bluuebunny/crossref_metadata_2025_split huggingface dataset:
Whole genome sequencing of a
Domibacillus
strain from the Cuatro Ciénegas basin that tends to act as an altruist
Authors: Aguilera-Najera Diego , Rodriguez-Cruz Ulises E. , Vazquez Brenda , Fernandez Christian , Martinez-Perez Eunice , Tapia-Lopez Rosalinda , Souza Valeria 
Published: October 2024

ABSTRACT

Domibacillus
sp
. 8LH
is a whitish bacterium isolated from the pools of the Cuatro Cienegas Basin (CCB) in the state of Coahuila and belongs to the
Bacillaceae
family. It grows in circular colonies of about 6 mm in diameter and is capable of forming biofilms. This strain was identified because, in previous experiments in our laboratory, it presented altruistic interactions when co-cultured with bacteria of the genus
Bacillus
that participate in the nitrogen cycle. This altruistic behavior confers to this
Domibacillus
strain a potential use for the construction of bacterial consortia with diverse biotechnological applications.
Complete genome sequence of
Bacillus megaterium
strain DY294, a strain of
Bacillus
isolated from Arshan Resort in Hulunbuir
Authors: Deng Caixia , Zhao Yan , Mandlaa Mandlaa , Chen Yingsong , Yang Dezhi 
Published: October 2024

ABSTRACT

The Arshan Resort is a unique mineral spring whose water is used in traditional Mongolian medicine to treat many kinds of diseases. Here, we report the genome sequence of
Bacillus megaterium
Strain DY294, a strain isolated from the Arshan water collected from Hulunbuir (117°40′ E, 48°54′ N), China.
Triplex real-time PCR ZKIR-T assay for simultaneous detection of the
Klebsiella pneumoniae
species complex and identification of
K. pneumoniae
sensu stricto
Authors: Ligowska-Marzęta Małgorzata , Barbier Elodie , Rodrigues Carla , Piveteau Pascal , Schrøder Hansen Dennis , Hartmann Alain , Møller Nielsen Eva , Brisse Sylvain 
Published: October 2024

ABSTRACT

Klebsiella pneumoniae
species complex (KpSC) members, including the most important species
K. pneumoniae
(phylogroup Kp1 of the KpSC), are important opportunistic pathogens that display increasing rates of antimicrobial resistance worldwide. As they are widespread in food and the environment, there is a need for fast, sensitive, and reliable methods to detect KpSC members in complex matrices. Previously, the ZKIR real-time PCR assay was developed to detect all KpSC members without distinction. Given that Kp1 is the clinically most significant phylogroup of the KpSC, here, we aimed to simultaneously identify Kp1 while detecting all KpSC members. Three TaqMan probes were developed and used: the Kp1 probe to specifically identify this phylogroup; the
zkir
P1 probe to detect phylogroups Kp1–Kp5 and Kp7; and the
zkir
P2 probe to detect phylogroup Kp6. The new triplex assay was tested on a total of 95 KpSC and 19 non-KpSC strains from various sources, representing the different phylogroups as defined by whole genome sequencing. The results showed almost complete specificity, as the expected PCR results were obtained for 112 (98%) strains. The new triplex real-time PCR assay, called ZKIR-T, enables the detection of all KpSC taxa while discriminating Kp1, which will be useful for rapid screening and to focus downstream analyses on chosen phylogroups of the KpSC.

IMPORTANCE

The pathogens of the
Klebsiella pneumoniae
species complex are widespread in food and animals and are among the main pathogens responsible for multidrug resistant infections in humans. In this study, we developed a highly sensitive detection assay that enables detection of this group of bacteria, with the simultaneous identification of the most common and clinically important species. This triplex one-reaction assay was shown to be highly sensitive and precise, enabling fast screening of varied samples for the presence of KpSC and
K. pneumoniae
sensu stricto.
DNA metabarcoding analyses reveal fine-scale microbiome structures on Western Canadian bat wings
Authors: Insuk Chadabhorn , Cheeptham Naowarat , Lausen Cori , Xu Jianping 
Published: October 2024

