bluuebunny/crossref_metadata_2025 huggingface dataset:
Glutamate
-
dependent arginine biosynthesis requires the inactivation of
spoVG
,
sarA,
and
ahrC
in
Staphylococcus aureus
Authors: Reslane Itidal , Handke Luke D. , Watson Gabrielle F. , Shinde Dhananjay , Ahn Jong-Sam , Endres Jennifer L. , Razvi Fareha , Gilbert Emily A. , Bayles Kenneth W. , Thomas Vinai C. , Lehman McKenzie K. , Fey Paul D.
Published: February 2024

Genome sequencing has demonstrated that
Staphylococcus aureus
encodes arginine biosynthetic genes
argDCJBFGH
synthesizing proteins that mediate arginine biosynthesis using glutamate as a substrate. Paradoxically, however,
S. aureus
does not grow in a defined, glutamate-replete medium lacking arginine and glucose (CDM-R). Studies from our laboratory have found that specific mutations are selected by
S. aureus
that facilitate growth in CDM-R. However, these selected mutants synthesize arginine utilizing proline as a substrate rather than glutamate. In this study, we demonstrate that the ectopic expression of the
argDCJB
operon supports the growth of
S. aureus
in CDM-R, thus documenting the functionality of this pathway. Furthermore, suppressor mutants of
S. aureus
JE2
putA::Tn,
which is defective in synthesizing arginine from proline, were selected on CDM-R agar. Genome sequencing revealed that these mutants had compensatory mutations within both
spoVG
, encoding an ortholog of the
Bacillus subtilis
stage V sporulation protein, and
sarA,
encoding the staphylococcal accessory regulator. Transcriptional studies document that
argD
expression is significantly increased when JE2
spoVG sarA
was grown in CDM-R. Lastly, we found that a mutation in
ahrC
was required to induce
argD
expression in JE2
spoVG sarA
when grown in an arginine-replete medium (CDM), suggesting that AhrC also functions to repress
argDCJB
in an arginine-dependent manner. In conclusion, these data indicate that the
argDCJB
operon is functional when transcribed
in vitro
and that SNPs within potential putative regulatory proteins are required to alleviate the repression.

IMPORTANCE

Although
Staphylococcus aureus
has the capability to synthesize all 20 amino acids, it is phenotypically auxotrophic for several amino acids including arginine. This work identifies putative regulatory proteins, including SpoVG, SarA, and AhrC, that function to inhibit the arginine biosynthetic pathways using glutamate as a substrate. Understanding the ultimate mechanisms of why
S. aureus
is selected to repress arginine biosynthetic pathways even in the absence of arginine will add to the growing body of work assessing the interactions between metabolism and
S. aureus
pathogenesis.
Phospho-eIF4E stimulation regulates coronavirus entry by selective expression of cell membrane-residential factors
Authors: Zhang Xiu-Zhong , Wang Jing , Tian Wen-Jun , You Jing-Ling , Chi Xiao-Jing , Wang Xiao-Jia
Published: February 2024

The eukaryotic translation initiation factor eIF4E can regulate cellular translation via phosphorylation. In our previous study, several host factors susceptible to a high level of p-eIF4E were found to be conducive to viral infection by coronavirus PEDV. The current paper is focused on cell membrane-residential factors, which are involved in signal pathways that are sensitive to phosphorylated eIF4E. We found that the ERK-MNK pathway was activated, which resulted in the stimulation of phosphorylation of eIF4E in early PEDV infection. Phospho-eIF4E promoted the viral invasion of PEDV by upregulating the expression of host factors TSPAN3, CD63, and ITGB2 at the translation level rather than at the transcription level. Moreover, TSPAN3, CD63, or ITGB2 facilitates the efficient entry of coronavirus SARS-CoV, SARS-CoV-2, and HCoV-OC43. Our findings broaden our insights into the dynamic phosphorylation of eIF4E during the viral life cycle, and provide further evidence that phosphorylated eIF4E regulates selective translation of host mRNA.
Complete genome sequence of deformed wing virus and black queen cell virus isolated from honeybees (
Apis mellifera
) in Argentina
Authors: Gonzalez Fernanda N. , Ferrufino Cecilia , Dus Santos María José , Carignano Hugo A.
Published: February 2024

We report the complete genome sequence of deformed wing virus and black queen cell virus isolated from Argentinean’s honeybees. These sequence data will be valuable for future research on the viral variants present in the country and the development of strategies to control the spread of these viruses in apiaries.
Complete genome sequence of a Chinese
Pseudomonas syringae
pv.
actinidiae
strain Yunnan3.2
Authors: Yao Guanglu , Yang Fenghuan , Yu Chao , Wang Qin , Yang Yijuan , Chen Huamin
Published: February 2024

Here, we report the complete genome sequence for
Pseudomonas syringae
pv.
actinidiae
strain Yunnan3.2, which was isolated from diseased kiwifruit grown in Yunnan province, China. The complete genome of Yunnan3.2 comprises a 6,564,315-bp chromosome with a GC content of 58.41% and a circular plasmid (74,466 bp).
Astronomically forced paleoclimate and sea-level changes recorded in the continental margin of the South China Sea over the past ~23 m.y.
Authors: Wei Xiaosong , Yan Detian , Wang Danlei , Fu Haijiao
Published: February 2024

