bluuebunny/crossref_metadata_2025 huggingface dataset:
RT-PCR-based assessment of the SD Bioline Rota/Adeno Antigen-based test in infants with and without diarrhea
Authors: Manouana Gédéon Prince , Nguema-Moure Paul Alvyn , Tomazatos Alexandru , Maloum Moustapha Nzamba , Bock C.-Thomas , Kremsner Peter G. , Velavan Thirumalaisamy P. , Adegnika Akim Ayola , Niendorf Sandra
Published: March 2023

Background

Rotavirus A (RVA) infections remain a major cause of severe acute diarrhea affecting children worldwide. To date, rapid diagnostic tests (RDT) are widely used to detect RVA. However, paediatricians question whether the RDT can still detect the virus accurately. Therefore, this study aimed to evaluate the performance of the rapid rotavirus test in comparison to the one-step RT-qPCR method.

Methods

A cross-sectional study was conducted in Lambaréné, Gabon, from April 2018 to November 2019. Stool samples were collected from children under 5 years of age with diarrhoea or a history of diarrhoea within the last 24 h, and from asymptomatic children from the same communities. All stool samples were processed and analysed using the SD BIOLINE Rota/Adeno Ag RDT against a quantitative reverse transcription PCR (RT-qPCR), which is considered the gold standard.

Results

For a total of 218 collected stool samples, the overall sensitivity of the RDT was 46.46% (confidence interval (CI) 36.38–56.77), with a specificity of 96.64% (CI 91.62–99.08) compared to one-step RT-qPCR. After confirming the presence or absence of RVA gastroenteritis, the RDT showed suitable results in detecting rotavirus A-associated disease, with a 91% concordance with the RT-qPCR. Furthermore, the performance of this test varied when correlated with seasonality, symptoms, and rotavirus genotype.

Conclusion

This RDT showed high sensitivity and was suitable for the detection of RVA in patients with RVA gastroenteritis, although some asymptomatic RVA shedding was missed by RT-qPCR. It could be a useful diagnostic tool, especially in low-income countries.
CeDAR: incorporating cell type hierarchy improves cell type-specific differential analyses in bulk omics data
Authors: Chen Luxiao , Li Ziyi , Wu Hao
Published: March 2023

Bulk high-throughput omics data contain signals from a mixture of cell types. Recent developments of deconvolution methods facilitate cell type-specific inferences from bulk data. Our real data exploration suggests that differential expression or methylation status is often correlated among cell types. Based on this observation, we develop a novel statistical method named CeDAR to incorporate the cell type hierarchy in cell type-specific differential analyses of bulk data. Extensive simulation and real data analyses demonstrate that this approach significantly improves the accuracy and power in detecting cell type-specific differential signals compared with existing methods, especially in low-abundance cell types.
Challenges and opportunities for conducting pre-hospital trauma trials: a behavioural investigation
Authors: Lawrie Louisa , Duncan Eilidh M. , Lendrum Robert , Lebrec Victoria , Gillies Katie
Published: March 2023

Background

Trials in pre-hospital trauma care are relatively uncommon. There are logistical and methodological challenges related to designing and delivering trials in this setting. Previous studies have assessed challenges reported in individual trials rather than across the pre-hospital trial landscape to identify over-arching factors. The aim of this study was to investigate the challenges and opportunities related to the set-up, design and conduct of pre-hospital trauma trials from across the pre-hospital trial landscape and a specific pre-hospital trauma feasibility study.

Methods

Semi-structured interviews were conducted with two cohorts of participants: research personnel who had experience of pre-hospital trials, either through direct involvement in conduct or through strategic oversight of national initiatives (n = 7), and clinical staff (n = 16) involved in recruitment to a pre-hospital trauma feasibility study. Thematic analyses were used to assess the barriers and enablers of conducting pre-hospital trauma trials. Two frameworks (The Capability Opportunity Motivation—Behaviour and the Theoretical Domains Framework) were used to guide analyses.

Results

The barriers and enablers reported were relevant to several TDF domains and COM-B components. Across both cohorts, challenges associated with opportunities were reported and included the lack of research experience amongst pre-hospital staff, team dynamics within a rotating shift schedule, and the involvement of external organisations with diverse institutional priorities and infrastructures (e.g. Air Ambulances). The infrequency of eligible cases was also reported to affect the trial design, set-up, and conduct. Other barriers reported related to clinical equipoise amongst staff and institutional pressures, which affected motivation.

Conclusions

This study has highlighted that pre-hospital trials face many context-specific but also generic challenges. Pre-hospital trauma trial teams could consider the findings to develop targeted, behaviourally focused, solutions to the challenges identified in order to enhance the set-up and conduct of trials in this setting.

Trial registration

NCT04145271. Trial registration date: October 30, 2019. Note that this paper does not report results from a specific trial but does include participants who were involved in the conduct of a registered pre-hospital feasibility study.
Development of environmental loop-mediated isothermal amplification (eLAMP) diagnostic tool for Bulinus truncatus field detection
Authors: Blin Manon , Senghor Bruno , Boissier Jérôme , Mulero Stephen , Rey Olivier , Portela Julien
Published: March 2023

Background

Global changes are reshaping the distribution of vector-borne diseases by spreading vectors to previously non-endemic areas. Since 2013, urogenital schistosomiasis has emerged in Corsica and threatens European countries. Gastropod vectors release schistosome larvae that can infect humans who come into contact with freshwater bodies. Monitoring schistosomiasis host vectors is a prerequisite to understand and subsequently to control this pathogen transmission. Because malacological surveys are time consuming and require special expertise, the use of a simple molecular method is desirable.