ABSTRACT

Healthy wings are vital for the survival and reproduction of bats, and wing microbiome is a key component of bat wing health. However, relatively little is known about the wing microbiome of bats in western Canada where the white nose syndrome has become an increasing threat. Here, we used DNA metabarcoding to investigate the bacterial and fungal communities on the wings of three bat species: the big brown bat (
Eptesicus fuscus
), the Yuma myotis (
Myotis yumanensis
), and the little brown myotis (
M. lucifugus
) from four field sites in Lillooet, British Columbia, Canada. The bacterial 16S rRNA metabarcoding revealed a total of 4,167 amplicon sequence variants (ASVs) belonging to 27 phyla, 639 genera, and 533 known and 2,423 unknown species. The wing bacteria were dominated by phyla Proteobacteria, Firmicutes, Bacteroides, and Actinobacteria, and the most common genera were
Delftia
,
Bordetella
,
Sphingomonas
,
Phyllobacterium
,
Bradyrhizobium
,
Pseudomonas
, and
Corynebacterium
. The fungal internal transcribed spacer (ITS) metabarcoding revealed a total of 11,722 ASVs belonging to 16 phyla, 806 genera, and 1,420 known and 10,302 unknown species. The wing fungi were dominated by phyla Ascomycota, Basidiomycota, and Motierellomycota, and the most common genera were
Cladosporium
,
Aspergillus
, and
Mycosphaerella
. Principal coordinates analysis showed that both bat species and field sites contributed variably to the diversity and distribution of bacterial and fungal communities on bat wings. Interestingly, both positive and negative correlations were found in their relative abundances among several groups of microbial taxa. We discuss the implications of our results for bat health, including the management of
P. destructans
infection and white-nose syndrome spread.

IMPORTANCE
Microbiomes play important roles in host health. White-nose syndrome (WNS), a fungal infection of bat wings and muzzles, has threatened bat populations across North America since 2006. Recent research suggest that the skin microbiome of bats may play a significant role in bat's susceptibility to WNS. However, relatively little is known about the skin microbiome composition and function in bats in Western Canada, a region with a high diversity of bats, but WNS has yet to be a major issue. Here, we revealed high bacterial and fungal diversities on the skin of three common bat species in Lillooet, British Columbia, including several highly prevalent microbial species that have been rarely reported in other regions. Our analyses showed fine-scale structures of bat wing microbiome based on local sites and bat species. The knowledge obtained from WNS-naïve bat populations in this study may help develop mitigation and management strategies against WNS.
Development and optimization of a double antigen sandwich ELISA detecting for Senecavirus A antibodies based on VP2 protein
Authors: Chen Jie , Shi Zhengwang , Luo Juncong , Jia Caixia , Zhang Xiaoyang , Wei Juanjuan , Li Shuaipeng , Zhu Yuqian , Xi Tao , Zhou Jing , He Yindi , Shi Xintai , Liao Huanchen , Tian Hong , Zheng Haixue 
Published: October 2024

ABSTRACT

Senecavirus A (SVA) is an emerging viral pathogen that threatens the global swine industry significantly. The major clinical symptoms of SVA-infected animals are vesicular lesions, but various diseases can cause the same symptoms, which makes it difficult to distinguish SVA from other vesicular diseases clinically. The absence of an effective and safe vaccine necessitates the development of a simple, specific, and sensitive serological detection method for SVA antibodies. The VP2 protein of SVA, characterized by high immunogenicity and sequence conservatism, is an essential target for serological diagnosis. In this study, a double-antigen sandwich enzyme-linked immunosorbent assay [ELISA (DAgS-ELISA)] based on VP2 protein expressed by
Escherichia coli
was established for SVA antibody detection. With a cut-off value of 0.237, this assay demonstrated outstanding performance, showing high sensitivity and sharp specificity, which is manifested in the absence of cross-reaction with classical swine fever virus (CSFV), African swine fever virus (ASFV), pseudorabies virus (PRV), and porcine reproductive and respiratory syndrome virus (PRRSV), and foot-and-mouth disease virus (FMDV) serotype A and O. Additionally, the repeatability of the method is remarkable, as shown by the coefficients variation (CV) of both the intra- and inter-assay below 10%. By detecting 166 clinical sera, it was found that the kappa value of the DAgS-ELISA was 0.78 compared with that of the virus neutralization test (VNT), indicating a high level of consistency. In general, this method has high sensitivity, sharp specificity, remarkable repeatability, sound consistency, and low cost, making it a reliable and effective tool for detecting SVA antibodies.

