bluuebunny/crossref_metadata_2025 huggingface dataset:
Detailed analysis of tachycardia cycle length aids diagnosis of the mechanism and location of atrial tachycardias
Authors: Takigawa Masateru , Kamakura Tsukasa , Martin Claire , Derval Nicolas , Cheniti Ghassen , Duchateau Josselin , Pambrun Thomas , Sacher Frederic , Cochet Hubert , Hocini Meleze , Negishi Miho , Yamamoto Tasuku , Ikenouchi Takashi , Goto Kentaro , Shigeta Takatoshi , Nishimura Takuro , Tao Susumu , Miyazaki Shinsuke , Goya Masahiko , Sasano Tetsuo , Haissaguierre Michel , Jais Pierre
Published: July 2023

Aims

Although the mechanism of an atrial tachycardia (AT) can usually be elucidated using modern high-resolution mapping systems, it would be helpful if the AT mechanism and circuit could be predicted before initiating mapping.

Objective

We examined if the information gathered from the cycle length (CL) of the tachycardia can help predict the AT-mechanism and its localization.

Methods

One hundred and thirty-eight activation maps of ATs including eight focal-ATs, 94 macroreentrant-ATs, and 36 localized-ATs in 95 patients were retrospectively reviewed. Maximal CL (MCL) and minimal CL (mCL) over a minute period were measured via a decapolar catheter in the coronary sinus. CL-variation and beat-by-beat CL-alternation were examined. Additionally, the CL-respiration correlation was analysed by the RhythmiaTM system. : Both MCL and mCL were significantly shorter in macroreentrant-ATs [MCL = 288 (253–348) ms, P = 0.0001; mCL = 283 (243–341) ms, P = 0.0012], and also shorter in localized-ATs [MCL = 314 (261–349) ms, P = 0.0016; mCL = 295 (248–340) ms, P = 0.0047] compared to focal-ATs [MCL = 506 (421–555) ms, mCL = 427 (347–508) ms]. An absolute CL-variation (MCL-mCL) < 24 ms significantly differentiated re-entrant ATs from focal-ATs with a sensitivity = 96.9%, specificity = 100%, positive predictive value (PPV) = 100%, and negative predictive value (NPV) = 66.7%. The beat-by-beat CL-alternation was observed in 10/138 (7.2%), all of which showed the re-entrant mechanism, meaning that beat-by-beat CL-alternation was the strong sign of re-entrant mechanism (PPV = 100%). Although the CL-respiration correlation was observed in 28/138 (20.3%) of ATs, this was predominantly in right-atrium (RA)-ATs (24/41, 85.7%), rather than left atrium (LA)-ATs (4/97, 4.1%). A positive CL-respiration correlation highly predicted RA-ATs (PPV = 85.7%), and negative CL-respiration correlation probably suggested LA-ATs (NPV = 84.5%).

Conclusion

Detailed analysis of the tachycardia CL helps predict the AT-mechanism and the active AT chamber before an initial mapping.
Influence of menthol on biofilm formation, ergosterol content, and cell surface hydrophobicity ofCandida glabrata
Authors: Hajigholamreza Hamid , Sharifzadeh Aghil , Hassan Jalal , Shokri Hojjatollah , Akbaripazouki Ali , Pakbin Babak , Tamai Iradj Ashrafi
Published: July 2023

Resistance to synthetic antifungals has become one of the leading public health challenges around the world. Accordingly, novel antifungal products like naturally occurring molecules can be one of the potential ways to reach efficient curative approaches to control candidiasis. This work evaluated the effect of menthol on cell surface hydrophobicity (CSH), biofilm formation, growth, and ergosterol content of Candida glabrata, a yeast with a high resistance against antifungal agents. Disc diffusion method (susceptibility to synthetic antifungals), broth micro-dilution method (Susceptibility to menthol), 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyl tetrazolium bromide reduction assay (biofilm formation), High-performance liquid chromatography (HPLC) technique (ergosterol content), and adherence to n-hexadecane (CSH) were employed to determine the influence of menthol against C. glabrata isolates. The minimum inhibitory concentration (MIC) range of menthol versus C. glabrata was 1250–5000 µg/mL (mean ± SD: 3375 ± 1375 µg/mL). The mean rate of C. glabrata biofilm formation was decreased up to 97.67%, 81.15%, 71.21%, 63.72%, 47.53%, 26.31%, and 0.051% at 625, 1250, 2500, 5000, 10 000, 20 000, and 40 000 µg/mL concentrations, respectively. The percentages of CSH were significant in groups treated with MIC/2 (17.51 ± 5.52%) and MIC/4 (26 ± 5.87%) concentrations of menthol. Also, the percentage changes in membrane ergosterol were 15.97%, 45.34%, and 73.40% at 0.125, 0.25, and 0.5 mg/mL concentrations of menthol, respectively, in comparison with untreated control. The results showed the menthol impact versus sessile and planktonic C. glabrata cells, and the interference with ergosterol content, CSH, and biofilm formation, which made it a potent natural antifungal.
Microbiologically influenced corrosion—more than just microorganisms
Authors: Knisz J , Eckert R , Gieg L M , Koerdt A , Lee J S , Silva E R , Skovhus T L , An Stepec B A , Wade S A
Published: July 2023

