bluuebunny/crossref_metadata_2025_split huggingface dataset:
Enhanced production of trans-cinnamic acid in Photorhabdus luminescens with homolog expression and deletion strategies
Authors: Ulgen Gokduman Funda , Yılmaz Semih , Bode Helge B 
Published: June 2024

Abstract

Aim
This study aimed to overproduce industrially relevant and safe bio-compound trans-cinnamic acid (tCA) from Photorhabdus luminescens with deletion strategies and homologous expression strategies that had not been applied before for tCA production.

Methods and Results
The overproduction of the industrially relevant compound tCA was successfully performed in P. luminescens by deleting stlB (TTO1ΔstlB) encoding a cinnamic acid CoA ligase in the isopropylstilbene pathway and the hcaE insertion (knockout) mutation (hcaE::cat) in the phenylpropionate catabolic pathway, responsible for tCA degradation. A double mutant of both stlB deletion and hcaE insertion mutation (TTO1DM ΔstlB-hcaE::cat) was also generated. These deletion strategies and the phenylalanine ammonium lyase-producing (PI-PAL from Photorhabdus luminescens) plasmid, pBAD30C, carrying stlA (homologous expression mutants) are utilized together in the same strain using different media, a variety of cultivation conditions, and efficient anion exchange resin (Amberlite IRA402) for enhanced tCA synthesis. At the end of the 120-h shake flask cultivation, the maximum tCA production was recorded as 1281 mg l−1 in the TTO1pBAD30C mutant cultivated in TB medium, with the IRA402 resin keeping 793 mg l−1 and the remaining 488 mg l−1 found in the supernatant.

Conclusion
TCA production was successfully achieved with homologous expression, coupled with deletion and insertion strategies. 1281 mg l−1is the highest tCA concentration that achieved by bacterial tCA production in flask cultivation, according to our knowledge.
Mulberry leaves supplementation alters lipid metabolism and promotes fatty acid β oxidation in growing mutton sheep
Authors: Cui Xiaopeng , Yang Yuxin , Zhang Minjuan , Bao Lijun , Jiao Feng , Liu Shuang , Wang Hexin , Wei Xinlan , Qian Wei , Shi Xiang , Su Chao , Qian Yonghua 
Published: June 2024

Abstract
Mulberry leaves (MLs) are an unconventional feed with fiber and various active ingredients, and are acknowledged as likely to regulate lipid metabolism, while the molecular mechanism remains undefined. Therefore, our objective was to define the role of MLs on the overall lipid metabolism. We conducted a feeding experiment of three groups on growing mutton sheep fed with dried mulberry leaves (DMLs), with fermented mulberry leaves (FMLs), or without MLs (as control). Analyses of transcriptome and widely target lipids demonstrated the addition of MLs triggered big perturbations in genes and metabolites related to glycerolipid, phospholipid, ether lipid, and sphingolipid metabolism. Additionally, the variations of the above lipids in the treatment of MLs possibly facilitate immunity enhancement of growing mutton sheep via the activation of complement and coagulation cascades. Furthermore, treatments with MLs could expedite proceedings of lipid degradation and fatty acid β oxidation in mitochondria, thereby to achieve the effect of lipid reduction. Besides, added DMLs also fuel fatty acid β-oxidation in peroxisomes and own much stronger lipolysis than added FMLs, possibly attributed to high fiber content in DMLs. These findings establish the novel lipid-lowering role and immune protection of MLs, which lays the foundation for the medicinal application of MLs.
Summer cave use by tricolored bats declined in response to white-nose syndrome despite persistence in winter hibernacula in the southeastern United States
Authors: Costley Tessa , Hopkins Skylar R , Meng Sophie , Gajewski Zachary , Niemiller Matthew L 
Published: June 2024