IMPORTANCE

SVA has rapidly become prevalent in many countries, and its outbreaks have threatened the global swine industry significantly. The major clinical symptoms of SVA-infected animals are vesicular lesions that are similar to other vesicular diseases, making it difficult to distinguish SVA. Currently, no commercial vaccines are available for SVA; therefore, effective diagnosis of SVA infection is vital for its prevention and control. In this study, VP2 protein of SVA was expressed by
E. coli
, and a double-antigen sandwich enzyme-linked immunosorbent assay [ELISA (DAgS-ELISA)] for SVA antibodies detection was successfully established based on the VP2 protein. The DAgS-ELISA has a high sensitivity, sharp specificity, remarkable repeatability, sound consistency, and low cost for detecting SVA antibodies. Therefore, the DAgS-ELISA established in this study may be a reliable and effective tool for detecting SVA antibodies and may be used to strengthen the monitoring and prevention of SVA epidemic in the long run.
Associations of serial negative income shock and all-cause mortality: a longitudinal study in China
Authors: Xiao Nan , Li Ran , Li Shanshan , Yu Yudan , Yang Fan , Yang Jianan , Liu Gordon G , Lyu Beini 
Published: October 2024

IntroductionWith a precarious economic outlook and increasing income volatility in current times, understanding the association between negative income shock and health is crucial. However, few studies have examined such associations in developing countries. Using data from China, this study aimed to examine associations of both serial absolute income drops and relative income trajectory and mortality.MethodsWe included 4757 participants from the China Health and Nutrition Survey, a large prospective cohort study. Data between 1989 and 1997 were used to define income drops and relative income trajectories. We defined income drop as a decrease of ≥50% between two consecutive interviews and defined relative income trajectory using a latent class model. All-cause mortality between 2000 and 2015 was ascertained by participants’ family members.ResultsA total of 2066 (43.43%) experienced 1 income drop and 477 (10.03%) experienced ≥2 income drops. A total of 535 deaths occurred (incidence rate 8.88 per 1000 person-years). Income drops were associated with a greater risk of mortality after adjusting for baseline income, comorbidities, sociodemographic and behavioural factors (HR 1.42 (95% CI 1.04 to 1.93) for ≥2 income drops vs no income drop). The downshift in relative income was also associated with increased mortality risk (HR 3.61 (95% CI 1.45 to 8.96) for always low; HR 3.36 (95% CI 1.36 to 8.32) for decreasing; HR 2.92 (95% CI 1.14 to 7.51) for increasing vs always high relative income). The associations between income drops and mortality were observed only among individuals with low wealth and low household income.ConclusionIn a large sample of the Chinese population with repeated income measurement and over 14 years of follow-up, both serial absolute income drops and a downward relative income trajectory were associated with higher risks of mortality in China. Priority should be given to policies aimed at enhancing resilience against serial income shocks and financial burdens.
Combined MRI, high-resolution manometry and a randomised trial of bisacodyl versus hyoscine show the significance of an enlarged colon in constipation: the RECLAIM study
Authors: Wilkinson-Smith Victoria , Scott Mark , Menys Alex , Wiklendt Lukasz , Marciani Luca , Atkinson David , Sansone Stefano , Zdanaviciene Ausra , Coupland Carol , Knowles Charles H , Dinning Philip , Taylor Stuart A , Gowland Penny , Hoad Caroline Louise , Corsetti Maura , Spiller Robin C 
Published: October 2024