Methods

The aim of this study is to develop a ready-to-use protocol using the LAMP (loop-mediated isothermal amplification) method to detect environmental DNA of Bulinus truncatus, vector of Schistosoma haematobium. Interestingly, LAMP method possesses all the characteristics required for adaptability to field conditions particularly in low-income countries: speed, simplicity, lyophilized reagents, low cost and robustness against DNA amplification inhibitors. We have tested this new method on Corsican water samples previously analysed by qPCR and ddPCR.

Results

We demonstrate that our diagnostic tool B. truncatus eLAMP (Bt-eLAMP) can detect the eDNA of Bulinus truncatus as effectively as the two other methods. Bt-eLAMP can even detect 1/4 of positive samples not detectable by qPCR. Moreover, the complete Bt-eLAMP protocol (sampling, sample pre-process, amplification and revelation) does not require sophisticated equipment and can be done in 1 ½ h.

Conclusions

LAMP detection of environmental DNA provides large-scale sensitive surveillance of urogenital schistosomiasis possible by identifying potentially threatened areas. More generally, eLAMP method has great potential in vector-borne diseases and ecology.

Graphical Abstract
Cerebrospinal fluid biomarkers of axonal and synaptic degeneration in a population-based sample
Authors: Arvidsson Rådestig Maya , Skoog Ingmar , Skillbäck Tobias , Zetterberg Henrik , Kern Jürgen , Zettergren Anna , Andreasson Ulf , Wetterberg Hanna , Kern Silke , Blennow Kaj
Published: March 2023

Background

Neurofilament light (NfL) and neurogranin (Ng) are promising candidate AD biomarkers, reflecting axonal and synaptic damage, respectively. Since there is a need to understand the synaptic and axonal damage in preclinical Alzheimer’s disease (AD), we aimed to determine the cerebrospinal fluid (CSF) levels of NfL and Ng in cognitively unimpaired elderly from the Gothenburg H70 Birth Cohort Studies classified according to the amyloid/tau/neurodegeneration (A/T/N) system.

Methods

The sample consisted of 258 cognitively unimpaired older adults (age 70, 129 women and 129 men) from the Gothenburg Birth Cohort Studies. We compared CSF NfL and Ng concentrations in A/T/N groups using Student’s T-test and ANCOVA.

Results

CSF NfL concentration was higher in the A−T−N+ group (p=0.001) and the A−T+N+ group (p=0.006) compared with A−T−N−. CSF Ng concentration was higher in the A−T−N+, A−T+N+, A+T−N+, and A+T+N+ groups (p<0.0001) compared with A−T−N−. We found no difference in NfL or Ng concentration in A+ compared with A− (disregarding T− and N− status), whereas those with N+ had higher concentrations of NfL and Ng compared with N− (p<0.0001) (disregarding A− and T− status).

Conclusions

CSF NfL and Ng concentrations are increased in cognitively normal older adults with biomarker evidence of tau pathology and neurodegeneration.
Engineering a modular 44Ti/44Sc generator: eluate evaluation in preclinical models and estimation of human radiation dosimetry
Authors: Benabdallah Nadia , Zhang Hanwen , Unnerstall Ryan , Fears Amanda , Summer Lucy , Fassbender Michael , Rodgers Buck E. , Abou Diane , Radchenko Valery , Thorek Daniel L. J.
Published: March 2023

Background

44Sc/47Sc is an attractive theranostic pair for targeted in vivo positron emission tomographic (PET) imaging and beta-particle treatment of cancer. The 44Ti/44Sc generator allows daily onsite production of this diagnostic isotope, which may provide an attractive alternative for PET facilities that lack in-house irradiation capabilities. Early animal and patient studies have demonstrated the utility of 44Sc. In our current study, we built and evaluated a novel clinical-scale 44Ti/44Sc generator, explored the pharmacokinetic profiles of 44ScCl3, [44Sc]-citrate and [44Sc]-NODAGA (1,4,7-triazacyclononane,1-glutaric acid-4,7-acetic acid) in naïve mice, and estimated the radiation burden of 44ScCl3 in humans.

Methods

44Ti/44Sc (101.2 MBq) in 6 M HCl solution was utilized to assemble a modular ZR resin containing generator. After assembly, 44Sc was eluted with 0.05 M HCl for further PET imaging and biodistribution studies in female Swiss Webster mice. Based on the biodistribution data, absorbed doses of 44/47ScCl3 in human adults were calculated for 18 organs and tissues using the IDAC-Dose software.

Results

44Ti in 6 M HCl was loaded onto the organic resin generator with a yield of 99.97%. After loading and initial stabilization, 44ScCl3 was eluted with 0.05 M HCl in typical yields of 82.9 ± 5.3% (N = 16), which was normalized to the estimated generator capacity. Estimated generator capacity was computed based on elution time interval and the total amount of 44Ti loaded on the generator. Run in forward and reverse directions, the 44Sc/44Ti ratio from a primary column was significantly improved from 1038 ± 440 to 3557 ± 680 (Bq/Bq) when a secondary, replaceable, ZR resin cartridge was employed at the flow outlet. In vivo imaging and ex vivo distribution studies of the reversible modular generator for 44ScCl3, [44Sc]-citrate and [44Sc]-NODAGA show that free 44Sc remained in the circulation significantly longer than the chelated 44Sc. The dose estimation of 44ScCl3 reveals that the radiation burden is 0.146 mSv/MBq for a 70 kg adult male and 0.179 mSv/MBq for a 57 kg adult female. Liver, spleen and heart wall will receive the highest absorbed dose: 0.524, 0.502, and 0.303 mGy/MBq, respectively, for the adult male.

