Characterization of Nine Novel Mutations in the CD40 Ligand Gene in Patients with X-Linked Hyper IgM Syndrome of Various Ancestry

X-linked immunodeficiency with hyper-IgM (HIGMX-1) is a rare disorder caused by defective expression of the CD40 ligand (CD40L) by activated T lymphocytes, resulting in inefficient T-B cell cooperation and failure of B cells to undergo immunoglobulin isotype switch. In the present work, we describe nine patients of various ancestry who bear different mutations in the X chromosome–specific CD40L gene. Two of the mutations were nonsense mutations, one each resulting in premature stop codons at amino acid residues 39 and 140. Three patients had single point missense mutations, one each at codons 126, 140, and 144. Another patient had a 4-bp genomic deletion in exon 2, resulting in a frameshift and premature termination. Three patients showed insertions, one each of 1, 2, and 4 nt, probably because of polymerase slippage, resulting in frameshift mutation and premature termination. Overall, these observations confirm the heterogeneity of mutations in HIGMX-1. However, the identification of two patients whose mutation involves codon 140 (previously shown to be altered in two other unrelated subjects) suggests that this may be a hotspot of mutation in HIGMX-1. In two additional patients with clinical and immunological features indistinguishable from canonical HIGMX-1, no mutation was detected in the coding sequence, in the 5' flanking region, or in the 3' UTR.     

Can You Catch a Liar? How Negative Emotions Affect Brain Responses when Lying or Telling the Truth

The capacity to deceive others is a complex mental skill that requires the ability to suppress truthful information. The polygraph is widely used in countries such as the USA to detect deception. However, little is known about the effects of emotional processes (such as the fear of being found guilty despite being innocent) on the physiological responses that are used to detect lies. The aim of this study was to investigate the time course and neural correlates of untruthful behavior by analyzing electrocortical indexes in response to visually presented neutral and affective questions. Affective questions included sexual, shameful or disgusting topics. A total of 296 questions that were inherently true or false were presented to 25 subjects while ERPs were recorded from 128 scalp sites. Subjects were asked to lie on half of the questions and to answer truthfully on the remaining half. Behavioral and ERP responses indicated an increased need for executive control functions, namely working memory, inhibition and task switching processes, during deceptive responses. Deceptive responses also elicited a more negative N400 over the prefrontal areas and a smaller late positivity (LP 550–750 ms) over the prefrontal and frontal areas. However, a reduction in LP amplitude was also elicited by truthful affective responses. The failure to observe a difference in LP responses across conditions likely results from emotional interference. A swLORETA inverse solution was computed on the N400 amplitude (300–400 ms) for the dishonest – honest contrast. These results showed the activation of the superior, medial, middle and inferior frontal gyri (BA9, 11, 47) and the anterior cingulate cortex during deceptive responses. Our results conclude that the N400 amplitude is a reliable neural marker of deception.     

Agrobacterium-mediated transient transformation of marigold (Tagetes erecta)

Hypocotyls, roots, leaf sections and shoot tips from Tagetes erecta plantlets were inoculated with Agrobacterium tumefaciens, harboring the binary vector pCAMBIA2301, containing the β-glucuronidase gene. Histochemical GUS assays of infected tissues showed transient gus gene expression after 3 days.     

Agroinfiltration of grapevine leaves for fast transient assays of gene expression and for long-term production of stable transformed cells

Agrobacterium-mediated transient assays for the analysis of gene function are used as alternatives to genetic complementation and stable plant transformation. Although such assays are routinely performed in several plant species, they have not yet been successfully applied to grapevines. We explored genetic background diversity of grapevine cultivars and performed agroinfiltration into in vitro cultured plants. By combining different genotypes and physiological conditions, we developed a protocol for efficient transient transformations of selected grapevine cultivars. Among the four cultivars analyzed, Sugraone and Aleatico exhibited high levels of transient transformation. Transient expression occurred in the majority of cells within the infiltrated tissue several days after agroinfiltration and, in a few cases, it later spread to a larger portion of the leaf. Three laboratory strains of Agrobacterium tumefaciens with different virulence levels were used for agroinfiltration assays on grapevine plants. This method promises to be a powerful tool to perform subcellular localization analyses. Grapevine leaf tissues were transformed with fluorescent markers targeted to cytoplasm (free GFP and mRFP1), endoplasmatic reticulum (GFP::HDEL), chloroplast (GAPA1::YFP) and mitochondria (β::GFP). Confocal microscope analyses demonstrated that these subcellular compartments could be easily visualized in grapevine leaf cells. In addition, from leaves of the Sugraone cultivar agroinfiltrated with endoplasmic reticulum-targeted GFP-construct, stable transformed cells were obtained that show the opportunity to convert a transiently transformed leaf tissue into a stably transformed cell line. Electronic supplementary material The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Rapid Annotation of Anonymous Sequences from Genome Projects Using Semantic Similarities and a Weighting Scheme in Gene Ontology

Background

Large-scale sequencing projects have now become routine lab practice and this has led to the development of a new generation of tools involving function prediction methods, bringing the latter back to the fore. The advent of Gene Ontology, with its structured vocabulary and paradigm, has provided computational biologists with an appropriate means for this task.

Methodology

We present here a novel method called ARGOT (Annotation Retrieval of Gene Ontology Terms) that is able to process quickly thousands of sequences for functional inference. The tool exploits for the first time an integrated approach which combines clustering of GO terms, based on their semantic similarities, with a weighting scheme which assesses retrieved hits sharing a certain number of biological features with the sequence to be annotated. These hits may be obtained by different methods and in this work we have based ARGOT processing on BLAST results.

Conclusions

The extensive benchmark involved 10,000 protein sequences, the complete S. cerevisiae genome and a small subset of proteins for purposes of comparison with other available tools. The algorithm was proven to outperform existing methods and to be suitable for function prediction of single proteins due to its high degree of sensitivity, specificity and coverage.     

May the Best Joint-Actions Win: Physiological Linkage During Competition

Previous work showed that, when we interact with other people, an alignment of psychophysiological measures occur as a clue about the intensity of the social interaction. Available evidence highlighted increase autonomic synchrony, known as physiological linkage, during intense dyadic situations, like conflictual conversations within romantic couples, friends, or therapeutic settings. Starting from the idea that higher physiological linkage could support better performance and be correlated with approach attitudes (Behavioral Activation System, BAS), in the present study a conflictual situation was proposed by making subjects compete during an attentional task and stressing the importance to win as a measure of future professional success. Autonomic activity (electrodermal: skin conductance level and response: SCL, SCR; and cardiovascular indices: heart rate: HR) was recorded during the task, where subjects received trial-related feedbacks on their performance, and an average score halfway which (fictitiously) assessed their position in terms of accuracy and reaction times with respect to the opponent. In parallel, behavioral inhibition and activation have been assessed by means of the Behavioral Inhibition/Activation System Questionnaire (BIS/BAS). 32 subjects coupled in 16 dyads were recruited. Intra-subject analyses revealed that, after the general evaluation assessing a winning condition, the behavioral performance improved and the electrodermal response increased. Also, correlational analyses showed a relation between BAS, and specifically BAS reward, with SCR. Inter-subject analyses showed higher synchrony in SCR and HR after the feedback. Such results confirm the increased synchronic effect after a highly conflictual condition, and the presence of a relation between subjective performance, approach-related motivations, and physiological linkage.