The Earth has witnessed the emergence of continental-sized ice sheets, starting with Antarctica and gradually extending to both hemispheres over the past 40 million years. These ice accumulations have had a dramatic impact on both paleoclimate and sea level, substantially influencing sediment deposition in the continental margins. However, understanding sediment accumulation on an orbital scale in continental margins remains limited because of the scarcity of high-resolution, chronologically constrained sedimentary records. Here, we conducted a highly resolved cyclostratigraphic analysis based on natural gamma radiation (GR) series in depth domain at the continental margin of the South China Sea. We established a 22.8 m.y.-long high-resolution astronomical time scale spanning from the Miocene to the Quaternary by tuning the GR records to the global deep-sea benthic foraminifera carbon isotope curves and the 405 k.y. eccentricity cycles. The m.y.-scale sea-level changes since the Miocene were reconstructed through the sedimentary noise modeling of the 405-k.y.-tuned GR series. These reconstructions aligned with regional and global sea-level changes. The phase correlation between the filtered 1.2 m.y. cycles of sea-level change curves (dynamic noise after orbital tuning and ρ1 median models) from δ13Cbenthic and tuned GR series and the 1.2 m.y. obliquity amplitude modulation cycles revealed a shift from an anti-phase to an in-phase relationship across the middle Miocene climate transition (ca. 13.8 Ma), suggesting extensive expansion of the Antarctic ice sheet played a key role. In addition, a shift from an in-phase to an anti-phase relationship during the late Miocene (ca. 8 Ma and 5.3 Ma), indicating ephemeral expansion of the Arctic ice sheets or the changes in carbon cycle involving the terrestrial and deep ocean carbon reservoirs, might be the primary driver of eustatic changes. Furthermore, obliquity forcing and changes in meridional gradients in insolation that transported poleward flux of heat, moisture, and precipitation increased ice accumulation in both pole ice sheets and nonlinearly transferred high-latitude signals to low-latitude regions. This phenomenon is supported by the observation of strong obliquity signals in low latitude during global climate cooling interval. Our results suggest that m.y.-scale sea-level variations respond to astronomically induced climate change and ice sheet dynamics of both poles. This work contributes a highly resolved low-latitude geological archive to the future reconstruction of paleoclimate evolution on a global scale.
Nannofossil imprints across the Paleocene–Eocene thermal maximum
Authors: Slater Sam M. , Bown Paul R. , Jardine Phillip E.
Published: February 2024

The Paleocene–Eocene thermal maximum (PETM; ca. 56 Ma) geological interval records a marked decline in calcium carbonate (CaCO3) in seafloor sediments, potentially reflecting an episode of deep- and possibly shallow-water ocean acidification. However, because CaCO3 is susceptible to postburial dissolution, the extent to which this process has influenced the PETM geological record remains uncertain. Here, we tested for evidence of postburial dissolution by searching for imprint fossils of nannoplankton preserved on organic matter. We studied a PETM succession from the South Dover Bridge (SDB) core, Maryland, eastern United States, and compared our imprint record with previously published data from traditionally sampled CaCO3-preserved nannoplankton body fossils. Abundant imprints through intervals devoid of CaCO3 would signify that postburial dissolution removed much of the CaCO3 from the rock record. Imprints were recorded from most samples but were rare and of low diversity. Body fossils were substantially more numerous and diverse, capturing a more complete record of the living nannoplankton communities through the PETM. The SDB succession records a dissolution zone/low-carbonate interval at the onset of the PETM, through which nannoplankton body fossils are rare. No nannoplankton imprints were found from this interval, suggesting that the rarity of body fossils is unlikely to have been the result of postburial dissolution. Instead, our findings suggest that declines in CaCO3 through the PETM at the SDB location were the result of: (1) biotic responses to changes that were happening during this event, and/or (2) CaCO3 dissolution that occurred before lithification (i.e., in the water column or at the seafloor).
Supplemental Material: Pliocene subsurface fluid flow driven by rapid erosional exhumation of the Colorado Plateau, southwestern USA
Authors: Bailey Lydia , al. et
Published: February 2024

Includes all calculations and parameters used in this study (mass balance calculations, groundwater transit times, methane required for bleaching, amount of methane exsolved), as well as sample locations. 
Buckle me up! A randomised controlled trial using a tablet-based emergency department intervention for child car safety education
Authors: Zhang Angela Yu , Leviter Julie , Baird Janette , Charles-Chauvet Danielle , Frackiewicz Laura M , Duffy Susan , Dessie Almaz
Published: February 2024

Background and objectives

Correct child car restraint use significantly reduces risk of death and serious injury in motor vehicle crashes, but millions of US children ride with improper restraints. We created a tablet-based car restraint educational intervention using Computer Intervention Authoring Software (CIAS) and examined its impact on knowledge and behaviours among parents in the paediatric emergency department (PED).

Methods

This was a non-blinded, randomised controlled trial of parents of PED patients ages 0–12 years. Participants were evaluated for baseline car restraint knowledge and behaviour. The intervention group completed an interactive tablet-based module, while the control group received printed handouts on car restraint safety. After 1 week, both groups received a follow-up survey assessing changes in car restraint knowledge and behaviour. Logistic regressions determined predictors of knowledge retention and behavioural changes. Parents in the CIAS group were also surveyed on programme acceptability.

Results

211 parents completed the study with follow-up data. There was no significant difference in baseline car restraint knowledge (74.3% correct in intervention, 61.8% in control, p=0.15), or increase in follow-up restraint knowledge. Significantly more intervention-group caregivers reported modifying their child’s car restraint at follow-up (52.5% vs 31.8%,p=0.003), and 93.7% of them found CIAS helpful in learning to improve car safety.

Conclusion

Parents had overall high levels of car restraint knowledge. Using CIAS led to positive behavioural changes regarding child car restraint safety, with the vast majority reporting positive attitudes towards CIAS. This novel, interactive, tablet-based tool is a useful PED intervention for behavioural change in parents.

Trial registration number

NCT03799393.
Helmet utilisation and its associated factors among motorcyclists in northern Ghana: an analytical cross-sectional survey
Authors: Adjei Benjamin Noble , Nakua Emmanuel Kweku , Donkor Peter , Gyaase Daniel , Alhassan Mohammed Muhib , Amissah John , Osei Bonsu Emmanuel , Enuameh Yeetey , Mock Charles N
Published: February 2024

Background

Motorcycle crashes are a major source of road traffic deaths in northern Ghana. Helmet use has been low. The last time it was formally assessed (2010), helmet use was 30.0% (34.2% for riders and 1.9% for pillion riders). We sought to determine the current prevalence of helmet use and its associated factors among motorcyclists in northern Ghana.