Microbiologically influenced corrosion (MIC) is a phenomenon of increasing concern that affects various materials and sectors of society. MIC describes the effects, often negative, that a material can experience due to the presence of microorganisms. Unfortunately, although several research groups and industrial actors worldwide have already addressed MIC, discussions are fragmented, while information sharing and willingness to reach out to other disciplines are limited. A truly interdisciplinary approach, which would be logical for this material/biology/chemistry-related challenge, is rarely taken. In this review, we highlight critical non-biological aspects of MIC that can sometimes be overlooked by microbiologists working on MIC but are highly relevant for an overall understanding of this phenomenon. Here, we identify gaps, methods, and approaches to help solve MIC-related challenges, with an emphasis on the MIC of metals. We also discuss the application of existing tools and approaches for managing MIC and propose ideas to promote an improved understanding of MIC. Furthermore, we highlight areas where the insights and expertise of microbiologists are needed to help progress this field.
The transcriptional regulator Ume6 is a major driver of early gene expression during gametogenesis
Authors: Harris Anthony , Ünal Elçin
Published: July 2023

The process of gametogenesis is orchestrated by a dynamic gene expression program, where a vital subset constitutes the early meiotic genes. In budding yeast, the transcription factor Ume6 represses early meiotic gene expression during mitotic growth. However, during the transition from mitotic to meiotic cell fate, early meiotic genes are activated in response to the transcriptional regulator Ime1 through its interaction with Ume6. While it is known that binding of Ime1 to Ume6 promotes early meiotic gene expression, the mechanism of early meiotic gene activation remains elusive. Two competing models have been proposed whereby Ime1 either forms an activator complex with Ume6 or promotes Ume6 degradation. Here, we resolve this controversy. First, we identify the set of genes that are directly regulated by Ume6, including UME6 itself. While Ume6 protein levels increase in response to Ime1, Ume6 degradation occurs much later in meiosis. Importantly, we found that depletion of Ume6 shortly before meiotic entry is detrimental to early meiotic gene activation and gamete formation, whereas tethering of Ume6 to a heterologous activation domain is sufficient to trigger early meiotic gene expression and produce viable gametes in the absence of Ime1. We conclude that Ime1 and Ume6 form an activator complex. While Ume6 is indispensable for early meiotic gene expression, Ime1 primarily serves as a transactivator for Ume6.
The Caenorhabditis elegans cullin-RING ubiquitin ligase CRL4DCAF-1 is required for proper germline nucleolus morphology and male development
Authors: Rahman Mohammad M , Balachandran Riju S , Stevenson Jonathan B , Kim Youngjo , Proenca Rui B , Hedgecock Edward M , Kipreos Edward T
Published: July 2023

Cullin-RING ubiquitin ligases (CRLs) are the largest class of ubiquitin ligases with diverse functions encompassing hundreds of cellular processes. Inactivation of core components of the CRL4 ubiquitin ligase produces a germ cell defect in Caenorhabditis elegans that is marked by abnormal globular morphology of the nucleolus and fewer germ cells. We identified DDB1 Cullin4 associated factor (DCAF)-1 as the CRL4 substrate receptor that ensures proper germ cell nucleolus morphology. We demonstrate that the dcaf-1 gene is the ncl-2 (abnormal nucleoli) gene, whose molecular identity was not previously known. We also observed that CRL4DCAF-1 is required for male tail development. Additionally, the inactivation of CRL4DCAF-1 results in a male-specific lethality in which a percentage of male progeny arrest as embryos or larvae. Analysis of the germ cell nucleolus defect using transmission electron microscopy revealed that dcaf-1 mutant germ cells possess significantly fewer ribosomes, suggesting a defect in ribosome biogenesis. We discovered that inactivation of the sperm-fate specification gene fog-1 (feminization of the germ line-1) or its protein-interacting partner, fog-3, rescues the dcaf-1 nucleolus morphology defect. Epitope-tagged versions of both FOG-1 and FOG-3 proteins are aberrantly present in adult dcaf-1(RNAi) animals, suggesting that DCAF-1 negatively regulates FOG-1 and FOG-3 expression. Murine CRL4DCAF-1 targets the degradation of the ribosome assembly factor periodic trptophan protein 1 (PWP1). We observed that the inactivation of Caenorhabditis elegans  DCAF-1 increases the nucleolar levels of PWP1 in the germ line, intestine, and hypodermis. Reducing the level of PWP-1 rescues the dcaf-1 mutant defects of fewer germ cell numbers and abnormal nucleolus morphology, suggesting that the increase in PWP-1 levels contributes to the dcaf-1 germline defect. Our results suggest that CRL4DCAF-1 has an evolutionarily ancient role in regulating ribosome biogenesis including a conserved target in PWP1.
Inferring sparse structure in genotype–phenotype maps
Authors: Petti Samantha , Reddy Gautam , Desai Michael M
Published: July 2023

