bluuebunny/crossref_metadata_2025_split huggingface dataset:
Vibroscape analysis reveals acoustic niche overlap and plastic alteration of vibratory courtship signals in ground-dwelling wolf spiders
Authors: Choi Noori , Miller Pat , Hebets Eileen A. 
Published: January 2024

AbstractTo expand the scope of soundscape ecology to encompass substrate-borne vibrations (i.e. vibroscapes), we analyzed the vibroscape of a deciduous forest floor using contact microphone arrays followed by automated processing of large audio datasets. We then focused on vibratory signaling of ground-dwelling Schizocosa wolf spiders to test for (i) acoustic niche partitioning and (ii) plastic behavioral responses that might reduce the risk of signal interference from substrate-borne noise and conspecific/heterospecific signaling. Two closely related species - S. stridulans and S. uetzi - showed high acoustic niche overlap across space, time, and dominant frequency. Both species show plastic behavioral responses - S. uetzi males shorten their courtship in higher abundance of substrate-borne noise, S. stridulans males increased the duration of their vibratory courtship signals in a higher abundance of conspecific signals, and S. stridulans males decreased vibratory signal complexity in a higher abundance of S. uetzi signals.
Attachment performance of the ectoparasitic seal louse Echinophthirius horridus
Authors: Preuss Anika , Büscher Thies H. , Herzog Insa , Wohlsein Peter , Lehnert Kristina , Gorb Stanislav N. 
Published: January 2024

AbstractMarine mammals host a great variety of parasites, which usually co-evolved in evolutionary arms races. However, little is known about the biology of marine mammal insect parasites, and even less about physical aspects of their life in such a challenging environment. One of 13 insect species that manage to endure long diving periods in the open sea is the seal louse, Echinophthirius horridus, parasitising true seals. Its survival depends on its specialised adaptations for enduring extreme conditions such as hypoxia, temperature changes, hydrostatic pressure, and strong drag forces during host dives. To maintain a grip on the seal fur, the louse’s leg morphology is equipped with modified snap hook claws and soft pad-like structures that enhance friction. Through techniques including CLSM, SEM, and histological staining, we have examined the attachment system’s detailed structure. Remarkably, the seal louse achieves exceptional attachment forces on seal fur, with safety factors (force per body weight) reaching 4500 in average measurements and up to 18000 in peak values, indicating superior attachment performance compared to other insect attachment systems. These findings underscore the louse’s remarkable adaptations for life in a challenging marine environment, shedding light on the relationship between structure and function in extreme ecological niches.
Multi-ancestry genome-wide meta-analysis identifies novel basal cell carcinoma loci and shared genetic effects with squamous cell carcinoma
Authors: Choquet Hélène , Jiang Chen , Yin Jie , Kim Yuhree , Hoffmann Thomas J. ,   23andMe Research Team, Aslibekyan Stella , Auton Adam , Babalola Elizabeth , Bell Robert K. , Bielenberg Jessica , Bryc Katarzyna , Bullis Emily , Coker Daniella , Partida Gabriel Cuellar , Dhamija Devika , Das Sayantan , Elson Sarah L. , Filshtein Teresa , Fletez-Brant Kipper , Fontanillas Pierre , Freyman Will , Gandhi Pooja M. , Heilbron Karl , Hicks Barry , Hinds David A. , Jewett Ethan M. , Jiang Yunxuan , Kukar Katelyn , Lin Keng-Han , Lowe Maya , McCreight Jey , McIntyre Matthew H. , Micheletti Steven J. , Moreno Meghan E. , Mountain Joanna L. , Nandakumar Priyanka , Noblin Elizabeth S. , O’Connell Jared , Petrakovitz Aaron A. , Poznik G. David , Schumacher Morgan , Shastri Anjali J. , Shelton Janie F. , Shi Jingchunzi , Shringarpure Suyash , Tran Vinh , Tung Joyce Y. , Wang Xin , Wang Wei , Weldon Catherine H. , Wilton Peter , Hernandez Alejandro , Wong Corinna , Tchakouté Christophe Toukam , Jorgenson Eric , Asgari Maryam M. 
Published: January 2024

