bluuebunny/crossref_metadata_2025_split huggingface dataset:
Population genetic analysis of the Humboldt’s flying squirrel using high-throughput sequencing
Authors: Yuan Stella C , Malekos Eric , Cuellar-Gempeler Catalina , Hawkins Melissa T R 
Published: January 2022

Abstract
The San Bernardino flying squirrel (Glaucomys oregonensis californicus) is thought to be the southernmost population of the Humboldt’s flying squirrel (G. oregonensis) and is restricted to the San Bernardino and San Jacinto Mountains in California. However, recent surveys indicate they have been extirpated from the latter locality. In this study, we characterized the intraspecific genetic structure and diversity of G. oregonensis. We amplified and sequenced at least 300 bp of the mitochondrial cytochrome-b gene and 11 nuclear microsatellites to provide baseline genetic data for this species and subspecies, investigate G. oregonensis genetic structure with a focus on the subspecies distributed in California, and finally evaluate the genetic diversity within G. o. californicus. Population and phylogenetic analyses were performed on a total of 147 samples (tissue, hair, and museum specimen) using the Illumina high-throughput sequencing (HTS) platform, thereby bioinformatically coding microsatellite alleles using established pipelines. Our results indicate reduced genetic diversity in G. o. californicus and highlight genetic distinctiveness of the San Jacinto population. In addition, the differences in genetic diversity between the mitochondrial and nuclear markers suggest sex-biased dispersal and historic separation of the species in multiple refugia followed by more recent gene flow among subpopulations in northern California. This study contributes valuable information toward understanding the genetic variation within G. oregonensis, provides information for future conservation decisions for G. o. californicus, and has novel implications for HTS genotyping-by-sequencing.
Everyday limits to adaptation
Authors: Henrique Karen Paiva , Tschakert Petra 
Published: January 2022

Abstract
Adaptation to climate change, in terms of both academic and policy debates, has been treated predominantly as a local issue. This scalar focus points towards local agency as well as the contested responsibilization of local actors and potential disconnects with higher-level dynamics. While there are growing calls for individuals to take charge of their own lives against mounting climatic forces, little is known about the day-to-day actions people take, the many hurdles, barriers, and limits they encounter in their adaptation choices, and the trade-offs they consider envisaging the future. To address this gap, this article draws on 80+ interviews with urban and rural residents in Western Australia to offer a nuanced analysis of everyday climate adaptation and its limits. Our findings demonstrate that participants are facing significant adaptation barriers and that, for many, these barriers already constitute limits to what they can do to protect what they value most. They also make visible how gender, age, and socioeconomic status shape individual preferences, choices, and impediments, revealing compounding layers of disadvantage and differential vulnerability. We argue that slow and reflexive research is needed to understand what adaptation limits matter and to whom and identify opportunities to harness and support local action. Only then will we be able to surmount preconceived neoliberal ideals of the self-sufficient, resilient subject, engage meaningfully with ontological pluralism, and contribute to the re-politicization of adaptation decision-making.
ACTIVITY ESTIMATION WHEN DEALING WITH COLLECTIONS OF URANIFEROUS MINERALS
Authors: Fedeli Luca , Doria Sandra , Moggi Cecchi Vanni , Cupparo Ilaria , Fabrizi Lucilla , Gori Cesare 
Published: January 2022

Abstract
The activity estimation of hand-size specimens of uraniferous minerals is not a trivial issue due to the manipulation difficulty caused by the emitted ionising radiation and the dependence of radiometric quantities from several parameters. Sample modelling requires approximations, leading to large uncertainty in the evaluation of the activity.
In this work, a new procedure to evaluate uraniferous specimens activity, including a detailed description of measured parameters, the instrumentation and the mathematical formulation of the process, is presented. The proposed methodology takes into consideration sample size, ore composition and measured radiation.
The procedure was used to measure the activity of a group of uraniferous mineral specimens belonging to Natural History Museum of the University of Florence, Italy. The experimental set-up was designed to reduce the measurement uncertainty. The aim of this work is to propose a methodology that can be easily applied to the specimens manipulation, conservation and exhibition.
What Is the Effect of Organ Donation Authorization Rates When Utilizing a Standardized Effective Request Process?
Authors: Bly Jacob D. , Atluri Sahaja , Graham-Stephenson Alexis , Ott Melissa , Markham Lori , Sander Scott , Neel Dustin R. , Johnson Scott S. , Vasquez Donald G. , Whitt Steven P. , Olson Jody , Sangha Harbaksh , Cheng An-Lin , Moncure Michael 
Published: January 2022

OBJECTIVES:
To determine if implementation of a standardized effective request process (ERP) can increase organ donation authorization rates.