Conclusions

A clinical-scale 44Ti/44Sc generator system with a modular design was developed to supply 44ScCl3 in 0.05 M HCl, which is suitable for further radiolabeling and in vivo use. Our data demonstrated that free 44ScCl3 remained in the circulation for extended periods, which resulted in approximately 10 times greater radiation burden than stably chelated 44Sc. Stable 44Sc/47Sc-complexation will be more favorable for in vivo use and for clinical utility.
Identification and verification of feature biomarkers associated with immune cells in neonatal sepsis
Authors: Liao Weiqiang , Xiao Huimin , He Jinning , Huang Lili , Liao Yanxia , Qin Jiaohong , Yang Qiuping , Qu Liuhong , Ma Fei , Li Sitao
Published: March 2023

Background

Neonatal sepsis (NS), a life-threatening condition, is characterized by organ dysfunction and is the most common cause of neonatal death. However, the pathogenesis of NS is unclear and the clinical inflammatory markers currently used are not ideal for diagnosis of NS. Thus, exploring the link between immune responses in NS pathogenesis, elucidating the molecular mechanisms involved, and identifying potential therapeutic targets is of great significance in clinical practice. Herein, our study aimed to explore immune-related genes in NS and identify potential diagnostic biomarkers. Datasets for patients with NS and healthy controls were downloaded from the GEO database; GSE69686 and GSE25504 were used as the analysis and validation datasets, respectively. Differentially expressed genes (DEGs) were identified and Gene Set Enrichment Analysis (GSEA) was performed to determine their biological functions. Composition of immune cells was determined and immune-related genes (IRGs) between the two clusters were identified and their metabolic pathways were determined. Key genes with correlation coefficient > 0.5 and p < 0.05 were selected as screening biomarkers. Logistic regression models were constructed based on the selected biomarkers, and the diagnostic models were validated.

Results

Fifty-two DEGs were identified, and GSEA indicated involvement in acute inflammatory response, bacterial detection, and regulation of macrophage activation. Most infiltrating immune cells, including activated CD8 + T cells, were significantly different in patients with NS compared to the healthy controls. Fifty-four IRGs were identified, and GSEA indicated involvement in immune response and macrophage activation and regulation of T cell activation. Diagnostic models of DEGs containing five genes (PROS1, TDRD9, RETN, LOC728401, and METTL7B) and IRG with one gene (NSUN7) constructed using LASSO algorithm were validated using the GPL6947 and GPL13667 subset datasets, respectively. The IRG model outperformed the DEG model. Additionally, statistical analysis suggested that risk scores may be related to gestational age and birth weight, regardless of sex.

Conclusions

We identified six IRGs as potential diagnostic biomarkers for NS and developed diagnostic models for NS. Our findings provide a new perspective for future research on NS pathogenesis.
Integration of omics studies indicates that species-dependent molecular mechanisms govern male fertility
Authors: Park Yoo-Jin , Pang Won-Ki , Pang Myung-Geol
Published: March 2023

Background

Comparative and comprehensive omics studies have recently been conducted to provide a comprehensive understanding of the biological mechanisms underlying infertility. However, because these huge omics datasets often contain irrelevant information, editing strategies for summarizing and filtering the data are necessary prerequisite steps for identifying biomarkers of male fertility. Here, we attempted to integrate omics data from spermatozoa with normal and below-normal fertility from boars and bulls, including transcriptomic, proteomic, and metabolomic data. Pathway enrichment analysis was conducted and visualized using g:Profiler, Cytoscape, EnrichmentMap, and AutoAnnotation to determine fertility-related biological functions according to species.

Results

In particular, gamete production and protein biogenesis-associated pathways were enriched in bull spermatozoa with below-normal fertility, whereas mitochondrial-associated metabolic pathways were enriched in boar spermatozoa with normal fertility. These results indicate that below-normal fertility may be determined by aberrant regulation of protein synthesis during spermatogenesis, and the modulation of reactive oxygen species generation to maintain capacitation and the acrosome reaction governs boar sperm fertility.

Conclusion

Overall, this approach demonstrated that distinct molecular pathways drive sperm fertility in mammals in a species-dependent manner. Moreover, we anticipate that searching for species-specific signaling pathways may aid in the discovery of fertility-related biomarkers within large omics datasets.
Gut microbiome is linked to functions of peripheral immune cells in transition cows during excessive lipolysis
Authors: Gu Fengfei , Zhu Senlin , Tang Yifan , Liu Xiaohan , Jia Minghui , Malmuthuge Nilusha , Valencak Teresa G. , McFadden Joseph W. , Liu Jian-Xin , Sun Hui-Zeng
Published: March 2023

Background

Postpartum dairy cows experiencing excessive lipolysis are prone to severe immunosuppression. Despite the extensive understanding of the gut microbial regulation of host immunity and metabolism, its role during excessive lipolysis in cows is largely unknown. Herein, we investigated the potential links between the gut microbiome and postpartum immunosuppression in periparturient dairy cows with excessive lipolysis using single immune cell transcriptome, 16S amplicon sequencing, metagenomics, and targeted metabolomics.