Correlation among multiple phenotypes across related individuals may reflect some pattern of shared genetic architecture: individual genetic loci affect multiple phenotypes (an effect known as pleiotropy), creating observable relationships between phenotypes. A natural hypothesis is that pleiotropic effects reflect a relatively small set of common “core” cellular processes: each genetic locus affects one or a few core processes, and these core processes in turn determine the observed phenotypes. Here, we propose a method to infer such structure in genotype–phenotype data. Our approach, sparse structure discovery (SSD) is based on a penalized matrix decomposition designed to identify latent structure that is low-dimensional (many fewer core processes than phenotypes and genetic loci), locus-sparse (each locus affects few core processes), and/or phenotype-sparse (each phenotype is influenced by few core processes). Our use of sparsity as a guide in the matrix decomposition is motivated by the results of a novel empirical test indicating evidence of sparse structure in several recent genotype–phenotype datasets. First, we use synthetic data to show that our SSD approach can accurately recover core processes if each genetic locus affects few core processes or if each phenotype is affected by few core processes. Next, we apply the method to three datasets spanning adaptive mutations in yeast, genotoxin robustness assay in human cell lines, and genetic loci identified from a yeast cross, and evaluate the biological plausibility of the core process identified. More generally, we propose sparsity as a guiding prior for resolving latent structure in empirical genotype–phenotype maps.
The Risks of Experiencing Severe Loneliness Across Middle and Late Adulthood
Authors: Huxhold Oliver , Henning Georg
Published: July 2023

Objectives

From a theoretical point of view, older adults may not necessarily face a greater risk of becoming lonely than middle-aged adults but are more likely at a disadvantage in fighting loneliness. Therefore, in this study, we differentiate between the risk of becoming lonely and the risk of remaining lonely.

Methods

A large longitudinal data set representative of the German noninstitutionalized population from 40 to 85 years of age (N = 15,408; 49% female participants) was used in the analysis. Lagged logistic regression models were estimated to investigate the effect of earlier experiences of severe loneliness on the risk of being lonely after three years across middle age and late adulthood. Individual differences in health, views on aging, and social activities were taken into account to explore their role in age differences in the risk of remaining lonely.

Results

The analysis revealed marginal age differences in the risk of becoming lonely but a marked age gradient regarding the risk of remaining lonely. Lonely older adults who were older than 75 years of age were more likely to remain lonely after three years than lonely middle-aged adults. Controlling for individual differences in health, views on aging as social loss, and social activities accounted for this age difference.

Discussion

Interventions against loneliness may prioritize older age groups because losses in capacities, shifts in motivations, and a degraded opportunity structure render it increasingly less likely that older adults leave a state of loneliness on their own accord.
Gerontology, Art, and Activism: Can the Intersection of Art, Social Research, and Community Power Lead to Lasting Change?
Authors: Campbell Sarah , Dewhurst Elaine , Chaudry Atiha , Edson Ruth , Ghafoor Rohina , Greenhalgh Marie , Lacy Suzanne , Madzunzu Tendayi
Published: July 2023

This paper seeks to address the question of what gerontologists and humanities scholars can learn from how their respective fields engage with critical issues of age-based intersectional disadvantage, inequality, colonialism, and exclusion. The paper considers the Uncertain Futures Project, a participatory arts-led social research study based in Manchester, United Kingdom. The project explores the inequalities of women over 50 regarding issues of work using an intersectional lens. This work has produced a complex entanglement of methodological ideas that underpin performance art, community activism, and gerontological research. The paper will consider if this model can lead to a lasting impact beyond the scope of the project and beyond the individuals involved. First, we outline the work undertaken from the conception of the project. We consider the relationship between these activities and the ongoing nature of qualitative data analysis within the complexity of academic workloads and competing priorities. We raise questions and considerations of how the elements of the work have connected, collaborated, and intertwined. We also explore the challenges within interdisciplinary and collaborative work. Finally, we address the kind of legacy and impact created by work of this nature.
Iterative approaches for regional Moho determination using on-orbit gravity gradients: a case study in Qinghai–Tibet Plateau and its near zone
Authors: Li Wei-Kai , Mu Qing-Lu , Yang Meng , Feng Wei , Zhong Min
Published: July 2023

Moho determination is an important issue in studying the Earth’s interior structure. In accordance with the isostasy-compensation hypothesis in geodesy, it is possible to recover regional or global Moho by employing gravimetric data. The nonlinear property is one of the main difficulties in solving the inverse problem of isostasy. To effectively address this issue, we propose an improved iterative inversion method that combines 3-D integration and linear regularization to achieve an approximate nonlinear solution. To estimate the contributions of different components in the gravity-gradient tensor from the Gravity field and steady-state Ocean Circulation Explorer (GOCE), other than the vertical component, we additionally develop two joint inversion scenarios that utilize diagonal horizontal components and all five non-vertical components. The validating experiments are implemented in Qinghai–Tibet Plateau and its near zone. Simulations and applications illustrate that horizontal responses of Moho undulation are also significant. Yet the off-diagonal components provide minimal contributions, adding only 0.25 km of bias to the joint inversion results. Truncation effects serve as the primary source of systematic errors, resulting in ∼1 km error in vertical inversion results and ∼2.3 km error in joint inversion results. Then, the gravimetric Moho results are compared with CRUST1.0, and they show a generally strong correlation. Differences are obvious at the northern and eastern margins of the plateau. It is maybe due to the local changes in crust–mantle density contrasts. Upwelling of asthenospheric materials and fluid flow in the middle-lower crust are the two main factors. Based on high-precision satellite gravimetry, our study could provide new insights into the tectonic structure of Qinghai–Tibet Plateau.
Consumers’ longitudinal health information needs and seeking: a scoping review
Authors: Bautista John Robert , Zhang Yan , Gwizdka Jacek , Chang Yung-Sheng
Published: July 2023

