bluuebunny/crossref_metadata_2025_split huggingface dataset:
Seasonality in Carbon Flux Attenuation Explains Spatial Variability in Transfer Efficiency
Authors: de Melo Viríssimo Francisco , Martin Adrian P. , Henson Stephanie A. , Wilson Jamie D. 
Published: February 2024

AbstractEach year, the biological carbon pump (BCP) transports large quantities of carbon from the ocean surface to the interior. The efficiency of this transfer varies geographically, and is a key determinant of the atmosphere‐ocean carbon dioxide balance. Traditionally, the attention has been focused on explaining perceived geographical variations in this transfer efficiency (TE) in an attempt to understand it, an approach that has led to conflicting results. Here we combine observations and modeling to show that the spatial variability in TE can instead be explained by the seasonal variability in carbon flux attenuation. We also show that seasonality can explain the contrast between known global estimates of TE, due to differences in the date and duration of sampling. Our results suggest caution in the mechanistic interpretation of annual‐mean patterns in TE and demonstrates that seasonally and spatially resolved data sets and models might be required to generate accurate evaluations of the BCP.
Duplex Underplating, Sediment Dehydration and Quartz Vein Mineralization in the Deep Tremor Source Region
Authors: Ujiie Kohtaro , Nishiyama Naoki , Yamamoto Hisaki , Yamashita Minoru , Nagaya Takayoshi , Sano Takashi , Kouketsu Yui 
Published: February 2024

AbstractDeep tectonic tremor downdip of the seismogenic zone in warm subduction zones is thought to occur in the region of high fluid pressures. However, the deformation and fluid processes responsible for tremor are poorly understood. We examined the Tomuru metamorphic rocks on Ishigaki Island, southern Ryukyu Arc, deformed at ∼40 km depth and ∼450°C under epidote‐blueschist metamorphism comparable to the tremor source region in northern Cascadia subduction zone. Here, quartz vein‐rich metapelite and metabasite are repeated many times as a result of duplex underplating. The spatiotemporal relationship between clustered quartz veins and the juxtaposition of metapelite and metabasite suggests that quartz vein formation and duplex underplating are contemporaneous. Viscous shear in metapelite is accommodated by dissolution‐precipitation creep. Metabasite records heterogeneous dehydration, resulting in rheological heterogeneity characterized by greenschist lenses in the foliated blueschist matrix. Viscous shear in the blueschist matrix was mainly accommodated by dissolution‐precipitation creep of glaucophane. Geochemical and strontium‐neodymium isotope analyses indicated that quartz veins were derived from sediment dehydration, whereas dehydration from oceanic crust contributed neither to quartz vein formation nor to fluid overpressures. We suggest that high fluid pressure in the deep tremor source region is primarily controlled by dehydration of subducting sediments, and the clustered quartz veins in underplated rocks correlate with the overpressured tremor source in low shear‐wave velocity zones.
Development of Interpretable Probability Ellipse in Tropical Cyclone Track Forecasts Using Multiple Operational Ensemble Prediction Systems
Authors: Yoo Seungwoo , Ho Chang‐Hoi 
Published: February 2024

AbstractMost tropical cyclone (TC) forecasting centers have implemented a probabilistic circle to represent track uncertainty at a specified lead time. Recent studies suggest that probability ellipses constructed from ensemble prediction systems can convey the anisotropy of track predictability. In this study, a new probability ellipse model is developed to interpret the extent of forward speed and heading uncertainties in ensemble forecasts by selecting an equal proportion of members in the along‐ and cross‐track directions. This method is validated using the 2019–2021 western North Pacific (WNP) TC track forecasts from the ensemble predictions of the European Centre for Medium‐Range Weather Forecasts, the United States National Centers for Environmental Prediction, and the Korea Meteorological Administration. When the proportion of ensemble members in the ellipse is set to 70%, more than one‐half (50.0%–73.6%) of the forecasts, depending on the lead time, indicate reduced area compared with that of the circle. The mean areas of the probability ellipses are 4.9%, 7.0%, 10.0%, and 11.5% smaller than those of the circle in 48‐, 72‐, 96‐, and 120‐hr forecasts, respectively. The forward speed shows greater uncertainty than the heading, as evidenced by the along‐track radii being larger than the cross‐track counterpart in ∼60% of the samples, regardless of the lead time. In addition, the regional distribution of the along‐track/cross‐track ratio in the probability ellipses can explain the dominant direction of the track error in a particular location. The proposed probability ellipse shows potential for application in operational TC track predictions.
Excess Ground Ice Profiles in Continuous Permafrost Mapped From InSAR Subsidence
Authors: Zwieback S. , Iwahana G. , Sakhalkar S. , Biessel R. , Taylor S. , Meyer F. J. 
Published: February 2024