Results

The use of single-cell RNA sequencing identified 26 clusters that were annotated to 10 different immune cell types. Enrichment of functions of these clusters revealed a downregulation of functions in immune cells isolated from a cow with excessive lipolysis compared to a cow with low/normal lipolysis. The results of metagenomic sequencing and targeted metabolome analysis together revealed that secondary bile acid (SBA) biosynthesis was significantly activated in the cows with excessive lipolysis. Moreover, the relative abundance of gut Bacteroides sp. OF04 − 15BH, Paraprevotella clara, Paraprevotella xylaniphila, and Treponema sp. JC4 was mainly associated with SBA synthesis. The use of an integrated analysis showed that the reduction of plasma glycolithocholic acid and taurolithocholic acid could contribute to the immunosuppression of monocytes (CD14+MON) during excessive lipolysis by decreasing the expression of GPBAR1.

Conclusions

Our results suggest that alterations in the gut microbiota and their functions related to SBA synthesis suppressed the functions of monocytes during excessive lipolysis in transition dairy cows. Therefore, we concluded that altered microbial SBA synthesis during excessive lipolysis could lead to postpartum immunosuppression in transition cows.
JAK inhibition ameliorates bone destruction by simultaneously targeting mature osteoclasts and their precursors
Authors: Yari Shinya , Kikuta Junichi , Shigyo Hotaka , Miyamoto Yu , Okuzaki Daisuke , Furusawa Yuki , Minoshima Masafumi , Kikuchi Kazuya , Ishii Masaru
Published: March 2023

Background

Rheumatoid arthritis (RA) is characterized by chronic inflammation and resultant cartilage/bone destruction because of aberrantly activated osteoclasts. Recently, novel treatments with several Janus kinase (JAK) inhibitors have been shown to successfully ameliorate arthritis-related inflammation and bone erosion, although their mechanisms of action for limiting bone destruction remain unclear. Here, we examined the effects of a JAK inhibitor on mature osteoclasts and their precursors by intravital multiphoton imaging.

Methods

Inflammatory bone destruction was induced by local injection of lipopolysaccharides into transgenic mice carrying reporters for mature osteoclasts or their precursors. Mice were treated with the JAK inhibitor, ABT-317, which selectively inhibits the activation of JAK1, and then subjected to intravital imaging with multiphoton microscopy. We also used RNA sequencing (RNA-Seq) analysis to investigate the molecular mechanism underlying the effects of the JAK inhibitor on osteoclasts.

Results

The JAK inhibitor, ABT-317, suppressed bone resorption by blocking the function of mature osteoclasts and by targeting the migratory behaviors of osteoclast precursors to the bone surface. Further exhaustive RNA-Seq analysis demonstrated that Ccr1 expression on osteoclast precursors was suppressed in the JAK inhibitor-treated mice; the CCR1 antagonist, J-113863, altered the migratory behaviors of osteoclast precursors, which led to the inhibition of bone destruction under inflammatory conditions.

Conclusions

This is the first study to determine the pharmacological actions by which a JAK inhibitor blocks bone destruction under inflammatory conditions; this inhibition is beneficial because of its dual effects on both mature osteoclasts and immature osteoclast precursors.
Acceptability and feasibility of a mobile health application for enhancing public private mix for TB care among healthcare Workers in Southwestern Uganda
Authors: Tumuhimbise Wilson , Atwine Daniel , Kaggwa Fred , Musiimenta Angella
Published: March 2023

Background

Mobile health interventions can potentially enhance public–private linkage for tuberculosis care. However, evidence about their acceptability and feasibility is lacking. This study sought to assess the initial acceptability and feasibility of a mobile health application for following up on presumptive tuberculosis patients referred from private to public hospitals. Twenty-two healthcare workers from three private hospitals and a public hospital in southwestern Uganda received the Tuuka mobile application for 1 month for testing. Testing focused on referring patients by healthcare workers from private hospitals and receiving referred patients by public healthcare workers and sending SMS reminders to the referred patients by filling out the digital referral forms inbuilt within the app. Study participants participated in qualitative semi-structured in-depth interviews on the acceptability and feasibility of this app. An inductive, content analytic approach, framed by the unified theory of acceptance and use of technology model, was used to analyze qualitative data. Quantitative feasibility metrics and the quantitative assessment of acceptability were analyzed descriptively using STATA.

Results

Healthcare workers found the Tuuka application acceptable and feasible, with a mean total system usability scale score of 98 (SD 1.97). The majority believed that the app would help them make quicker medical decisions (91%), communicate with other healthcare workers (96%), facilitate partnerships with other hospitals (100%), and enhance quick TB case notification (96%). The application was perceived to be useful in reminding referred patients to adhere to referral appointments, notifying public hospital healthcare workers about the incoming referred patients, facilitating communication across facilities, and enhancing patient-based care.