AbstractBasal cell carcinoma (BCC) is one of the most common malignancies worldwide, yet its genetic determinants are incompletely defined. We perform a European ancestry genome-wide association (GWA) meta-analysis and a Hispanic/Latino ancestry GWA meta-analysis and meta-analyze both in a multi-ancestry GWAS meta-analysis of BCC, totaling 50,531 BCC cases and 762,234 controls from four cohorts (GERA, Mass-General Brigham Biobank, UK Biobank, and 23andMe research cohort). Here we identify 122 BCC-associated loci, of which 36 were novel, and subsequently fine-mapped these associations. We also identify an association of the well-known pigment geneSLC45A2as well as associations atRCC2andCLPTM1Lwith BCC in Hispanic/Latinos. We examine these BCC loci for association with cutaneous squamous cell carcinoma (cSCC) in 16,407 SCC cases and 762,486 controls of European ancestry, and 33 SNPs show evidence of association. Our study findings provide important insights into the genetic basis of BCC and cSCC susceptibility.
A chromosome-level genome assembly for Onobrychis viciifolia reveals gene copy number gain underlying enhanced proanthocyanidin biosynthesis
Authors: He Junyi , Tian Danyang , Li Xue , Wang Xuemeng , Wang Tingting , Wang Ziyao , Zang Hui , He Xiaofan , Zhang Tiejun , Yun Quanzheng , Zhang Rengang , Jiang Jishan , Jia Shangang , Zhang Yunwei 
Published: January 2024

AbstractSainfoin (Onobrychis viciifolia), which belongs to subfamily Papilionoideae of Leguminosae, is a vital perennial forage known as “holy hay” due to its high contents of crude proteins and proanthocyanidins (PAs, also called condensed tannins) that have various pharmacological properties in animal feed, such as alleviating rumen tympanic disease in ruminants. In this study, we select an autotetraploid common sainfoin (2n = 4x = 28) and report its high-quality chromosome-level genome assembly with 28 pseudochromosomes and four haplotypes (~1950.14 Mb, contig N50 = 10.91 Mb). The copy numbers of genes involved in PA biosynthesis in sainfoin are significantly greater than those in four selected Fabales species, namely, autotetraploid Medicago sativa and three other diploid species, Lotus japonicus, Medicago truncatula, and Glycine max. Furthermore, gene expansion is confirmed to be the key contributor to the increased expression of these genes and subsequent PA enhancement in sainfoin. Transcriptomic analyses reveal that the expression of genes involved in the PA biosynthesis pathway is significantly increased in the lines with high PA content compared to the lines with medium and low PA content. The sainfoin genome assembly will improve our understanding of leguminous genome evolution and biosynthesis of secondary metabolites in sainfoin.
SNAP-25, but not SNAP-23, is essential for photoreceptor development, survival, and function in mice
Authors: Huang Mengjia , Chow Chun Hin , Gurdita Akshay , Harada Hidekiyo , Pham Truong Victor Q. B. , Eide Sarah , Sun Hong-Shuo , Feng Zhong-Ping , Monnier Philippe P. , Wallace Valerie A. , Sugita Shuzo 
Published: January 2024

AbstractSNARE-mediated vesicular transport is thought to play roles in photoreceptor glutamate exocytosis and photopigment delivery. However, the functions of Synaptosomal-associated protein (SNAP) isoforms in photoreceptors are unknown. Here, we revisit the expression of SNAP-23 and SNAP-25 and generate photoreceptor-specific knockout mice to investigate their roles. Although we find that SNAP-23 shows weak mRNA expression in photoreceptors, SNAP-23 removal does not affect retinal morphology or vision. SNAP-25 mRNA is developmentally regulated and undergoes mRNA trafficking to photoreceptor inner segments at postnatal day 9 (P9). SNAP-25 knockout photoreceptors develop normally until P9 but degenerate by P14 resulting in severe retinal thinning. Photoreceptor loss in SNAP-25 knockout mice is associated with abolished electroretinograms and vision loss. We find mistrafficked photopigments, enlarged synaptic vesicles, and abnormal synaptic ribbons which potentially underlie photoreceptor degeneration. Our results conclude that SNAP-25, but not SNAP-23, mediates photopigment delivery and synaptic functioning required for photoreceptor development, survival, and function.
Site-selective chlorination of pyrrolic heterocycles by flavin dependent enzyme PrnC
Authors: Peh GuangRong , Tay Terence , Tan Lee Ling , Tiong Elaine , Bi Jiawu , Goh Yi Ling , Ye Suming , Lin Fu , Tan Cheryl Jia Xin , Tan Yong Zi , Wong Joel , Zhao Huimin , Wong Fong Tian , Ang Ee Lui , Lim Yee Hwee 
Published: January 2024

