bluuebunny/crossref_metadata_2025 huggingface dataset:
A Comparative Analysis of Local and Systemic Immunological Biomarkers in Females With Breast Implants and Capsular Contracture
Authors: Spit Karlinde A , Azahaf Siham , de Blok Christel J M , Bachour Yara , Castricum Kitty C M , Thijssen Victor L J L , Oudejans Manon A H , Rustemeyer Thomas , Nanayakkara Prabath W B
Published: February 2024

Background

The etiology of capsular contracture (CC), the most common complication following breast augmentation, remains unclear. Chronic, fibrotic inflammation resulting in excessive fibrosis has been proposed as a potential mechanism.

Objectives

In this study, we aimed to investigate the relation between biomarkers that are associated with inflammation and fibrosis and the severity of CC.

Methods

Fifty healthy females were categorized into 3 groups: females with no-to-mild CC (Baker 1-2; n = 15), females with severe CC (Baker 3-4; n = 20), and a control group awaiting breast augmentation (n = 15). We assessed 5 biomarkers (galectin-1 [Gal-1], interferon-β [INF-β], interferon-γ [INF-γ], interleukin-6 [IL-6], and tumor necrosis factor-α [TNF-α]) in breast implant capsules and serum samples.

Results

No significant differences in intracapsular cytokine levels were observed between the Baker 1-2 and the Baker 3-4 groups, as the levels were generally low and, in some cases, almost undetectable. In the blood samples, no significant differences in Gal-1, INF-γ, IL-6, or TNF-α levels were found within the 3 groups. We identified significantly increased levels of INF-β (P = .009) in the blood samples of females with severe CC, driven mainly by 3 extremely high values.

Conclusions

The cytokines assessed in this study did not reflect the degree of CC among females with silicone breast implants. However, 3 females with severe CC, who all had prolonged silicone exposure, showed extremely elevated levels of INF-β in their serum samples. This possible association between prolonged silicone exposure and systemic inflammation in some females should be further investigated.

Level of Evidence: 3
ViTAL: Vision TrAnsformer based Low coverage SARS-CoV-2 lineage assignment
Authors: Jahshan Zuher , Yavits Leonid
Published: February 2024

Motivation

Rapid spread of viral diseases such as Coronavirus disease 2019 (COVID-19) highlights an urgent need for efficient surveillance of virus mutation and transmission dynamics, which requires fast, inexpensive and accurate viral lineage assignment. The first two goals might be achieved through low-coverage whole-genome sequencing (LC-WGS) which enables rapid genome sequencing at scale and at reduced costs. Unfortunately, LC-WGS significantly diminishes the genomic details, rendering accurate lineage assignment very challenging.

Results

We present ViTAL, a novel deep learning algorithm specifically designed to perform lineage assignment of low coverage-sequenced genomes. ViTAL utilizes a combination of MinHash for genomic feature extraction and Vision Transformer for fine-grain genome classification and lineage assignment. We show that ViTAL outperforms state-of-the-art tools across diverse coverage levels, reaching up to 87.7% lineage assignment accuracy at 1× coverage where state-of-the-art tools such as UShER and Kraken2 achieve the accuracy of 5.4% and 27.4% respectively. ViTAL achieves comparable accuracy results with up to 8× lower coverage than state-of-the-art tools. We explore ViTAL’s ability to identify the lineages of novel genomes, i.e. genomes the Vision Transformer was not trained on. We show how ViTAL can be applied to preliminary phylogenetic placement of novel variants.

Availability and implementation

The data underlying this article are available in https://github.com/zuherJahshan/vital and can be accessed with 10.5281/zenodo.10688110.
Selection among site-dependent structurally constrained substitution models of protein evolution by approximate Bayesian computation
Authors: Ferreiro David , Branco Catarina , Arenas Miguel
Published: February 2024

Motivation

The selection among substitution models of molecular evolution is fundamental for obtaining accurate phylogenetic inferences. At the protein level, evolutionary analyses are traditionally based on empirical substitution models but these models make unrealistic assumptions and are being surpassed by structurally constrained substitution (SCS) models. The SCS models often consider site-dependent evolution, a process that provides realism but complicates their implementation into likelihood functions that are commonly used for substitution model selection.

Results

We present a method to perform selection among site-dependent SCS models, also among empirical and site-dependent SCS models, based on the approximate Bayesian computation (ABC) approach and its implementation into the computational framework ProteinModelerABC. The framework implements ABC with and without regression adjustments and includes diverse empirical and site-dependent SCS models of protein evolution. Using extensive simulated data, we found that it provides selection among SCS and empirical models with acceptable accuracy. As illustrative examples, we applied the framework to analyze a variety of protein families observing that SCS models fit them better than the corresponding best-fitting empirical substitution models.