Needing and seeking health information often is a longitudinal everyday life information behavior that involves the use of technology. However, no reviews of consumers’ longitudinal health information needs (HIN) and health information-seeking (HIS) behavior have been conducted. We performed a scoping review to address this gap. Specifically, we surveyed the characteristics, timeline construction and research findings of studies investigating consumers’ longitudinal HIN and HIS. Initial searches were conducted in November 2019 and updated in July 2022. A total of 128 papers were identified, reviewed and analyzed using content and thematic analyses. Results showed that most papers were quantitative, conducted in the USA, related to cancer, conducted during the diagnosis and treatment phases, and followed preset time intervals. Findings concerning the development patterns of consumers’ HIN degrees and HIS effort were mixed (i.e. increasing, decreasing or being consistent over time). They seemed to be shaped by factors such as health conditions, data collection methods and the length of data collection. Consumers’ use of sources changes depending on health status and source accessibility; their medical terminologies seem to expand over time. HIS has a strong emotional dimension which may lead to adaptive or maladaptive information behaviors (e.g. information avoidance). Overall, the results revealed a lack of understanding of HIN and HIS from a longitudinal perspective, particularly along health condition progression and coping trajectories. There is also a lack of understanding of the role of technologies in the longitudinal HIS process.
The politics of methods in transitional justice knowledge production
Authors: Lühe Ulrike
Published: July 2023

This article is concerned with how practices of knowledge production relate to the international politics of transitional justice (TJ). It argues that quantitative scholarly studies—called for in response to the anecdotal and normative studies that prevailed in early TJ scholarship and which, it is argued, continue to shape TJ sub-fields such as the study of local justice—are themselves committed to the normative framework and the goals of TJ that they seek to provide the tools to challenge. Applying a ‘politics of methods’ lens, the article foregrounds the interpretive work of surveys and the methodological choices of large-N impact studies which circle these works back to narrowly defined ideas of what TJ ought to be. The conclusions show how these ‘politics of methods’ contribute to the decontestation of an inherently political choice and practice, and predetermine what policy and practice options are considered useful, relevant and even imaginable. As such they shape that which they claim only to examine. Contributing to both critical methodological debates in International Relations and nascent scholarship on the research–policy–practice nexus in TJ, the analysis provides an under-examined example of the co-constitutive relationship of what is considered to be detached knowledge production and politics.
Proportion of liver cancer cases and deaths attributable to potentially modifiable risk factors in China
Authors: Lin Yushi , Zheng Luyan , Fang Kailu , Zheng Yang , Wu Jie , Zheng Min
Published: July 2023

Background

Understanding the differences in the burden of liver cancer due to different risk factors across provinces is critical to informing and improving liver cancer prevention and control. In this study, we estimated the population attributable fractions (PAFs) of liver cancer in all 31 provinces of China in 2016.

Methods

Prevalence estimates of risk factors were derived from representative surveys. We used pooled relative risks obtained from several recent large-scale pooled analyses or high-quality meta-analyses. We calculated PAFs using multiple formulas which included exposure prevalence and relative risk data stratified by sex, age and province, and then combined and created overall PAFs by sex, risk factors and risk factor groups.

Results

Approximately 252 046 liver cancer cases {69.5% [95% confidence interval (CI) 52.6, 76.5]} and 212 704 deaths [67.7% (95% CI 50.9, 74.6)] were attributable to modifiable risk factors in China in 2016. The overall PAF for liver cancer was approximately 1.5 times higher in men than in women, with the top three risk factors in men being hepatitis B virus (HBV), smoking and alcohol drinking, whereas in women, they were HBV, excess body weight and hepatitis C virus (HCV). Among the risk factor groups, infectious agents had the highest PAF, followed by behavioural factors and metabolic factors.

Conclusions

The PAF for liver cancer caused by modifiable risk factors varies widely among provinces and socioeconomic and geographical regions in China. The use of tailored primary prevention strategies across provinces and socioeconomic and geographical regions has great potential to reduce the burden and disparities of liver cancer.
Matrix denoising with partial noise statistics: optimal singular value shrinkage of spiked F-matrices
Authors: Gavish Matan , Leeb William , Romanov Elad
Published: July 2023

We study the problem of estimating a large, low-rank matrix corrupted by additive noise of unknown covariance, assuming one has access to additional side information in the form of noise-only measurements. We study the Whiten-Shrink-reColour (WSC) workflow, where a ‘noise covariance whitening’ transformation is applied to the observations, followed by appropriate singular value shrinkage and a ‘noise covariance re-colouring’ transformation. We show that under the mean square error loss, a unique, asymptotically optimal shrinkage nonlinearity exists for the WSC denoising workflow, and calculate it in closed form. To this end, we calculate the asymptotic eigenvector rotation of the random spiked F-matrix ensemble, a result which may be of independent interest. With sufficiently many pure-noise measurements, our optimally tuned WSC denoising workflow outperforms, in mean square error, matrix denoising algorithms based on optimal singular value shrinkage that do not make similar use of noise-only side information; numerical experiments show that our procedure’s relative performance is particularly strong in challenging statistical settings with high dimensionality and large degree of heteroscedasticity.
Effect of Malaria Infection on Epstein-Barr Virus Persistence in Kenyan Children
Authors: Samayoa-Reyes Gabriela , Weigel Christoph , Koech Emmily , Waomba Kevin , Jackson Conner , Onditi Ian A , Sabourin Katherine R , Kenney Shannon , Baiocchi Robert A , Oakes Christopher C , Ogolla Sidney , Rochford Rosemary
Published: July 2023

Background

The 2 cofactors in the etiology of Burkitt lymphoma (BL) are Epstein-Barr virus (EBV) and repeated Plasmodium falciparum malaria infections. This study evaluated EBV loads in mucosal and systemic compartments of children with malaria and controls. Age was analyzed as a covariate because immunity to malaria in endemic regions is age dependent.