AbstractHalogenation of pyrrole requires strong electrophilic reagents and often leads to undesired polyhalogenated products. Biocatalytic halogenation is a highly attractive approach given its chemoselectivity and benign reaction conditions. While there are several reports of enzymatic phenol and indole halogenation in organic synthesis, corresponding reports on enzymatic pyrrole halogenation have been lacking. Here we describe the in vitro functional and structural characterization of PrnC, a flavin-dependent halogenase that can act on free-standing pyrroles. Computational modeling and site mutagenesis studies identified three key residues in the catalytic pocket. A moderate resolution map using single-particle cryogenic electron microscopy reveals PrnC to be a dimer. This native PrnC can halogenate a library of structurally diverse pyrrolic heterocycles in a site-selective manner and be applied in the chemoenzymatic synthesis of a chlorinated analog of the agrochemical fungicide Fludioxonil.
Two-fold symmetric superconductivity in the Kagome superconductor RbV3Sb5
Authors: Wang Shuo , Fang Jing-Zhi , Wu Ze-Nan , Lu Sirong , Wei Zhongming , Wang Zhiwei , Huang Wen , Yao Yugui , Yang Jia-Jie , Chen Tingyong , Lin Ben-Chuan , Yu Dapeng 
Published: January 2024

AbstractThe recently discovered kagome superconductors offer a promising platform for investigating intertwined orders and novel states, including topology, superconductivity, charge density waves, and more. The interplay among these orders can spontaneously break rotational symmetry, giving rise to exotic phenomena such as nematicity or even nematic superconductivity. Here we present our findings on the two-fold symmetric superconductivity in thin-flake RbV3Sb5 in response to direction-dependent in-plane magnetic fields, in contrast to the inherent six-fold structural symmetry of the crystal lattice. The two-fold symmetry was evidenced through a combination of magnetoresistance transport experiments, critical magnetic field measurements, and observations of anisotropic superconducting gaps. Additionally, by altering the experimental configuration, we also detected the presence of six-fold symmetric components superimposed on the two-fold symmetry at the boundary between normal and superconducting states. Our results underscore the correlation-driven symmetry-breaking phenomena and emphasize the potential of this correlated kagome family as a promising platform for investigating intertwined orders, including unconventional superconductivity.
Hosohedral nodal-line superconductivity in hexagonal ABC Dirac semimetals
Authors: Min Hong-Guk , Lyi Churlhi , Park Moon Jip , Kim Youngkuk 
Published: January 2024

AbstractThe recently identified hexagonal non-polar phase of KZnBi, an archetypal topological semimetal, has been found to cohost superconductivity on the surface. We propose that KZnBi can realize an unconventional topological superconductor featuring the hosohedral formation of nodal lines and Bogoliubov Fermi surface emerging under a magnetic field. Our density functional theory (DFT)-based low-energy model shows that the nonsymmorphic band degeneracy of the Dirac bands generically triggers topological nodal line superconductivity fostered by inter-band Coulomb interaction. In particular, the nodal lines of the gap resemble a hexagonal hosohedron with the Schläfli symbol of {2, 6}. Remarkably, the holohedral nodal line superconductor defines the topological phase boundary of the Bogoliubov Fermi surface in the limit where time-reversal symmetry is restored. Our results demonstrate that line nodes readily inflate to the Bogoliubov Fermi surface under an external magnetic field. We provide an experimentally verifiable explanation for the observed superconductivity and suggest a feasible platform for observing topological superconductivity in the hexagonal ABC ternary systems class.
A magnetically actuated dynamic labyrinthine transmissive ultrasonic metamaterial
Authors: Choi Christabel , Bansal Shubhi , Hardwick James , Münzenrieder Niko , Tiwari Manish K. , Subramanian Sriram 
Published: January 2024

AbstractCurrently, space-coiling acoustic metamaterials are static, requiring manual reconfiguration for sound-field modulation. Here, we introduce an approach to enable active reconfiguration, using standalone dynamic space-coiling unit cells called dynamic meta-bricks. Unlike their static counterparts, these meta-bricks, house an actuatable soft robotic-inspired magnetorheological elastomeric flap. This flap operates like a switch to directly control the transmitted ultrasound. For scalability, we present a hybrid stacking method, which vertically combines static and dynamic meta-bricks. This allows us to form a surface-integrated metasurface through concatenating variations of either fully static or hybrid stacks. By actuating dynamic metasurface sections, we experimentally demonstrate accurate modulation of λ/4 (≈2 mm) between two acoustic twin traps. We shift a levitated bead between the traps, validating that full-array operational dynamicity is achievable with partial, localised actuation. This work showcases the synergy between active and passive reconfigurability, opening possibilities to develop multifunctional metamaterials with additional degrees of freedom in design and control.
Traditional seismic hazard analyses underestimate hazard levels when compared to observations from the 2023 Kahramanmaras earthquakes
Authors: Altindal Abdullah , Askan Aysegul 
Published: January 2024