Conclusion

The Tuuka mobile health application is acceptable and feasible for following up on referred presumptive tuberculosis patients referred from private to public hospitals in southwestern Uganda. Future efforts should focus on incorporating incentives to motivate and enable sustained use among healthcare workers.
Estimating two groups of fracture weaknesses using azimuthal differences in partially incidence-angle-stacked seismic amplitudes
Authors: Chen Huaizhen , Innanen Kristopher A.
Published: March 2023

Geophysical and geologic data, e.g., results obtained using rock cores, outcrops, and borehole images, reveal the presence of multiple sets of fractures in rock. To analyze how fracture interactions affect seismic anisotropy and dispersion, we consider an effective model that contains two sets of orthogonal fractures. In seismic amplitude analysis, we focus on the case of subsurface target zones containing a fracture network composed of primary and secondary fracture sets. Focusing on gas-bearing rocks with small fracture densities, we formulate simplified stiffness parameters in terms of two groups of fracture weaknesses, which are related to the primary and secondary fractures, respectively. Using the simplified stiffness parameters, we derive the PP-wave reflection coefficient and the azimuthal elastic impedance (AEI) as functions of the two groups of normal and tangential fracture weaknesses. Based on the derived PP-wave reflection coefficient and AEI, we propose a method and workflow in which the azimuthal variations of the partial incidence-angle-stacked seismic data are used to estimate the AEI and differences in AEI (which we refer to as DEI) is input to a nonlinear inversion for two groups of fracture weaknesses. In the nonlinear inversion, the initial values of fracture weaknesses are obtained based on a two-term approximation of the PP-wave reflection coefficient. First- and second-order derivatives of DEI with respect to fracture weakness parameters are calculated to generate the update in the unknown parameter vector. Synthetic seismic gathers with varying signal-to-noise ratios are used to validate the robustness of the estimation. Applying the inversion method to a real data set, we obtain what we interpret to be reliable fracture weakness estimates that produce azimuthal amplitude differences matching those extracted from real seismic data. The results provide a potential tool for determining if two sets of fractures have developed in a reservoir.
Neoadjuvant Arterial Embolization of Spine Metastases Associated With Improved Local Control in Patients Receiving Surgical Decompression and Stereotactic Body Radiotherapy
Authors: Damante Mark A. , Gibbs David , Dibs Khaled , Palmer Joshua D. , Raval Raju , Scharschmidt Thomas , Chakravarti Arnab , Bourekas Eric , Boulter Daniel , Thomas Evan , Grecula John , Beyer Sasha , Xu David , Nimjee Shahid , Youssef Patrick , Lonser Russell , Blakaj Dukagjin M. , Elder J. Bradley
Published: March 2023

BACKGROUND:

Spine metastases often cause significant pain, instability, and/or neurological morbidity. Local control (LC) of spine metastases has been augmented with advances in systemic therapies, radiation, and surgical technique. Prior reports suggest an association between preoperative arterial embolization and improved LC and palliative pain control.

OBJECTIVE:

To further elucidate the role of neoadjuvant embolization on LC of spine metastases and the potential for improved pain control in patients receiving surgery and stereotactic body radiotherapy (SBRT).

METHOD:

A retrospective single-center review between 2012 and 2020 identified 117 patients with spinal metastases from various solid tumor malignancies managed with surgery and adjuvant SBRT with or without preoperative spinal arterial embolization. Demographic information, radiographic studies, treatment characteristics, Karnofsky Performance Score, Defensive Veterans Pain Rating Scale, and mean daily doses of analgesic medications were reviewed. LC was assessed using magnetic resonance imaging obtained at a median 3-month interval and defined as progression at the surgically treated vertebral level.

RESULTS:

Of 117 patients, 47 (40.2%) underwent preoperative embolization, followed by surgery and SBRT and 70 (59.8%) underwent surgery and SBRT alone. Within the embolization cohort, the median LC was 14.2 months compared with 6.3 months among the nonembolization cohort (P = .0434). Receiver operating characteristic analysis suggests ≥82.5% embolization predicted significantly improved LC (area under the curve = 0.808; P < .0001). Defensive Veterans Pain Rating Scale mean and maximum scores significantly decreased immediately after embolization (P < .001).

CONCLUSION:

Preoperative embolization was associated with improved LC and pain control suggesting a novel role for its use. Additional prospective study is warranted.
Dynamics of horizontal walking and vertical climbing in the Australian green tree frog (Ranoidea caerulea)
Authors: Young Melody W. , Flaim Nicholas D. , Yarbro Johnathan , Ragupathi Ashwin , Guru Navjot , Dickinson Edwin , Granatosky Michael C.
Published: March 2023

Despite the high mechanical demands associated with climbing, the ability to ascend vertically has evolved independently in most major animal lineages. However, little is known about the kinetics, mechanical energy profiles or spatiotemporal gait characteristics of this locomotor mode. In this study, we explored the dynamics of horizontal locomotion and vertical climbing on both flat substrates and narrow poles in five Australian green tree frogs (Ranoidea caerulea). Vertical climbing is associated with slow, deliberate movements (i.e. reduced speed and stride frequency and increased duty factors) and propulsive fore–aft impulses in both the forelimb and hindlimb. By comparison, horizontal walking was characterized by a braking forelimb and a propulsive hindlimb. In the normal plane, tree frogs mirrored other taxa in exhibiting a net pulling forelimb and a net pushing hindlimb during vertical climbing. In terms of mechanical energy, tree frogs matched theoretical predictions of climbing dynamics (i.e. the total mechanical energetic cost of vertical climbing was predominantly driven by potential energy, with negligible kinetic contributions). Utilizing power as a means of estimating efficiency, we also demonstrate that Australian green tree frogs show total mechanical power costs only slightly above the minimum mechanical power necessary to climb, highlighting their highly effective locomotor mechanics. This study provides new data on climbing dynamics in a slow-moving arboreal tetrapod and raises new testable hypotheses about how natural selection can act upon a locomotor behavior that is notably constrained by external physical forces.
Genetic diversity and population structure of Capitulum mitella (Linnaeus, 1767) in Fujian (China) revealed by mtDNA COI sequences
Authors: Sun Rouxin , Zhang Zhilan , Wu Qiong , Xiang Peng , Wang Yanguo , Xing Bingpeng
Published: March 2023