Methods

Cross-sectional observations of motorcycle helmet use were conducted among 3853 motorcycle riders and 1097 pillion riders in the Northern Region at 12 different locations near intersections, roundabouts and motorcycle bays. Modified Poisson regression was used to assess the factors associated with helmet use.

Results

The prevalence of helmet use was 22.1% overall: 26.7% among motorcycle riders and 5.7% among pillion riders. On the multivariable regression analysis, the prevalence of helmet use among motorcycle riders was 69% higher during the day compared with the night, 58% higher at weekend compared with weekday, 46% higher among males compared with females, but it was 18% lower on local roads compared with highways, 67% lower among young riders compared with the elderly and 29% lower when riding with pillion rider(s).

Conclusion

Despite small increases in motorcycle helmet use among pillion riders, helmet use has declined overall over the past decade. Immediate actions are needed to promote helmet use among motorcyclists in northern Ghana. This calls for a multisectoral approach to address the current low helmet use, targeting young riders, female riders, pillion riders, evening riding and riding on local roads.
Firearm manufacturing and imports in the USA and their association to firearm homicides in Central America and the Caribbean, 1991–2019
Authors: Weigend Vargas Eugenio , Hans Zainab , Wiebe Douglas J , Goldstick Jason E
Published: February 2024

Background

Firearm manufacturing and imports grew in the US during the mid-2000s. We hypothesise those increases corresponded to increased international firearms trafficking and in turn were associated with increases in firearm homicides abroad.

Methods

We used the Global Burden of Disease database to quantify annual firearm and non-firearm homicide rates in Central American and Caribbean countries, 1991–2019. We obtained US firearm manufacturing and import data from the Bureau of Alcohol, Tobacco, Firearms and Explosives. We used two-way fixed effects regressions to estimate within-country associations between homicide rates (firearm and non-firearm) and US firearm manufacturing and imports.

Findings

Firearm homicide rates in Central American and Caribbean countries increased from 8.38/100K population in 2004 to 17.55/100 K in 2012 and remained steady thereafter. Those surges coincided with increases in US firearm manufacturing/imports (from 4.99 million in 2004 to 13.12 million in 2012). Non-firearm homicides remained roughly constant from 1991 to 2019. Adjusted analysis showed that an annual increase of one million firearms manufactured/imported in the US corresponded to an annual increase of 1.42 (95% CI 0.62 to 2.21) firearm homicides per 100 K in Central American and Caribbean countries. The corresponding change for non-firearm homicides was −0.18 (95% CI −1.46 to 1.11). We found country-to-country variability in these effects.

Interpretation

Increases in US firearm manufacturing/imports were associated with increases in firearm homicide rates in Central American and Caribbean countries but not associated with non-firearm homicides. The specificity to firearm homicides suggests possible international repercussions of increased firearm manufacturing and imports in the US implications are discussed.
Parental education and occupation in relation to childhood type 1 diabetes: nationwide cohort study
Authors: Lopez-Doriga Ruiz Paz , Tapia German , Bakken Inger J. , Håberg Siri E. , Gulseth Hanne L , Skrivarhaug Torild , Joner Geir , Stene Lars C
Published: February 2024

Background

Socioeconomic status in the risk of developing type 1 diabetes seems inconsistent. We investigated whether risk of childhood-onset type 1 diabetes differed by parental education or occupation in a nationwide cohort.

Methods

This cohort study included all children born in Norway from 1974 to 2013. In individually linked data from nationwide population registries following children born in Norway up to 15 years of age, we identified 4647 with newly diagnosed type 1 diabetes during 15 381 923 person-years of follow-up.

Results

Children of mothers with a master’s degree had lower risk of type 1 diabetes than children of mothers with completed upper secondary education only (adjusted incidence rate ratio, aIRR=0.82 95% CI: 0.70 to 0.95). There was no difference between upper secondary and lower secondary maternal education (aIRR=0.98, 95% CI: 0.89 to 1.08). Paternal education was not significantly associated with type 1 diabetes, lower secondary compared with upper secondary aIRR 0.96 (0.88–1.05) and master compared with upper secondary aIRR 0.93 (0.83–1.05). While maternal elementary occupation was associated with a lower risk of type 1 diabetes, specific maternal or paternal occupations were not.

Conclusions

Our results suggested inverse U-shaped associations between maternal socioeconomic status and risk of type 1 diabetes. Non-linear associations may be part of the reason why previous literature has been inconsistent.
The Impact of Global Warming on Residential Air Conditioning Ownership and Usage in Mauritius, a Small Island Developing State
Authors: Kaudeer Bibi Najiah , Venkannah Santaram
Published: February 2024

Acknowledging the increasing demand for Air Conditioning (AC) usage, understanding how AC demand will evolve under the impact of climate change in the tropical island of Mauritius is very important. This paper presents the results of a survey focused on the AC usage patterns and adoption for Mauritius. The data are further used to develop a logit model to predict how AC ownership will change for 2050 and 2070 under Representative Concentration Pathway (RCP) 4.5 and 8.5. The model predicts that in 2070 under the worst-case scenario, RCP 8.5, 95% of the population will have 50% probability of owning an AC compared to 77% of the population presently. It was further estimated that 22% of the whole population will likely be operating their AC through the year. This paper points out the need for urgent strategies for promoting more sustainable cooling in Mauritius and the importance of further research on cooling options.
Transferring Causal Mechanism over Meta-representations for Target-Unknown Cross-domain Recommendation
Authors: Zhang Shengyu , Miao Qiaowei , Nie Ping , Li Mengze , Chen Zhengyu , Feng Fuli , Kuang Kun , Wu Fei
Published: February 2024

Tackling the pervasive issue of data sparsity in recommender systems, we present an insightful investigation into the burgeoning area of non-overlapping cross-domain recommendation, a technique that facilitates the transfer of interaction knowledge across domains without necessitating inter-domain user/item correspondence. Existing approaches have predominantly depended on auxiliary information, such as user reviews and item tags, to establish inter-domain connectivity, but these resources may become inaccessible due to privacy and commercial constraints.