AbstractA sequence of two major earthquakes, Mw7.8 Pazarcik, and Mw7.5 Elbistan, struck Southeastern Turkey in February 2023. The large magnitudes of the earthquakes and the short time between the two events raised questions about whether this sequence was an extremely rare disaster. Here, based on prior knowledge, we perform seismic hazard assessment for the region to estimate exceedance probabilities of observed magnitudes and ground motions. We discuss that many regional studies indicated the seismic gap in the area but with lower magnitude estimations. Observed ground motions generally agree with empirical models for the Pazarcik event. However, some records with high amplitudes exceed the highest observed amplitudes in an extensive database of shallow crustal earthquakes. We observe a notable trend of residuals for the Elbistan earthquake, leading to underestimation at long periods. We discuss potential advances in science for better characterization of such major earthquakes in the future.
Inhibiting anti-angiogenic VEGF165b activates a miR-17-20a-Calcipressin-3 pathway that revascularizes ischemic muscle in peripheral artery disease
Authors: Batan Sonia , Kuppuswamy Sivaraman , Wood Madison , Reddy Meghana , Annex Brian , Ganta Vijay 
Published: January 2024

Abstract
Background
VEGF165a increases the expression of the microRNA-17-92 cluster, promoting developmental, retinal, and tumor angiogenesis. We have previously shown that VEGF165b, an alternatively spliced anti-angiogenic VEGF-A isoform, inhibits the VEGFR-STAT3 pathway in ischemic endothelial cells (ECs) to decrease their angiogenic capacity. In ischemic macrophages (Møs), VEGF165b inhibits VEGFR1 to induce S100A8/A9 expression, which drives M1-like polarization. Our current study aims to determine whether VEGF165b inhibition promotes perfusion recovery by regulating the microRNA(miR)-17-92 cluster in preclinical PAD.

Methods
Femoral artery ligation and resection was used as a preclinical PAD model. Hypoxia serum starvation (HSS) was used as an in vitro PAD model. VEGF165b was inhibited/neutralized by an isoform-specific VEGF165b antibody.

Results
Here, we show that VEGF165b-inhibition induces the expression of miR-17-20a (within miR-17-92 (miR-17-18a-19a-19b-20a-92) cluster) in HSS-ECs and HSS-Møs vs. respective normal and/or isotype-matched IgG controls to enhance perfusion recovery. Consistent with the bioinformatics analysis that revealed RCAN3 as a common target of miR-17 and miR-20a, Argonaute-2 pull-down assays showed decreased miR-17-20a expression and higher RCAN3 expression in the RNA-induced silencing complex of HSS-ECs and HSS-Møs vs. respective controls. Inhibiting miR-17-20a induced RCAN3 levels to decrease ischemic angiogenesis and promoted M1-like polarization to impair perfusion recovery. Finally, using STAT3 inhibitors, S100A8/A9 silencers, and VEGFR1-deficient ECs and Møs, we show that VEGF165b-inhibition activates the miR-17-20a-RCAN3 pathway independent of VEGFR1-STAT3 or VEGFR1-S100A8/A9 in ischemic-ECs and ischemic-Møs respectively.

Conclusions
Our data revealed a hereunto unrecognized therapeutic ‘miR-17-20a-RCAN3’ pathway in the ischemic vasculature that is VEGFR1-STAT3/S100A8/A9 independent and is activated only upon VEGF165b-inhibition in PAD.
Learning multi-site harmonization of magnetic resonance images without traveling human phantoms
Authors: Liu Siyuan , Yap Pew-Thian 
Published: January 2024