BackgroundColonic motility in constipation can be assessed non-invasively using MRI.ObjectiveTo compare MRI with high-resolution colonic manometry (HRCM) for predicting treatment response.DesignPart 1: 44 healthy volunteers (HVs), 43 patients with irritable bowel syndrome with constipation (IBS-C) and 37 with functional constipation (FC) completed stool diaries and questionnaires and underwent oral macrogol (500–1000 mL) challenge. Whole gut transit time (WGTT), segmental colonic volumes (CV), MRI-derived Motility Index and chyme movement by ‘tagging’ were assessed using MRI and time to defecation after macrogol recorded. Left colonic HRCM was recorded before and after a 700 kcal meal. Patients then proceeded to Part 2: a randomised cross-over study of 10-days bisacodyl 10 mg daily versus hyoscine 20 mg three times per day, assessing daily pain and constipation.ResultsPart 1: Total CVs median (range) were significantly greater in IBS-C (776 (595–1033)) and FC (802 (633–951)) vs HV (645 (467–780)), p<0.001. Patients also had longer WGTT and delayed evacuation after macrogol. IBS-C patients showed significantly reduced tagging index and less propagated pressure wave (PPW) activity during HRCM versus HV. Compared with FC, IBS-C patients were more anxious and reported more pain. Abnormally large colons predicted significantly delayed evacuation after macrogol challenge (p<0.02), impaired manometric meal response and reduced pain with bisacodyl (p<0.05).Part 2: Bisacodyl compared with hyoscine increased bowel movements but caused more pain in both groups (p<0.03).ConclusionAn abnormally large colon is an important feature in constipation which predicts impaired manometric response to feeding and treatment responses. HRCM shows that IBS-C patients have reduced PPW activity.Trial registration numberThe study was preregistered on ClinicalTrials.gov, Reference:NCT03226145.
Improving routine mental health screening for depression and anxiety in a paediatric lupus clinic: a quality improvement initiative for enhanced mental healthcare
Authors: El Tal Tala , Chen Audrea , Wong Stephanie , Jeyanathan Asha , Longmore Avery , Convery Holly , Finkelstein Dinah , Hiraki Linda , Kulkarni Chetana , Lerman Neely , Leslie Karen , Levy Deborah M , Lorber Sharon , Mwizerwa Oscar , Ng Lawrence , Rawal Vandana , Smith Evelyn , Toulany Alene , Knight Andrea M 
Published: October 2024

BackgroundMental health (MH) conditions are prevalent in adolescents with childhood-onset SLE (cSLE). Early identification is crucial in preventing poor patient outcomes; however, MH screening rates remain low.Local problemFrom July 2021–January 2022, only 15% of adolescents in a paediatric tertiary care cSLE clinic were being screened for depression and anxiety. By November 2023, we aimed to increase the percentage of patients with cSLE (≥12–18 years) screened for depression (Patient Health Questionnaire: PHQ-9) and anxiety (Generalised Anxiety Disorder-7: GAD-7) from 15% to 80%.MethodsThis quality improvement project employed the Model for Improvement framework. Stakeholders included the clinic team, patients and families, and MH providers. Statistical process control charts were used to analyse the outcome measure for percentage of screened patients with cSLE. Patient and caregiver satisfaction surveys were conducted at baseline and after screening as a balancing measure.InterventionsMH screening workflow with a referral algorithm was developed with stakeholders. Additional interventions included two MH training workshops for healthcare providers and a preclinic reminder of eligible patients for screening.ResultsOver 21 months, 146 patients with cSLE completed 270 MH screens, increasing the screening rate from 15%, peaking at 100%, to a median of 56%. Sixty-six individuals (45%) reported symptoms of depression and/or anxiety on their initial screen. Of 270 screens, 44 individuals (17%) reported moderate to severe symptoms meeting the screening workflow criteria for referral to a MH service; 10% of patients screened were referred and seen by the MH service within 2–12 weeks. Patients and caregivers reported satisfaction with the MH screening process and quality of MH follow-up.ConclusionDespite not sustainably meeting the target, MH screening rates increased in the cSLE clinic by nearly fourfold, demonstrating feasibility and acceptability. Patients expressed satisfaction with their mental health follow-up, emphasising its importance in their care.
Comparing outcomes of patients with early active rheumatoid arthritis initially treated on an inpatient or outpatient basis: a posthoc analysis of the CORRA trial
Authors: Mai Anna , Krause Dietmar , Klaassen-Mielke Renate , Meiszl Katharina , Timmesfeld Nina , Baraliakos Xenofon , Braun Jürgen 
Published: October 2024