DESIGN:
A retrospective, observational study was performed using data acquired from the Midwest Transplant Network. chi-square test was used to analyze categorical data, with p value of less than 0.05 deemed significant.

SETTING:
The Midwest Transplant Network located in Westwood, KS from January 1, 2013 to June 30, 2017.

PATIENTS:
A total of 1,391 consecutive patients were identified as potential donors based on medical evaluation of the patient’s neurologic status, organ function, and established age criteria.

INTERVENTIONS:
An ERP was used when discussing donation with 733 patients (53%), compared with no ERP usage with 658 patients (47%).

MEASUREMENTS AND MAIN RESULTS:
A significant increase (30%) in donation rates was observed when an ERP was used. A comparative decrease in donation rates was observed whenever a breakdown in any of the four identified steps occurred.

LIMITATIONS:
The data analyzed was gathered retrospectively. Due to the retrospective nature of our study, there is no way to determine delay in authorization times versus no delay. Although most population data information about the authorized donors was known, this information was limited in patients who declined.

CONCLUSIONS:
With proper preparation and planning, the implementation of a standardized ERP may improve organ donation rates and increase the number of life-saving organs for transplant.
Physician Voices on ECHO Autism India—Evaluation of a Telementoring Model for Autism in a Low-Middle Income Country
Authors: Sengupta Koyeli , Lobo Leera , Krishnamurthy Vibha 
Published: January 2022

ABSTRACT:

Objectives:
Training pediatricians in low- and middle-income countries (LMICs) in early diagnosis and comprehensive management of autism spectrum disorder (ASD) is crucial to ensure optimal developmental outcomes for a substantial number of children with ASD in this region. This study evaluates the relevance and effectiveness of an evidence-based telementoring model Extension for Community Healthcare Outcomes (ECHO) Autism in increasing pediatricians' access to best-practice care for children with ASD in LMIC contexts.

Methods:
ECHO Autism was launched by a ‟hub” team of multidisciplinary ASD experts at a child development center in Mumbai, India. The culturally modified model included 13 biweekly sessions conducted annually using video-conferencing technology. Sessions combined expert-delivered didactics and facilitated case-based discussions on best-practice methods in screening, diagnosing, and managing autism and its comorbidities. Sixty-two physicians, including 59 pediatricians across 2 cohorts (2019–2020), participated in the mixed-methods study to evaluate participants' reactions, knowledge, behaviors, and impact on children and families.

Results:
Participants represented a broad geographic reach across India (n = 47) and other LMICs (n = 15). Both quantitative and qualitative data revealed high levels of participant satisfaction and improved knowledge and self-efficacy in ASD diagnosis and management. Qualitative themes highlighted the adult-learning processes of ECHO Autism that participants considered novel and beneficial, such as reflective discussions, respectful mentoring, having a parent as ‟expert,” and cultural relevance, alongside changes in practice behaviors.

Conclusion:
ECHO Autism clinics facilitated by local experts in LMICs can improve access to early diagnosis and evidence-based, comprehensive management for children with ASD and their families by positively influencing pediatricians' knowledge, attitudes, and practice behaviors.
Is cognitive performance of women sensitive to the severity of menopausal symptoms?
Authors: Kaur Mankamal , Kaur Maninder 
Published: January 2022

Abstract

Objective:
Menopause is a natural phenomenon among women during their midlife, which is accompanied by unfavorable physical, physiological, and psychological consequences. Therefore, the major aim of the present cross-sectional study was to examine whether the cognitive performance of women is sensitive to the severity of menopausal symptoms.

Methods:
A total number of 404 rural women aged between 40 and 65 years were included in the present study. The menopausal symptoms and cognitive performance of the women were assessed using the Greene Climacteric Scale and Hindi Mini-Mental State Examination scale respectively.

