A New Advanced Backcross Tomato Population Enables High Resolution Leaf QTL Mapping and Gene Identification.

Quantitative Trait Loci (QTL) mapping is a powerful technique for dissecting the genetic basis of traits and species differences. Established tomato mapping populations between domesticated tomato (Solanum lycopersicum) and its more distant interfertile relatives typically follow a near isogenic line (NIL) design, such as the S. pennellii Introgression Line (IL) population, with a single wild introgression per line in an otherwise domesticated genetic background. Here, we report on a new advanced backcross QTL mapping resource for tomato, derived from a cross between the M82 tomato cultivar and S. pennellii This so-called Backcrossed Inbred Line (BIL) population is comprised of a mix of BC2 and BC3 lines, with domesticated tomato as the recurrent parent. The BIL population is complementary to the existing S. pennellii IL population, with which it shares parents. Using the BILs, we mapped traits for leaf complexity, leaflet shape, and flowering time. We demonstrate the utility of the BILs for fine-mapping QTL, particularly QTL initially mapped in the ILs, by fine-mapping several QTL to single or few candidate genes. Moreover, we confirm the value of a backcrossed population with multiple introgressions per line, such as the BILs, for epistatic QTL mapping. Our work was further enabled by the development of our own statistical inference and visualization tools, namely a heterogeneous hidden Markov model for genotyping the lines, and by using state-of-the-art sparse regression techniques for QTL mapping

Self-Esteem as a Mediator of the Relationship Between Mindfulness and Satisfaction with Life

Mindful awareness involves intentionally attending to the present moment without judgment. In the past 30 years, it has been demonstrated that teaching people to be mindful yields positive effects and reduces the symptoms of a variety of physical and psychological disorders (Brown, Ryan, & Creswell, 2007; Kabat-Zinn, 1982). While mindfulness is an ancient practice, it has only been empirically researched for the past 30 years. In this time, much has been learned about the beneficial effects of mindfulness. However, many questions remain regarding the mechanism by which mindfulness brings about its beneficial effects and how the trait of mindfulness relates to other psychological traits. Self-report measures such as the Mindful-Attention Awareness Scale (MAAS; Brown & Ryan, 2003) have made it possible to measure trait mindfulness and to compare it to other psychological traits. One trait of particular interest is self-esteem. Brown and Ryan (2003) demonstrated that trait mindfulness is positively correlated with self-esteem and have hypothesized that mindfulness leads to secure, non-contingent self-esteem. Another study has demonstrated that teaching mindfulness to counseling students leads to an increase in both trait mindfulness and satisfaction with life (Collard, Avny, & Boniwell, 2008). In this dissertation, statistical techniques were used to gain a better understanding of the relationship between trait mindfulness, self-esteem, and satisfaction with life. It was hypothesized that self-esteem would mediate the relationship between mindfulness and satisfaction with life. In this dissertation a structural equation model (James, Muliak, & Brett, 2006) was used to test the hypothesis that self-esteem mediates the relationship between mindfulness and satisfaction with life among a sample of 365 college students. The results of the analysis supported the mediation hypothesis. Further, this research supports the theory that some of the beneficial effects of mindfulness may be related to the relationship between mindfulness and self-esteem. Implications of the results of this dissertation and recommendations for further research are discussed

The Impact of Meditation on the Therapist and Therapy

While meditation techniques have been used in therapy for at least the past 30 years (Kabat-Zinn, 1982), few studies have looked at the impact of the therapist having a personal meditation practice on therapist qualities and the effectiveness of therapy. The studies that have been conducted on this topic have looked at the effects of teaching therapists in training to meditate (Grepmair, Mitterlehner, Loew, Bachler, Rother, & Nickel, 2007; Newsome, Christopher, Dahlen, & Christopher, 2006). The results of these studies support the hypothesis that having a personal meditation practice as a therapist may improve the effectiveness of the therapy provided. The present qualitative study involved interviewing six therapists about how they think that meditation has influenced them and their therapy. The study provides an exploration and development of the variables that may be influenced by therapist meditation. Participants reported that meditation has made them more effective therapists and allows them to build stronger alliances with their clients by increasing positive therapist characteristics including empathy, unconditional positive regard, and non-judgment. Because of their experience with meditation’s beneficial impact on therapy, the participants suggested that meditation be taught to therapists in training and stated that they would not be the therapists that they are today without meditation. Finally, the participants reported that meditation allows them to handle the stresses related to being a therapist

Focal Contacts as Mechanosensors: Externally Applied Local Mechanical Force Induces Growth of Focal Contacts by an Mdia1-Dependent and Rock-Independent Mechanism