ObjectiveTreatment strategies of patients with active rheumatoid arthritis (RA) vary within and between countries. While most patients in Germany are treated on an outpatient basis, some are hospitalised (inpatients). In the recently published randomised CORRA (CORRA, CORticoid bridging in Rheumatoid Arthritis) trial, we studied two 12 week glucocorticoid (GC) bridging strategies in patients with early RA comparing high or low GC doses with placebo, followed by an extension phase of 9 months. Here, in this posthoc analysis, we compared 12 week outcomes of patients according to their initial treatment as inpatients or outpatients.MethodsInpatients initially spent 2–5 days (short-term) or 14 days (long-term) in one tertiary rheumatology hospital. Outpatients were mostly treated in rheumatology practices. There was no randomisation regarding the initial treatment strategy. The main endpoint of this posthoc analysis was Clinical Disease Activity Index (CDAI) remission at weeks 4, 8 and 12.ResultsData of 280 outpatients and 95 inpatients could be analysed. Inpatients were more often male, had less cardiovascular comorbidity, but higher baseline CDAI scores and more symptoms of depression compared with outpatients. At weeks 8 and 12, CDAI remission was more frequently observed in inpatients (week 8: 24.7 vs 14.9%; week 12: 30.5 vs 17.3%). These results were confirmed in a multivariable model: OR=2.43 (1.06; 5.55); p=0.035, and OR=2.91 (1.37; 6.14); p=0.005, respectively.ConclusionIn early active RA, initial inpatient treatment was associated with higher CDAI remission rates at weeks 8 and 12. This may be due to the initially more intense hospital care.
Family caregivers of children with cystic fibrosis: supportive care needs – scoping review
Authors: Shadi Danial , Jabraeili Mahnaz , Hassankhani Hadi , Alhani Fatemeh , Arshadi Bostanabad Mohammad 
Published: October 2024

BackgroundCystic fibrosis (CF) in children requires complex and time-consuming daily care, presenting significant challenges for families and caregivers. Family caregivers caring for children with CF report diverse and complex needs.ObjectiveThis review aimed to identify the supportive care needs of family caregivers of children with CF.Review methodsThis scoping review was conducted to identify the supportive care needs of family caregivers for children with CF using the methodology proposed by Arksey and O’Malley. The Preferred Reporting Items for Systematic review and Meta-Analysis extension for Scoping Reviews checklist was used as a guide. The inclusion criteria included full-text quantitative and qualitative English articles from January 2000 to Apr 2024.Data sourcesStructured searches were conducted using Magiran, MEDLINE (PubMed), Scopus, ScienceDirect, SID (Science Information Database), Web of Science and Google Scholar search engines.FindingsA search across six databases, including Magiran (96), PubMed (680), Scopus (828), ScienceDirect (972), SID (Science Information Database) (47) and Web of Science (409), identified 3032 records. An additional 1185 related articles were found through a manual search of the reference lists and the Google Scholar search engine bringing the total to 4217. Out of 4217 initial articles, 21 eligible articles were reviewed. The findings from this study indicated that family caregivers of children with CF face multidimensional needs requiring comprehensive attention and support including educational/informational, psychological/emotional, spiritual, social, family-related, health and child development and growth needs.ConclusionAddressing the needs of family caregivers of children with CF requires a multidimensional approach including multidisciplinary team support across various domains.
Beyond the physical realm: exploring the relationship between spiritual well-being and spiritual care competence
Authors: Olmaz Dilek , Özden Gürkan , Parlar Kılıç Serap 
Published: October 2024

ObjectivesThis study aimed to investigate the relationship between nurses’ spiritual well-being and their competence in providing spiritual care, and to identify influencing factors among Turkish nurses.MethodsA descriptive and correlative design was employed, involving 520 nurses from two hospitals in eastern Turkey. Data were collected online using Google Forms, which included a demographic questionnaire, the three-factor Spiritual Well-being Scale and the Spiritual Care Competence Scale. The study was conducted between August 2019 and June 2020.ResultsA significant positive correlation was found between nurses’ spiritual well-being and their spiritual nursing competence (r=0.320, p=0.019). Factors, such as work duration, marital status, patient load, experience, education and information, influenced these attributes. Ageing has also been found to reduce well-being and competence.ConclusionsNurses’ spiritual well-being and competence in providing spiritual care were moderately positively and significantly correlated. Education, experience and engagement in religious activities enhanced these attributes. Future research should explore additional influencing factors and incorporate spirituality into nursing education to improve the quality of holistic care.
Two pseudo-Goldstone bosons in the Gildener–Weinberg model
Authors: Ghorbani Parsa 
Published: October 2024

AbstractIn a dimensionless multi-scalar extension of the Standard Model, Gildener and Weinberg assumed that along a flat direction, there is only one classically massless scalar, known as the scalon, which acquires mass through radiative corrections à la Coleman–Weinberg, while all other scalars remain heavy. In this paper, by introducing a toy model with four scalar degrees of freedom we demonstrate the existence of two scalons along a specific flat direction that we construct. We present the effective potential for the model and provide the masses of the heavy scalars and two radiatively light pseudo-Goldstone bosons.