bluuebunny/crossref_metadata_2025_split huggingface dataset:
The prevalence of mental health disorders in people with HIV and the effects on the HIV care continuum
Authors: Lang Raynell , Hogan Brenna , Zhu Jiafeng , McArthur Kristen , Lee Jennifer , Zandi Peter , Nestadt Paul , Silverberg Michael J. , Parcesepe Angela M. , Cook Judith A. , Gill M. John , Grelotti David , Closson Kalysha , Lima Viviane D. , Goulet Joseph , Horberg Michael A. , Gebo Kelly A. , Camoens Reena M. , Rebeiro Peter F. , Nijhawan Ank E. , McGinnis Kathleen , Eron Joseph , Althoff Keri N. 
Published: December 2022

Objective:
To describe the prevalence of diagnosed depression, anxiety, bipolar disorder, and schizophrenia in people with HIV (PWH) and the differences in HIV care continuum outcomes in those with and without mental health disorders (MHDs).

Design:
Observational study of participants in the North American AIDS Cohort Collaboration on Research and Design.

Methods:
PWH (≥18 years) contributed data on prevalent schizophrenia, anxiety, depressive, and bipolar disorders from 2008 to 2018 based on International Classification of Diseases code mapping. Mental health (MH) multimorbidity was defined as having two or more MHD. Log binomial models with generalized estimating equations estimated adjusted prevalence ratios (aPR) and 95% confidence intervals for retention in care (≥1 visit/year) and viral suppression (HIV RNA ≤200 copies/ml) by presence vs. absence of each MHD between 2016 and 2018.

Results:
Among 122 896 PWH, 67 643 (55.1%) were diagnosed with one or more MHD: 39% with depressive disorders, 28% with anxiety disorders, 10% with bipolar disorder, and 5% with schizophrenia. The prevalence of depressive and anxiety disorders increased between 2008 and 2018, whereas bipolar disorder and schizophrenia remained stable. MH multimorbidity affected 24% of PWH. From 2016 to 2018 (N = 64 684), retention in care was marginally lower among PWH with depression or anxiety, however those with MH multimorbidity were more likely to be retained in care. PWH with bipolar disorder had marginally lower prevalence of viral suppression (aPR = 0.98 [0.98–0.99]) as did PWH with MH multimorbidity (aPR = 0.99 [0.99–1.00]) compared with PWH without MHD.

Conclusion:
The prevalence of MHD among PWH was high, including MH multimorbidity. Although retention and viral suppression were similar to people without MHD, viral suppression was lower in those with bipolar disorder and MH multimorbidity.
Persistence of envelopes in different CD4+ T-cell subsets in antiretroviral therapy-suppressed people with HIV
Authors: Gartner Matthew J. , Tumpach Carolin , Dantanarayana Ashanti , Stern Jared , Zerbato Jennifer M. , Chang J. Judy , Angelovich Thomas A. , Anderson Jenny L. , Symons Jori , Deeks Steve G. , Flynn Jacqueline K. , Lewin Sharon R. , Churchill Melissa J. , Gorry Paul R. , Roche Michael 
Published: December 2022

Objectives:
Despite suppressive antiretroviral therapy (ART), HIV can persist in a diverse range of CD4+ T-cell subsets. Through longitudinal env sampling from people with HIV (PWH) on ART, we characterized the persistence and phenotypic properties of HIV envs over two time-points (T1 and T2).

Methods:
Longitudinal blood and lymphoid tissue samples were obtained from eight PWH on suppressive ART. Single genome amplification (SGA) was performed on env to understand the genetic diversity and degree of clonal expansions over time. A subset of envs were used to generate pseudovirus particles to assess sensitivity to autologous plasma IgG and broadly neutralizing antibodies (bNAbs).