To address these limitations, our study introduces an in-depth exploration of Target-unknown Cross-domain Recommendation (CDR), which contends with the distinct challenge of lacking target domain information during the training phase in the source domain. We illustrate two critical obstacles inherent to Target-unknown CDR: the lack of an inter-domain bridge due to insufficient user/item correspondence or side information and the potential pitfalls of source-domain training biases when confronting distribution shifts across domains. To surmount these obstacles, we propose the CMCDR framework, a novel approach that leverages causal mechanisms extracted from meta-user/item representations. The CMCDR framework employs a vector-quantized encoder–decoder architecture, enabling the disentanglement of user/item characteristics. We posit that domain-transferable knowledge is more readily discernible from user/item characteristics, i.e., the meta-representations, rather than raw users and items. Capitalizing on these meta-representations, our CMCDR framework adeptly incorporates an attention-driven predictor that approximates the front-door adjustment method grounded in causal theory. This cutting-edge strategy effectively mitigates source-domain training biases and enhances generalization capabilities against distribution shifts. Extensive experiments demonstrate the empirical effectiveness and the rationality of CMCDR for target-unknown cross-domain recommendation.
Succinonitrile-Lithium Salt Complexes as Solid Catholytes for LLZO-Based Solid-State Batteries
Authors: Go Wooseok , Tucker Michael C. , Doeff Marca M.
Published: February 2024

The thermal and electrochemical properties of several succinonitrile (SN)-based organic ionic plastic crystals (OIPCs) containing lithium bis(trifluoromethanesulfonyl)imide (LiTFSI), lithium bis(oxalate) borate (LiBOB) or mixtures of the two salts, were investigated with the goal of determining which is most promising for use as a catholyte in solid-state lithium batteries. The best combination of properties for this use was found for the mixture containing 3 mol% LiTFSI and 2 mol% LiBOB in SN. Based on these observations, several solid-state cells containing Al-substituted Li7La3Zr2O12 separators with composite cathodes consisting of LiNi0.33Mn0.33Co0.33O2 (NMC111), carbon black, and the succinonitrile-salt mixtures were assembled and cycled at room temperature, without exogenous pressure, using a simple design.
Utilizing data from the clinical pulmonary function laboratory to teach about respiratory physiology: illustrating airway-parenchymal interdependence
Authors: Till Sean , Kaminsky David A.
Published: February 2024

This report demonstrates how common data obtained from the clinical pulmonary function testing laboratory can be used to illustrate important principles of respiratory physiology. Here we show how the relationship between airway conductance and lung volume across different disease states reflects intrinsic differences in airway-parenchymal interdependence.
Strategies to mitigate acute kidney injury risk during physical work in the heat
Authors: Masoud Abdulaziz , McKenna Zachary J. , Li Zidong , Deyhle Michael R. , Mermier Christine M. , Schlader Zachary J. , Amorim Fabiano T.
Published: February 2024

Prolonged physical work in the heat can reduce renal function and increase the risk of acute kidney injury (AKI). This is concerning given that the latest climate change projections forecast a rise in global temperature as well as the frequency, intensity, and duration of heatwaves. This means that outdoor and indoor workers in the agriculture or construction industries will be exposed to higher heat stress in the years ahead. Several studies indicate a higher incidence of chronic kidney disease from nontraditional origins (CKDnt) in individuals exposed to high temperatures, intense physical work, and/or recurrent dehydration. It has been proposed that prolonged physical work in the heat accompanied by dehydration results in recurrent episodes of AKI that ultimately lead to permanent kidney damage and the development of CKDnt. Thus, there is a need to identify and test strategies that can alleviate AKI risk during physical work in the heat. The purpose of this review is to present strategies that might prevent and mitigate the risk of AKI induced by physical work in the heat.
Conservativeness Study on the Seismic Analysis Method for Research Reactor Plant Structure Based on TMSR‐LF1
Authors: Dai Rencong , Gong Wei , Wang Xiao , Wang Xiaoyan , Cui Decheng
Published: February 2024

The seismic performance analysis of research reactor plants is crucial for ensuring the safety of the entire reactor system. This paper analyzes the plant structure seismic performance of the 2WMt Thorium Molten Salt Reactor‐Liquid Fuel 1 (TMSR‐LF1) at the Shanghai Institute of Applied Physics, Chinese Academy of Sciences under the action of frequent earthquakes, fortification earthquakes, and rare earthquakes was analyzed by finite element software PKPM based on the seismic design method of civil code +1°. On this basis, a comparison was made between the seismic responses of structural pushover analysis and elastoplastic time history analysis under the action of rare earthquakes, and the conservatism of these two commonly used methods for elastoplastic analysis was systematically analyzed. The results indicate that the TMSR‐LF1 plant structure exhibits well bearing and deformation capacity. It meets the seismic design goal of “no damage under small earthquakes,” “no unrepairable damage under medium earthquakes,” and “no collapse under large earthquakes (using static pushover analysis),” and the critical regions are entirely within the elastic range. Furthermore, the analysis reveals that the elastoplastic time history analysis method produced a significantly higher seismic response than the pushover analysis method, which indicates the conservativeness of the time history method. Therefore, it is recommended to use the elastoplastic time history analysis method to evaluate the seismic performance of research reactor plants under rare earthquake actions. The research in this paper provides important references for the seismic performance analysis of other Class II research reactor plants.
Performance Characteristic of Permanent Magnet Linear Generator for Energy Conversion with Renewable Fuels on Free‐Piston Engines
Authors: Wei Yidi , Zuo Zhengxing , Jia Boru , Zhang Zhiyuan , Feng Huihua , Liang Kun
Published: February 2024