Availability and implementation

ProteinModelerABC is freely available from https://github.com/DavidFerreiro/ProteinModelerABC, can run in parallel and includes a graphical user interface. The framework is distributed with detailed documentation and ready-to-use examples.
Development of a highly sensitive TaqMan method based on multi-probe strategy: its application in ASFV detection
Authors: Ding Shuxiang , Shen Tianren , Feng Zixuan , Diao Sujing , Yan Yan , Du Zhenkun , Jin Yulan , Gu Jinyan , Zhou Jiyong , Liao Min , Dong Weiren
Published: February 2024

The establishment of high sensitive detection method for various pathogenic microorganisms remains constantly concerned. In the present study, multi-probe strategy was first systematically investigated followed by establishing a highly sensitive TaqMan real-time fluorescent quantitative PCR (qPCR) method for detecting African swine fever virus (ASFV). Briefly, four probes based on the B646L gene of ASFV were designed and the effects of different combinations of the probes in a single TaqMan qPCR assay on the detection sensitivity were investigated. As less as 0.5-5 copies/μl of the ASFV gene was detected by the established TaqMan qPCR assay. Furthermore, plasmid harboring the B646L in water samples could be concentrated 1000 times by ultrafiltration to enable a highly sensitive detection of trace viral nucleic acids. Moreover, no cross-reactivity was observed with other common clinical swine viruses such as PCV2, PCV3, PCV4, PEDV, PDCoV, CSFV, PRRSV, and PRV. When detecting 173 clinical porcine serum samples, the coincidence rate between the developed method and WOAH (World Organization of Animal Health) recommended method was 100%. This study might provide an integrated strategy to achieve higher detection sensitivity of trace pathogenic microorganisms and applicably sensitive TaqMan-based qPCR assays.
The dosimetric parameters impact on local recurrence in stereotactic radiotherapy for brain metastases
Authors: Berthet Camille , Lucia François , Bourbonne Vincent , Schick Ulrike , Lecouillard Isabelle , Le Deroff Coralie , Barateau Anais , de Crevoisier Renaud , Castelli Joel
Published: February 2024

Objectives

Stereotactic radiotherapy (SRT) for brain metastases (BM) allows very good local control (LC). However, approximately 20%-30% of these lesions will recur. The objective of this retrospective study was to evaluate the impact of dosimetric parameters on LC in cerebral SRT.

Methods

Patients treated with SRT for 1-3 BM between January 2015 and December 2018 were retrospectively included. A total of 349 patients with 538 lesions were included. The median gross tumour volume (GTV) was 2 cm3 (IQR, 0-7). The median biological effective dose with α/β = 10 (BED10) was 60 Gy (IQR, 32-82). The median prescription isodose was 71% (IQR, 70-80). Correlations with LC were examined using the Cox regression model.

Results

The median follow-up period was 55 months (min-max, 7-85). Median overall survival was 17.8 months (IQR, 15.2-21.9). There were 95 recurrences and LC at 1 and 2 years was 87.1% (95% CI, 84-90) and 78.1% (95% CI, 73.9-82.4), respectively. Univariate analysis showed that systemic treatment, dose to 2% and 50% of the planning target volume (PTV), BED10 > 50 Gy, and low PTV and GTV volume were significantly correlated with better LC. In the multivariate analysis, GTV volume, isodose, and BED10 were significantly associated with LC.

Conclusion

These results show the importance of a BED10 > 50 Gy associated with a prescription isodose <80% to optimize LC during SRT for BM.

Advances in knowledge

Isodose, BED, and GTV volume were significantly associated with LC. A low isodose improves LC without increasing the risk of radionecrosis.
Dietary phytoestrogen intake and ovarian cancer risk: a prospective study in the prostate, lung, colorectal and ovarian (PLCO) cohort
Authors: Song Yizuo , Huang Huijun , Jin Mingmin , Cheng Binwei , Wang Shanshan , Yang Xinjun , Hu Xiaoli
Published: February 2024

Estrogen plays a crucial role in ovarian tumorigenesis. Phytoestrogens (PEs) are a type of daily dietary nutrient for humans and possess a mild estrogenic characteristic. This study aimed to assess the correlation of the consumption of dietary PEs with ovarian cancer risk using data in the prostate, lung, colorectal and ovarian (PLCO) cancer screening trial. Participants were enrolled in PLCO from 1993 to 2001. Hazard ratios (HR) and 95% confidence intervals (CI) were utilized to determine the association between the intake of PEs and ovarian cancer occurrence, which were calculated by the Cox proportional hazards regression analysis. In total, 24 875 participants were identified upon completion of the initial dietary questionnaire (DQX). Furthermore, the analysis also included a total of 45 472 women who filled out the diet history questionnaire (DHQ). Overall, after adjustment for confounders, the dietary intake of total PEs was significantly associated with the risk of ovarian cancer in the DHQ group (HRQ4vsQ1 = 0.69, 95% CI: 0.50–0.95; P for trend = 0.066). Especially, individuals who consumed the highest quartile of isoflavones were found to have a decreased risk of ovarian cancer in the DHQ group (HRQ4vsQ1 = 0.68, 95% CI: 0.50–0.94; P for trend = 0.032). However, no such significant associations were observed for the DQX group. In summary, this study suggests that increased dietary intake of total PEs especially isoflavones was linked with a lower risk for developing ovarian cancer. More research is necessary to validate the findings and explore the potential mechanisms.
The barriers to sustainable risk transfer in the cyber-insurance market
Authors: Skeoch Henry R K , Ioannidis Christos
Published: February 2024