The transition of cell–matrix adhesions from the initial punctate focal complexes into the mature elongated form, known as focal contacts, requires GTPase Rho activity. In particular, activation of myosin II–driven contractility by a Rho target known as Rho-associated kinase (ROCK) was shown to be essential for focal contact formation. To dissect the mechanism of Rho-dependent induction of focal contacts and to elucidate the role of cell contractility, we applied mechanical force to vinculin-containing dot-like adhesions at the cell edge using a micropipette. Local centripetal pulling led to local assembly and elongation of these structures and to their development into streak-like focal contacts, as revealed by the dynamics of green fluorescent protein–tagged vinculin or paxillin and interference reflection microscopy. Inhibition of Rho activity by C3 transferase suppressed this force-induced focal contact formation. However, constitutively active mutants of another Rho target, the formin homology protein mDia1 (Watanabe, N., T. Kato, A. Fujita, T. Ishizaki, and S. Narumiya. 1999. Nat. Cell Biol. 1:136–143), were sufficient to restore force-induced focal contact formation in C3 transferase-treated cells. Force-induced formation of the focal contacts still occurred in cells subjected to myosin II and ROCK inhibition. Thus, as long as mDia1 is active, external tension force bypasses the requirement for ROCK-mediated myosin II contractility in the induction of focal contacts. Our experiments show that integrin-containing focal complexes behave as individual mechanosensors exhibiting directional assembly in response to local force

Geometry of River Networks II: Distributions of Component Size and Number

The structure of a river network may be seen as a discrete set of nested sub-networks built out of individual stream segments. These network components are assigned an integral stream order via a hierarchical and discrete ordering method. Exponential relationships, known as Horton's laws, between stream order and ensemble-averaged quantities pertaining to network components are observed. We extend these observations to incorporate fluctuations and all higher moments by developing functional relationships between distributions. The relationships determined are drawn from a combination of theoretical analysis, analysis of real river networks including the Mississippi, Amazon and Nile, and numerical simulations on a model of directed, random networks. Underlying distributions of stream segment lengths are identified as exponential. Combinations of these distributions form single-humped distributions with exponential tails, the sums of which are in turn shown to give power law distributions of stream lengths. Distributions of basin area and stream segment frequency are also addressed. The calculations identify a single length-scale as a measure of size fluctuations in network components. This article is the second in a series of three addressing the geometry of river networks.Comment: 16 pages, 13 figures, 4 tables, Revtex4, submitted to PR

Geometry of River Networks I: Scaling, Fluctuations, and Deviations

This article is the first in a series of three papers investigating the detailed geometry of river networks. Large-scale river networks mark an important class of two-dimensional branching networks, being not only of intrinsic interest but also a pervasive natural phenomenon. In the description of river network structure, scaling laws are uniformly observed. Reported values of scaling exponents vary suggesting that no unique set of scaling exponents exists. To improve this current understanding of scaling in river networks and to provide a fuller description of branching network structure, we report here a theoretical and empirical study of fluctuations about and deviations from scaling. We examine data for continent-scale river networks such as the Mississippi and the Amazon and draw inspiration from a simple model of directed, random networks. We center our investigations on the scaling of the length of sub-basin's dominant stream with its area, a characterization of basin shape known as Hack's law. We generalize this relationship to a joint probability density and show that fluctuations about scaling are substantial. We find strong deviations from scaling at small scales which can be explained by the existence of linear network structure. At intermediate scales, we find slow drifts in exponent values indicating that scaling is only approximately obeyed and that universality remains indeterminate. At large scales, we observe a breakdown in scaling due to decreasing sample space and correlations with overall basin shape. The extent of approximate scaling is significantly restricted by these deviations and will not be improved by increases in network resolution.Comment: 16 pages, 13 figures, Revtex4, submitted to PR

Osteoblast mineralization requires β1 integrin/ICAP-1–dependent fibronectin deposition

ICAP-1 prevents recruitment of kindlin-2 to β1 integrin to control dynamics of fibrillar adhesion sites, fibronectin deposition, and osteoblast mineralization during bone formation

Intermodal attention affects the processing of the temporal alignment of audiovisual stimuli

The temporal asynchrony between inputs to different sensory modalities has been shown to be a critical factor influencing the interaction between such inputs. We used scalp-recorded event-related potentials (ERPs) to investigate the effects of attention on the processing of audiovisual multisensory stimuli as the temporal asynchrony between the auditory and visual inputs varied across the audiovisual integration window (i.e., up to 125 ms). Randomized streams of unisensory auditory stimuli, unisensory visual stimuli, and audiovisual stimuli (consisting of the temporally proximal presentation of the visual and auditory stimulus components) were presented centrally while participants attended to either the auditory or the visual modality to detect occasional target stimuli in that modality. ERPs elicited by each of the contributing sensory modalities were extracted by signal processing techniques from the combined ERP waveforms elicited by the multisensory stimuli. This was done for each of the five different 50-ms subranges of stimulus onset asynchrony (SOA: e.g., V precedes A by 125–75 ms, by 75–25 ms, etc.). The extracted ERPs for the visual inputs of the multisensory stimuli were compared among each other and with the ERPs to the unisensory visual control stimuli, separately when attention was directed to the visual or to the auditory modality. The results showed that the attention effects on the right-hemisphere visual P1 was largest when auditory and visual stimuli were temporally aligned. In contrast, the N1 attention effect was smallest at this latency, suggesting that attention may play a role in the processing of the relative temporal alignment of the constituent parts of multisensory stimuli. At longer latencies an occipital selection negativity for the attended versus unattended visual stimuli was also observed, but this effect did not vary as a function of SOA, suggesting that by that latency a stable representation of the auditory and visual stimulus components has been established