area under the curve during the postural reaction and dividing by the time of integration to give an average change in force. These values were normalized and plotted against direction of translation in polar coordinates, to give force tuning curves. The longitudinal and lateral force components were combined to generate force vectors in the horizontal plane. 3. Every cat responded to the platform translations with the same, simple strategy in which each hindlimb actively produced a correction force vector in one of only two possible directions. Participation of the forelimbs in the horizontal plane correction was not obligatory. While the direction of each hindlimb force vector was invariant, the amplitude was modulated according to the direction of platform movement. The resultant force vector, that acts through the center of mass of the animal, was in a direction opposite to the platform movement and directly opposed the perturbation. By this strategy, the cat was able to correct for destabilizing movements of the supporting surface in any direction in the horizontal plane. 4. It is concluded that the generation of forces between the paws and the ground is a high-level parameter that is controlled by the nervous system in a task-dependent manner. By using the strategy of restricting these forces to a set of two direction-invariant vectors, the problem of maintaining stance in the face of horizontal plane disturbances is greatly simplified.

High rate of recent transposable element-induced adaptation in Drosophila melanogaster

Although transposable elements (TEs) are known to be potent sources of mutation, their contribution to the generation of recent adaptive changes has never been systematically assessed. In this work, we conduct a genome-wide screen for adaptive TE insertions in Drosophila melanogaster that have taken place during or after the spread of this species out of Africa. We determine population frequencies of 902 of the 1,572 TEs in Release 3 of the D. melanogaster genome and identify a set of 13 putatively adaptive TEs. These 13 TEs increased in population frequency sharply after the spread out of Africa. We argue that many of these TEs are in fact adaptive by demonstrating that the regions flanking five of these TEs display signatures of partial selective sweeps. Furthermore, we show that eight out of the 13 putatively adaptive elements show population frequency heterogeneity consistent with these elements playing a role in adaptation to temperate climates. We conclude that TEs have contributed considerably to recent adaptive evolution (one TE-induced adaptation every 200–1,250 y). The majority of these adaptive insertions are likely to be involved in regulatory changes. Our results also suggest that TE-induced adaptations arise more often from standing variants than from new mutations. Such a high rate of TE-induced adaptation is inconsistent with the number of fixed TEs in the D. melanogaster genome, and we discuss possible explanations for this discrepancy.

Transposable elements (TEs) are present in virtually all species and often contribute a substantial fraction of the genome size. Understanding the functional roles, evolution, and population dynamics of TEs is essential to understanding genome evolution and function. Much of our knowledge about TE population dynamics and evolution comes from the studies of TEs in Drosophila. However, the adaptive importance of TEs in the Drosophila genome has never been assessed. In this work, we describe the first comprehensive genome-wide screen for recent adaptive TE insertions in D. melanogaster. Using several independent criteria, we identified a set of 13 adaptive TEs and estimate that 25–50 TEs have played adaptive roles since the migration of D. melanogaster out of Africa. We show that most of these adaptive TEs are likely to be involved in regulatory changes and appear to be involved in adaptation to the temperate climate. We argue that most identified adaptive TEs are destined to be lost from the D. melanogaster population but that they do contribute significantly to local adaptation in this species.

Transposable elements contributed substantially to the adaptation ofD. melanogaster to the out-of-Africa environments. The majority of these adaptive insertions are likely to be involved in regulatory changes.

Cryptic distant relatives are common in both isolated and cosmopolitan genetic samples

Although a few hundred single nucleotide polymorphisms (SNPs) suffice to infer close familial relationships, high density genome-wide SNP data make possible the inference of more distant relationships such as 2^nd to 9^th cousinships. In order to characterize the relationship between genetic similarity and degree of kinship given a timeframe of 100–300 years, we analyzed the sharing of DNA inferred to be identical by descent (IBD) in a subset of individuals from the 23andMe customer database (n = 22,757) and from the Human Genome Diversity Panel (HGDP-CEPH, n = 952). With data from 121 populations, we show that the average amount of DNA shared IBD in most ethnolinguistically-defined populations, for example Native American groups, Finns and Ashkenazi Jews, differs from continentally-defined populations by several orders of magnitude. Via extensive pedigree-based simulations, we determined bounds for predicted degrees of relationship given the amount of genomic IBD sharing in both endogamous and ‘unrelated’ population samples. Using these bounds as a guide, we detected tens of thousands of 2^nd to 9^th degree cousin pairs within a heterogenous set of 5,000 Europeans. The ubiquity of distant relatives, detected via IBD segments, in both ethnolinguistic populations and in large ‘unrelated’ populations samples has important implications for genetic genealogy, forensics and genotype/phenotype mapping studies.