Efficient risk transfer is an important condition for ensuring the sustainability of a market according to the established economics literature. In an inefficient market, significant financial imbalances may develop and potentially jeopardize the solvency of some market participants. The constantly evolving nature of cyber-threats and lack of public data sharing mean that the economic conditions required for quoted cyber-insurance premiums to be considered efficient are highly unlikely to be met. This paper develops Monte Carlo simulations of an artificial cyber-insurance market and compares the efficient and inefficient outcomes based on the informational setup between the market participants. The existence of diverse loss distributions is justified by the dynamic nature of cyber-threats and the absence of any reliable and centralized incident reporting. It is shown that the limited involvement of reinsurers when loss expectations are not shared leads to increased premiums and lower overall capacity. This suggests that the sustainability of the cyber-insurance market requires both better data sharing and external sources of risk tolerant capital.
Automated vessel-specific coronary artery calcification quantification with deep learning in a large multi-centre registry
Authors: Williams Michelle C , Shanbhag Aakash D , Zhou Jianhang , Michalowska Anna M , Lemley Mark , Miller Robert J H , Killekar Aditya , Waechter Parker , Gransar Heidi , Van Kriekinge Serge D , Builoff Valerie , Feher Attila , Miller Edward J , Bateman Timothy , Dey Damini , Berman Daniel , Slomka Piotr J
Published: February 2024

Aims

Vessel-specific coronary artery calcification (CAC) is additive to global CAC for prognostic assessment. We assessed accuracy and prognostic implications of vessel-specific automated deep learning (DL) CAC analysis on electrocardiogram (ECG) gated and attenuation correction (AC) computed tomography (CT) in a large multi-centre registry.

Methods and results

Vessel-specific CAC was assessed in the left main/left anterior descending (LM/LAD), left circumflex (LCX), and right coronary artery (RCA) using a DL model trained on 3000 gated CT and tested on 2094 gated CT and 5969 non-gated AC CT. Vessel-specific agreement was assessed with linear weighted Cohen’s Kappa for CAC zero, 1–100, 101–400, and >400 Agatston units (AU). Risk of major adverse cardiovascular events (MACE) was assessed during 2.4 ± 1.4 years follow-up, with hazard ratios (HR) and 95% confidence intervals (CI). There was strong to excellent agreement between DL and expert ground truth for CAC in LM/LAD, LCX and RCA on gated CT [0.90 (95% CI 0.89 to 0.92); 0.70 (0.68 to 0.73); 0.79 (0.77 to 0.81)] and AC CT [0.78 (0.77 to 0.80); 0.60 (0.58 to 0.62); 0.70 (0.68 to 0.71)]. MACE occurred in 242 (12%) undergoing gated CT and 841(14%) of undergoing AC CT. LM/LAD CAC >400 AU was associated with the highest risk of MACE on gated (HR 12.0, 95% CI 7.96, 18.0, P < 0.001) and AC CT (HR 4.21, 95% CI 3.48, 5.08, P < 0.001).

Conclusion

Vessel-specific CAC assessment with DL can be performed accurately and rapidly on gated CT and AC CT and provides important prognostic information.
A modified approach to percutaneous ultrasound-guided left stellate ganglion block for drug-refractory electrical storm: a case report
Authors: De Giorgi Francesco , Scaramuzzo Gaetano , Bertini Matteo , Malagù Michele
Published: February 2024

Background

The use of percutaneous stellate ganglion block (SGB) in the management of drug-refractory electrical storm (ES) has been increasingly reported in the last years. Few data are available on the safety, duration, and dosage of local anaesthetic used.

Case summary

A 66-year-old male patient with a history of ischaemic cardiomyopathy and an implantable cardioverter–defibrillator (ICD) presented to the emergency room complaining several ventricular arrhythmias and ICD shocks received in the last 24 h. He was treated with many lines of anti-arrhythmic drugs but his condition deteriorated with cardiovascular instability and respiratory distress, so he was intubated. The ES still worsened (82 episodes of ventricular arrhythmias), so we performed an ultrasound-guided left SGB, using a modified technique, with success in suppressing the ventricular arrhythmias. The patient was then treated with electrophysiological study and catheter ablation.

Discussion

The ultrasound approach to SGB is feasible in emergency setting, and it is safe and effective also using a modified and easier technique in patient with difficult sonographic visualization of the neck structures. Moreover, it is possible and safe to use a combination of short-acting rapid-onset local anaesthetic with a long-lasting one with a good outcome.
Scar architecture affects the electrophysiological characteristics of induced ventricular arrhythmias in hypertrophic cardiomyopathy
Authors: Francia Pietro , Falasconi Giulio , Penela Diego , Viveros Daniel , Alderete José , Saglietto Andrea , Bellido Aldo Francisco , Martí-Almor Julio , Franco-Ocaña Paula , Soto-Iglesias David , Zaraket Fatima , Turturiello Dario , Berruezo Antonio
Published: February 2024

Aims

Late gadolinium enhancement cardiac magnetic resonance (LGE-CMR) detects myocardial scarring, a risk factor for ventricular arrhythmias (VAs) in hypertrophic cardiomyopathy (HCM). The LGE-CMR distinguishes core, borderzone (BZ) fibrosis, and BZ channels, crucial components of re-entry circuits. We studied how scar architecture affects inducibility and electrophysiological traits of VA in HCM.