AbstractExcess ground ice formation and melt drive surface heave and settlement, and are critical components of the water balance in Arctic soils. Despite the importance of excess ice for the geomorphology, hydrology and biogeochemistry of permafrost landscapes, we lack fine‐scale estimates of excess ice profiles. Here, we introduce a Bayesian inversion method based on remotely sensed subsidence. It retrieves near‐surface excess ice profiles by probing the ice content at increasing depths as the thaw front deepens over summer. Ice profiles estimated from Sentinel‐1 interferometric synthetic aperture radar (InSAR) subsidence observations at 80 m resolution were spatially associated with the surficial geology in two Alaskan regions. In most geological units, the estimated profiles were ice poor in the central and, to a lesser extent, the upper active layer. In a warm summer, units with ice‐rich permafrost had elevated inferred ice contents at the base of the active layer and the (previous years') upper permafrost. The posterior uncertainty and accuracy varied with depth. In simulations, they were best (≲0.1) in the central active layer, deteriorating (≳0.2) toward the surface and permafrost. At two sites in the Brooks Foothills, Alaska, the estimates compared favorably to coring‐derived profiles down to 35 cm, while the increase in excess ice below the long‐term active layer thickness of 40 cm was only reproduced in a warm year. Pan‐Arctic InSAR observations enable novel observational constraints on the susceptibility of permafrost landscapes to terrain instability and on the controls, drivers and consequences of ground ice formation and loss.
White and gray matter alterations in bipolar I and bipolar II disorder subtypes compared with healthy controls – exploring associations with disease course and polygenic risk
Authors: Thiel Katharina , Lemke Hannah , Winter Alexandra , Flinkenflügel Kira , Waltemate Lena , Bonnekoh Linda , Grotegerd Dominik , Dohm Katharina , Hahn Tim , Förster Katharina , Kanske Philipp , Repple Jonathan , Opel Nils , Redlich Ronny , David Friederike , Forstner Andreas J. , Stein Frederike , Brosch Katharina , Thomas-Odenthal Florian , Usemann Paula , Teutenberg Lea , Straube Benjamin , Alexander Nina , Jamalabadi Hamidreza , Jansen Andreas , Witt Stephanie H. , Andlauer Till F. M. , Pfennig Andrea , Bauer Michael , Nenadić Igor , Kircher Tilo , Meinert Susanne , Dannlowski Udo 
Published: February 2024

AbstractPatients with bipolar disorder (BD) show alterations in both gray matter volume (GMV) and white matter (WM) integrity compared with healthy controls (HC). However, it remains unclear whether the phenotypically distinct BD subtypes (BD-I and BD-II) also exhibit brain structural differences. This study investigated GMV and WM differences between HC, BD-I, and BD-II, along with clinical and genetic associations. N = 73 BD-I, n = 63 BD-II patients and n = 136 matched HC were included. Using voxel-based morphometry and tract-based spatial statistics, main effects of group in GMV and fractional anisotropy (FA) were analyzed. Associations between clinical and genetic features and GMV or FA were calculated using regression models. For FA but not GMV, we found significant differences between groups. BD-I patients showed lower FA compared with BD-II patients (ptfce-FWE = 0.006), primarily in the anterior corpus callosum. Compared with HC, BD-I patients exhibited lower FA in widespread clusters (ptfce-FWE < 0.001), including almost all major projection, association, and commissural fiber tracts. BD-II patients also demonstrated lower FA compared with HC, although less pronounced (ptfce-FWE = 0.049). The results remained unchanged after controlling for clinical and genetic features, for which no independent associations with FA or GMV emerged. Our findings suggest that, at a neurobiological level, BD subtypes may reflect distinct degrees of disease expression, with increasing WM microstructure disruption from BD-II to BD-I. This differential magnitude of microstructural alterations was not clearly linked to clinical and genetic variables. These findings should be considered when discussing the classification of BD subtypes within the spectrum of affective disorders.
Impairments of cerebellar structure and function in a zebrafish KO of neuropsychiatric risk gene znf536
Authors: Kim Tae-Yoon , Roychaudhury Arkaprava , Kim Hyun-Taek , Choi Tae-Ik , Baek Seung Tae , Thyme Summer B. , Kim Cheol-Hee 
Published: February 2024