Microstimulation of the supplementary motor area (SMA) in the awake monkey

The supplementary motor area of three Macaca fascicularis was mapped using intracortical microstimulation (ICMS). Both forelimb and hindlimb movements were evoked using currents of 30 microA or less. However, thresholds for evoking movements were higher than those in the primary motor cortex. Proximal motor effects predominated, but distal joint movements were also elicited. Forelimb points were clustered in mesial cortex of area 6, anterior to the precentral hindlimb and tail region. Distal joint effects were located deep in the cortex, intermingled with proximal effects. Hindlimb response which were less spatially localized, were found both ventral to the forelimb area, in the dorsal bank of the cingulate sulcus, and in mesial cortex, well anterior to area 4. No movements of facial muscles were elicited. Injections of HRP were made into the spinal cord at the cervical level in two animals and the lumbar level in the third one. An area of labelled cells was seen in mesial area 6 which corresponded closely to the region from which ICMS effects were elicited. No movements were evoked from the anterior portions of the fundal region of the cingulate sulcus which were also labelled.

Population screening at the FRAXA and FRAXE loci: molecular analyses of boys with learning difficulties and their mothers

Preliminary results on a large population-based molecular survey of FRAXA and FRAXE are reported. All boys with unexplained learning difficulties are eligible for inclusion in the study and data are presented on the first 1013 tested. Individuals were tested for the number of trinucleotide repeats at FRAXA and FRAXE and typed for four flanking microsatellite markers. Mothers of 760 boys were tested to determine the stability of the FRAXA and FRAXE repeats during transmission and to provide a population of control chromosomes. The frequency of FRAXA full mutations was 0.5%, which gives a population frequency of 1 in 4994, considerably less than previous reports suggest. No FRAXE full mutations were detected, confirming the rarity of this mutation. In the boys' X chromosomes, we detected one FRAXA premutation with 152 repeats and one putative FRAXE premutation of 87 repeats. No full or premutations were seen in the control chromosomes. A significant excess of intermediate alleles at both FRAXA and FRAXE was detected in the boys' X chromosomes by comparison with the maternal control chromosomes. This suggests that relatively large unmethylated repeats of sizes 41-60 for FRAXA and 31-60 for FRAXE may play some role in mental impairment. No instability was found in transmissions of minimal or common alleles in either FRAXA or FRAXE, but we saw two possible instabilities in transmission of FRAXA and two definite instabilities in transmission of FRAXE among 43 meioses involving intermediate or premutation sized alleles. We found no linkage disequilibrium between FRAXA and FRAXE but did find significant linkage disequilibrium between large alleles at FRAXE and allele 3 at the polymorphic locus DXS1691 situated 5 kb distal to FRAXE.

Genomewide spatial correspondence between nonsynonymous divergence and neutral polymorphism reveals extensive adaptation in Drosophila

The effect of recurrent selective sweeps is a spatially heterogeneous reduction in neutral polymorphism throughout the genome. The pattern of reduction depends on the selective advantage and recurrence rate of the sweeps. Because many adaptive substitutions responsible for these sweeps also contribute to nonsynonymous divergence, the spatial distribution of nonsynonymous divergence also reflects the distribution of adaptive substitutions. Thus, the spatial correspondence between neutral polymorphism and nonsynonymous divergence may be especially informative about the process of adaptation. Here we study this correspondence using genomewide polymorphism data from Drosophila simulans and the divergence between D. simulans and D. melanogaster. Focusing on highly recombining portions of the autosomes, at a spatial scale appropriate to the study of selective sweeps, we find that neutral polymorphism is both lower and, as measured by a new statistic Q(S), less homogeneous where nonsynonymous divergence is higher and that the spatial structure of this correlation is best explained by the action of strong recurrent selective sweeps. We introduce a method to infer, from the spatial correspondence between polymorphism and divergence, the rate and selective strength of adaptation. Our results independently confirm a high rate of adaptive substitution (approximately 1/3000 generations) and newly suggest that many adaptations are of surprisingly great selective effect (approximately 1%), reducing the effective population size by approximately 15% even in highly recombining regions of the genome.