Methods and results

We correlated scar composition with programmed ventricular stimulation-inducible VA features using LGE intensity maps. Thirty consecutive patients were enrolled. Thirteen (43%) were non-inducible, 6 (20%) had inducible non-sustained, and 11 (37%) had inducible sustained mono (MMVT)- or polymorphic VT/VF (PVT/VF). Of 17 induced VA, 13 (76%) were MMVT that either ended spontaneously, persisted as sustained monomorphic, or degenerated into PVT/VF. Twenty-seven patients (90%) had LGE. Of these, 17 (57%) had non-sustained or sustained inducible VA. Scar mass significantly increased (P = 0.002) from non-inducible to inducible non-sustained and sustained VA patients in both the BZ and core components. Borderzone channels were found in 23%, 67%, and 91% of non-inducible, inducible non-sustained, and inducible sustained VA patients (P = 0.003). All 13 patients induced with MMVT or monomorphic-initiated PVT/VF had LGE. The origin of 10/13 of these VTs matched scar location, with 8/10 of these LGE regions showing BZ channels. During follow-up (20 months, interquartile range: 7–37), one patient with BZ channels and inducible PVT had an ICD shock for VF.

Conclusion

Scar architecture determines inducibility and electrophysiological traits of VA in HCM. Larger studies should explore the role of complex LGE patterns in refining risk assessment in HCM patients.
Duration of residence and offspring birth weight among foreign-born mothers in Spain: a cross-sectional study
Authors: Dello Iacono Chiara , Juárez Sol P , Stanek Mikolaj
Published: February 2024

Background

Duration of residence has been used to monitor changes in the health of a foreign-born population in a destination country. This study assesses whether the mother’s duration of residence influences the relationship between maternal origin and birth weight.

Methods

We conducted a cross-sectional study using Spanish census microdata (2011) linked to Vital Statistics (2011–15). Linear and multinomial logistic regression models were used to estimate birth weight differences between children born to foreign-born mothers by duration of residence and those born to natives. Maternal countries of origin were classified according to the Human Development Index (HDI).

Results

Our findings revealed significant differences in birth weight of 109 683 births from both foreign- and native-born mothers. Overall, in descriptive statistics, compared with Spanish mothers, foreign-born mothers gave birth more frequently to high-birth weight (HBW) newborns (8.4% vs. 5.3%, respectively) and less frequently to low-birth weight (LBW) newborns (4.8% vs. 5.1%). According to the model’s estimations, the risk of giving birth to HBW babies remains relatively high in foreign-born mothers. Especially, mothers from very high-HDI countries experienced changes in the RRR of HBW (1.59–1.28) and LBW (0.58–0.89) after spending over 10 years in Spain.

Conclusions

Foreign-born mothers residing in Spain are at increased risk of delivering a HBW child regardless of their duration of residence. In fact, given the long-term health consequences associated with HBW, our results highlight the need to improve prenatal care in the foreign-born population.
The missing fraction problem as an episodes of selection problem
Authors: Mittell Elizabeth A , Morrissey Michael B
Published: February 2024

In evolutionary quantitative genetics, the missing fraction problem refers to a specific kind of bias in parameters estimated later in life that occurs when nonrandom subsets of phenotypes are missing from the population due to prior viability selection on correlated traits. The missing fraction problem thus arises when the following hold: (a) viability selection and (b) correlation between later-life traits and traits important for early-life survival. Although it is plausible that these conditions are widespread in wild populations, this problem has received little empirical attention. This may be natural: the problem could appear intractable, given that it is impossible to measure phenotypes of individuals that have previously died. However, it is not impossible to correctly measure lifetime selection, or correctly predict evolutionary trajectories, of later-life traits in the presence of the missing fraction. Two basic strategies are available. First, given phenotypic data on selected early life traits, well established but underused episodes of selection theory can yield correct values of evolutionary parameters throughout life. Second, when traits subjected to early-life viability selection are not known and/or measured, it is possible to use the genetic association of later-life traits with early-life viability to correctly infer important information about the consequences of prior viability selection for later-life traits. By carefully reviewing the basic nature of the missing fraction problem, and describing the tractable solutions to the problem, we hope that future studies will be able to be better designed to cope with the (likely pervasive) consequences of early-life viability selection.
From individual leaves to forest stands: importance of niche, distance decay, and stochasticity vary by ecosystem type and functional group for fungal community composition
Authors: Gacura Matthew D , Zak Donald R , Blackwood Christopher B
Published: February 2024

Community assembly is influenced by environmental niche processes as well as stochastic processes that can be spatially dependent (e.g. dispersal limitation) or independent (e.g. priority effects). Here, we sampled senesced tree leaves as unit habitats to investigate fungal community assembly at two spatial scales: (i) small neighborhoods of overlapping leaves from differing tree species and (ii) forest stands of differing ecosystem types. Among forest stands, ecosystem type explained the most variation in community composition. Among adjacent leaves within stands, variability in fungal composition was surprisingly high. Leaf type was more important in stands with high soil fertility and dominated by differing tree mycorrhizal types (sugar maple vs. basswood or red oak), whereas distance decay was more important in oak-dominated forest stands with low soil fertility. Abundance of functional groups was explained by environmental factors, but predictors of taxonomic composition within differing functional groups were highly variable. These results suggest that fungal community assembly processes are clearest for functional group abundances and large spatial scales. Understanding fungal community assembly at smaller spatial scales will benefit from further study focusing on differences in drivers for different ecosystems and functional groups, as well as the importance of spatially independent factors such as priority effects.
Depression, Vascular Burden, and Dementia Prevalence in Late Middle-Aged and Older Black Adults
Authors: Levy Shellie-Anne , Misiura Maria B , Grant Jeremy G , Adrien Tamare V , Taiwo Zinat , Armstrong Rebecca , Dotson Vonetta M
Published: February 2024

Objectives

Late-life depression and white matter hyperintensities (WMH) have been linked to increased dementia risk. However, there is a dearth of literature examining these relationships in Black adults. We investigated whether depression or WMH volume are associated with a higher likelihood of dementia diagnosis in a sample of late middle-aged to older Black adults, and whether dementia prevalence is highest in individuals with both depression and higher WMH volume.