AbstractGenetic variants in ZNF536 contribute to the risk for neuropsychiatric disorders such as schizophrenia, autism, and others. The role of this putative transcriptional repressor in brain development and function is, however, largely unknown. We generated znf536 knockout (KO) zebrafish and studied their behavior, brain anatomy, and brain function. Larval KO zebrafish showed a reduced ability to compete for food, resulting in decreased total body length and size. This phenotype can be rescued by segregating the homozygous KO larvae from their wild-type and heterozygous siblings, enabling studies of adult homozygous KO animals. In adult KO zebrafish, we observed significant reductions in anxiety-like behavior and social interaction. These znf536 KO zebrafish have decreased cerebellar volume, corresponding to decreased populations of specific neuronal cells, especially in the valvular cerebelli (Va). Finally, using a Tg[mbp:mgfp] line, we identified a previously undetected myelin structure located bilaterally within the Va, which also displayed a reduction in volume and disorganization in KO zebrafish. These findings indicate an important role for ZNF536 in brain development and implicate the cerebellum in the pathophysiology of neuropsychiatric disorders.
Synergistic induction of tertiary lymphoid structures by chemoimmunotherapy in bladder cancer
Authors: Zhang Lu , Zhang Ruiyun , Jin Di , Zhang Tianxiang , Shahatiaili Akezhouli , Zang Jingyu , Wang Lu , Pu Yuanchun , Zhuang Guanglei , Chen Haige , Fan Jinhai 
Published: February 2024

Abstract
Background
A substantial number of patients with bladder cancer fail to benefit from immune checkpoint inhibitors (ICIs). We aim to investigate whether the addition of other therapeutic modalities into immunotherapy may augment the immune reactivity, thereby improving the overall response rate.

Methods
We conducted a comprehensive assessment of the immunological changes following immunotherapy and chemotherapy, employing both single-cell RNA sequencing and bulk RNA sequencing analyses.

Results
The bladder cancer patient treated with ICIs exhibited a higher abundance of B cells and T follicular helper cells compared to the treatment-naïve patient. Analysis of public datasets and the in-house RJBLC-I2N003 cohort revealed the induction of tertiary lymphoid structure (TLS) neogenesis and maturation by immunotherapy. The IMvigor 210 study suggested that TLS could serve as a predictor of immunotherapy response and patient prognosis. In addition, genome-wide transcriptome data unveiled a shift towards the immune-enriched subtype over the desert subtype in patients receiving neoadjuvant chemotherapy. Notably, the proportions of CD20 + B cells, T follicular helper cells, and TLSs were significantly increased. In patients treated with a combination of neoadjuvant chemotherapy and ICIs, TLS positivity and maturity were improved compared to the baseline. Furthermore, neoadjuvant chemoimmunotherapy resulted in a higher rate of pathological complete response compared to monotherapies.

Conclusions
This work pinpointed the individual effect of immunotherapy and chemotherapy in fostering TLS development, and underscored the superior effectiveness of combined modalities in enhancing TLS maturation and response rates.
ACSS2 controls PPARγ activity homeostasis to potentiate adipose-tissue plasticity
Authors: Chen Nuo , Zhao Ming , Wu Nan , Guo Yaxin , Cao Baihui , Zhan Bing , Li Yubin , Zhou Tian , Zhu Faliang , Guo Chun , Shi Yongyu , Wang Qun , Li Yan , Zhang Lining 
Published: February 2024