Efficient replication of over 180 genetic associations with self-reported medical data

While the cost and speed of generating genomic data have come down dramatically in recent years, the slow pace of collecting medical data for large cohorts continues to hamper genetic research. Here we evaluate a novel online framework for obtaining large amounts of medical information from a recontactable cohort by assessing our ability to replicate genetic associations using these data. Using web-based questionnaires, we gathered self-reported data on 50 medical phenotypes from a generally unselected cohort of over 20,000 genotyped individuals. Of a list of genetic associations curated by NHGRI, we successfully replicated about 75% of the associations that we expected to (based on the number of cases in our cohort and reported odds ratios, and excluding a set of associations with contradictory published evidence). Altogether we replicated over 180 previously reported associations, including many for type 2 diabetes, prostate cancer, cholesterol levels, and multiple sclerosis. We found significant variation across categories of conditions in the percentage of expected associations that we were able to replicate, which may reflect systematic inflation of the effects in some initial reports, or differences across diseases in the likelihood of misdiagnosis or misreport. We also demonstrated that we could improve replication success by taking advantage of our recontactable cohort, offering more in-depth questions to refine self-reported diagnoses. Our data suggest that online collection of self-reported data from a recontactable cohort may be a viable method for both broad and deep phenotyping in large populations.

Bilateral labyrinthectomy in the cat: effects on the postural response to translation

1. This study examined the role of vestibular afferent information on the postural responses of four cats, evoked by movements of the support surface during stance. Animals were exposed to linear translations of the supporting surface in eight evenly spaced directions in the horizontal plane, before and after bilateral labyrinthectomy. Postural responses were quantified in terms of the ground reaction forces under each paw and the evoked activity in selected muscles. 2. The cats were able to stand on the platform within 1-3 days after labyrinthectomy and were able to maintain balance during all perturbations of stance, even when they stood in total darkness, completely deprived of visual information. After lesion, postural responses were characterized by normal latency and normal spatial and temporal patterning of electromyographic (EMG) response. The pattern of force response showed the force constraint strategy that characterizes postural responses in the intact animal. 3. The only deficit in the postural response after lesion was a hypermetria, or active over-response that caused the animals to overbalance somewhat but did not impair their ability to remain upright. Analysis of the trajectory of the animal's center of mass during the trials indicated that the hypermetria was due to an abnormally large, active response on the part of the animal and could not be attributed to changes in the passive stiffness of the musculoskeletal system. The hypermetria was transient, and response amplitude returned to control levels after the rapid compensation phase of 10-15 days. 4. It is concluded that vestibular information is not essential for triggering the rapid, automatic postural response to translations of the support surface, nor is it necessary for the selection or shaping of the evoked response. Instead, somatosensory information appears to predominate in these postural adjustments. However, vestibular afferent input does influence the scaling of the postural response.

Population studies of the fragile X: a molecular approach

The fragile X mutation can now be recognised by a variety of molecular techniques. We report a pilot screening survey of a population of children with mental impairment in which we used Southern blotting methods to detect the fragile X mutation, augmented by cytogenetic studies on children whose phenotype suggested a possible chromosome abnormality. There were 873 children with special educational needs in our survey and 310 fulfilled our criteria for testing. A sample was obtained from 254, of whom four were found to have a full fra(X) mutation (delta L) and none to have a premutation. The number of CGG repeats in our population of X chromosomes was measured by PCR analysis and the genotype at the closely linked polymorphic locus FRAXAC1 established. The distribution of CGG repeat numbers was very similar to that of the control population reported by Fu et al and the distribution of FRAXAC1 alleles almost identical to that of the control population reported by Richards et al. Among the non-fragile X chromosomes, we found a very significant correlation between the size of the CGG repeat and the FRAXAC1 genotype. There was a dearth of A and D genotypes in subjects with a small number of CGG repeats and an excess of the A genotype in those with a large number of CGG repeats. These observations are considered in the light of the reported disequilibrium between the A (and possibly also the D) genotype and the fra(X) mutation.