Abstract
Several bat species have experienced rapid population declines in the northern United States and Canada in response to the white-nose syndrome (WNS) epizootic. The pathogen has since spread across the United States, including the Southeast, where relatively warm temperatures may change host–pathogen interactions. In the cave-rich Tennessee–Alabama–Georgia (TAG) region, we examined the impacts of WNS and forest cover on the Tricolored Bat (Perimyotis subflavus) metapopulation using a long-term data set of 832 cave surveys conducted in summer and winter from 2004 to 2022. Most bat colonies were small (&lt;30 individuals), and bats were more likely to be present and abundant in caves surrounded by high percent forest cover, reiterating the importance of forest management for bat conservation. When comparing the years before and after the pathogen arrived in 2010 to 2012, bat presence and abundance during winter hibernation did not change. This stability contrasts with significant declines in other studies, suggesting that Tricolored Bat populations respond differently to WNS in small colonies in the TAG region. Fewer tricolored bats used caves in the summer than during hibernation, but across all years, we observed 1,021 tricolored bats in 121 caves during summer surveys. Unlike stable winter trends, bat presence and abundance declined in the post-WNS period in summer, when cave use is optional. This first broad geographical analysis of summer cave use highlights a potentially important change in bat behavior. Disease surveillance and conservation efforts that target caves with relatively small Tricolored Bat colonies in winter and/or summer may be important for regional population persistence of this threatened species.
Pichia kudriavzevii as feed additive in Nile tilapia (Oreochromis niloticus) diet
Authors: Agpoon I E P , Aya F A , Watanabe K , Bennett R M , Aki T , Dedeles G R 
Published: June 2024

Abstract
Yeasts are unicellular eukaryotic microorganisms extensively employed in various applications, notably as an alternative source of protein in feeds, owing to their nutritional benefits. Despite their potential, marine and mangrove yeast species used in the aquaculture industry have received little attention in the Philippines. Pichia kudriavzevii (A2B R1 ISO 3), sourced from bark samples, was selected and mass-produced due to its high protein content and amino acid profile. The dried biomass of P. kudriavzevii was incorporated into the diets of Nile tilapia (Oreochromis niloticus) juveniles at varying inclusion levels (0, 1, 2, and 4 g/kg diet) and its effect on their growth performance, body composition, and liver and intestinal morphology was assessed after 40 days of feeding. The groups that received P. kudriavzevii at a concentration of 2 g/kg diet exhibited higher final body weight, percent weight gain, and specific growth rate in comparison to the other treatment groups. Whole body proximate composition did not vary among the dietary groups. Intestinal and liver histopathology also indicated no abnormalities. These findings suggest the potential of ascomycetous P. kudriavzevii as a beneficial feed additive in Nile tilapia diets, warranting further investigation into its long-term effects and broader applications in fish culture.
How the work being done on statistical fingerprint models provides the basis for a much broader and greater impact affecting many areas within the criminal justice system
Authors: Stoney David , Stoney Paul 
Published: June 2024

Abstract
In the process of developing and improving statistical models to address flaws in the examination and interpretation of highly selective fingermarks, the groundwork is being laid for a much broader and greater impact. This impact will arise from the use of these same improved statistical methods to exploit information from the examination of fingermarks with lower degrees of selectivity—those fingermarks traditionally considered to be devoid of evidentiary value. To the contrary, research has shown that fingermarks of lower selectivity have much to offer. They occur very frequently: much more often than those assessed to be sufficient for inclusion in existing fingerprint examination processes. In individual cases, they occur in locations and numbers that can provide important new information for investigators and additional routes to further investigation. As evidence contributing to proving a case, they can provide detailed activity-level information and new avenues to address the relevance and probative value of other direct and circumstantial evidence. The broader application of fingerprint models to these traditionally unused fingermarks of lower selectivity needs to be specifically developed and implemented to realize the contributions and to responsibly manage the risks and benefits.
On the Moral Problems Raised by the Existence of Personites
Authors: Montminy Martin , Russo Andrew 
Published: June 2024

Abstract
According to the worm theory, persons are (maximal) aggregates of person-stages existing at different times. Personites, on the other hand, are non-maximal aggregates of stages that are very much like persons. Their existence appears to make instances of prudential self-sacrifice morally problematic: the personites that exist at the time of the sacrifice but not at the time of the reward seem not to receive future compensation for their sacrifice. Instances of punishment appear to give rise to a similar problem. We argue that these impressions arise from a mistaken assumption about the primary bearers of properties such as suffering, receiving compensation (in the future) and having (previously) committed a crime. According to the worm theory, stages, rather than persons or personites, possess these properties. Persons and personites have these properties only derivatively. As we show, once this clarification and related ones are made, the apparent moral problems raised by the existence of personites dissolve.
I-band photometry of the quiescent black hole X-ray nova GROJ0422 + 32 = V518 Per: modelling of the orbital light curve and estimation of the black hole mass
Authors: Cherepashchuk A M , Khruzina T S , Atapin K E 
Published: June 2024