Methods

Secondary data analysis involved 443 Black participants aged 55+ with brain imaging within 1 year of baseline visit in the National Alzheimer’s Coordinating Center Uniform Data Set. Chi-square analyses and logistic regression models controlling for demographic variables examined whether active depression in the past 2 years, WMH volume, or their combination were associated with higher odds of all-cause dementia.

Results

Depression and higher WMH volume were associated with a higher prevalence of dementia. These associations remained after controlling for demographic factors, as well as vascular disease burden. Dementia risk was highest in the depression/high WMH volume group compared to the depression-only group, high WMH volume-only group, and the no depression/low WMH volume group. Post hoc analyses comparing the Black sample to a demographically matched non-Hispanic White sample showed associations of depression and the combination of depression and higher WMH burden with dementia were greater in Black compared to non-Hispanic White individuals.

Discussion

Results suggest late-life depression and WMH have independent and joint relationships with dementia and that Black individuals may be particularly at risk due to these factors.
Loneliness Trajectories Predict Risks of Cardiovascular Diseases in Chinese Middle-Aged and Older Adults
Authors: Huang Yan , Zhu Xinyi , Liu Xiaomei , Li Juan
Published: February 2024

Objectives

Loneliness is considered a risk factor for cardiovascular diseases (CVD), but related evidence is mixed. Examining trajectories of loneliness over time, as compared to the assessment of loneliness at a single time point, can be useful to better understand the risks for CVD. The present study aimed to examine loneliness trajectories and their impacts on CVD in Chinese middle-aged and older adults.

Methods

The sample included 9,235 adults aged 45 years and older from 4 waves of the China Health and Retirement Longitudinal Survey from 2011 to 2018. Loneliness was assessed by a single-item question with a 4-point scale. CVD events were measured by self-reports of heart diseases and strokes in 2018.

Results

Group-based trajectory modeling showed that 3 loneliness trajectories emerged: stable low, moderate increasing, and high increasing loneliness. Binary logistic regression showed that loneliness trajectories were significantly associated with the risk of having CVD after controlling for all covariates. Specifically, compared to the group with stable low loneliness, people with moderate increasing loneliness had a higher risk of having stroke, and people with high increasing loneliness had higher risks of having both heart diseases and stroke. In contrast, loneliness at a single time point was not independently associated with the risk of having CVD.

Discussion

The present study identified groups of people vulnerable to CVD from the perspective of social connections in terms of loneliness trajectories. Middle-aged and older adults showing increasing loneliness may need social and emotional support to protect their cardiovascular health.
EAGS: efficient and adaptive Gaussian smoothing applied to high-resolved spatial transcriptomics
Authors: Lv Tongxuan , Zhang Ying , Li Mei , Kang Qiang , Fang Shuangsang , Zhang Yong , Brix Susanne , Xu Xun
Published: February 2024

Background

The emergence of high-resolved spatial transcriptomics (ST) has facilitated the research of novel methods to investigate biological development, organism growth, and other complex biological processes. However, high-resolved and whole transcriptomics ST datasets require customized imputation methods to improve the signal-to-noise ratio and the data quality.

Findings

We propose an efficient and adaptive Gaussian smoothing (EAGS) imputation method for high-resolved ST. The adaptive 2-factor smoothing of EAGS creates patterns based on the spatial and expression information of the cells, creates adaptive weights for the smoothing of cells in the same pattern, and then utilizes the weights to restore the gene expression profiles. We assessed the performance and efficiency of EAGS using simulated and high-resolved ST datasets of mouse brain and olfactory bulb.

Conclusions

Compared with other competitive methods, EAGS shows higher clustering accuracy, better biological interpretations, and significantly reduced computational consumption.
Characterization of Spodoptera littoralis (Lepidoptera: Noctuidae) resistance to indoxacarb: inheritance mode, realized heritability, and fitness costs
Authors: Mokbel El-Sayed M S , Moustafa Moataz A M , Alfuhaid Nawal Abdulaziz , Fouad Eman A
Published: February 2024