Weight support and balance during perturbed stance in the chronic spinal cat

The intact cat maintains balance during unexpected disturbances of stance through automatic postural responses that are stereotyped and rapid. The extent to which the chronic spinal cat can maintain balance during stance is unclear, and there have been no quantitative studies that examined this question directly. This study examined whether the isolated lumbosacral cord of the chronic spinal cat can generate automatic postural responses in the hindlimbs during translation of the support surface. Responses to 16 directions of linear translation in the horizontal plane were quantified before and after spinalization at the T(6) level in terms of forces exerted by each paw against the support, motion of the body segments (kinematics), and electromyographic (EMG) activity. After spinalization, the cats were trained on a daily basis to stand on the force platform, and all four cats were able to support their full body weight. The cats usually required assistance for balance or stability in the horizontal plane, which was provided by an experimenter exerting gentle lateral force at the level of the hips. Three of the four animals could maintain independent stance for a brief period (10 s) after the experimenter stabilized them. The fourth cat maintained weight support but always required assistance with balance. Perturbations were delivered during the periods of independent stance in three cats and during assisted stance in the fourth. A response to translation in the spinal cats was observed only in those muscles that were tonically active to maintain stance and never in the flexors. Moreover, latencies were increased and amplitudes of activation were diminished compared with control. Nevertheless, flexors and extensors were recruited easily during behaviors such as paw shake and stepping. It is concluded that centers above the lumbosacral cord are required for the full elaboration of automatic postural responses. Although the spinal cat can achieve good weight support, it cannot maintain balance during stance except for brief periods and within narrow limits. This limited stability is probably achieved through spinal reflex mechanisms and the stiffness characteristics of the tonically active extensors.

Functionally complex muscles of the cat hindlimb. III. Differential activation within biceps femoris during postural perturbations

The biceps femoris (BF) muscle is divided into three neuromuscular compartments defined by the innervation patterns of the main nerve branches (English and Weeks 1987). The goals of this study were i) to determine how different regions of the biceps femoris muscle are activated in the intact cat during a broad range of limb movements evoked by perturbations of stance posture, and ii) to determine the relationship between the anatomical compartments of biceps femoris and the functional units as defined in this task. Cats were trained to stand on a moveable platform with each paw on a triaxial force plate. The animal's stance was perturbed by linear translation of the platform in each of sixteen different directions in the horizontal plane. EMG activity was recorded from eight sites across the width of the left biceps femoris muscle. During quiet stance only the anterior compartment was tonically active, presumably contributing to hip extensor torque in the maintenance of stance. During platform translation, evoked EMG activity was recorded from each electrode pair for a wide range of directions of perturbation; as direction changed progressively, the amplitude of evoked activity from any electrode pair increased to a maximum and then decreased. When the EMG amplitude was plotted in polar coordinates as a function of translation direction, the region of response formed a petal shaped area in the horizontal plane, termed the EMG tuning curve. The compartments of the BF muscle were not activated homogeneously. The tuning curve of the anterior BF compartment was similar to that of other hip extensors, and coincided with the region of postero-lateral force production by the hindlimb against the support. The tuning curve of the middle BF compartment was shifted in a counterclockwise direction from that of the anterior compartment, but overlapped extensively with it; the middle BF tuning curve was similar to that of anterior gracilis. The tuning curve of the posterior biceps compartment was rotated further counterclockwise and overlapped very little with that of the middle BF compartment. The posterior BF was activated in a pattern similar to that of other knee flexors. The functional units of BF activation were not identical with the neuromuscular compartments defined by the main nerve branches. As direction of the perturbation changed, the region of BF that was activated moved progressively across the muscle. This progression of the active region was continuous across BFa and BFm, whereas there was a jump, or discontinuity at the border between BFm and BFp.(ABSTRACT TRUNCATED AT 400 WORDS)

Corticospinal neurones of the supplementary motor area of monkeys. A single unit study