Methods

Children (2–10 years) with clinical malaria from Western Kenya and community controls without malaria were enrolled. Saliva and blood samples were collected, EBV viral load was assessed by quantitative polymerase chain reaction, and EpiTYPER MassARRAY was used to assess methylation of 3 different EBV genes.

Results

Regardless of the compartment, we detected EBV more frequently in malaria cases compared to controls, although the difference was not significant. When EBV was detected, there were no differences in viral load between cases and controls. However, EBV methylation was significantly lower in the malaria group compared to controls in both plasma and saliva (P < .05), indicating increased EBV lytic replication. In younger children before development of immunity to malaria, there was a significant effect of malaria on EBV load in peripheral blood mononuclear cells (P = .04).

Conclusions

These data suggest that malaria can directly modulate EBV persistence in children, increasing their risk for BL.
Preliminary phylogenomic analyses reveal multiple reversions to nocturnal behavior and morphology within the primarily diurnal tribe Adesmiini (Coleoptera: Tenebrionidae)
Authors: Swichtenberg Kali L , Kamiński Marcin J , Gearner Olivia M , Lumen Ryan , Kanda Kojun , Smith Aaron D
Published: July 2023

The darkling beetle tribe Adesmiini (Tenebrionidae: Pimeliinae) is a prominent part of African and western Palearctic desert faunas, with most species being day-active fast-running detritivores. Taxonomic diversity within the tribe is highest in the southern Afrotropical realm (where all genera are present); only 1 genus, the species-rich Adesmia, occurs north of the Sahara. Despite notable species, such as the fog-basking beetle Onymacris unguicularis (a focal taxon in desert ecological research), Adesmiini has undergone few modern taxonomic or phylogenetic studies. Hence, generic concepts and pronounced diurnal activity, rare in the primarily nocturnal family Tenebrionidae, remain poorly explored. To investigate evolutionary relationships and diurnal origins within the tribe, we generated a genomic dataset of 529 protein-coding genes across 43 species spanning 10 of 11 Adesmiini genera. Our resulting phylogeny for the tribe rejects the monophyly of 5 currently recognized Adesmiini genera (i.e., Adesmia, Metriopus, Onymacris, Physadesmia, and Stenocara). Ancestral state reconstruction of diurnal activity using eye shape as a proxy supports the hypothesis that Adesmiini were primitively diurnal, followed by at least 4 shifts to nocturnal or crepuscular activity.
Effect of 3-nitrooxypropanol on enteric methane emissions of feedlot cattle fed with a tempered barley-based diet with canola oil
Authors: Almeida Amelia K , Cowley Frances , McMeniman Joe P , Karagiannis Alex , Walker Nicola , Tamassia Luis F M , McGrath Joseph J , Hegarty Roger S
Published: July 2023

A dose-response experiment was designed to examine the effect of 3-nitrooxypropanol (3-NOP) on methane (CH4) emissions, rumen function and performance of feedlot cattle fed a tempered barley-based diet with canola oil. Twenty Angus steers of initial body weight (BW) of 356 ± 14.4 kg were allocated in a randomized complete block design. Initial BW was used as the blocking criterion. Cattle were housed in individual indoor pens for 112 d, including the first 21 d of adaptation followed by a 90-d finishing period when five different 3-NOP inclusion rates were compared: 0 mg/kg dry matter (DM; control), 50 mg/kg DM, 75 mg/kg DM, 100 mg/kg DM, and 125 mg/kg DM. Daily CH4 production was measured on day 7 (last day of starter diet), day 14 (last day of the first intermediate diet), and day 21 (last day of the second intermediate diet) of the adaptation period and on days 28, 49, 70, 91, and 112 of the finisher period using open circuit respiration chambers. Rumen digesta samples were collected from each steer on the day prior to chamber measurement postfeeding, and prefeeding on the day after the chamber measurement, for determination of rumen volatile fatty acids (VFA), ammonium-N, protozoa enumeration, pH, and reduction potential. Dry matter intake (DMI) was recorded daily and BW weekly. Data were analyzed in a mixed model including period, 3-NOP dose and their interaction as fixed effects, and block as a random effect. Our results demonstrated both a linear and quadratic (decreasing rate of change) effect on CH4 production (g/d) and CH4 yield (g/kg DMI) as 3-NOP dose increased (P < 0.01). The achieved mitigation for CH4 yield in our study ranged from approximately 65.5% up to 87.6% relative to control steers fed a finishing feedlot diet. Our results revealed that 3-NOP dose did not alter rumen fermentation parameters such as ammonium-N, VFA concentration nor VFA molar proportions. Although this experimental design was not focused on the effect of 3-NOP dose on feedlot performance, no negative effects of any 3-NOP dose were detected on animal production parameters. Ultimately, the knowledge on the CH4 suppression pattern of 3-NOP may facilitate sustainable pathways for the feedlot industry to lower its carbon footprint.
Beef embryos in dairy cows: feedlot performance, mechanistic responses, and carcass characteristics of straightbred Holstein calves and Angus-sired calves from Holstein, Jersey, or crossbred beef dams
Authors: Fuerniss Luke K , Wesley Kaitlyn R , Bowman Sydney M , Hall Jerica R , Young J Daniel , Beckett Jonathon L , Woerner Dale R , Rathmann Ryan J , Johnson Bradley J
Published: July 2023