Background: Capitulum mitella is a widely distributed and ecologically important stalked barnacle that settles extensively on rocky shores. This species contributes to the structural complexity of intertidal habitats and plays a critical role in the marine ecosystem. This study aimed to reveal the genetic diversity and population structure of C. mitella by analyzing the mitochondrial cytochrome oxidase I (COI) gene.

Methods: A 683bp fragment of the COI gene was sequenced from 390 individuals sampled from six localities in Fujian, China.

Results: A total of 84 distinct haplotypes were identified through the analysis of 82 polymorphic sites, resulting in an average haplotype diversity (h) of 0.660 and nucleotide diversity (π) of 0.00182. Analysis of molecular variance (AMOVA) and pairwise FST statistics showed no significant population structure. Neutrality tests and mismatch distributions provided evidence of recent population expansion for the species.

Conclusions: We suggest that the species' high dispersal ability, and ocean currents coupled with limited physical barriers in the region, contribute to its current phylogeographic structure. These findings enhance our comprehension of the genetic diversity and population structure of C. mitella, providing valuable insights for future conservation efforts.
A lockdown legacy
Authors: Harding Jocelyn
Published: March 2023

Jocelyn Harding talks about her book collaboration that is raising the bar in oral cancer care - and the need for open conversations with patients.
A histological method for marine invertebrates
Authors:   Faculty of Medical Science, Naresuan University, Phitsanulok 65000, Thailand, Kongthong Kitiya , Charoenphon Natthawut ,   Department of Anatomy, Faculty of Medical Science, Naresuan University, Phitsanulok 65000, Thailand, Thaochan Narit ,   Agricultural Innovation and Management Division (Pest Management), Faculty of Natural Resources, Prince of Songkla University, 90110 Thailand, Boonyoung Piyakorn ,   Division of Health and Applied Sciences, Faculty of Science, Prince of Songkla University, Songkhla, 90110 Thailand, lida Atsuo ,   Department of Animal Sciences, Graduate School of Bioagricultural Sciences, Nagoya University, Nagoya, 464-8601 Japan, Jeamah Archig ,   Department of Marine Science and Environment, Faculty of Science and Fisheries Technology, Rajamangala University of Technology Srivijaya, Trang Campus, Sikao, Trang 92150, Thailand, Imsonpang Supapong ,   Division of Health and Applied Sciences, Faculty of Science, Prince of Songkla University, Songkhla, 90110 Thailand, Wongkamhaeng Koraon ,   Department of Zoology, Faculty of Science, Kasetsart University, Bangkok, 10900, Thailand, Kongtueng Piyamat ,   Central Laboratory, Faculty of Veterinary Medicine, Chiang Mai University, Chiang Mai 50100, Thailand, Senarat Senarat Sinlapachai ,   Department of Marine Science and Environment, Faculty of Science and Fisheries Technology, Rajamangala University of Technology Srivijaya, Trang Campus, Sikao, Trang 92150, Thailand
Published: March 2023

This study aimed to increase knowledge about the structure and health assessment for evaluating histopathology as a biomarker of marine invertebrates, which must have high-quality histologic slides. Unfortunately, the accuracy of this method has been specifically modified for the marine invertebrates in Thailand; we demonstrated a modified method for permanent histological slides, including Xestospongia sp., Halobates hayanus, Amphibalanus amphitrite, and Alpheus sp. (n = 30) individual specimens for each species) from Libong island, Thailand, which was compared to the standard method. Optimization of tissue adapts and troubleshoots typical histological procedures, including sample collection, fixation with 10% Neutral Buffered Formalin at 2-4 °C for 24 hrs., decalcification, dehydration, clearing, embedding sectioning, and examining after staining under the modified procedures each time, which can be accomplished easily in six days. Compared to the standard method, this modified protocol showed the first report. It warranted high-quality slide scans, which are particularly ideal for the tissue, cell, and nuclei-specific features of marine invertebrates.
DAY-CASE PARTIAL AND TOTAL KNEE ARTHROPLASTY: A DISTRICT GENERAL HOSPITAL EXPERIENCE
Authors: Mathai N. , Guro R. , Chandratreya A. , Kotwal R.
Published: March 2023

There has been a significant increase in the demand for arthroplasty as a result of the Covid 19 pandemic and lack of beds on the green pathway. The average length of in-hospital stay following knee replacements has been successfully reduced over the years following introduction and adoption of enhanced recovery protocols. Day case arthroplasty has the potential to be efficient as well as cost-effective. We present our day case pathway for elective knee arthroplasty and early results of its adoption at a district general hospital.

Our pathway was developed through a multidisciplinary input from surgeons, anaesthetists, physiotherapists, nursing staff, administrative staff, surgical care practitioners and pharmacists. Inclusion criteria were defined to identify patients suitable for cay case arthroplasty. Results of 32 patients who underwent day case partial and total knee replacement at our institution between 2018 to 2022 are presented.