Results:
The results of the present study demonstrated that women experiencing severe menopausal symptoms (higher Total Greene climacteric score) presented significantly lower mean values for orientation (8.11 vs 8.90, P < 0.001), registration (2.77 vs 2.91, P < 0.001), attention (4.31 vs 4.48, P < 0.01), recall (2.26 vs 2.53, P < 0.05), and language/visuo-spatial skills (7.13 vs 7.91, P < 0.001) as compared with their counterparts with mild menopausal symptoms. The multivariate linear regression model (after adjustment for age, marital status, and educational status) recorded severe depression and greater sexual dysfunction as the factors significantly associated with lower Mini-Mental State Examination scores.

Conclusion:
Hence, the findings of the present study indicated that the cognitive performance of women was sensitive to severe depression and sexual dysfunction.

Video Summary:

http://links.lww.com/MENO/A864.
Oral postmenopausal hormone therapy and genetic risk on venous thromboembolism: gene-hormone interaction results from a large prospective cohort study
Authors: Kim Jihye , Bhupathiraju Shilpa N. , Harrington Laura B. , Hagan Kaitlin A. , Lindström Sara , Manson JoAnn E. , Kraft Peter , Kabrhel Christopher 
Published: January 2022

Abstract

Objective:
Oral postmenopausal hormone therapy (HT) has been shown to be associated with venous thromboembolism (VTE), but whether this association is modified by VTE-associated genetic susceptibility is unknown. We examined interactions between oral HT use and a genetic risk score (GRS) of VTE.

Method:
Eligible women were postmenopausal women who had data on oral HT use, VTE incidence between 1990 and 2012, and genetic data in the Nurses’ Health Study. We built a GRS aggregating 16 VTE-related genetic variants. We used Cox regression to estimate associations of HT use with incident VTE and assessed interactions between HT use and VTE GRS. We also estimated incidence of VTE between age 50 and 79 years for groups of women defined by HT use and VTE GRS.

Results:
We identified 432 incident VTE cases. Current HT users were at higher risk of VTE than never users (HR: 1.9, 95% CI: 1.5-2.6), with slightly higher risk for estrogen plus progestin HT than estrogen only (HR: 2.4 vs 1.9). The GRS was associated with VTE risk (HR comparing 4th quartile to 1st: 2.0, 95% CI: 1.2-3.4). We did not observe significant multiplicative interactions between HT use and GRS. The estimated VTE risk difference (per 10,000 person-years) comparing 50-year-old current HT users to never users was 22.5 for women in the highest GRS quartile and 9.8 for women in the lowest GRS quartile.

Conclusion:
The VTE GRS might inform clinical guidance regarding the balance of risks and benefits of HT use, especially among younger women.
RESULTS OF TWO CASES WITH DISTINCT COMPLICATIONS DUE TO INTRAVITREAL BEVACIZUMAB IN RETINOPATHY OF PREMATURITY
Authors: Yalcinbayir Ozgur , Ucan Gunduz Gamze , Yildiz Meral , Alyamac Gunay , Avci Remzi 
Published: January 2022

Purpose:
To present the surgical outcome and long-term follow-up of 2 cases who underwent intravitreal bevacizumab injection for retinopathy of prematurity (ROP) and subsequently developed full thickness macular hole and endophthalmitis.

Methods:
Case report.

Patients:
The first case is a premature girl who was delivered 650 g at the 27th week of postmenstrual age (PMA) because of preeclampsia and received intravitreal 0.16 mg bevacizumab bilaterally at the 38th PMA with the diagnosis of ROP. She was referred with endophthalmitis 10 days after injection in the left eye. Endophthalmitis resolved with pars plana vitrectomy that was performed the following day. The second case is a premature girl who was delivered at the 30th week of PMA weighing 1,230 g and received intravitreal 0.16 mg bevacizumab injections bilaterally at the 39th PMA with a diagnosis of ROP. Retinopathy of prematurity regressed in the follow-up; however, full thickness macular hole was noted in the right eye on the first week of the injection. Pars plana vitrectomy, internal limiting membrane peeling, and gas tamponade were performed at the 41st PMA week. Full thickness macular hole persisted despite pars plana vitrectomy whereas glaucoma emerged during the follow-up.

