Discourse module in mind: a biolinguistical hypothesis of macro-structure

Theoretical linguistics embraces the analytic micro-system of representation as the core of language ability, and thus deals primarily with the computations of phonology, morphology, and syntax for structural processes. Looking into recent progress in human biology, however, there have been continuous indications that the internalized language is organized for creating structural sequences larger than phrases and sentences. Research on the right cerebrum of the brain, for example, shows its neurological tasks for composing a coherent story while the studies of individuals with deficits in underpinning genotypes reveal disruptions in constructing narratives. Moreover, investigations of human evolution are compelled to acknowledge a mysterious gap in psychological capacities of Homo sapiens and their later descendant, Homo sapiens sapiens, implicating a distinct stage of the language origin beyond syntax. What all these pieces of neurobiological evidence suggest is that humans have been bestowed an inherent linguistic capability for computing the synthetic macro-system of representation.

Distinct stage-specific transcriptional states of B cells in human tonsillar tissue.

B cells within secondary lymphoid tissues encompass a diverse range of activation states and multiple maturation processes that reflect antigen recognition and transition through the germinal center (GC) reaction, in which mature B cells differentiate into memory and antibody-secreting cells (ASCs). Here, using single-cell RNA-seq, we identify distinct activation and maturation profiles of B cells within and outside the GC reaction in human secondary lymphoid tissue. In particular, we identify a distinct, previously uncharacterized CCL4/CCL3 chemokine-expressing B-cell population with an expression pattern consistent with BCR/CD40 activation. Furthermore, we present a computational method leveraging regulatory network inference and pseudotemporal modeling to identify upstream transcription factor modulation along the GC to ASC maturation axis. Our dataset provides valuable insight into the diverse functional profiles and maturation processes that B cells undergo within secondary lymphoid tissues and will be a useful resource on which to base further studies into the B-cell immune compartment.

Statistical analysis and modeling to examine the exterior and interior building damage pertaining to the 2016 Kumamoto earthquake

After an earthquake occurs, field surveys are conducted by relevant authorities to assess the damage suffered by buildings. The field survey is essential as it ensures the safety of residents and provides the necessary information to local authorities for post-disaster recovery. In Japan, a primary (mandatory) exterior survey is conducted first, and a secondary (voluntary) interior survey is performed subsequently if the residents request a reinvestigation. However, a major challenge associated with field surveys is the substantial time cost of determining the damage grades. Moreover, an interior survey is performed only after receiving the reinvestigation request from occupants, which further delays the decision-making process. In addition, the risk of incorrect damage estimation during the exterior survey must be considered because underestimating the damage can endanger the residents. Therefore, in this study, a three-part analysis (Parts I–III), where each part corresponds to a distinct stage of the standard damage assessment procedure, was performed to characterize the relationship between the building parameters and damage grades at different stages. To further explore the possibility of accelerating decision-making, predictive modeling was performed in each part. The Part I results indicate that estimating the final damage grade for all buildings immediately after the exterior survey is similar to treating the exterior survey results as the final ones. The Part II results show that buildings that potentially require an interior survey can be predicted with reasonable accuracy after the exterior survey. In buildings for which reinvestigations have been requested, Part III demonstrates that the risk of underestimation in the exterior survey can be predicted reliably.

Biochemical and subcellular characterization of a squid hnRNPA/B-like protein in osmotic stress activated cells reflects molecular properties conserved in this protein family

In previous works, we characterized a novel, strongly basic, squid hnRNPA/B-like Protein 2 in presynaptic terminals of squid neurons. Here, we show that squid hnRNPA/B-like Protein 2 are exclusively nuclear localization and relocated to cytoplasmic granules containing hnRNPA1 and Poly-A binding protein-1 (PABP-1) when the cells are treated with sorbitol. Also, we show an interaction of hnRNPA/B like Protein 2 with squid RNA, its interfered with dynamic of formation of hnRNPA/B like Protein 2 dimers, whereas possibly involved disulfide bounds and postranslations modification in a distinct stage of dimers formation. An understanding of the molecular and biochemical mechanisms involved in the stability of the dimeric form, and the regulation of the transition between monomeric and dimeric forms may bring insights into evolution of several neurodegenerative diseases.