Results:
Identical env sequences indicating clonal expansion persisted between T1 and T2 and within multiple T-cell subsets. At both time-points, CXCR4-tropic (X4) Envs were more prevalent in naive and central memory cells; the proportion of X4 Envs did not significantly change in each subset between T1 and T2. Autologous purified plasma IgG showed variable neutralization of Envs, with no significant difference in neutralization between R5 and X4 Envs. X4 Envs were more sensitive to neutralization with clinical bNAbs, with CD4-binding site bNAbs demonstrating high breadth and potency against Envs.

Conclusion:
Our data suggest the viral reservoir in PWH on ART was predominantly maintained over time through proliferation and potentially differentiation of infected cells. We found the humoral immune response to Envs within the latent reservoir was variable between PWH. Finally, we identified coreceptor usage can influence bNAb sensitivity and may need to be considered for future bNAb immunotherapy approaches.
Impact of pre-antiretroviral treatment HIV-RNA on time to successful virological suppression and subsequent virological failure – two nationwide, population-based cohort studies
Authors: Sörstedt Erik , Tetens Malte Mose , Nilsson Staffan , Nowak Piotr , Treutiger Carl Johan , Månsson Fredrik , Änghagen Lena , Gisslén Magnus , Obel Niels , Yilmaz Aylin 
Published: December 2022

Background:
The impact of pre-antiretroviral treatment (ART) HIV-RNA on time to successful virological suppression and subsequent failure in HIV patients remains poorly investigated.

Methods:
We used the Swedish InfCareHIV database and the Danish HIV Cohort Study to evaluate impact of pre-ART HIV-RNA on primary virological suppression (HIV-RNA < 50 copies/ml) and risk of secondary virological failure (two consecutive HIV-RNA > 200 copies/ml or one >1000 copies/ml). The study included 3366 Swedish and 2050 Danish ART naïve individuals who initiated ART in the period 2000–2018. We used Kaplan–Meier estimates and Cox regression analyses to estimate absolute risks and hazard ratios.

Results:
In both cohorts, more than 95% of patients with a pre-ART HIV-RNA <100 000 copies/ml obtained virological suppression within the first year after ART initiation contrasting 74% (Sweden) and 86% (Denmark) in those with HIV-RNA >1 000 000 copies/ml. Almost all patients obtained virological suppression after four years irrespective of pre-ART HIV-RNA. In contrast, we observed no substantial impact of pre-ART HIV-RNA on risk of virological failure once virological suppression was obtained.

Conclusion:
High pre-ART HIV-RNA is strongly associated with increased time to successful virological suppression, but pre-ART HIV-RNA has no impact on risk of subsequent virological failure.
Cisgender women with HIV in the United States: how have HIV care continuum outcomes changed over time? 2015–2020
Authors: O'Shea Jesse Garrett , Neblett Fanfair Robyn , Dasgupta Sharoda , Tie Yunfeng , Yuan Xin , Beer Linda , Weiser John 
Published: December 2022

Objective:
To evaluate HIV care continuum trends over time among women with HIV (WWH).

Design:
The Medical Monitoring Project (MMP) is a complex sample survey of adults with diagnosed HIV in the United States.

Methods:
We used 2015–2019 MMP data collected from 5139 adults with diagnosed HIV infection who identified as cisgender women. We calculated weighted percentages with 95% confidence intervals (CIs) for all characteristics and estimated annual percentage change (EAPC) and the associated 95% CI to assess trends. EAPCs were considered meaningful from a public health perspective if at least 1% with P values less than 0.05.

Results:
Among cisgender women with diagnosed HIV infection during 2015–2019, 58.8% were Black or African American (95% CI 54.4–63.3), 19% were Hispanic/Latina (95% CI 14.7–23.2), and 16% were Non-Hispanic White (95% CI 14.1–17.9) persons. There was a meaningful increase in the percentage who ever had stage 3 HIV disease from 55.8% (95% CI 51.0–60.5) in 2015 to 61.5% (95% CI 58.1–64.8) in 2019 (EAPC 1.7%; CI 1.5–1.9; P < 0.001). There were no meaningful changes over time among women, overall, in retention in care, antiretroviral therapy (ART) prescription, ART adherence, missed appointments, or recent or sustained viral suppression.