ABSTRACT
We present new photometric observations of the X-ray nova GRO J0422 + 32 (V518 Per) carried out in the I$_c$ band over 14 nights in 2020–2023. We had to revise the orbital period of the system, the new value $P_{\rm orb}=5^{\rm h}04^{\rm m}35{_{.}^{\rm s}}50 \pm 0{_{.}^{\rm s}}04$ is about one minute shorter than the period by Webb et al. but close to the result reported earlier by Filippenko, Matheson & Ho. The obtained folded light curve has a regular shape with a clear ellipticity effect and signatures of a slight heating effect. The simulations of this light curve in terms of the model of an interacting binary system allowed us to estimate the orbital inclination $i = 33^\circ {\small --} 49^\circ$ of the system and derive masses of the black hole $M_x=(6.5\pm 2.9)\,\mathrm{M}_\odot$ and companion star $M_v=(0.47\pm 0.21)\,\mathrm{M}_\odot$. This range of the black hole masses overlaps with the known gap of (2–5) M$_\odot$ in the distribution of compact objects masses but mostly it lies above the upper boundary of this gap. To obtain more precise estimates one needs to know the degree of heating of the donor star, so synchronous X-ray/optical observations of this system are desirable.
AstroCLIP: a cross-modal foundation model for galaxies
Authors: Parker Liam , Lanusse Francois , Golkar Siavash , Sarra Leopoldo , Cranmer Miles , Bietti Alberto , Eickenberg Michael , Krawezik Geraud , McCabe Michael , Morel Rudy , Ohana Ruben , Pettee Mariel , Régaldo-Saint Blancard Bruno , Cho Kyunghyun , Ho Shirley ,   The Polymathic AI Collaboration
Published: June 2024

ABSTRACT
We present AstroCLIP, a single, versatile model that can embed both galaxy images and spectra into a shared, physically meaningful latent space. These embeddings can then be used – without any model fine-tuning – for a variety of downstream tasks including (1) accurate in-modality and cross-modality semantic similarity search, (2) photometric redshift estimation, (3) galaxy property estimation from both images and spectra, and (4) morphology classification. Our approach to implementing AstroCLIP consists of two parts. First, we embed galaxy images and spectra separately by pre-training separate transformer-based image and spectrum encoders in self-supervised settings. We then align the encoders using a contrastive loss. We apply our method to spectra from the Dark Energy Spectroscopic Instrument and images from its corresponding Legacy Imaging Survey. Overall, we find remarkable performance on all downstream tasks, even relative to supervised baselines. For example, for a task like photometric redshift prediction, we find similar performance to a specifically trained ResNet18, and for additional tasks like physical property estimation (stellar mass, age, metallicity, and specific-star-formation rate), we beat this supervised baseline by 19 per cent in terms of R2. We also compare our results with a state-of-the-art self-supervised single-modal model for galaxy images, and find that our approach outperforms this benchmark by roughly a factor of two on photometric redshift estimation and physical property prediction in terms of R2, while remaining roughly in-line in terms of morphology classification. Ultimately, our approach represents the first cross-modal self-supervised model for galaxies, and the first self-supervised transformer-based architectures for galaxy images and spectra.
A novel analysis of contamination in Lyman-break galaxy samples at z ∼ 6-8: spatial correlation with intermediate-redshift galaxies at z ∼ 1.3-2
Authors: Hilmi Miftahul , Leethochawalit Nicha , Trenti Michele , Metha Benjamin 
Published: June 2024