31 out of 32 (97%) were discharged safely on the day of surgery. Patients were discharged at a mean of 7 hours following surgery. There were no re-admissions following discharge. There were no surgical complications at a mean follow-up of 2 years. Patient feedback revealed high levels of satisfaction and that they would recommend the pathway to others. Cost analysis revealed savings towards bed costs.

Our early results demonstrate day case knee arthroplasty to be safe and cost effective. With limited resources to tackle the enormous backlog of arthroplasty, it offers the potential to make theatre utilization efficient.
Reconstruction of light absorption changes in the human head using analytically computed photon partial pathlengths in layered media
Authors: Vera Demián A. , García Héctor A. , Waks-Serra M. Victoria , Carbone Nicolás A. , Iriarte Daniela I. , Pomarico Juan A.
Published: March 2023

Functional near infrared spectroscopy has been used in recent decades to sense and quantify changes in hemoglobin concentrations in the human brain. This noninvasive technique can deliver useful information concerning brain cortex activation associated with different motor/cognitive tasks or external stimuli. This is usually accomplished by considering the human head as a homogeneous medium; however, this approach does not explicitly take into account the detailed layered structure of the head, and thus, extracerebral signals can mask those arising at the cortex level. This work improves this situation by considering layered models of the human head during reconstruction of the absorption changes in layered media. To this end, analytically calculated mean partial pathlengths of photons are used, which guarantees fast and simple implementation in real-time applications. Results obtained from synthetic data generated by Monte Carlo simulations in two- and four-layered turbid media suggest that a layered description of the human head greatly outperforms typical homogeneous reconstructions, with errors, in the first case, bounded up to ∼20% maximum, while in the second case, the error is usually larger than 75%. Experimental measurements on dynamic phantoms support this conclusion.
Nanopatterning of the dielectric surface by a pair of femtosecond laser pulses of different colors through a monolayer of microspheres
Authors: Afanasiev Andrey , Ilyakov Igor , Shishkin Boris , Bityurin Nikita
Published: March 2023

This paper considers the nanostructuring of the surface of dielectrics under the effect of two successive femtosecond laser pulses, one of the fundamental frequency (FF) and the other of the second harmonic (SH) of a Ti:sapphire laser, through a layer of polystyrene microspheres 1 µm in diameter, which act as microlenses. Polymers with strong (PMMA) and weak (TOPAS) absorption at the frequency of the third harmonic of a Ti:sapphire laser (sum frequency FF + SH) were used as targets. Laser irradiation led to the removal of microspheres and the formation of ablation craters with characteristic dimensions of about 100 nm. Depending on the variable delay time between pulses, the resulting structures differed in their geometric parameters and shape. Based on statistical processing of the depths of the obtained craters, the optimal delay times for the most effective structuring of the surfaces of these polymers was found.
Threefold layered optical wireless network: illumination, communication, and positioning
Authors: Vegni Anna Maria , Biagi Mauro
Published: March 2023

Visible light communication (VLC) technology has traditionally emerged as a complementary solution to radio frequency, due to its huge available bandwidth and high data rates. Relying on visible spectrum, VLC allows both illumination and communication, thus representing a green technology with reduced energy impact. However, VLC can also be exploited for localization, and thanks to its huge bandwidth it can reach very high accuracy (i.e., <0.1 m). In this paper, we deal with a VLC network intended as a fully integrated indoor system providing at the same time both illumination, communication, and positioning tasks. Three different optimization problems are presented, aiming to seek for the minimum number of white LEDs that can achieve different constraints of illumination, data rate, and localization accuracy. Different types of LEDs are considered, according to which tasks they are intended to pursue. We consider traditional white LEDs aiming to provide illumination, communication, and positioning; otherwise, we distinguish between devices designed for localization-only and communication-only. Such distinction results in different optimization problems, and related solutions, as confirmed through extensive simulation results.
On-chip single-mode thin-film lithium niobate Fabry–Perot resonator laser based on Sagnac loop reflectors
Authors: Yu Shupeng , Fang Zhiwei , Wang Zhe , Zhou Yuan , Huang Qinfen , Liu Jian , Wu Rongbo , Zhang Haisu , Wang Min , Cheng Ya
Published: March 2023

We demonstrate an on-chip single-mode Er3+-doped thin-film lithium niobate (Er:TFLN) laser which consists of a Fabry–Perot (FP) resonator based on Sagnac loop reflectors (SLRs). The fabricated Er:TFLN laser has a footprint of 6.5 mm × 1.5 mm with a loaded quality (Q) factor of 1.6 × 105 and a free spectral range (FSR) of 63 pm. We generate the single-mode laser at 1544 nm wavelength with a maximum output power of 44.7 µW and a slope efficiency of 0.18%.
In vivo endoscopic ultrasound imaging with a rotational-scanning, all-optical ultrasound probe
Authors: Zhang Qi , Wu Chaoneng , Long Kai , Huang Cheng , Zhong Xiaoxuan , Bai Xue , Cheng Linghao , Jin Long , Liang Yizhi , Guan Bai-Ou
Published: March 2023