The direct projection from the supplementary motor area (SMA) to the spinal cord was investigated in six monkeys by means of antidromic identification of single SMA neurones. The exploration concentrated on that portion of medial area 6 from which movements were found to be elicited by stimulation at intensities of less than 30 microA in an earlier study, but also included some of medial area 4. Of 315 identified corticofugal projection neurones, 234 were found to be localized within medial area 6; of these only one third (76 cells) were corticospinal cells and the remaining two thirds were neurones which projected to the brainstem. The conduction velocities of the descending projection neurones of the SMA were slow (modal value: 10 m/s). Corticospinal cells of the SMA were found up to 6 mm rostral to the boundary between areas 4 and 6. Corticospinal neurones activated antidromically from the cervical but not from the lumbar cord ('cervico-thoracic' neurones) were concentrated in the mesial cortex; 'lumbo-sacral' neurones were found both in the dorsal cortex and the dorsal bank of the cingulate sulcus. However, there was considerable intermingling between the two types of projection neurones and there was no separation in the rostro-caudal direction. Similarly, projection neurones receiving orthodromic inputs from the somatotopical subdivisions of the precentral cortex were not segregated, but were intermingled in the entire rostro-caudal extent of the SMA. It is concluded that there is a clustering of corticospinal neurones in the SMA according to their most caudal segmental projection. However, no rostro-caudal differentiation into face, arm and leg areas was established. This observation is consistent with the results of a previous study in which corticospinal neurones in the SMA were labelled with anatomical tracers and efferent zones were investigated with intra-cortical microstimulation (Macpherson et al. 1982).

A spatially explicit nanomechanical model of the half-sarcomere: myofilament compliance affects Ca(2+)-activation

The force exerted by skeletal muscle is modulated by compliance of tissues to which it is connected. Force of the muscle sarcomere is modulated by compliance of the myofilaments. We tested the hypothesis that myofilament compliance influences Ca2+ regulation of muscle by constructing a computational model of the muscle half sarcomere that includes compliance of the filaments as a variable. The biomechanical model consists of three half-filaments of myosin and 13 thin filaments. Initial spacing of motor domains of myosin on thick filaments and myosin-binding sites on thin filaments was taken to be that measured experimentally in unstrained filaments. Monte-Carlo simulations were used to determine transitions around a three-state cycle for each cross-bridge and between two-states for each thin filament regulatory unit. This multifilament model exhibited less "tuning" of maximum force than an earlier two-filament model. Significantly, both the apparent Ca(2+)-sensitivity and cooperativity of activation of steady-state isometric force were modulated by myofilament compliance. Activation-dependence of the kinetics of tension development was also modulated by filament compliance. Tuning in the full myofilament lattice appears to be more significant at submaximal levels of thin filament activation.

A recent adaptive transposable element insertion near highly conserved developmental loci in Drosophila melanogaster

A recent genomewide screen identified 13 transposable elements that are likely to have been adaptive during or after the spread of Drosophila melanogaster out of Africa. One of these insertions, Bari-Juvenile hormone epoxy hydrolase (Bari-Jheh), was associated with the selective sweep of its flanking neutral variation and with reduction of expression of one of its neighboring genes: Jheh3. Here, we provide further evidence that Bari-Jheh insertion is adaptive. We delimit the extent of the selective sweep and show that Bari-Jheh is the only mutation linked to the sweep. Bari-Jheh also lowers the expression of its other flanking gene, Jheh2. Subtle consequences of Bari-Jheh insertion on life-history traits are consistent with the effects of reduced expression of the Jheh genes. Finally, we analyze molecular evolution of Jheh genes in both the long- and the short-term and conclude that Bari-Jheh appears to be a very rare adaptive event in the history of these genes. We discuss the implications of these findings for the detection and understanding of adaptation.

Stance dependence of automatic postural adjustments in humans

This study investigated the effect of initial stance configuration on automatic postural responses in humans. Subjects were tested in both bipedal and quadrupedal stance postures. The postural responses to horizontal translations of the supporting surface were measured in terms of the forces at the ground, movement of the body segments, and electromyographic (EMG) activity. Postural responses to the same perturbations changed with initial stance posture; these responses were biomechanically appropriate for restoring centre of mass. A change in stance configuration prior to platform movement led to a change in both the spatial and temporal organization of evoked muscle activation. Specifically, for the same direction of platform movement, during bipedal stance muscles on one side of the lower limb were activated in a distal to proximal sequence; during quadrupedal stance, muscles on the opposite side of the lower limb were activated and in a proximal to distal sequence. The most significant finding was an asymmetry in the use of the upper limbs and the lower limbs during postural corrections in quadrupedal stance. Whereas antagonists of the upper limb were either co-activated or co-inhibited, depending on the direction of translation, lower limb antagonists were reciprocally activated and inhibited. Human subjects in a quadrupedal stance posture used the lower limbs as levers, protracting or retracting the hips in order to propel the trunk back to its original position with respect to the hands and feet. Postural responses of the subjects during quadrupedal stance were remarkably similar to those of cats subjected to similar perturbations of the supporting surface. Furthermore, the same predominance of lower limb correction is characteristic of both species, suggesting that the standing cat is a good model for studying postural control in humans.