Renewable fuels attract more attention owing to reduction of both air pollution and greenhouse gas emissions compared to fossil fuels. The free‐piston engine generator is a new energy conversion with compact structure, multifuel combustion mode possibility, and less friction loss, and it can be applied to a variety of renewable fuels. This study investigated the effect of operating parameters on power generation and motion characteristics for free‐piston engine generator. A test bench and a detailed and validated numerical model of the free‐piston engine generator were presented. Results show that with the increase of the average velocity, the output power root mean square (RMS) and efficiency of the generator gradually increase. The output power RMS grows rapidly, whereas the generator efficiency gradually stabilizes. Under the same average velocity but different strokes and frequencies, the generator power and efficiency are the same. This result means that the multiple‐point operating condition can achieve the same output power and generator efficiency goals. Moreover, the optimal operating conditions can be selected comprehensively, considering factors such as fuel properties, combustion efficiency, and performance. The influence of the generator on motion characteristics of the system under pure resistive load and high‐frequency operation should be noted.
Ameliorative Effects of Different Dietary Levels of Fish Protein Hydrolysate (FPH) on Growth and Reproductive Performance, Feed Stability, Tissues Biochemical Composition, Haematobiochemical Profile, Liver Histology, and Economic Analysis of Pabda (Ompok pabda) Broodstock
Authors: Sezu Nahid Hasan , Nandi Shishir Kumar , Suma Afrina Yeasmin , Kari Zulhisyam Abdul , Wei Lee Seong , Seguin Paul , Herault Mikael , Hossain Md. Sakhawat , Khoo Martina Irwan , Eissa El-Sayed Hemdan , Kabir Muhammad Anamul
Published: February 2024

This study investigated the impacts of various inclusion levels of dietary potential of fish protein hydrolysate (FPH) on the growth and reproductive performance, biochemical composition, blood parameters, and liver histology of Ompok pabda broodstock. About 600 pabda broods (11.00 ± 0.05 g) were distributed into 12 cages and fed twice in a day. For this, four experimental diets (crude protein: 30%; crude lipid: 9%) were prepared by incorporating FPH at different percentages (0%, 5%, 7%, and 9%). The FPH positively impacted (p < 0.05) the durability index, water stability, and swelling rates of the experimental diets. Furthermore, significantly higher palatability (p < 0.05) was recorded for pabda diets incorporated with 5% and 7% FPH. After 90 days, the growth performance of pabda in final weight, live weight gain, total biomass, specific growth rate, hepatosomatic index, visceral somatic index, and nutrient utilization indices, feed conversion ratio and protein efficiency ratio, was significantly (p < 0.05) improved when fed with 7% FPH diet. Additionally, the ovipositor diameter (5.10 ± 0.05 mm), spawning response (98.48 ± 2.4%), fecundity (13.28 ± 0.23 × 104 eggs/kg), and egg fertilization rate (87.09% ± 0.14%) were significantly higher (p < 0.05) for the 7% FPH dietary group than other treatments. The fish group that received control diet experienced a marked (p < 0.05) reduction in egg hatching rates, coupled with longer ovulation period as compared to FPH‐treated groups. Dietary FPH inclusion at different levels also caused notable improvements (p < 0.05) in most hematological and serum biochemical indices of pabda broodfish. The 7% FPH group also exhibited enhanced liver health, characterized by superior nuclei, erythrocyte, and cytoplasmic structure and boosted the farm economics efficiency. In summary, 7% dietary FPH is suitable and beneficial for O. pabda broodstock development in captivity by improving growth and reproductive performance, overall health, and farm economics.
Microstructure in Adhesion Development Process and Strength Formation Mechanism in Early Stage of Cold Recycled Mixture with Emulsified Asphalt
Authors: Zhao Xueying , Ma Baofu
Published: February 2024

With the large‐scale maintenance and renovation of asphalt pavement, a considerable amount of reclaimed asphalt pavement (RAP) will be generated. Stacking these wastes occupies a large amount of land and seriously damages the ecological environment. Hence, efficient regeneration of RAP through recycling technology has gained more and more attention. In this paper, some topics were reviewed to further promote the cold recycling (CR) technology and better follow‐up the research progress. First, it discussed the raw materials and the differences and similarities between cement‐emulsified asphalt mortar (CEAM) and cold‐recycled mixtures with emulsified asphalt (CRME). Second, it reviewed the adhesion development of emulsified asphalt mastic, the application of X‐ray technology in microscopic study of CRME and the characteristic of strength development of CRME. The adhesion development of CRME begins with the process of demulsification and hydration caused by the migration and dissipation of water inside the emulsified asphalt mastic. In addition, many factors would influence this process simultaneously. However, the microbehavior mechanism of internal water transport in emulsified asphalt mortar has not yet been thoroughly revealed, and it lacked scientific measurement research on the promoting effect of complex conditions on the development of adhesive properties of mixtures. Therefore, in this paper, they were suggested for future research.
Supplementary Data from Targeting Tumor Heterogeneity with Neoantigen-Based Cancer Vaccines
Authors: Pounraj Saranya , Chen Shuxiong , Ma Linlin , Mazzieri Roberta , Dolcetti Riccardo , Rehm Bernd H.A.
Published: February 2024

Figure S1
Figure 2 from Deep Learning Enables Spatial Mapping of the Mosaic Microenvironment of Myeloma Bone Marrow Trephine Biopsies
Authors: Hagos Yeman Brhane , Lecat Catherine S.Y. , Patel Dominic , Mikolajczak Anna , Castillo Simon P. , Lyon Emma J. , Foster Kane , Tran Thien-An , Lee Lydia S.H. , Rodriguez-Justo Manuel , Yong Kwee L. , Yuan Yinyin
Published: February 2024

Computational methods for bone thickness analysis and cell infiltration patterns: A, Image analysis to estimate bone thickness (Supplementary Materials and Methods). Using the same BM sample image as Fig. 1A, the bone segmentation (ii) is an output of MoSaicNet (Supplementary Materials and Methods), and each bone is displayed in a different color. The color bar shows the pixel intensity of the image in iii and iv. The pixel intensity on the skeleton indicates half of the bone thickness (Supplementary Materials and Methods). B, Cell infiltration pattern analysis using NND and the null hypothesis of CSR (Supplementary Materials and Methods). Z < −1.96, Z > 1.96, and −1.96 ≤ Z ≤ 1.96 indicate a clustered, dispersed, and random distribution of observed cells, respectively. std, standard deviation; μ, mean NND of CSR.
Supplementary Figure 2 from A Multiethnic Germline–Somatic Association Database Deciphers Multilayered and Interconnected Genetic Mutations in Cancer
Authors: Xin Junyi , Mo Zongchao , Chai Ruichao , Hua Wei , Wang Jiguang
Published: February 2024