Conclusion:
The HIV care continuum outcomes among WWH did not meaningfully improve from 2015 to 2019, raising a concern that Ending the HIV Epidemic in the US (EHE) initiative goals will not be met. To improve health and reduce transmission of HIV among WWH, multifaceted interventions to retain women in care, increase ART adherence, and address social determinants of health are urgently needed.
Association between inflammatory biomarker profiles and cardiovascular risk in individuals with and without HIV
Authors: Sukumaran Luxsena , Kunisaki Ken M. , Bakewell Nicholas , Winston Alan , Mallon Patrick W.G. , Doyle Nicki , Anderson Jane , Boffito Marta , Haddow Lewis , Post Frank A. , Vera Jaime H. , Sachikonye Memory , Sabin Caroline A. 
Published: December 2022

Background:
People with HIV have an increased risk for cardiovascular morbidity and mortality. Inflammation and immune activation may contribute to this excess risk.

Methods:
We assessed thirty-one biomarkers in a subset of POPPY participants and identified three distinct inflammatory profiles: ‘gut/immune activation’, ‘neurovascular’, and ‘reference’ (relatively low levels of inflammation). Ten-year cardiovascular disease (CVD) risk predictions were calculated using the QRISK, Framingham Risk Score (FRS) and the Data Collection on Adverse effects of anti-HIV Drugs (D:A:D) algorithms. The distributions of CVD risk scores across the different inflammatory profiles, stratified by HIV status, were compared using median quantile regression.

Results:
Of the 312 participants included [70% living with HIV, median (interquartile range; IQR) age 55 (51–60) years; 82% male; 91% white], 36, 130, and 146 were in the ‘gut/immune activation’, ‘neurovascular’, and ‘reference’ cluster, respectively. The median (IQR) QRISK scores were 9.3% (4.5–14.5) and 10.2% (5.5–16.9) for people with and without HV, respectively, with similar scores obtained with the FRS and D:A:D. We observed statistically significant differences between the distributions of scores in the three clusters among people with HV. In particular, median QRISK [5.8% (1.0–10.7) and 3.1% (0.3–5.8)] scores were higher, respectively, for those in the ‘gut/immune activation’ and ‘neurovascular’ clusters compared to those in the reference cluster.

Conclusions:
People with HIV with increased gut/immune activation have a higher CVD risk compared to those with relatively low inflammation. Our findings highlight that clinically important inflammatory subgroups could be useful to differentiate risk and maximise prediction of CVD among people with HIV.
Adenoviral-Based Vaccine Elicits Robust Systemic and Mucosal Cross-Reactive Responses in African Green Monkeys and Reduces Shedding after SARS-CoV-2 Challenge
Authors: Tedjakusuma Sarah N. , Lester Colin A. , Neuhaus Elena D. , Dora Emery G. , Tucker Sean N. , Flitter Becca A. 
Published: December 2022

AbstractAs new SARS-CoV-2 variants continue to emerge and impact communities worldwide, efforts to develop next generation vaccines that enhance mucosal immunity would be beneficial for protecting individuals and reducing community transmission. We have developed a non-replicating recombinant adenovirus vector (rAd5) vaccine delivered by mucosal administration engineered to express both a protein antigen and a novel molecular adjuvant in the same cell. Here we describe the immunogenicity of three unique SARS-CoV-2 rAd5 vaccine preclinical candidates and their efficacy following viral challenge in African green monkeys. Animals were prime and boost immunized intranasally twenty-nine days apart with rAd5 vaccine candidates containing viral SARS-CoV-2 spike protein alone or in combination with viral nucleocapsid. Mucosal immunization elicited significant increases in antigen-specific serum antibody responses and functional neutralizing activity against multiple variants of concern. Robust antigen specific mucosal IgA responses were observed after a single administration of rAd5 and generated strong cross-reactive neutralizing antibodies against multiple variants including delta. Importantly, all vaccinated animals exhibited a significant reduction in viral loads and infectious particle shedding in both the nasal passages and lower airways compared to unvaccinated controls following challenge with SARS-CoV-2. These findings demonstrate that mucosal immunization using rAd5 is highly immunogenic, confers protective cross-reactive humoral responses in both the circulation and mucosa, and reduces viral loads and shedding upon challenge with multiple SARS-CoV-2 variants.
Polyethylene valorization by combined chemical catalysis with bioconversion by plastic-enriched microbial consortia
Authors: Gregory Gwendolyn J. , Wang Cong , Sadula Sunitha , Koval Sam , Lobo Raul , Vlachos Dionisios G. , Papoutsakis E. Terry 
Published: December 2022

