The Diversity of Cortical Interneurons

The cortex is involved in diverse higher cognitive processes including decision making,motor planning, sensory discrimination, and memory consolidation. The cortical interneurons are key elements of the cortical system. These interneurons stabilize networks, but at the same time they also add non-linear effects to the excitatory system to make the cortical network more dynamic. To achieve this, cortical interneurons form a very heterogeneous group, making it hard to classify them without markers. We took a BACtrap approach performing translating ribosome affinity purifications on transgenic mice with Bacterial artificial chromosome, for systematic discovery of markers for different cell types. First, we generated BACtrap lines for known markers of mixed interneuron populations. After IHC (immnohistochemistry) characterization of each line, we picked 4 lines for Dlx1, Nek7, Htr3a and Cort genes for further studies. We collected mRNAs from targeted neurons in each line and performed gene profiling. Based on IHC and gene profiling studies, we found that each of the 4 lines labeled different but overlapping interneuron populations in the cortex. Second, we performed a comparative microarray analysis to find genes that showed differential enrichment in each of the 4 populations and we found ~20 genes as candidate marker genes. To examine their potential role as marker genes, we generated BAC transgenic mice for these candidate genes and also examined their DRP (Density Recovery Profile) on ISH images from the ABA (Allen Brain Atlas). We found that a number of candidate genes showed regular spacing of cell bodies, suggesting that those genes might label a functionally homogenous group. Third, we characterized new Cre lines for candidate marker genes, Rbp4 and Oxtr, to investigate their cell types and functional roles by using Cre/loxP system. Both Rbp4 and Oxtr Cre are heterogeneous in terms of their neurochemical profiles, but DRP analysis on Oxtr Cre neurons suggested their potential to be a functionally homogenous group. Cre dependent AAV injection also revealed a tiling property of Oxtr Cre neurons in the somatosensory cortex. Connectivity of three different Cre lines (Rbp4, Oxtr, Htr3a) was also examined using retrograde monosynaptic rabies virus tracers. Although three lines expressed Cre proteins in different interneuron populations, the presynaptic inputs were almost identical except for a few differences. However, each line had a different preference in inputs and we found line specific inputs from the hippocampus and the dopaminergic nuclei. In short, we carried out systematic marker searches and the generation of transgenic mice. Our findings suggest the existence of better markers for interneuron cell types, and we also showed that a group that is heterogeneous at the cellular level could work as a functionally homologous group. New interneuronal Cre lines showed a few differences in presynaptic inputs and created new opportunities for us to understand the functional differences of distinct cell types

A cost-effective blood DNA methylation-based age estimation method in domestic cats, Tsushima leopard cats (Prionailurus bengalensis euptilurus) and Panthera species, using targeted bisulphite sequencing and machine learning models

Individual age can be used to design more efficient and suitable management plans in both in situ and ex situ conservation programmes for targeted wildlife species. DNA methylation is a promising marker of epigenetic ageing that can accurately estimate age from small amounts of biological material, which can be collected in a minimally invasive manner. In this study, we sequenced five targeted genetic regions and used 8–23 selected CpG sites to build age estimation models using machine learning methods at only about $3–7 per sample. Blood samples of seven Felidae species were used, ranging from small to big, and domestic to endangered species: domestic cats (Felis catus, 139 samples), Tsushima leopard cats (Prionailurus bengalensis euptilurus, 84 samples) and five Panthera species (96 samples). The models achieved satisfactory accuracy, with the mean absolute error of the most accurate models recorded at 1.966, 1.348 and 1.552 years in domestic cats, Tsushima leopard cats and Panthera spp. respectively. We developed the models in domestic cats and Tsushima leopard cats, which were applicable to individuals regardless of health conditions; therefore, these models are applicable to samples collected from individuals with diverse characteristics, which is often the case in conservation. We also showed the possibility of developing universal age estimation models for the five Panthera spp. using only two of the five genetic regions. We do not recommend building a common age estimation model for all the target species using our markers, because of the degraded performance of models that included all species

Long-term monitoring of the short period SU UMa-type dwarf nova, V844 Herculis

We report on time-resolved CCD photometry of four outbursts of a short-period SU UMa-type dwarf nova, V844 Herculis. We successfully determined the mean superhump periods to be 0.05584(64) days, and 0.055883(3) for the 2002 May superoutburst, and the 2006 April-May superoutburst, respectively. During the 2002 October observations, we confirmed that the outburst is a normal outburst, which is the first recorded normal outburst in V844 Her. We also examined superhump period changes during 2002 May and 2006 April-May superoutbursts, both of which showed increasing superhump period over the course of the plateau stage. In order to examine the long-term behavior of V844 Her, we analyzed archival data over the past ten years since the discovery of this binary. Although photometry is not satisfactory in some superoutbursts, we found that V844 Her showed no precursors and rebrightenings. Based on the long-term light curve, we further confirmed V844 Her has shown almost no normal outbursts despite the fact that the supercycle of the system is estimated to be about 300 days. In order to explain the long-term light curves of V844 Her, evaporation in the accretion disk may play a role in the avoidance of several normal outbursts, which does not contradict with the relatively large X-ray luminosity of V844 Her.Comment: 10 pages, 11 figures, accepted for PAS