Supplementary Figure 2. Correlation between sample size and the number of somatic alteration-associated SNPs (P ≤ 0.001) across 33 cancer types among the three ancestry populations.
Supplementary Data from PRMT1 Inhibition Activates the Interferon Pathway to Potentiate Antitumor Immunity and Enhance Checkpoint Blockade Efficacy in Melanoma
Authors: Tao Hongru , Jin Chen , Zhou Liyuan , Deng Zhenzhong , Li Xiao , Dang Wenzhen , Fan Shijie , Li Bing , Ye Fei , Lu Junyan , Kong Xiangqian , Liu Chuanpeng , Luo Cheng , Zhang Yuanyuan
Published: February 2024

This file includes all supplemental data with figure legends.
Figure S4 from PTEN Lipid Phosphatase Activity Suppresses Melanoma Formation by Opposing an AKT/mTOR/FRA1 Signaling Axis
Authors: Xu Xiaonan , Bok Ilah , Jasani Neel , Wang Kaizhen , Chadourne Manon , Mecozzi Nicol , Deng Ou , Welsh Eric A. , Kinose Fumi , Rix Uwe , Karreth Florian A.
Published: February 2024

Figure S4
Supplementary Video S4 from Osteoclast Cancer Cell Metabolic Cross-talk Confers PARP Inhibitor Resistance in Bone Metastatic Breast Cancer
Authors: Fan Huijuan , Xu Zhanao , Yao Ke , Zheng Bingxin , Zhang Yuan , Wang Xuxiang , Zhang Tengjiang , Li Xuan , Hu Haitian , Yue Bin , Hu Zeping , Zheng Hanqiu
Published: February 2024

Supplementary Video S4 is related to Figure 5 (Olaparib + Zoledronate group).
Supplemental Table S2 from Osteoclast Cancer Cell Metabolic Cross-talk Confers PARP Inhibitor Resistance in Bone Metastatic Breast Cancer
Authors: Fan Huijuan , Xu Zhanao , Yao Ke , Zheng Bingxin , Zhang Yuan , Wang Xuxiang , Zhang Tengjiang , Li Xuan , Hu Haitian , Yue Bin , Hu Zeping , Zheng Hanqiu
Published: February 2024

Metabolomics of primary tumors vs bone metastasis
Supplementary Data from SUMOylation-Driven mRNA Circularization Enhances Translation and Promotes Lymphatic Metastasis of Bladder Cancer
Authors: Zhao Yue , Chen Jiancheng , Zheng Hanhao , Luo Yuming , An Mingjie , Lin Yan , Pang Mingrui , Li Yuanlong , Kong Yao , He Wang , Lin Tianxin , Chen Changhao
Published: February 2024

Figure S4
Supplementary Data from SUMOylation-Driven mRNA Circularization Enhances Translation and Promotes Lymphatic Metastasis of Bladder Cancer
Authors: Zhao Yue , Chen Jiancheng , Zheng Hanhao , Luo Yuming , An Mingjie , Lin Yan , Pang Mingrui , Li Yuanlong , Kong Yao , He Wang , Lin Tianxin , Chen Changhao
Published: February 2024

Figure S10
Supplementary Data from Neuronal Activity Promotes Glioma Progression by Inducing Proneural-to-Mesenchymal Transition in Glioma Stem Cells
Authors: Guo Xiaofan , Qiu Wei , Wang Chaochao , Qi Yanhua , Li Boyan , Wang Shaobo , Zhao Rongrong , Cheng Bo , Han Xiao , Du Hao , Gao Zijie , Pan Ziwen , Zhao Shulin , Li Gang , Xue Hao
Published: February 2024

Figure S10. A-NDEs promote the PMT and radioresistance of GSCs in vivo
Supplementary Data from Neuronal Activity Promotes Glioma Progression by Inducing Proneural-to-Mesenchymal Transition in Glioma Stem Cells
Authors: Guo Xiaofan , Qiu Wei , Wang Chaochao , Qi Yanhua , Li Boyan , Wang Shaobo , Zhao Rongrong , Cheng Bo , Han Xiao , Du Hao , Gao Zijie , Pan Ziwen , Zhao Shulin , Li Gang , Xue Hao
Published: February 2024

Figure S14. Inhibiting miR-184-3p blocked A-NDEs induced GSCs PMT and radioresistance
Supplementary Data from Neuronal Activity Promotes Glioma Progression by Inducing Proneural-to-Mesenchymal Transition in Glioma Stem Cells
Authors: Guo Xiaofan , Qiu Wei , Wang Chaochao , Qi Yanhua , Li Boyan , Wang Shaobo , Zhao Rongrong , Cheng Bo , Han Xiao , Du Hao , Gao Zijie , Pan Ziwen , Zhao Shulin , Li Gang , Xue Hao
Published: February 2024

Figure S15. Activated SH-SY5Y-derived neuronal exosomes promote GSC PMT
Supplementary Data from Neuronal Activity Promotes Glioma Progression by Inducing Proneural-to-Mesenchymal Transition in Glioma Stem Cells
Authors: Guo Xiaofan , Qiu Wei , Wang Chaochao , Qi Yanhua , Li Boyan , Wang Shaobo , Zhao Rongrong , Cheng Bo , Han Xiao , Du Hao , Gao Zijie , Pan Ziwen , Zhao Shulin , Li Gang , Xue Hao
Published: February 2024