Improved reproductive management has allowed dairy cow pregnancies to be optimized for beef production. The objective of this sire-controlled study was to test the feedlot performance of straightbred beef calves raised on a calf ranch and to compare finishing growth performance, carcass characteristics, and mechanistic responses relative to beef × dairy crossbreds and straightbred beef cattle raised in a traditional beef cow/calf system. Tested treatment groups included straightbred beef steers and heifers reared on range (A × B; n = 14), straightbred beef steers and heifers born following embryo transfer to Holstein dams (H ET; n = 15) and Jersey dams (J ET; n = 16) The finishing trial began when cattle weighed 301 ± 32.0 kg and concluded after 195 ± 1.4 d. Individual intake was recorded from day 28 until shipment for slaughter. All cattle were weighed every 28 d; serum was collected from a subset of steers every 56 d. Cattle of straightbred beef genetics (A × B, H ET, and J ET) and A × H were similar in final shrunk body weight, dry matter intake, and carcass weight (P > 0.05 for each variable). Compared with A × J cattle, J ET was 42 d younger at slaughter with 42 kg more carcass weight (P < 0.05 for both variables). No difference was observed in longissimus muscle area between all treatments (P = 0.40). Fat thickness was greatest for straightbred beef cattle, least for A × J cattle, and intermediate for A × H cattle (P < 0.05). When adjusted for percentage of adjusted final body weight, feed efficiency was greater for straightbred beef cattle compared with beef × dairy crossbred cattle (P = 0.04). A treatment × day interaction was observed for circulating insulin-like growth factor I (IGF-I; P < 0.01); 112 d after being implanted, beef × dairy crossbred cattle had greater circulating IGF-I concentration than cattle of straightbred beef genetics (P < 0.05). Straightbred beef calves born to Jersey cows had more efficient feedlot and carcass performance than A × J crossbreds. Calves of straightbred beef genetics raised traditionally or in a calf ranch performed similarly in the feedlot.
Transcriptomic analysis of ovarian follicles uncovers the crucial genes relevant to follicle selection and preovulatory hierarchy in hens
Authors: Sun Xue , Zhu Hongyan , Zhang Changyan , Ilboudo Jean Philippe Harold Wensesso , Zhao Jinghua , Ma Chang , Yan Chunchi , Liswaniso Simushi , Qin Ning , Xu Rifu
Published: July 2023

Follicle selection and preovulatory hierarchy of hen ovaries were important stages of follicle development and crucially determining egg-laying performance. The selected follicles with a higher expression level of follicle-stimulating hormone receptor (FSHR) mRNA that facilitates response to FSH, and rapidly develops into preovulatory follicles with distinctive characteristics of granulosa cells (GCs) proliferation and differentiation. Identification of the key genes involved in these developmental events is helpful for elucidation of the molecular mechanism underlying egg-laying traits in chicken and other domestic fowl. Herein, the comparative transcriptomic analysis of ovarian prehierarchical follicles before selection (BSF), follicles at selection stage (ASF), and hierarchical follicles (HF) were implemented in the Jilin Black chicken (JB) and Lohmann Brown layer (LB) with the divergences in their egg-laying performance by RNA-sequencing. The results showed that nine deferentially expressed genes (DEGs), including STMN4, FABP3, ROBO2, RSPO4, and DMRT1 were revealed between follicles BSF and ASF; and seventeen DEGs, such as SLC6A15, SLITRK3, PRKG2 and TMC3 were mined between ASF and HF. These two group DEGs being co-expressed between BSF and ASF, and between ASF and HF were compared and substantiated in the JB and LB layers, respectively. Furthermore, 10 signaling pathways, such as cAMP signaling, PPAR signaling pathway, AMPK(Adenosine 5'-monophosphate (AMP)-activated protein kinase) pathway, and estrogen signaling pathway were also identified. Moreover, the roles of two representative candidates ROBO2 and PRKG2 genes presented as downregulated mRNA expression pattern in the transcriptomic profiles were further verified in vitro. The results demonstrated that downregulation of ROBO2 or PRKG2 significantly increased the expression levels of FSHR mRNA and protein with the boosted expression of CCND1, STAR, and BCL-2, whereas remarkably inhibited the expression of Caspase-3, consequently, brought about the decrease of GC apoptosis in the ovarian follicles, but increase of GC proliferation and differentiation serving as the hallmarks for follicle selection. It indicated that ROBO2 and PRKG2 may play indispensable roles in follicle selection and preovulatory hierarchy of hen ovaries separately. Our findings provided a comparative transcriptomic evidence for clarifying the molecular mechanism of the follicle development underlying egg-laying traits in chicken.
Beneath the surface: correlates of solitary, paired, and group living in a cryptic burrowing ghost shrimp Trypaea australiensis Dana, 1852 (Decapoda: Axiidea: Calianassidae)
Authors: Kirby Renae L , Wong Marian Y L
Published: July 2023