ABSTRACT
Potential contamination from low/intermediate-redshift galaxies, such as objects with a prominent Balmer break, affects the photometric selection of high-redshift galaxies through identification of a Lyman break. Traditionally, contamination is estimated from spectroscopic follow-up and/or simulations. Here, we introduce a novel approach to estimating contamination for Lyman-break galaxy (LBG) samples based on measuring spatial correlation with the parent population of lower redshift interlopers. We propose two conceptual approaches applicable to different survey strategies: a single large contiguous field and a survey consisting of multiple independent lines of sight. For a large single field, we compute the cross-correlation function between galaxies at redshift $z \sim 6$ and intermediate-redshift galaxies at $z \sim 1.3$. We apply the method to the CANDELS GOODS-S and XDF surveys and compare the measurement with simulated mock observations, finding that the contamination level in both cases is not measurable and lies below 5.5 per cent (at 90 per cent confidence). For random-pointing multiple field surveys, we measure instead the number count correlation between high-redshift galaxies and interlopers, as a two-point correlation analysis is not generally feasible. We show an application to the LBG samples at redshift $z \sim 8$ and the possible interloper population at $z \sim 2$ in the Brightest of Reionizing Galaxies (BoRG) survey. By comparing the Pearson correlation coefficient with the result from Monte Carlo simulations, we estimate a contamination fraction of $62^{+13}_{-39} \, \mathrm{ per}\, \mathrm{ cent}$, consistent with previous estimates in the literature. These results validate the proposed approach and demonstrate its utility as an independent check of contamination in photometrically selected samples of high-redshift galaxies.
The feasibility of weak lensing and 21cm intensity mapping cross-correlation measurements
Authors: Sangka Anut , Bacon David 
Published: June 2024

ABSTRACT
One of the most promising probes to complement current standard cosmological surveys is the H i intensity map, i.e. the distribution of temperature fluctuations in neutral hydrogen. In this paper we present calculations of the two-point function between HI (at redshift $z\lt 1$) and lensing convergence ($\kappa$). We also construct HI intensity maps from N-body simulations, and measure two-point functions between HI and lensing convergence. HI intensity mapping requires stringent removal of bright foregrounds, including emission from our Galaxy. The removal of large-scale radial modes during this HI foreground removal will reduce the HI-lensing cross-power spectrum signal, as radial modes are integrated to find the convergence; here we wish to characterize this reduction in signal. We find that after a simple model of foreground removal, the cross-correlation signal is reduced by $\sim$50–70 per cent; we present the angular and redshift dependence of the effect, which is a weak function of these variables. We then calculate S/N of $\kappa$HI detection, including cases with cut sky observations, and noise from radio and lensing measurements. We present Fisher forecasts based on the resulting two-point functions; these forecasts show that by measuring $\kappa \Delta {T}_\mathrm{HI}$ correlation functions in a sufficient number of redshift bins, constraints on cosmology and HI bias will be possible.
Finding dusty AGNs from the JWST CEERS survey with mid-infrared photometry
Authors: Chien Tom C -C , Ling Chih-Teng , Goto Tomotsugu , Wu Cossas K -W , Kim Seong Jin , Hashimoto Tetsuya , Lin Yu-Wei , Kilerci Ece , Ho Simon C -C , Wang Po-Ya , Raquel Bjorn Jasper R 
Published: June 2024

ABSTRACT
The nature of the interaction between active galactic nuclei (AGNs) and their host galaxies remains an unsolved question. Therefore, conducting an AGN census is valuable for AGN research. Nevertheless, a significant fraction of AGNs are obscured by their environment, which blocks UV and optical emissions due to the dusty torus surrounding the central supermassive black hole (SMBH). To overcome this challenge, mid-infrared (IR) surveys have emerged as a valuable tool for identifying obscured AGNs, as the obscured light is re-emitted in this range. With its high sensitivity, the JWST uncovered more fainter objects than previous telescopes. By applying the SED fitting, this work investigates AGN candidates in JWST Cosmic Evolution Early Release Science (CEERS) fields. We identified 42 candidates; 30 of them are classified as composites ($0.2\le f_{\text{AGN, IR}} &lt; 0.5$), and 12 of them are AGNs ($f_{\text{AGN, IR}}\ge 0.5$). We report the AGN luminosity contributions and AGN number fractions as a function of redshift and total infrared luminosity, showing that previously reported increasing relations are not apparent in our sample due to the sample size. We also extend the previous results on ultraluminous infrared galaxies (ULIRGs, $L_{\rm TIR}\ge 10^{12} L_{\odot }$) to less luminous AGNs, highlighting the power of JWST.
Finding accreted stars in the Milky Way: clues from NIHAO simulations
Authors: Buder S , Mijnarends L , Buck T 
Published: June 2024