Figure S18. DLG3 knockdown promote GSCs PMT
Supplementary Data from Neuronal Activity Promotes Glioma Progression by Inducing Proneural-to-Mesenchymal Transition in Glioma Stem Cells
Authors: Guo Xiaofan , Qiu Wei , Wang Chaochao , Qi Yanhua , Li Boyan , Wang Shaobo , Zhao Rongrong , Cheng Bo , Han Xiao , Du Hao , Gao Zijie , Pan Ziwen , Zhao Shulin , Li Gang , Xue Hao
Published: February 2024

Figure S20. Comparison between A-NDEs and TNF-α in inducing GSC PMT
Supplementary Data from Neuronal Activity Promotes Glioma Progression by Inducing Proneural-to-Mesenchymal Transition in Glioma Stem Cells
Authors: Guo Xiaofan , Qiu Wei , Wang Chaochao , Qi Yanhua , Li Boyan , Wang Shaobo , Zhao Rongrong , Cheng Bo , Han Xiao , Du Hao , Gao Zijie , Pan Ziwen , Zhao Shulin , Li Gang , Xue Hao
Published: February 2024

Figure S21. Levetiracetam impaired the activated-neuron induced GSCs PMT and
radioresistance
Data from Osimertinib Covalently Binds to CD34 and Eliminates Myeloid Leukemia Stem/Progenitor Cells
Authors: Xia Li , Liu Jie-Yang , Yang Meng-Ying , Zhang Xue-Hong , Jiang Yue , Yin Qian-Qian , Luo Chen-Hui , Liu Hong-Chen , Kang Zhi-Jie , Zhang Cheng-Tao , Gao Bei-Bei , Zhou Ai-Wu , Cai Hai-Yan , Waller Edmund K. , Yan Jin-Song , Lu Ying
Published: February 2024

Abstract
Osimertinib is a third-generation covalent EGFR inhibitor that is used in treating non–small cell lung cancer. First-generation EGFR inhibitors were found to elicit pro-differentiation effect on acute myeloid leukemia (AML) cells in preclinical studies, but clinical trials yielded mostly negative results. Here, we report that osimertinib selectively induced apoptosis of CD34+ leukemia stem/progenitor cells but not CD34− cells in EGFR-negative AML and chronic myeloid leukemia (CML). Covalent binding of osimertinib to CD34 at cysteines 199 and 177 and suppression of Src family kinases (SFK) and downstream STAT3 activation contributed to osimertinib-induced cell death. SFK and STAT3 inhibition induced synthetic lethality with osimertinib in primary CD34+ cells. CD34 expression was elevated in AML cells compared with their normal counterparts. Genomic, transcriptomic, and proteomic profiling identified mutation and gene expression signatures of patients with AML with high CD34 expression, and univariate and multivariate analyses indicated the adverse prognostic significance of high expression of CD34. Osimertinib treatment induced responses in AML patient-derived xenograft models that correlated with CD34 expression while sparing normal CD34+ cells. Clinical responses were observed in two patients with CD34high AML who were treated with osimertinib on a compassionate-use basis. These findings reveal the therapeutic potential of osimertinib for treating CD34high AML and CML and describe an EGFR-independent mechanism of osimertinib-induced cell death in myeloid leukemia.
Significance:
Osimertinib binds CD34 and selectively kills CD34+ leukemia cells to induce remission in preclinical models and patients with AML with a high percentage of CD34+ blasts, providing therapeutic options for myeloid leukemia patients.
Data from Targeting Tumor Heterogeneity with Neoantigen-Based Cancer Vaccines
Authors: Pounraj Saranya , Chen Shuxiong , Ma Linlin , Mazzieri Roberta , Dolcetti Riccardo , Rehm Bernd H.A.
Published: February 2024

Abstract
Neoantigen-based cancer vaccines have emerged as a promising immunotherapeutic approach to treat cancer. Nevertheless, the high degree of heterogeneity in tumors poses a significant hurdle for developing a vaccine that targets the therapeutically relevant neoantigens capable of effectively stimulating an immune response as each tumor contains numerous unique putative neoantigens. Understanding the complexities of tumor heterogeneity is crucial for the development of personalized neoantigen-based vaccines, which hold the potential to revolutionize cancer treatment and improve patient outcomes. In this review, we discuss recent advancements in the design of neoantigen-based cancer vaccines emphasizing the identification, validation, formulation, and targeting of neoantigens while addressing the challenges posed by tumor heterogeneity. The review highlights the application of cutting-edge approaches, such as single-cell sequencing and artificial intelligence to identify immunogenic neoantigens, while outlining current limitations and proposing future research directions to develop effective neoantigen-based vaccines.
Data from Serial Circulating Tumor DNA Analysis with a Tumor-Naïve Next-Generation Sequencing Panel Detects Minimal Residual Disease and Predicts Outcome in Ovarian Cancer
Authors: Heo Jinho , Kim Yoo-Na , Shin Saeam , Lee Kyunglim , Lee Ji-Hyun , Lee Yong Jae , Choi Zisun , Park Jihyang , Min Seungki , Kim Sang Wun , Choi Jong Rak , Kim Sunghoon , Lee Seung-Tae , Lee Jung-Yun
Published: February 2024