AbstractThere are few reports of microbial deconstruction or functionalization of the recalcitrant backbone of polyolefins. However, microbes can utilize polyolefin deconstruction products, including n-alkanes. Here, we combined chemical catalysis with bioconversion to valorize polyethylene (PE) deconstruction products. High-density PE (HDPE) was deconstructed via hydrogenolysis over a ruthenium on carbon catalyst. The resultingn-alkane mixture (C4-C35) was utilized as a feedstock for microbial consortia derived from soil from local recycling plants. We found two consortia that utilized the PE-deconstruction product mix as a sole carbon source. We adapted the consortia on a commercially-availablen-alkane mix to reduce the number of species present and enrich for enhanced alkane utilization. Both resulting enriched consortia utilized the PE-deconstruction product mix more effectively than the original (parent) consortia. The predominant metabolite produced by both enriched consortia was a C16-C16wax ester. Wax esters have considerable industrial value, with the longer chain lengths (C32-C36) having the highest value. We identified twoRhodococcus aetherivoransstrains that grow well on C24, indicating this species is important for the functionalization of long-chain alkanes. This work demonstrates that enriched consortia from plastic-enriched environments can be combined with chemical catalysis to valorize polyethylene.SynopsisChemical catalysis can be used to deconstruct polyethylene waste material to produce a mixture of alkanes. Enriched environmental microbial consortia can valorize these polyethylene deconstruction products via functionalization that preserves the alkane chain length thus minimizing CO2production.
A refined pH-dependent coarse-grained model for peptide structure prediction in aqueous solution
Authors: Tuffery Pierre , Derreumaux Philippe 
Published: December 2022

1AbstractPeptides carry out diverse biological functions and the knowledge of the conformational ensemble of polypeptides in various experimental conditions is important for biological applications. All fast dedicated softwares perform well in aqueous solution at neutral pH. In this study, we go one step beyond by combining the Debye-Hückel formalism for charged-charged amino acid interactions and a coarse-grained potential of the amino acids to treat pH and salt variations. Using the PEP-FOLD framework, we show that our approach performs as well as the machine-leaning AlphaFold2 and TrRosetta methods for 15 well-structured sequences, but shows significant improvement in structure prediction of six poly-charged amino acids and two sequences that have no homologous in the Protein Data Bank, expanding the range of possibilities for the understanding of peptide biological roles and the design of candidate therapeutic peptides.
Effects of nonantibiotic alternative growth promoter combinations on nutrient utilization, digestive enzyme activity, intestinal morphology, and cecal microflora of broilers
Authors: Li Zunyan , Zhang Beibei , Zhu Weimin , Lin Yingting , Chen Jia , Zhu Fenghua , Guo Yixuan 
Published: December 2022