Resistance to human immunodeficiency virus type 1 infection conferred by transduction of human peripheral blood lymphocytes with ribozyme, antisense, or polymeric trans-activation response element constructs

Human peripheral blood lymphocytes (PBLs) were transduced with a number of recombinant retroviruses including RRz2, an LNL6-based virus with a ribozyme targeted to the human immunodeficiency virus (HIV) tat gene transcript inserted within the 3' region of the neomycin-resistance gene; RASH5, and LNHL-based virus containing an antisense sequence to the 5' leader region of HIV-1 downstream of the human cytomegalovirus promoter; and R20TAR, an LXSN-based virus with 20 tandem copies of the HIV-1 trans-activation response element sequence driven by the Moloney murine leukemia virus long terminal repeat. After G418 selection, transduced PBLs were challenged with the HIV-1 laboratory strain IIIB and a primary clinical isolate of HIV-1, 82H. Results showed that PBLs from different donors could be transduced and that this conferred resistance to HIV-1 infection. For each of the constructs, a reduction of approximately 70% in p24 antigen level relative to the corresponding control-vector-transduced PBLs was observed. Molecular analyses showed constitutive expression of all the transduced genes from the retroviral long terminal repeat, but no detectable transcript was seen from the internal human cytomegalovirus transcript was seen from the internal human cytomegalovirus promoter for the antisense construct. Transduction of, and consequent transgene expression in, PBLs did not impact on the surface expression of either CD4+/CD8+ (measured by flow cytometry) or on cell doubling time (examined by [3H]thymidine uptake). These results indicate the potential utility of these anti-HIV-1 gene therapeutic agents and show the preclinical value of this PBL assay system.

Similar levels of X-linked and autosomal nucleotide variation in African and non-African populations of Drosophila melanogaster

Background

Levels of molecular diversity in Drosophila have repeatedly been shown to be higher in ancestral, African populations than in derived, non-African populations. This pattern holds for both coding and noncoding regions for a variety of molecular markers including single nucleotide polymorphisms and microsatellites. Comparisons of X-linked and autosomal diversity have yielded results largely dependent on population of origin.

Results

In an attempt to further elucidate patterns of sequence diversity in Drosophila melanogaster, we studied nucleotide variation at putatively nonfunctional X-linked and autosomal loci in sub-Saharan African and North American strains of D. melanogaster. We combine our experimental results with data from previous studies of molecular polymorphism in this species. We confirm that levels of diversity are consistently higher in African versus North American strains. The relative reduction of diversity for X-linked and autosomal loci in the derived, North American strains depends heavily on the studied loci. While the compiled dataset, comprised primarily of regions within or in close proximity to genes, shows a much more severe reduction of diversity on the X chromosome compared to autosomes in derived strains, the dataset consisting of intergenic loci located far from genes shows very similar reductions of diversities for X-linked and autosomal loci in derived strains. In addition, levels of diversity at X-linked and autosomal loci in the presumably ancestral African population are more similar than expected under an assumption of neutrality and equal numbers of breeding males and females.

Conclusion

We show that simple demographic scenarios under assumptions of neutral theory cannot explain all of the observed patterns of molecular diversity. We suggest that the simplest model is a population bottleneck that retains an ancestral female-biased sex ratio, coupled with higher rates of positive selection at X-linked loci in close proximity to genes specifically in derived, non-African populations.