Conclusion:
Development of endophthalmitis and macular hole may occur after intravitreal injections in cases with ROP.
HIV and Aging in the Era of ART and COVID-19
Authors: Pallikkuth Suresh , Pahwa Savita 
Published: January 2022

Abstract:
Our understanding of HIV/AIDS has been reframed during the recent past because the use of novel antiretroviral therapy has enabled clinicians and patients to control the progression of the disease. This supplement provides an overview of the HIV and Aging in the Era of ART and COVID-19, a virtual symposium held on February 8–9, 2021, organized by the Miami Center for AIDS Research along with articles contributed by some of the speakers and members of the organizing committee and presentations by junior investigators.
Aging With Grace for People Living With HIV: Strategies to Overcome Leaky Gut and Cytomegalovirus Coinfection
Authors: Routy Jean-Pierre , Royston Léna , Isnard Stéphane 
Published: January 2022

Abstract:
The intestinal epithelial layer acts as a mechanical and functional barrier between the intraluminal microbiota and the immunologically active submucosa. A progressive loss of gut barrier function (leaky gut) leads to enhanced translocation of microbial products, which in turn contributes as endotoxins to inflammaging. Th17 T cell represents the main immune sentinels in the gut epithelium, preventing aggression from commensal and pathogenic microbes. As HIV infection deeply affects gut Th17 function and increases gut permeability, microbial translocation occurs at high level in people living with HIV (PLWH) and has been associated with the development of non-AIDS comorbidities. Although the inflammatory role of endotoxins like lipopolysaccharide produced by Gram-negative bacteria is well-established, fungal products such as β-D-glucan emerge as new contributors. In addition, PLWH are more frequently infected with cytomegalovirus (CMV) than the general population. CMV infection is a well-described accelerator of immune aging, through the induction of expansion of dysfunctional CD8 T-cells as well as through enhancement of gut microbial translocation. We critically review immune mechanisms related to bacterial and fungal translocation, with a focus on the contribution of CMV coinfection in PLWH. Improving gut barrier dysfunction, microbial composition, and reducing microbial translocation constitute emerging strategies for the prevention and treatment of HIV-associated inflammation and may be relevant for age-related inflammatory conditions.
SH3Ps recruit auxilin-like vesicle uncoating factors into clathrin-mediated endocytosis
Authors: Adamowski Maciek , Matijević Ivana , Narasimhan Madhumitha , Friml Jiří 
Published: January 2022

AbstractClathrin-mediated endocytosis (CME) is an essential process of cellular cargo uptake operating in all eukaryotes. In animal and yeast, CME involves BAR-SH3 domain proteins, endophilins and amphiphysins, which function at the conclusion of CME to recruit factors for vesicle scission and uncoating. Arabidopsis thaliana contains BAR-SH3 domain proteins SH3P1-3, but their role is poorly understood. We identify SH3P1-3 as functional homologues of endophilin/amphiphysin. SH3P1-3 bind to discrete foci at the plasma membrane (PM), and colocalization indicates late recruitment of SH3P2 to a subset of clathrin-coated pits. PM recruitment pattern of SH3P2 is nearly identical to its interactor, a putative vesicle uncoating factor AUXILIN-LIKE1, and SH3P1-3 are required for most of AUXILIN-LIKE1 PM binding. This indicates a plant-specific modification of CME, where BAR-SH3 proteins recruit auxilin-like uncoating factors, rather than the uncoating phosphatases synaptojanins. Furthermore, we identify an unexpected redundancy between SH3P1-3 and a plant-specific endocytic adaptor, TPLATE complex, showing a contribution of SH3P1-3 to gross CME.
ARF small GTPases in the developmental function mediated by ARF regulators GNOM and VAN3
Authors: Adamowski Maciek , Matijević Ivana , Friml Jiří 
Published: January 2022

AbstractARF small GTPases are molecular switches acting in intracellular trafficking. Their cycles of activity are controlled by regulators, ARF Guanine nucleotide Exchange Factors (ARF-GEFs) and ARF GTPase Activating Proteins (ARF-GAPs). The ARF-GEF GNOM (GN) and the ARF-GAP VAN3 share a prominent function in auxin-mediated developmental patterning, but the ARFs which they might control were not identified. We conducted a loss-of-function and localization-based screening of the ARF/ARF-LIKE gene family in Arabidopsis thaliana with the primary aim of identifying functional partners of GN and VAN3, while extending the limited understanding of this gene group as a whole. We identified a function of ARLA1 in branching angle control. Mutants lacking the variably localized ARLB1, ARFB1, ARFC1, ARFD1, and ARF3, even in high order combinations, do not exhibit any evident phenotypes. Loss of function arfa1 phenotypes support a major role of ARFA1 in growth and development overall, but patterning defects typical to gn loss of function are not found. ARFA1 are not localized at the plasma membrane, where GN and VAN3 carry out developmental patterning function according to current models. Taken together, putative ARF partners of GN and VAN3 in developmental patterning cannot be conclusively identified.
Influence of Nesting Material Composition on Tick Tube Use by Peromyscus leucopus
Authors: Mandli Jordan T. , Ring Sydney E. , Paskewitz Susan M. 
Published: January 2022