Spodoptera littoralis (Boisd.) (Lepidoptera: Noctuidae) is a major economic pest attacking a variety of crops in Egypt and other Mediterranean countries. S. littoralis has developed resistance to both traditional and novel insecticides. The current study investigated S. littoralis resistance to indoxacarb regarding inheritance mode, realized heritability (h2), and fitness costs. An indoxacarb-resistant strain (Indoxa-SEL) was obtained by selecting a field strain with indoxacarb. Indoxa-SEL strain outperformed the susceptible one (Indoxa-S) by 29.77-fold after 16 consecutive generations of selection. Based on the LC50 values of the progenies of reciprocal crosses F1 (R♂ × S♀) and F1ʹ (R♀ × S♂), S. littoralis resistance to indoxacarb was found to be autosomal and partially recessive. Chi-square tests for goodness-of-fit between observed and expected mortalities of self-bred F1 and resistant strain reciprocal crosses revealed that the resistance was controlled by multiple genes. The resistant strain had a relative fitness of 0.80, with significantly increased total preovipositional period of females, egg, larvae, pupae, preadult, adult, and total longevity period. The estimated realized heritability value in the Indoxa-SEL strain was 0.21. The current study will contribute to sustaining indoxacarb efficacy and designing effective resistance management programs against S. littoralis.
Summer habitat for the female Tricolored Bat (Perimyotis subflavus) in Tennessee, United States
Authors: Cable Ashleigh B , Willcox Emma V
Published: February 2024

The Tricolored Bat is an imperiled species due to white-nose syndrome. There is limited information available on roosting and foraging area use of the species to support planning and management efforts to benefit recovery in the Southeastern United States. Female tricolored bats exit hibernation and allocate energy toward disease recovery, migration, and reproduction. Providing and managing for summer habitat is 1 strategy to promote recovery. We sought to: (1) determine local- and landscape-scale factors that influence female Tricolored Bat roost selection; (2) quantify land cover use in core and overall foraging areas; and (3) define foraging area size and distances traveled by female tricolored bats in Tennessee. Bats in this study roosted in trees of variable sizes, in multiple tree species with large canopy volumes, and almost always roosted in trees with dead leaf foliage suspended in the canopy. Forest plots used by bats had trees averaging 30 cm diameter at breast height, basal areas averaging 27 m2/ha, contained multiple tree species, and comprised around a 50:50 ratio of canopy and subcanopy trees. Bats did not roost in coniferous forest areas and were only located in deciduous and mixed forest areas. Bats foraged near and directly over water, in open areas, and along forest edges. This study increases our knowledge on habitat requirements of the species in a temperate region dominated by unfragmented forests and many large water bodies and serves a baseline for management and efforts to benefit survival, reproduction, and population recovery.
Increasing diversity in clinical trials: demographic trends at the National Cancer Institute, 2005-2020
Authors: Choradia Nirmal , Karzai Fatima , Nipp Ryan , Naqash Abdul Rafeh , Gulley James L , Floudas Charalampos S
Published: February 2024

Background

We described participant demographics for National Cancer Institute (NCI) clinical trials at the clinical center (NCI-CC participants) of the National Institutes of Health to identify enrollment disparities.

Methods

We analyzed NCI-CC data from 2005 to 2020, calculated enrollment fractions, compared with the US cancer population represented by the Surveillance, Epidemiology, and End Results cancer incidence data (2018) and the Cancer in North America database (2018), and compared further with clinical trial disparities data from the NCI Community Oncology Research Program and National Clinical Trials Network (2005-2019), and from ClinicalTrials.gov (2003-2016).

Results

NCI-CC (38 531 participants) had higher enrollment fractions for older adults (8.5%), male (5.6%), non-Hispanic (5.1%), and Black or African American (5.3%) participants; lower women proportion across race and ethnicity; and fewer female sex-specific cancer (6.8%) than male sex-specific cancer (11.7%) participants. NCI-CC had lower median age than Surveillance, Epidemiology, and End Results (54.0 vs 65.4); more Black or African American participants (12.0% vs 11.1%); and fewer women (41.7% vs 49.5%), White (76.1% vs 80.5%), Asian or Pacific Islander (4.6% vs 6.0%), American Indian or Alaska Native (0.3% vs 0.5%), and Hispanic participants (7.1% vs 13%). NCI-CC had more Black or African American and Asian or Pacific Islander participants; fewer Hispanic participants than the NCI Community Oncology Research Program and National Clinical Trials Network; more Black or African American and Hispanic participants; fewer Asian or Pacific Islander participants than ClinicalTrials.gov data. Improvement was noted for NCI-CC (older adults, Black or African American, Asian or Pacific Islander, Hispanic participants).

Conclusion

We found lower representation of older adults, women, Asian or Pacific Islander, American Indian or Alaska Native, and Hispanic participants vs the US cancer population and higher representation of Black or African American vs US cancer population and oncology clinical trials. Multifaceted efforts are underway to reduce disparities in cancer clinical trials at the NCI-CC.
A ‘traumatic’ mechanical small bowel obstruction after blunt pelvic trauma
Authors: Kecman Sarah , Schindera Sebastian , Hartel Mark , Gräfitsch Alexander
Published: February 2024

Traumatic abdominal wall hernia (TAWH) is a rare form of herniation caused by blunt trauma that can lead to intestinal obstruction. This report details a rare case of delayed mechanical ileus resulting from TAWH due to an acetabular fracture. The patient was successfully treated with laparoscopic closure of the peritoneal orifice, followed by orthopaedic repair of the fracture. The presented scenario underlines the importance of timely diagnosis and interdisciplinary collaboration in addressing complex TAWH cases.
Irenaeus’ Theology in Second-Century Platonism and Christianity
Authors: McCashen Grayden
Published: February 2024