Species-specific deployment of Runx2 isoforms and differential regulation of target genes during avian jaw development and evolution

Developmental regulation of bone formation in the jaw skeleton is essential to species-specific adaptation. The jaws are derived from neural crest mesenchyme (NCM), a progenitor population that directs skeletal patterning by exerting temporal and spatial control over molecular and cellular programs for osteogenesis. One important NCM-mediated gene is Runx2, which is a transcription factor required for osteoblast differentiation. RUNX2 protein binds many target genes involved in the deposition and resorption of bone. To determine the extent to which changes in Runx2 structure, function, and expression underlie the evolution of the jaw skeleton, we compare Runx2 across vertebrates and within birds. Runx2 contains two alternative promoters, tandem repeats of glutamine and alanine with variable lengths in different species, a conserved DNA-binding domain, an exon that is alternatively spliced, as well as two possible C-termini. Such alternative splicing produces eight potential isoforms that show distinct stage- and species-specific patterns in the jaw primordia of chick, quail and duck embryos. We also find that certain isoforms are strongly induced by TGFβ signaling whereas others are not. Overexpressing Runx2 isoforms in NCM reveals that some are transcriptionally activating, while others are repressive. But context appears to be relevant since species-specific polymorphisms in the promoter of target genes like Mmp13, can modulate the effects of different isoforms. Overall, our study indicates that the structure and species-specific deployment of Runx2 isoforms affect the transcriptional activity of target genes in ways that may have played a generative and regulatory role in the evolution of the avian jaw skeleton.

Epigenetic Dynamics in the Function of T-Lineage Regulatory Factor Bcl11b

The transcription factor Bcl11b is critically required to support the development of diverse cell types, including T lymphocytes, type 2 innate lymphoid cells, neurons, craniofacial mesenchyme and keratinocytes. Although in T cell development its onset of expression is tightly linked to T-lymphoid lineage commitment, the Bcl11b protein in fact regulates substantially different sets of genes in different lymphocyte populations, playing strongly context-dependent roles. Somewhat unusually for lineage-defining transcription factors with site-specific DNA binding activity, much of the reported chromatin binding of Bcl11b appears to be indirect, or guided in large part by interactions with other transcription factors. We describe evidence suggesting that a further way in which Bcl11b exerts such distinct stage-dependent functions is by nucleating changes in regional suites of epigenetic modifications through recruitment of multiple families of chromatin-modifying enzyme complexes. Herein we explore what is - and what remains to be - understood of the roles of Bcl11b, its cofactors, and how it modifies the epigenetic state of the cell to enforce its diverse set of context-specific transcriptional and developmental programs.

Attention differentially affects acoustic and phonetic feature encoding in a multispeaker environment

Humans have the remarkable ability to selectively focus on a single talker in the midst of other competing talkers. The neural mechanisms that underlie this phenomenon remain incompletely understood. In particular, there has been longstanding debate over whether attention operates at an early or late stage in the speech processing hierarchy. One way to better understand this is to examine how attention might differentially affect neurophysiological indices of hierarchical acoustic and linguistic speech representations. In this study, we do this by using encoding models to identify neural correlates of speech processing at various levels of representation. Specifically, using EEG recorded during a “cocktail party” attention experiment, we show that phonetic feature processing is evident for attended, but not unattended speech. Furthermore, we show that attention specifically enhances isolated indices of phonetic feature processing, but that such attention effects are not apparent for isolated measures of acoustic processing. These results provide new insights into the effects of attention on different pre-lexical representations of speech, insights that complement recent anatomical accounts of the hierarchical encoding of attended speech. Furthermore, our findings support the notion that – for attended speech – phonetic features are processed as a distinct stage, separate from the processing of the speech acoustics.

American Dharma

The past couple of decades have witnessed Buddhist communities both continuing the modernization of Buddhism and questioning some of its limitations. This fascinating portrait of a rapidly changing religious landscape illuminates the aspirations and struggles of younger North American Buddhists during a period that the book identifies as a distinct stage in the assimilation of Buddhism to the West. The author observes both the emergence of new innovative forms of deinstitutionalized Buddhism that blur the boundaries between the religious and secular, and a revalorization of traditional elements of Buddhism such as ethics and community that were discarded in the modernization process. Based on extensive ethnographic and textual research, the book ranges from mindfulness debates in the Vipassana network to the sex scandals in American Zen, while exploring issues around racial diversity and social justice, the impact of new technologies, and generational differences between baby boomer, Gen X, and millennial teachers.