ABSTRACTHost-targeted acaricides are a valuable tool for the reduction of ticks and tick-borne disease. Tick tubes (also known as tick control tubes) are commercially available products containing permethrin-treated nesting materials. Through superficial acaricide application to Peromyscus mice, tick tubes reduce populations of the blacklegged tick, Ixodes scapularis Say. Results of prior field trials have varied, suggesting that mouse behavior as well as the scale of the intervention and the composition of the local host community are important determinants of efficacy. Here we evaluated behaviors related to nest material collection by P. leucopus. Two forms of nest materials used in commercial tick tube products (cotton batting and balls) were assessed through side-by-side comparisons over a four-week period. We quantified cotton uptake by monitoring weekly changes in material weight and used video surveillance to categorize and assess mouse behaviors. The odds of cotton batting being taken from tubes was 2.14 times greater than cotton balls but the process was less efficient; mice removed 0.35 g less cotton batting for each removal event and required 2.17 times longer to complete the removal. While cotton balls were readily carried in the jaws of mice, batting required separating smaller fragments from the mass before placement in the oral cavity. Video surveillance suggested that a small number of mice were super users and responsible for 22% of the 119 visits in which material was removed. Combined, material weight loss and video-captured removal events improve our understanding of host usage of nest materials but also raise questions about dissemination of the material in nests of the local mouse community.
Validated method for automated glioma diagnosis from GFAP immunohistological images: a complete pipeline
Authors: Campo A. , Fernández-Flores F. , Pumarola M. 
Published: January 2022

AbstractBackground and objectiveGlial fibrillar acid protein is a common marker for brain tumor because of its particular rearrangement during tumor development. It is commonly used in manually histological glioma detection and grading. An automatic pipeline for tumor diagnosis based on GFAP is proposed in the present manuscript for detecting and grading canine brain glioma in stages III and IV.MethodsThe study was performed on canine brain tumor stages III and IV as well as healthy tissue immunohistochemically stained for gliofibrillar astroglial protein. Four stereological indexes were developed using the area of the image as reference unit: density of glioma protein, density of neuropil, density of astrocytes and the glioma nuclei number density. Images of the slides were subset for image analysis (n=1415) and indexed. The stereological indexes of each subset constituted an array of data describing the tumor phase of the subset. A 5% of these arrays were used as training set for decision tree classification with PCA. The other arrays were further classified in a supervised approach. ANOVA and PCA analysis were applied to the indexes.ResultsThe final pipeline is able to detect brain tumor and to grade it automatically. Added to it, the role the neuropil during tumor development has been quantified for the first time. While astroglial cells tend to disappear, glioma cells invade all the tumor area almost to a saturation in stage III before reducing the density in stage IV. The density of the neuropil is reduced during the tumour growth.ConclusionsThe method validated ere allows the automated diagnosis and grading of glioma in dogs. This method opens the research of the role of the neuropil in tumor development.Graphical abstract
SOX17 Is Not Required for the Derivation and Maintenance of Mouse Extraembryonic Endoderm Stem Cell Lines
Authors: Dong Xudong , Ding Ailing , Lin Jiangwei 
Published: January 2022

SUMMARYExtraembryonic endoderm stem (XEN) cell lines can be derived and maintained in vitro and reflect the primitive endoderm cell lineage. SOX17 is thought to be required for the derivation and maintenance of mouse XEN cell lines. Here we have re-evaluated this requirement for SOX17. We derived multiple SOX17-deficient XEN cell lines from preimplantation embryos of a SOX17-Cre knockout strain and chemically converted multiple SOX17-deficient embryonic stem cell lines into XEN cell lines by transient culturing with retinoic acid and Activin A. We confirmed the XEN profile of SOX17-deficient cell lines by immunofluorescence with various markers, by NanoString gene expression analyses, and by their contribution to the extraembryonic endoderm of chimeric embryos produced by injecting these cells into blastocysts. Thus, SOX17 is not required for the derivation and maintenance of XEN cell lines.