As scholars have come to appreciate Irenaeus’ use of philosophy, emphasis has fallen on his use of pre-Socratic traditions. This emphasis stands in stark contrast to the typical emphasis scholars place on Platonic themes in second-century Christian theologies. This article argues that Platonic resources, the definition of God as simple and incomposite, the Platonic viae, and reasoning from ‘oneness’ to ‘unlimitedness’, play a key role in Irenaeus’ theology, governing his interpretation of pre-Socratic materials, including Irenaeus’ version of the well-known Xenophanes quotation (fr. 24) and materials Irenaeus apparently draws from Pseudo-Aristotle’s On Melissus, Xenophanes, and Gorgias. Irenaeus, furthermore, draws a logical connection between God’s simplicity and the doctrine that there is one God to the exclusion of others, as he says, thereby pressing Platonic doctrine into the service of his distinctly Christian theological convictions. The upshot of all this is a deeper appreciation first for the sophistication of Irenaeus’ own theology, and second for Irenaeus’ role in engaging and advancing Christian philosophical theology.
Cool Gaseous Exoplanets: surveying the new frontier with Twinkle
Authors: Booth Luke , Sarkar Subhajit , Griffin Matt , Edwards Billy
Published: February 2024

Cool gaseous exoplanets (1.75 R⊕ < Rp < 3 RJ, 200 K <Teq  < 1000 K) are an as-yet understudied population, with great potential to expand our understanding of planetary atmospheres and formation mechanisms. In this paper, we outline the basis for a homogeneous survey of cool gaseous planets with Twinkle, a 0.45-m diameter space telescope with simultaneous spectral coverage from 0.5–4.5 μm, set to launch in 2025. We find that Twinkle has the potential to characterise the atmospheres of 36 known cool gaseous exoplanets (11 sub-Neptunian, 11 Neptunian, 14 Jovian) at an SNR ≥ 5 during its 3-yr primary mission, with the capability of detecting most major molecules predicted by equilibrium chemistry to >5σ significance. We find that an injected mass–metallicity trend is well recovered, demonstrating Twinkle’s ability to elucidate this fundamental relationship into the cool regime. We also find that Twinkle will be able to detect cloud layers at 3σ or greater in all cool gaseous planets for clouds at ≤10 Pa pressure level, but will be insensitive to clouds deeper than 104 Pa in all cases. With these results, we demonstrate the capability of the Twinkle mission to greatly expand the current knowledge of cool gaseous planets, enabling key insights and constraints to be obtained for this poorly charted region of exoplanet parameter space.
TIaRA TESS 1: estimating exoplanet yields from Years 1 and 3 SPOC light curves
Authors: Rodel Toby , Bayliss Daniel , Gill Samuel , Hawthorn Faith
Published: February 2024

We present a study of the detection efficiency for the TESS mission, focusing on the yield of longer period transiting exoplanets (P > 25 d). We created the Transit Investigation and Recoverability Application (TIaRA) pipeline to use real TESS data with injected transits to create sensitivity maps which we combine with occurrence rates derived from Kepler. This allows us to predict longer period exoplanet yields, which will help design follow-up photometric and spectroscopic programs, such as the NGTS (Next Generation Transit Survey) Monotransit Program. For the TESS Years 1 and 3 SPOC (Science Processing Operations Centre) FFI (Full Frame Image) light curves, we find $2271^{+241}_{-138}$ exoplanets should be detectable around AFGKM dwarf host stars. We find $215^{+37}_{-23}$ exoplanets should be detected from single-transit events or ‘monotransits’. An additional $113^{+22}_{-13}$ detections should result from ‘biennial duotransit’ events with one transit in Year 1 and a second in Year 3. We also find that K dwarf stars yield the most detections by TESS per star observed. When comparing our results to the TOI (TESS objects of interest) catalogue, we find our predictions agree within 1σ of the number of discovered systems with periods between 0.78 and 6.25 d and agree to 2σ for periods between 6.25 and 25 d. Beyond periods of 25 d, we predict $403^{+64}_{-38}$ detections, which is three times as many detections as there are in the TOI catalogue with >3σ confidence. This indicates a significant number of long-period planets yet to be discovered from TESS data as monotransits or biennial duotransits.
A High-Quality Blue Whale Genome, Segmental Duplications, and Historical Demography
Authors: Bukhman Yury V , Morin Phillip A , Meyer Susanne , Chu Li-Fang , Jacobsen Jeff K , Antosiewicz-Bourget Jessica , Mamott Daniel , Gonzales Maylie , Argus Cara , Bolin Jennifer , Berres Mark E , Fedrigo Olivier , Steill John , Swanson Scott A , Jiang Peng , Rhie Arang , Formenti Giulio , Phillippy Adam M , Harris Robert S , Wood Jonathan M D , Howe Kerstin , Kirilenko Bogdan M , Munegowda Chetan , Hiller Michael , Jain Aashish , Kihara Daisuke , Johnston J Spencer , Ionkov Alexander , Raja Kalpana , Toh Huishi , Lang Aimee , Wolf Magnus , Jarvis Erich D , Thomson James A , Chaisson Mark J P , Stewart Ron
Published: February 2024