Marine organisms, particularly invertebrates, are relatively understudied regarding social structure and behaviour, especially those that are cryptic. While empirically challenging to investigate, these species can provide novel insights into the evolution of sociality given their unique ecology. Our aim was to quantify in-situ the social structure and its underlying correlates in the Australian burrowing shrimp, Trypaea australiensis Dana, 1852 (Callianassidae). We show that T. australiensis exhibits intraspecific variation in social structure, being most often found in solitary arrangements, frequently in pairs (including homosexual and heterosexual arrangements), and sometimes in groups. The majority of shrimp in pairs and groups were found in heterosexual pairings or groups of one male and multiple females. Variation in social structure was correlated with variation in body size characteristics, seasonality, and site. These findings demonstrate that a wider array of social structures are exhibited by this species than previously expected, but the obvious limitations associated with sampling a cryptic burrowing species in situ mean that further investigations under controlled conditions, including laboratory behavioural manipulations, will be needed to confirm the current findings. The use of resin casts to understand burrow morphology would be important for understanding the causes of intraspecific variation in this and other cryptic species.
Chicosciencea Bochini, Cunha, Terossi & Almeida, 2020 is not a subjective junior synonym of Microprosthema Stimpson, 1860 (Decapoda: Stenopodidea: Spongicolidae): A response to Goy (2023)
Authors: Bochini Gabriel L , Cunha Andressa M , Terossi Mariana , Almeida Alexandre O
Published: July 2023

The stenopodidean shrimp Chicosciencea pernambucensis Bochini, Cunha, Terossi & Almeida, 2020 was described as a new genus and species from northeastern Brazil based on morphological and molecular assessments. J. Goy nevertheless proposed that Chicosciencea Bochini, Cunha, Terossi & Almeida, 2020 is a subjective synonym of Microprosthema Stimpson, 1860. We comment on the synonymy and present the alternative proposition that Chicosciencea is a valid genus, distinctly separated from Microprosthema.
A draft reference genome assembly of the Pipevine Swallowtail butterfly, Battus philenor hirsuta
Authors: Chaturvedi Samridhi , Escalona Merly , Marimuthu Mohan P A , Nguyen Oanh , Chumchim Noravit , Fairbairn Colin W , Seligmann William , Miller Courtney , Bradley Shaffer H , Whiteman Noah K
Published: July 2023

The California Pipevine Swallowtail Butterfly, Battus philenor hirsuta, and its host plant, the California Pipevine or Dutchman’s Pipe, Aristolochia californica Torr., are an important California endemic species pair. While this species pair is an ideal system to study co-evolution, genomic resources for both are lacking. Here, we report a new, chromosome-level assembly of B. philenor hirsuta as part of the California Conservation Genomics Project (CCGP). Following the sequencing and assembly strategy of the CCGP, we used Pacific Biosciences HiFi long reads and Hi-C chromatin proximity sequencing technology to produce a de novo assembled genome. Our genome assembly, the first for any species in the genus, contains 109 scaffolds spanning 443 mega base (Mb) pairs, with a contig N50 of 14.6 Mb, a scaffold N50 of 15.2 Mb, and BUSCO complete score of 98.9%. In combination with the forthcoming A. californica reference genome, the B. philenor hirsuta genome will be a powerful tool for documenting landscape genomic diversity and plant–insect co-evolution in a rapidly changing California landscape.
Interactions between the omnivorous bug Nesidiocoris tenuis (Heteroptera: Miridae) and the tomato pests Helicoverpa armigera (Lepidoptera: Noctuidae) and Phthorimaea absoluta (Lepidoptera: Gelechiidae): predation, phytophagy, and prey preference
Authors: Totin Félicien Abègnonhou , Togbé Delano Ronald , Sinzogan Antonio , Karlsson Miriam Frida
Published: July 2023

Nesidiocoris tenuis (Reuter) (Heteroptera: Miridae) is a zoophytophagous bug that can derive nutrients from 3 trophic levels: plants, herbivorous arthropods, and other predators. On tomato, besides damaging the plants as they feed, might the mirid also forage on pest species and repel pests. In greenhouse and laboratory experiments, we investigated the functional response of the bug, its prey preference, and its influence on the oviposition potentials of 2 major pest species Helicoverpa armigera (Hübner) (Lepidoptera: Noctuidae) and Phthorimaea absoluta Meyrick (Lepidoptera: Gelechiidae) on tomato Solanum lycopersicum L. (Solanaceae). Nesidiocoris tenuis showed a Type II functional response to both prey species. The estimated handling time was higher for H. armigera eggs than for P. absoluta yet N. tenuis attack rates did not differ between the 2 prey species. Nesidiocoris tenuis did not show a preference for 1 species when prey eggs were provided in equal proportions. The feeding on tomato plants by N. tenuis did not affect oviposition by the 2 moth species, as neither species showed a preference for clean or N. tenuis-adult-damaged plants and clean or N. tenuis-nymph-damaged plants. This study shows that N. tenuis can prey upon eggs of both moth species as the 3 species co-occur in tomato fields. However, because of the shorter handling time of P. absoluta eggs by the predator and the higher number of eggs laid by H. armigera, the co-occurrence might be less detrimental to the H. armigera populations compared to P. absoluta.
Trends in patients’ behavior for cancer care and the number of registered cancer cases in Ehime Prefecture during the coronavirus disease pandemic
Authors: Teramoto Norihiro , Yamashita Natsumi , Ohira Yutsuko
Published: July 2023

Background

The coronavirus disease (COVID-19) pandemic has reduced diagnosed cancer cases worldwide. This study aimed to elucidate the recovery of cancer care from the COVID-19 pandemic in Ehime Prefecture, Japan.