AbstractThe appropriate transcriptional activity of PPARγ is indispensable for controlling inflammation, tumor and obesity. Therefore, the identification of key switch that couples PPARγ activation with degradation to sustain its activity homeostasis is extremely important. Unexpectedly, we here show that acetyl-CoA synthetase short-chain family member 2 (ACSS2) critically controls PPARγ activity homeostasis via SIRT1 to enhance adipose plasticity via promoting white adipose tissues beiging and brown adipose tissues thermogenesis. Mechanistically, ACSS2 binds directly acetylated PPARγ in the presence of ligand and recruits SIRT1 and PRDM16 to activate UCP1 expression. In turn, SIRT1 triggers ACSS2 translocation from deacetylated PPARγ to P300 and thereafter induces PPARγ polyubiquitination and degradation. Interestingly, D-mannose rapidly activates ACSS2-PPARγ-UCP1 axis to resist high fat diet induced obesity in mice. We thus reveal a novel ACSS2 function in coupling PPARγ activation with degradation via SIRT1 and suggest D-mannose as a novel adipose plasticity regulator via ACSS2 to prevent obesity.
Blockade of C5aR1 resets M1 via gut microbiota-mediated PFKM stabilization in a TLR5-dependent manner
Authors: Zhao Jie , Yao Chen , Qin Yongqin , Zhu Hanyong , Guo Hui , Ji Binbin , Li Xueqin , Sun Na , Li Rongqing , Wu Yuzhang , Zheng Kuiyang , Pan Yuchen , Zhao Tingting , Yang Jing 
Published: February 2024

AbstractTargeting C5aR1 modulates the function of infiltrated immune cells including tumor-associated macrophages (TAMs). The gut microbiome plays a pivotal role in colorectal cancer (CRC) tumorigenesis and development through TAM education. However, whether and how the gut flora is involved in C5aR1 inhibition-mediated TAMs remains unclear. Therefore, in this study, genetic deletion of C5ar1 or pharmacological inhibition of C5aR1 with anti-C5aR1 Ab or PMX-53 in the presence or absence of deletion Abs were utilized to verify if and how C5aR1 inhibition regulated TAMs polarization via affecting gut microbiota composition. We found that the therapeutic effects of C5aR1 inhibition on CRC benefited from programming of TAMs toward M1 polarization via driving AKT2-mediated 6-phosphofructokinase muscle type (PFKM) stabilization in a TLR5-dependent manner. Of note, in the further study, we found that C5aR1 inhibition elevated the concentration of serum IL-22 and the mRNA levels of its downstream target genes encoded antimicrobial peptides (AMPs), leading to gut microbiota modulation and flagellin releasement, which contributed to M1 polarization. Our data revealed that high levels of C5aR1 in TAMs predicted poor prognosis. In summary, our study suggested that C5aR1 inhibition reduced CRC growth via resetting M1 by AKT2 activation-mediated PFKM stabilization in a TLR5-dependent manner, which relied on IL-22-regulated gut flora.
CUL4B mutations impair human cortical neurogenesis through PP2A-dependent inhibition of AKT and ERK
Authors: Ma Yanyan , Liu Xiaolin , Zhou Min , Sun Wenjie , Jiang Baichun , Liu Qiao , Wang Molin , Zou Yongxin , Liu Qiji , Gong Yaoqin , Sun Gongping 
Published: February 2024

AbstractMutation in CUL4B gene is one of the most common causes for X-linked intellectual disability (XLID). CUL4B is the scaffold protein in CUL4B-RING ubiquitin ligase (CRL4B) complex. While the roles of CUL4B in cancer progression and some developmental processes like adipogenesis, osteogenesis, and spermatogenesis have been studied, the mechanisms underlying the neurological disorders in patients with CUL4B mutations are poorly understood. Here, using 2D neuronal culture and cerebral organoids generated from the patient-derived induced pluripotent stem cells and their isogenic controls, we demonstrate that CUL4B is required to prevent premature cell cycle exit and precocious neuronal differentiation of neural progenitor cells. Moreover, loss-of-function mutations of CUL4B lead to increased synapse formation and enhanced neuronal excitability. Mechanistically, CRL4B complex represses transcription of PPP2R2B and PPP2R2C genes, which encode two isoforms of the regulatory subunit of protein phosphatase 2 A (PP2A) complex, through catalyzing monoubiquitination of H2AK119 in their promoter regions. CUL4B mutations result in upregulated PP2A activity, which causes inhibition of AKT and ERK, leading to premature cell cycle exit. Activation of AKT and ERK or inhibition of PP2A activity in CUL4B mutant organoids rescues the neurogenesis defect. Our work unveils an essential role of CUL4B in human cortical development.
The mechanisms, regulations, and functions of histone lysine crotonylation
Authors: Xie Jing-yi , Ju Jie , Zhou Ping , Chen Hao , Wang Shao-cong , Wang Kai , Wang Tao , Chen Xin-zhe , Chen Yan-chun , Wang Kun 
Published: February 2024