Functional tooth restoration by next-generation bio-hybrid implant as a bio-hybrid artificial organ replacement therapy

Bio-hybrid artificial organs are an attractive concept to restore organ function through precise biological cooperation with surrounding tissues in vivo. However, in bio-hybrid artificial organs, an artificial organ with fibrous connective tissues, including muscles, tendons and ligaments, has not been developed. Here, we have enveloped with embryonic dental follicle tissue around a HA-coated dental implant, and transplanted into the lower first molar region of a murine tooth-loss model. We successfully developed a novel fibrous connected tooth implant using a HA-coated dental implant and dental follicle stem cells as a bio-hybrid organ. This bio-hybrid implant restored physiological functions, including bone remodelling, regeneration of severe bone-defect and responsiveness to noxious stimuli, through regeneration with periodontal tissues, such as periodontal ligament and cementum. Thus, this study represents the potential for a next-generation bio-hybrid implant for tooth loss as a future bio-hybrid artificial organ replacement therapy

EMPRESS. XIII. Chemical Enrichments of Young Galaxies Near and Far at z ~ 0 and 4-10: Fe/O, Ar/O, S/O, and N/O Measurements with Chemical Evolution Model Comparisons

We present gas-phase elemental abundance ratios of 7 local extremely metal-poor galaxies (EMPGs) including our new Keck/LRIS spectroscopy determinations together with 33 JWST $z\sim 4-10$ star-forming galaxies in the literature, and compare chemical evolution models. We develop chemical evolution models with the yields of core-collapse supernovae (CCSNe), Type Ia supernovae, hypernovae (HNe), and pair-instability supernovae (PISNe), and compare the EMPGs and high-$z$ galaxies in conjunction with dust depletion contributions. We find that high Fe/O values of EMPGs can (cannot) be explained by PISN metal enrichments (CCSN/HN enrichments even with the mixing-and-fallback mechanism enhancing iron abundance), while that the observed Ar/O and S/O values are much smaller than the predictions of the PISN models. The abundance ratios of the EMPGs can be explained by the combination of Type Ia SNe and CCSNe/HNe whose inner layers of argon and sulfur mostly fallback, which are comparable with Sculptor stellar chemical abundance distribution, suggesting that early chemical enrichment is taken place in the EMPGs. Comparing our chemical evolution models with the star-forming galaxies at $z\sim 4-10$, we find that the Ar/O and S/O ratios of the high-$z$ galaxies are comparable with those of the CCSNe/HNe models, while majority of the high-$z$ galaxies do not have constraints good enough to rule out contributions from PISNe. The high N/O ratio recently reported in GN-z11 cannot be explained even by rotating PISNe, but could be reproduced by the winds of rotating Wolf Rayet stars that end up as a direct collapse

CIPRO 2.5: Ciona intestinalis protein database, a unique integrated repository of large-scale omics data, bioinformatic analyses and curated annotation, with user rating and reviewing functionality

The Ciona intestinalis protein database (CIPRO) is an integrated protein database for the tunicate species C. intestinalis. The database is unique in two respects: first, because of its phylogenetic position, Ciona is suitable model for understanding vertebrate evolution; and second, the database includes original large-scale transcriptomic and proteomic data. Ciona intestinalis has also been a favorite of developmental biologists. Therefore, large amounts of data exist on its development and morphology, along with a recent genome sequence and gene expression data. The CIPRO database is aimed at collecting those published data as well as providing unique information from unpublished experimental data, such as 3D expression profiling, 2D-PAGE and mass spectrometry-based large-scale analyses at various developmental stages, curated annotation data and various bioinformatic data, to facilitate research in diverse areas, including developmental, comparative and evolutionary biology. For medical and evolutionary research, homologs in humans and major model organisms are intentionally included. The current database is based on a recently developed KH model containing 36 034 unique sequences, but for higher usability it covers 89 683 all known and predicted proteins from all gene models for this species. Of these sequences, more than 10 000 proteins have been manually annotated. Furthermore, to establish a community-supported protein database, these annotations are open to evaluation by users through the CIPRO website. CIPRO 2.5 is freely accessible at http://cipro.ibio.jp/2.5

CIPRO 2.5: Ciona intestinalis Protein integrated database with large-scale omics data, bioinformatic analyses and curated annotation, with ability for user rating and comments

CIPRO database is an integrated protein database for a tunicate species Ciona intestinalis that belongs to the Urochordata. Although the CIPRO database deals with proteomic and transcriptomic data of a single species, the animal is considered unique in the evolutionary tree, representing a possible origin of the vertebrates and is a good model for understanding chordate evolution, including that of humans. Furthermore, C. intestinalis has been one of the favorites of developmental biologists; there exists a huge amount of accumulated knowledge on its development and morphology, in addition to the recent genome sequence and gene expression data. The CIPRO database is aimed at not only collecting published data, but also presenting unique information, including the unpublished transcriptomic and proteomic data and human curated annotation, for the use by researchers in broad research fields of biology and bioinformatics