Two functional muscle groupings during postural equilibrium tasks in standing cats

1. This study examined the relation between electromyographic (EMG) activation and the contact force and joint torques of the left hindlimb during postural equilibrium tasks in the standing cat. It is the appropriate application of force by the limbs against the support surface that allows the animal to control its center of mass and maintain equilibrium. 2. Cats were trained to stand quietly on a moveable force platform. During quiet stance, the cat was perturbed by a platform translation in each of 12 directions evenly spaced in the horizontal plane. EMG activity of mono- and biarticular thigh muscles, three-dimensional ground reaction force under the paw (contact force), and kinematics of the hindlimb segments were recorded Net joint torques were computed using inverse dynamics. The analysis focused on the functional organization of the rapid, automatic postural response in relation to the sagittal plane contact force and joint torques. 3. The muscles of the thigh were subdivided into two functional groups, based on the relationship of the evoked response to the various components of the sagittal plane contact force or joint torques. The first group, consisting of the monoarticular and some biarticular muscles, was correlated with the vertical force component, Fz. The second group, consisting of a separate group of biarticular muscles, was correlated with the difference between knee and hip torque. This torque difference is a function of both sagittal plane force components, Fz and Fy, and is related to contact force direction. 4. It is suggested that this subdivision of muscle activations reflects a neural strategy of parallel control of the two muscle groups in relation to their influence on Fz and Fy. Such a control mechanism could be a strategy for simplifying the control of the multisegmented limb in contact force tasks such as maintaining postural equilibrium.

Changes in a postural strategy with inter-paw distance

1. The purpose of this study was to examine the effect of changing initial stance conditions on the postural response of the cat to horizontal plane translations of the support surface. Cats were trained to stand, unrestrained, on a moveable force platform. The platform was translated linearly in each of 16 directions in the horizontal plane, with a ramp-and-hold displacement. The animal's response was quantified in terms of the forces exerted at the ground. The trajectory of the center of mass (CoM) was computed from the forces. 2. Stance length was varied along the longitudinal (sagittal) axis by adjusting the distance between the forepaw and hindpaw force plates. Translation perturbations of the platform were recorded at stance distances varying from 66 to 110% of the preferred stance distance. 3. Changing stance distance had a significant effect on the amplitude and direction of the active forces exerted by the cat both during quiet stance and during the response to platform translation. At long stance distances, each limb exerted a force outward, along the diagonals during quiet stance. The response to translation was characterized by an invariance in the direction of force exerted against the ground, a strategy that was described previously. At short stance distances, quiet stance forces were more laterally directed. The force constraint strategy was usually not observed for the response to translation. Nevertheless, the cats were equally effective at all stance distances in restoring the position of the center of mass after translation of the support surface. 4. There was no discrete boundary between the presence and absence of the force constraint, suggesting that the strategy for exerting forces against the support surface is characterized by a continuum of response, from a bimodal, or anisotropic distribution of force vectors on the one extreme, to a uniform, or isotropic distribution on the other. Arguments are developed to suggest that the force constraint strategy may be useful in stabilizing the vertebral column during the response to platform translation, to allow linear translation of the CoM rather than bending of the trunk.

Ribozyme-mediated suppression of Moloney murine leukemia virus and human immunodeficiency virus type I replication in permissive cell lines

Several hammerhead ribozymes targeted to different sites within the retroviral packaging (psi) sequences of the Moloney murine leukemia virus (Mo-MLV) and the human immunodeficiency virus type 1 (HIV-1) were designed and shown to cleave target RNA in vitro at the chosen sites. The engineered ribozymes, as well as antisense sequence complementary to the Mo-MLV psi packaging region, were cloned into the 3' untranslated region of the neomycin-resistance gene (neo). This was coupled to the simian virus 40 early promoter within the pSV2neo vector. For the ribozymes against the Mo-MLV psi site, the constructs were transfected into Mo-MLV-infected and virus-producing mouse NIH 3T3 cells. With the exception of one of the single ribozymes (the one least effective in cutting target RNA in vitro), all of the constructs effectively (70-80%) suppressed retrovirus production. These results demonstrate a direct correlation between in vitro cleavage and in vivo ribozyme-mediated virus suppression. In addition, a ribozyme targeted to the HIV-1 psi packaging site was engineered into the same vector and transfected into the human T-cell line SupT1. The transfectants were cloned and then challenged with HIV-1. When compared to vector-transfected control cells, a significant reduction in HIV-1 production was observed as measured by p24 and syncytia formation assays. This study demonstrates a feasible approach to the suppression of retrovirus replication by targeting the psi packaging site with hammerhead ribozymes.