AbstractHistone lysine crotonylation (Kcr) is a new acylation modification first discovered in 2011, which has important biological significance for gene expression, cell development, and disease treatment. In the past over ten years, numerous signs of progress have been made in the research on the biochemistry of Kcr modification, especially a series of Kcr modification-related “reader”, “eraser”, and “writer” enzyme systems are identified. The physiological function of crotonylation and its correlation with development, heredity, and spermatogenesis have been paid more and more attention. However, the development of disease is usually associated with abnormal Kcr modification. In this review, we summarized the identification of crotonylation modification, Kcr-related enzyme system, biological functions, and diseases caused by abnormal Kcr. This knowledge supplies a theoretical basis for further exploring the function of crotonylation in the future.
Efficacy and safety of using auditory-motor entrainment to improve walking after stroke: a multi-site randomized controlled trial of InTandemTM
Authors: Awad Louis N. , Jayaraman Arun , Nolan Karen J. , Lewek Michael D. , Bonato Paolo , Newman Mark , Putrino David , Raghavan Preeti , Pohlig Ryan T. , Harris Brian A. , Parker Danielle A. , Taylor Sabrina R. 
Published: February 2024

AbstractWalking slowly after stroke reduces health and quality of life. This multi-site, prospective, interventional, 2-arm randomized controlled trial (NCT04121754) evaluated the safety and efficacy of an autonomous neurorehabilitation system (InTandemTM) designed to use auditory-motor entrainment to improve post-stroke walking. 87 individuals were randomized to 5-week walking interventions with InTandem or Active Control (i.e., walking without InTandem). The primary endpoints were change in walking speed, measured by the 10-meter walk test pre-vs-post each 5-week intervention, and safety, measured as the frequency of adverse events (AEs). Clinical responder rates were also compared. The trial met its primary endpoints. InTandem was associated with a 2x larger increase in speed (Δ: 0.14 ± 0.03 m/s versus Δ: 0.06 ± 0.02 m/s, F(1,49) = 6.58, p = 0.013), 3x more responders (40% versus 13%, χ2(1) ≥ 6.47, p = 0.01), and similar safety (both groups experienced the same number of AEs). The auditory-motor intervention autonomously delivered by InTandem is safe and effective in improving walking in the chronic phase of stroke.
Shear margins in upper half of Northeast Greenland Ice Stream were established two millennia ago
Authors: Jansen Daniela , Franke Steven , Bauer Catherine C. , Binder Tobias , Dahl-Jensen Dorthe , Eichler Jan , Eisen Olaf , Hu Yuanbang , Kerch Johanna , Llorens Maria-Gema , Miller Heinrich , Neckel Niklas , Paden John , de Riese Tamara , Sachau Till , Stoll Nicolas , Weikusat Ilka , Wilhelms Frank , Zhang Yu , Bons Paul D. 
Published: February 2024

AbstractOnly a few localised ice streams drain most of the ice from the Greenland Ice Sheet. Thus, understanding ice stream behaviour and its temporal variability is crucially important to predict future sea-level change. The interior trunk of the 700 km-long North-East Greenland Ice Stream (NEGIS) is remarkable due to the lack of any clear bedrock channel to explain its presence. Here, we present a 3-dimensional analysis of the folding and advection of its stratigraphic horizons, which shows that the localised flow and shear margins in the upper NEGIS were fully developed only ca 2000 years ago. Our results contradict the assumption that the ice stream has been stable throughout the Holocene in its current form and show that upper NEGIS-type development of ice streaming, with distinct shear margins and no bed topography relationship, can be established on time scales of hundreds of years, which is a major challenge for realistic mass-balance and sea-level rise projections.
The genetic basis of autoimmunity seen through the lens of T cell functional traits
Authors: Lagattuta Kaitlyn A. , Park Hannah L. , Rumker Laurie , Ishigaki Kazuyoshi , Nathan Aparna , Raychaudhuri Soumya 
Published: February 2024

AbstractAutoimmune disease heritability is enriched in T cell-specific regulatory regions of the genome. Modern-day T cell datasets now enable association studies between single nucleotide polymorphisms (SNPs) and a myriad of molecular phenotypes, including chromatin accessibility, gene expression, transcriptional programs, T cell antigen receptor (TCR) amino acid usage, and cell state abundances. Such studies have identified hundreds of quantitative trait loci (QTLs) in T cells that colocalize with genetic risk for autoimmune disease. The key challenge facing immunologists today lies in synthesizing these results toward a unified understanding of the autoimmune T cell: which genes, cell states, and antigens drive tissue destruction?