AbstractHarmonization improves Magn. Reson. Imaging (MRI) data consistency and is central to effective integration of diverse imaging data acquired across multiple sites. Recent deep learning techniques for harmonization are predominantly supervised in nature and hence require imaging data of the same human subjects to be acquired at multiple sites. Data collection as such requires the human subjects to travel across sites and is hence challenging, costly, and impractical, more so when sufficient sample size is needed for reliable network training. Here we show how harmonization can be achieved with a deep neural network that does not rely on traveling human phantom data. Our method disentangles site-specific appearance information and site-invariant anatomical information from images acquired at multiple sites and then employs the disentangled information to generate the image of each subject for any target site. We demonstrate with more than 6,000 multi-site T1- and T2-weighted images that our method is remarkably effective in generating images with realistic site-specific appearances without altering anatomical details. Our method allows retrospective harmonization of data in a wide range of existing modern large-scale imaging studies, conducted via different scanners and protocols, without additional data collection.
Programming structural and magnetic anisotropy for tailored interaction and control of soft microrobots
Authors: Yan Yimo , Song Chao , Shen Zaiyi , Zhu Yuechen , Ni Xingyu , Wang Bin , Christiansen Michael G. , Stavrakis Stavros , Lintuvuori Juho S. , Chen Baoquan , deMello Andrew , Schuerle Simone 
Published: January 2024

AbstractSwarms of soft microrobots controlled by minimally invasive magnetic fields show promise as biomedical agents. The collective behaviour of such swarms, governed by magnetic and hydrodynamic interactions, emerges from the properties of their individual constituents. The introduction of both magnetic and structural anisotropy into microrobots expands the possibilities for tailoring and predetermining interactions and collective behaviours that result. Unfortunately, current methods for large-scale production of soft microrobots, typically result in isotropic properties. Herein, by combining simulation-guided design and droplet-based microfluidics, we present a versatile, high-throughput technique for fabricating soft microrobots with programmable structural and magnetic anisotropy. Such microrobots consist of iron oxide nanoparticles organized into supra-domain structures and entrapped in a hydrogel matrix that can be elongated independently of its magnetic properties. By applying rotating magnetic fields to resulting swarms, distinct collective behaviours are produced, including gas-like formations, variable crystals, and heterogeneous motions.
Frequency-dependent impairment calibration and estimation for a 96 GBaud coherent optical transceiver
Authors: Dai Longquan , Zhang Ziheng , Cao Zicai , Yao Shuchang , Li Tianming , Fu Yudi , Dai Jing , Wang Yaqin , Luo Ming , Xiao Xi , Cheng Mengfan , Yang Qi , Tang Ming , Liu Deming , Deng Lei 
Published: January 2024

AbstractFor 800 Gbps/λ and beyond optical transmission systems, frequency-dependent impairments (FDI) degrade coherent optical transceiver (CO-TRx) performance severely. Calibration and compensation of such FDI in factories includes amplitude/phase frequency response (AFR/PFR), skew, and ripple for both transmitters(Tx) and receivers (Rx). However, due to the polarization rotation and phase rotation effects in optical link, the separation and extraction of FDI from different polarization or I/Q tributaries is challenging. Here we report a FDI calibration method based on orthogonal separation scheme and frequency domain analysis. The proposal can simultaneously characterize and separate the Tx/Rx sides FDI including AFR, PFR, and time skew of four tributaries. Finally, the effectiveness is demonstrated by transmitting a 96 GBuad Nyquist-16QAM signal on a 64 GBaud-class CO-TRx.
1,10-phenanthroline inhibits sumoylation and reveals that yeast SUMO modifications are highly transient
Authors: McNeil J Bryan , Lee Su-Kyong , Oliinyk Anna , Raina Sehaj , Garg Jyoti , Moallem Marjan , Urquhart-Cox Verne , Fillingham Jeffrey , Cheung Peter , Rosonina Emanuel 
Published: January 2024

AbstractThe steady-state levels of protein sumoylation depend on relative rates of conjugation and desumoylation. Whether SUMO modifications are generally long-lasting or short-lived is unknown. Here we show that treating budding yeast cultures with 1,10-phenanthroline abolishes most SUMO conjugations within one minute, without impacting ubiquitination, an analogous post-translational modification. 1,10-phenanthroline inhibits the formation of the E1~SUMO thioester intermediate, demonstrating that it targets the first step in the sumoylation pathway. SUMO conjugations are retained after treatment with 1,10-phenanthroline in yeast that express a defective form of the desumoylase Ulp1, indicating that Ulp1 is responsible for eliminating existing SUMO modifications almost instantly when de novo sumoylation is inhibited. This reveals that SUMO modifications are normally extremely transient because of continuous desumoylation by Ulp1. Supporting our findings, we demonstrate that sumoylation of two specific targets, Sko1 and Tfg1, virtually disappears within one minute of impairing de novo sumoylation. Altogether, we have identified an extremely rapid and potent inhibitor of sumoylation, and our work reveals that SUMO modifications are remarkably short-lived.