ABSTRACT
Exploring the marks left by galactic accretion in the Milky Way helps us understand how our Galaxy was formed. However, finding and studying accreted stars and the galaxies they came from has been challenging. This study uses a simulation from the Numerical Investigation of a Hundred Astronomical Objects project, which now includes a wider range of chemical compositions, to find better ways to spot these accreted stars. By comparing our findings with data from the GALAH spectroscopic survey, we confirm that the observationally established diagnostics of [Al/Fe] versus [Mg/Mn] also show a separation of in situ and accreted stars in the simulation, but stars from different accretion events tend to overlap in this plane even without observational uncertainties. Looking at the relationship between stellar age and linear or logarithmic abundances, such as [Fe/H], we can clearly separate different groups of these stars if the uncertainties in their chemical makeup are less than 0.15 dex and less than 20 per cent for their ages. This method shows promise for studying the history of the Milky Way and other galaxies. Our work highlights how important it is to have accurate measurements of stellar ages and chemical content. It also shows how simulations can help us understand the complex process of galaxies merging and suggest how these events might relate to the differences we see between our Galaxy’s thin and thick disc stars. This study provides a way to compare theoretical models with real observations, opening new paths for research in both our own Galaxy and beyond.
iMab antibody binds single-stranded cytosine-rich sequences and unfolds DNA i-motifs
Authors: Boissieras Joseph , Bonnet Hugues , Susanto Maria Fidelia , Gomez Dennis , Defrancq Eric , Granzhan Anton , Dejeu Jérôme 
Published: June 2024

Abstract
i-Motifs (iMs) are non-canonical, four-stranded secondary structures formed by stacking of hemi-protonated CH+·C base pairs in cytosine-rich DNA sequences, predominantly at pH &lt; 7. The presence of iM structures in cells was a matter of debate until the recent development of iM-specific antibody, iMab, which was instrumental for several studies that suggested the existence of iMs in live cells and their putative biological roles. We assessed the interaction of iMab with cytosine-rich oligonucleotides by biolayer interferometry (BLI), pull-down assay and bulk-FRET experiments. Our results suggest that binding of iMab to DNA oligonucleotides is governed by the presence of runs of at least two consecutive cytosines and is generally increased in acidic conditions, irrespectively of the capacity of the sequence to adopt, or not, an iM structure. Moreover, the results of the bulk-FRET assay indicate that interaction with iMab results in unfolding of iM structures even in acidic conditions, similarly to what has been observed with hnRNP K, well-studied single-stranded DNA binding protein. Taken together, our results strongly suggest that iMab actually binds to blocks of 2–3 cytosines in single-stranded DNA, and call for more careful interpretation of results obtained with this antibody.
Challenges and opportunities in newly diagnosed glioblastoma in the United Kingdom: A Delphi panel
Authors: Bulbeck Helen , Noble Karen , Oliver Kathy , Skinner Tina Mitchell 
Published: June 2024

Abstract

Background
Glioblastoma is the deadliest primary malignant brain tumor in adults with limited treatment options and an average survival time of 12–18 months in the United Kingdom. In addition, glioblastoma has a highly detrimental impact on physical, cognitive, and emotional well-being, leaving substantial unmet needs for patients and caregivers. This study aimed to identify unmet needs in people with newly diagnosed glioblastoma and opportunities to mitigate them.

Methods
Utilizing Delphi methodology, an initial roundtable discussion with patient advocacy experts from 5 brain tumor organizations in the United Kingdom informed the development of 2 rounds of surveys across 9 domains (diagnosis, treatment, integrated care, support beyond treatment, quality of life, access to new treatments, access to trials, measures to ease the burden, and impact of COVID-19). Consensus was predefined as ≥70% agreement.

Results
A total of 17 Delphi panelists (glioblastoma patients, caregivers, and patient representatives) completed the first round of questionnaires and 26 completed the second. Consensus was reached on 16/21 questions (76.2%) and 7/9 domains. Panelists reached a consensus on key questions including the high frequency of diagnosis via emergency departments, the lack of effective personalized treatments and holistic care, the high caregiver burden, the lack of awareness and availability of access to clinical trials, and the negative impact of COVID-19 on glioblastoma care.

Conclusions
Significant unmet needs exist for newly diagnosed glioblastoma patients in the United Kingdom, highlighting the demand for increased research funding, comprehensive patient care, caregiver support, enhanced awareness and access to clinical trials, and new treatments.