Methods

This study collected data from the hospital-based cancer registry (HBCR) as well as the number of outpatients, medical information provision fee payments (MIP2) and second opinion patients (SOP) from the Council of Ehime Cancer Care Hospitals (ECCH). Then cancer care and patient requests for hospital transfers before and during the COVID-19 pandemic were analysed.

Results

The HBCR from the ECCH comprises >80% of cancer cases in Ehime Prefecture. In 2020, the numbers of all registered cases, first-line treatment cases and cases detected by cancer screening in the HBCR decreased from those in 2018–2019. In 2021, they increased to almost the same levels as those in 2018–19. In contrast, the number of registered patients that changed hospitals (hospital-change cases) after first-line treatments, patients who lived outside the metropolitan area of Ehime but registered in metropolitan hospitals, MIP2 and SOP remained low in 2021 after decreasing in 2020. Furthermore, the monthly numbers of hospital-change cases, MIP2 and SOP were significantly smaller in 2021 than in 2018–2019 (Wilcoxon rank sum test).

Conclusions

The assessed indicators suggest that the decreased patients’ behavior to further cancer care had not returned to pre-pandemic levels by 2021. Hence, psychological measures in society to prevent self-restraint in patients and support for the caregivers of the patients who have some problems visiting the hospital are necessary.
How penalizing substance use in pregnancy affects treatment and research: a qualitative examination of researchers’ perspectives
Authors: Shah Seema K , Perez-Cardona Leishla , Helner Khrystyna , Massey Suena H , Premkumar Ashish , Edwards Renee , Norton Elizabeth S , Rogers Cynthia E , Miller Emily S , Smyser Christopher D , Davis Matthew M , Wakschlag Lauren S
Published: July 2023

Introduction

Laws regulating substance use in pregnancy are changing and may have unintended consequences on scientific efforts to address the opioid epidemic. Yet, how these laws affect care and research is poorly understood.

Methods

We conducted semi-structured qualitative interviews using purposive and snowball sampling of researchers who have engaged pregnant people experiencing substance use. We explored views on laws governing substance use in pregnancy and legal reform possibilities. Interviews were double coded. Data were examined using thematic analysis.

Results

We interviewed 22 researchers (response rate: 71 per cent) and identified four themes: (i) harms of punitive laws, (ii) negative legal impacts on research, (iii) proposals for legal reform, and (iv) activism over time.

Discussion

Researchers view laws penalizing substance use during pregnancy as failing to treat addiction as a disease and harming pregnant people and families. Respondents routinely made scientific compromises to protect participants. While some have successfully advocated for legal reform, ongoing advocacy is needed.

Conclusion

Adverse impacts from criminalizing substance use during pregnancy extend to research on this common and stigmatized problem. Rather than penalizing substance use in pregnancy, laws should approach addiction as a medical issue and support scientific efforts to improve outcomes for affected families.
A case of typhoid fever presenting with non-G6PD associated Hemolytic anaemia
Authors: Fukushima Shinnosuke , Hagiya Hideharu , Honda Hiroyuki , Ishida Tomoharu , Hasegawa Kou , Otsuka Fumio
Published: July 2023

Typhoid fever is one of the representative febrile diseases in tropical and subtropical countries with poor hygiene. Among the anaemic conditions involving patients with typhoid fever, autoimmune hemolytic anaemia would be one of the potential causes in the absence of G6PD deficiency or intestinal haemorrhage.
Range-wide site-occupancy modeling of Red-winged Blackbirds (Agelaius phoeniceus)
Authors: Johnston Mickayla Mulvihill , Feldman Richard E , De León Luis F
Published: July 2023

Globally, habitat loss and land conversion are major drivers of bird population decline. To halt the decline, it is essential that habitat conservation and restoration efforts are based on an understanding of how individual species use their habitat. Here, we examine habitat use by Red-winged Blackbirds (Agelaius phoeniceus) by quantifying their probability of occurrence in different land cover types and in association with varying degrees of habitat modification across most of the species’ range. To do so, we used the citizen-science eBird dataset, in combination with MODIS land cover data to model site occupancy for two breeding seasons and related presence/absence to the Global Human Modification Index. We found that Red-winged Blackbirds occupy rural and suburban habitats at higher probabilities than they do habitats with high levels of urbanization, and at similar or higher probabilities than they do their historic, natural habitats. Furthermore, we found that occurrence probability peaks at intermediate values of the Global Human Modification Index. The results were consistent across most ecoregions and the geographic range of the species, confirming that the Red-winged Blackbird is a suburban-adaptable species, persisting in moderately disturbed environments. Although more research is needed to understand the ecological and evolutionary consequences of this pattern of habitat use, our results provide novel data on Red-winged Blackbird habitat use in the midst of increasing urbanization. More broadly, they provide insight into how common, widespread avian species may be affected by anthropogenic disturbance and highlight the importance of rural and suburban environments in urban ecology and evolution.