The blue whale, Balaenoptera musculus, is the largest animal known to have ever existed, making it an important case study in longevity and resistance to cancer. To further this and other blue whale-related research, we report a reference-quality, long-read-based genome assembly of this fascinating species. We assembled the genome from PacBio long reads and utilized Illumina/10×, optical maps, and Hi-C data for scaffolding, polishing, and manual curation. We also provided long read RNA-seq data to facilitate the annotation of the assembly by NCBI and Ensembl. Additionally, we annotated both haplotypes using TOGA and measured the genome size by flow cytometry. We then compared the blue whale genome with other cetaceans and artiodactyls, including vaquita (Phocoena sinus), the world's smallest cetacean, to investigate blue whale's unique biological traits. We found a dramatic amplification of several genes in the blue whale genome resulting from a recent burst in segmental duplications, though the possible connection between this amplification and giant body size requires further study. We also discovered sites in the insulin-like growth factor-1 gene correlated with body size in cetaceans. Finally, using our assembly to examine the heterozygosity and historical demography of Pacific and Atlantic blue whale populations, we found that the genomes of both populations are highly heterozygous and that their genetic isolation dates to the last interglacial period. Taken together, these results indicate how a high-quality, annotated blue whale genome will serve as an important resource for biology, evolution, and conservation research.
Maternal nitric oxide homeostasis impacts female gametophyte development under optimal and stress conditions
Authors: Wang Junzhe , Guo Xiaolong , Chen Yijin , Liu Tianxiang , Zhu Jianchu , Xu Shengbao , Vierling Elizabeth
Published: February 2024

In adverse environments, the number of fertilizable female gametophytes (FGs) in plants is reduced, leading to increased survival of the remaining offspring. How the maternal plant perceives internal growth cues and external stress conditions to alter FG development remains largely unknown. We report that homeostasis of the stress signaling molecule nitric oxide (NO) plays a key role in controlling FG development under both optimal and stress conditions. NO homeostasis is precisely regulated by S-nitrosoglutathione reductase (GSNOR). Prior to fertilization, GSNOR protein is exclusively accumulated in sporophytic tissues and indirectly controls FG development in Arabidopsis (Arabidopsis thaliana). In GSNOR null mutants, NO species accumulated in the degenerating sporophytic nucellus, and auxin efflux into the developing FG was restricted, which inhibited FG development, resulting in reduced fertility. Importantly, restoring GSNOR expression in maternal, but not gametophytic tissues, or increasing auxin efflux substrate significantly increased the proportion of normal FGs and fertility. Furthermore, GSNOR overexpression or added auxin efflux substrate increased fertility under drought and salt stress. These data indicate that NO homeostasis is critical to normal auxin transport and maternal control of FG development, which in turn determine seed yield. Understanding this aspect of fertility control could contribute to mediating yield loss under adverse conditions.
Robust Implementation with Costly Information
Authors: Pei Harry , Strulovici Bruno
Published: February 2024

We construct mechanisms that can robustly implement any desired social choice function when (1) agents may incur a cost to learn the state of the world, (2) with small probability, agents’ preferences can be arbitrarily different from some baseline known to the mechanism designer, and (3) the mechanism designer does not know agents’ beliefs and higher-order beliefs about one another’s preferences. The mechanisms we propose have a natural interpretation and do not require the mechanism designer to be able to verify the state ex post. We also establish impossibility results for stronger notions of robust implementation.
HucMSCs Delay Muscle Atrophy After Peripheral Nerve Injury Through Exosomes by Repressing Muscle-Specific Ubiquitin Ligases
Authors: Chen Jian , Zhu Yaqiong , Gao Hui , Chen Xianghui , Yi Dan , Li MoLin , Wang Li , Xing Guanhui , Chen Siming , Tang Jie , Wang Yuexiang
Published: February 2024

Cell therapy based on mesenchymal stem cells (MSCs) alleviate muscle atrophy caused by diabetes and aging; however, the impact of human umbilical cord mesenchymal stem cells on muscle atrophy following nerve injury and the underlying mechanisms remain unclear. In this study, we evaluated the therapeutic efficacy of human umbilical cord MSCs (hucMSCs) and hucMSC-derived exosomes (hucMSC-EXOs) for muscle atrophy following nerve injury and identified the underlying molecular mechanisms. Sciatic nerve crush injury in rats and the induction of myotubes in L6 cells were used to determine the ameliorating effect of hucMSCs and hucMSC-EXOs on muscle atrophy. Q-PCR and Western blot analyses were used to measure the expression of muscle-specific ubiquitin ligases Fbxo32 (Atrogin1, MAFbx) and Trim63 (MuRF-1). Dual-luciferase reporter gene experiments were conducted to validate the direct binding of miRNAs to their target genes. Local injection of hucMSCs and hucMSC-EXOs mitigated atrophy in the rat gastrocnemius muscle following sciatic nerve crush injury. In vitro, hucMSC-EXOs alleviated atrophy in L6 myotubes. Mechanistic analysis indicated the upregulation of miR-23b-3p levels in L6 myotubes following hucMSC-EXOs treatment. MiR-23b-3p significantly inhibited the expression of its target genes, Fbxo32 and Trim63, and suppressed myotube atrophy. Notably, an miR-23b-3p inhibitor reversed the inhibitory effect of miR-23b-3p on myotube atrophy in vitro. These results suggest that hucMSCs and their exosomes alleviate muscle atrophy following nerve injury. MiR-23b-3p in exosomes secreted by hucMSCs contributes to this mechanism by inhibiting the muscle-specific ubiquitination ligases Fbxo32 and Trim63.