All-optical ultrasound manipulates ultrasound waves based on laser and photonics technologies, providing an alternative approach for pulse-echo ultrasound imaging. However, its endoscopic imaging capability is limited ex vivo by the multifiber connection between the endoscopic probe and the console. Here, we report on all-optical ultrasound for in vivo endoscopic imaging using a rotational-scanning probe that relies on a small laser sensor to detect echo ultrasound waves. The acoustically induced lasing frequency change is measured via heterodyne detection by beating the two orthogonally polarized laser modes, enabling a stable output of ultrasonic responses and immunity to low-frequency thermal and mechanical disturbances. We miniaturize its optical driving and signal interrogation unit and synchronously rotate it with the imaging probe. This specialized design leaves a single-fiber connection to the proximal end and allows fast rotational scanning of the probe. As a result, we used a flexible, miniature all-optical ultrasound probe for in vivo rectal imaging with a B-scan rate of 1 Hz and a pullback range of ∼7 cm. This can visualize the gastrointestinal and extraluminal structures of a small animal. This imaging modality offers an imaging depth of 2 cm at a central frequency of ∼20 MHz, showing promise for high-frequency ultrasound imaging applications in gastroenterology and cardiology.
Binocular fringe projection profilometry for the metrology of meter-scale optical surfaces
Authors: Berkson Joel , Hyatt Justin , Kang Hyukmo , Ordones Sotero , Quach Henry , Kim Daewook
Published: March 2023

Demand for better quality, larger quantity, and size of astronomical telescopes from visible to radio frequencies is increasing. More rapid, efficient, and adaptable manufacturing processes are needed to support the needs of growing science and engineering communities in these fields. To aid the development and execution of these new processes, a flexible, accurate, and low-cost metrology system is needed. This paper outlines a variety of fringe projection profilometry (FPP) that has demonstrated high accuracy over large areas, making it a critical tool for manufacturing steel molds for forming primary reflectors and shape verification of the reflectors themselves used for radio astronomy.
MGAE-DC: Predicting the synergistic effects of drug combinations through multi-channel graph autoencoders
Authors: Zhang Peng , Tu Shikui
Published: March 2023

Accurate prediction of synergistic effects of drug combinations can reduce the experimental costs for drug development and facilitate the discovery of novel efficacious combination therapies for clinical studies. The drug combinations with high synergy scores are regarded as synergistic ones, while those with moderate or low synergy scores are additive or antagonistic ones. The existing methods usually exploit the synergy data from the aspect of synergistic drug combinations, paying little attention to the additive or antagonistic ones. Also, they usually do not leverage the common patterns of drug combinations across different cell lines. In this paper, we propose a multi-channel graph autoencoder (MGAE)-based method for predicting the synergistic effects of drug combinations (DC), and shortly denote it as MGAE-DC. A MGAE model is built to learn the drug embeddings by considering not only synergistic combinations but also additive and antagonistic ones as three input channels. The later two channels guide the model to explicitly characterize the features of non-synergistic combinations through an encoder-decoder learning process, and thus the drug embeddings become more discriminative between synergistic and non-synergistic combinations. In addition, an attention mechanism is incorporated to fuse each cell-line’s drug embeddings across various cell lines, and a common drug embedding is extracted to capture the invariant patterns by developing a set of cell-line shared decoders. The generalization performance of our model is further improved with the invariant patterns. With the cell-line specific and common drug embeddings, our method is extended to predict the synergy scores of drug combinations by a neural network module. Experiments on four benchmark datasets demonstrate that MGAE-DC consistently outperforms the state-of-the-art methods. In-depth literature survey is conducted to find that many drug combinations predicted by MGAE-DC are supported by previous experimental studies. The source code and data are available at https://github.com/yushenshashen/MGAE-DC.
A novel smartphone application for the informal caregivers of cancer patients: Usability study
Authors: Oakley-Girvan Ingrid , Yunis Reem , Fonda Stephanie J. , Neeman Elad , Liu Raymond , Aghaee Sara , Ramsey Maya E. , Kubo Ai , Davis Sharon W.
Published: March 2023

Informal caregivers are a critical source of support for cancer patients. However, their perspectives are not routinely collected, despite health impacts related to the burden of caregiving. We created the TOGETHERCare smartphone application (app) to collect observer-reported outcomes regarding the cancer patient’s health and caregiver’s perceptions of their own mental and physical health, and to provide tips and resources for self-care and patient care. We enrolled 54 caregivers between October 2020 and March 2021 from Kaiser Permanente Northern California (KPNC), an integrated healthcare system. Fifty caregivers used the app for approximately 28 days. Usability and acceptability were assessed using questions from the Mobile App Rating Scale (MARS), the System Usability Scale (SUS), the Net Promoter Score (NPS), and semi-structured interviews. The caregivers’ mean age was 54.4 years, 38% were female and 36% were non-White. The SUS total mean score was 83.4 (SD = 14.2), for a percentile rank of 90–95 (“excellent”). Median MARS responses to the functionality questions were also high. The NPS score of 30 at the end of the study indicated that most caregivers would recommend the app. Themes from semi-structured interviews were consistent across the study period and indicated that the app was easy to use and helpful. Caregivers indicated a need for feedback from the app, suggested some changes to the wording of questions, the app’s visuals, and timing of notifications. This study demonstrated that caregivers are willing to complete frequent surveys about themselves and their patients. The app is unique because it provides a remote method to collect caregivers’ observations about the patient that may be useful for clinical care. To our knowledge, TOGETHERCare is the first mobile app developed specifically to capture adult cancer patient symptoms from the informal caregiver’s perspective. Future research will examine whether use of this app can help improve patient outcomes.