Abstract
Circulating tumor DNA (ctDNA) may aid in personalizing ovarian cancer therapeutic options. Here, we aimed to assess the clinical utility of serial ctDNA testing using tumor-naïve, small-sized next-generation sequencing (NGS) panels. A total of 296 patients, including 201 with ovarian cancer and 95 with benign or borderline disease, were enrolled. Samples were collected at baseline (initial diagnosis or surgery) and every 3 months after that, resulting in a total of 811 blood samples. Patients received adjuvant therapy based on the current standard of care. Cell-free DNA was extracted and sequenced using an NGS panel of 9 genes: TP53, BRCA1, BRCA2, ARID1A, CCNE1, KRAS, MYC, PIK3CA, and PTEN. Pathogenic somatic mutations were identified in 69.2% (139/201) of patients with ovarian cancer at baseline but not in those with benign or borderline disease. Detection of ctDNA at baseline and/or at 6 months follow-up was predictive of progression-free survival (PFS). PFS was significantly poorer in patients with detectable pathogenic mutations at baseline that persisted at follow-up than in patients that converted from having detectable ctDNA at baseline to being undetectable at follow-up; survival did not differ between patients without pathogenic ctDNA mutations in baseline or follow-up samples and those that converted from ctDNA positive to negative. Disease recurrence was also detected earlier with ctDNA than with conventional radiologic assessment or CA125 monitoring. These findings demonstrate that serial ctDNA testing could effectively monitor patients and detect minimal residual disease, facilitating early detection of disease progression and tailoring of adjuvant therapies for ovarian cancer treatment.
Significance:
In ovarian cancer, serial circulating tumor DNA testing is a highly predictive marker of patient survival, with a significantly improved recurrence detection lead time compared with conventional monitoring tools.
Supplementary Table 3 from Modulating Gut Microbiota Prevents Anastomotic Leak to Reduce Local Implantation and Dissemination of Colorectal Cancer Cells after Surgery
Authors: Hajjar Roy , Oliero Manon , Fragoso Gabriela , Ajayi Ayodeji Samuel , Alaoui Ahmed Amine , Vennin Rendos Hervé , Calvé Annie , Cuisiniere Thibault , Gerkins Claire , Thérien Sophie , Taleb Nassima , Dagbert François , Sebajang Herawaty , Loungnarath Rasmy , Schwenter Frank , Ratelle Richard , Wassef Ramses , De Broux Eric , Richard Carole , Santos Manuela M.
Published: February 2024

Supplementary Table 3. Composition of the diets.
Supplementary Figure 1 from Selective DNA-PK Inhibition Enhances Chemotherapy and Ionizing Radiation Activity in Soft-Tissue Sarcomas
Authors: Laroche-Clary Audrey , Josensi Coralie , Derieppe Marie-Alix , Belhomme Sarah , Vendrely Véronique , Perret Raul , Cadogan Elaine , Italiano Antoine
Published: February 2024

Supplementary Figure 1: Fa-LogCI plot for the 10 cell lines of STS
Supplementary Figure S1 from A Phase Ib First-In-Patient Study Assessing the Safety, Tolerability, Pharmacokinetics, and Pharmacodynamics of Ponsegromab in Participants with Cancer and Cachexia
Authors: Crawford Jeffrey , Calle Roberto A. , Collins Susie M. , Weng Yan , Lubaczewski Shannon L. , Buckeridge Clare , Wang Ellen Q. , Harrington Magdalena A. , Tarachandani Anil , Rossulek Michelle I. , Revkin James H.
Published: February 2024

Study design
Table S4 from Clinical and Immunologic Features of Germline Pathogenic Variant–Positive Patients with Melanoma
Authors: Shen Alan , Arbesman Michelle , Lodha Roshan , Rayman Patricia , Bungo Brandon , Ni Ying , Chan Timothy , Gastman Brian , Ko Jennifer , Diaz-Montero C. Marcela , Arbesman Joshua , Funchain Pauline
Published: February 2024

Cox proportional hazards analysis of MSS.
Figure S4 from Clinical and Immunologic Features of Germline Pathogenic Variant–Positive Patients with Melanoma
Authors: Shen Alan , Arbesman Michelle , Lodha Roshan , Rayman Patricia , Bungo Brandon , Ni Ying , Chan Timothy , Gastman Brian , Ko Jennifer , Diaz-Montero C. Marcela , Arbesman Joshua , Funchain Pauline
Published: February 2024

Hallmark and KEGG full gene set enrichment data in TCGA.
Supplemental Figure S3 from Aneuploidy Landscape in Precursors of Ovarian Cancer
Authors: Wang Yeh , Douville Christopher , Chien Yen-Wei , Wang Brant G. , Chen Chi-Long , Pinto Andre , Smith Saron Ann , Drapkin Ronny , Chui M. Herman , Numan Tricia , Vang Russell , Papadopoulos Nickolas , Wang Tian-Li , Shih Ie-Ming
Published: February 2024

Representative histology images of the lesions with discrepant pathology diagnosis and molecular classification.
Supplementary Table S1 from Phase I Study of Elraglusib (9-ING-41), a Glycogen Synthase Kinase-3β Inhibitor, as Monotherapy or Combined with Chemotherapy in Patients with Advanced Malignancies
Authors: Carneiro Benedito A. , Cavalcante Ludimila , Mahalingam Devalingam , Saeed Anwaar , Safran Howard , Ma Wen Wee , Coveler Andrew L. , Powell Steven , Bastos Bruno , Davis Elizabeth , Sahai Vaibhav , Mikrut William , Longstreth James , Smith Sheri , Weisskittel Taylor , Li Hu , Borden Brittany A. , Harvey R. Donald , Sahebjam Solmaz , Cervantes Andrés , Koukol Austin , Mazar Andrew P. , Steeghs Neeltje , Kurzrock Razelle , Giles Francis J. , Munster Pamela
Published: February 2024

Chemo regimens
Supplementary Figure S6 from Phase I Study of Elraglusib (9-ING-41), a Glycogen Synthase Kinase-3β Inhibitor, as Monotherapy or Combined with Chemotherapy in Patients with Advanced Malignancies
Authors: Carneiro Benedito A. , Cavalcante Ludimila , Mahalingam Devalingam , Saeed Anwaar , Safran Howard , Ma Wen Wee , Coveler Andrew L. , Powell Steven , Bastos Bruno , Davis Elizabeth , Sahai Vaibhav , Mikrut William , Longstreth James , Smith Sheri , Weisskittel Taylor , Li Hu , Borden Brittany A. , Harvey R. Donald , Sahebjam Solmaz , Cervantes Andrés , Koukol Austin , Mazar Andrew P. , Steeghs Neeltje , Kurzrock Razelle , Giles Francis J. , Munster Pamela
Published: February 2024

Plasma Elraglusib (9-ING-41) Concentrations 3.3 mg/kg Elraglusib plus a Lomustine Regimen