AbstractGiven the ban on antibiotic growth promoters, six nonantibiotic alternative growth promoter combinations (NAGPCs) for broilers were evaluated. All birds were fed pellets of two basal diets—starter (0−21 d) and grower (22−42 d)—with either enramycin (ENR) or NAGPC supplemented. 1) control + 100 mg/kg ENR; 2) control diet (CON, basal diet); 3) control + 2,000 mg/kg mannose oligosaccharide (MOS) + 300 mg/kg mannanase (MAN) + 1,500 mg/kg sodium butyrate (SB) (MMS); 4) control + 2,000 mg/kg MOS + 300 mg/kg MAN + 500 mg/kgBacillus subtilis(BS) (MMB); 5) control + 2,000 mg/kg MOS + 9,000 mg/kg fruit oligosaccharide (FOS) + 1,500 mg/kg SB (MFS); 6) control + 9,000 mg/kg FOS + 500 mg/kg BS (MFS) (MBP). The experiment used a completely random block design with six replicates per group: 50 Ross 308 broilers in the starter phase and 16 in the grower phase. All the NAGPCs significantly improved (P < 0.01) utilization of dry matter (DM), organic matter (OM), crude protein (CP), and crude fat (CF) on d 21, significantly increased DM, OM (P < 0.01), and CP (P < 0.05) on d 42, and significantly increased (P < 0.01) villus height, crypt depth, and the villus height to crypt depth ratio in the jejunum and ileum compared with CON and ENR. On d 21 and 42, trypsin, lipase, and amylase activity of the duodenum significantly increased in the MMS, MMB, MFB, and MFM groups. Compared with ENR and CON, MMS, MMB, and MBP increased the abundance ofFirmicutesat d 21 and ofBacteroidesat d 42 whereas MMB, MFB, and MBP decreased the abundance ofProteobacteriaat d 21 and 42. Overall, the NAGPCs were found to have some beneficial effects and may be used as effective antibiotic replacements in broilers.
DeepGWAS: Enhance GWAS Signals for Neuropsychiatric Disorders via Deep Neural Network
Authors: Wen Jia , Li Gang , Chen Jiawen , Sun Quan , Liu Weifang , Guan Wyliena , Lai Boqiao , Zhou Haibo , Szatkiewicz Jin P , He Xin , Sullivan Patrick F. , Li Yun 
Published: December 2022

AbstractGenetic dissection of neuropsychiatric disorders can potentially reveal novel therapeutic targets. While genome-wide association studies (GWAS) have tremendously advanced our understanding, we approach a sample size bottleneck (i.e., the number of cases needed to identify >90% of all loci is impractical). Therefore, computationally enhancing GWAS on existing samples may be particularly valuable. Here, we describe DeepGWAS, a deep neural network-based method to enhance GWAS by integrating GWAS results with linkage disequilibrium and brain-related functional annotations. DeepGWAS enhanced schizophrenia (SCZ) loci by ∼3X when applied to the largest European GWAS, and 21.3% enhanced loci were validated by the latest multi-ancestry GWAS. Importantly, DeepGWAS models can be transferred to other neuropsychiatric disorders. Transferring SCZ-trained models to Alzheimer’s disease and major depressive disorder, we observed 1.3-17.6X detected loci compared to standard GWAS, among which 27-40% were validated by other GWAS studies. We anticipate DeepGWAS to be a powerful tool in GWAS studies.
Environmental accounting and state power in the Grand Duchy of Tuscany (1537–1621)
Authors: Bigoni Michele , Lazzini Simone , Occhipinti Zeila , Verona Roberto 
Published: December 2022

PurposeThe study investigates the use of early forms of environmental accounting in the implementation of environmental strategies in the Grand Duchy of Tuscany between the 16th and 17th centuries.Design/methodology/approachThe study adopts the Foucauldian concept of raison d’État to shed light on the ways in which environmental accounting practices were used by Tuscan Grand Dukes to form a detailed knowledge of the territory to be governed and act accordingly.FindingsFinancial and non-financial information relating to environmental issues enabled the Grand Dukes to “visualise” the territory to be managed as an enclosed disciplinary space whereby the conduct of people living therein could be decisively influenced. Accounting practices as a tool for the implementation of environmental strategies did not merely aim to protect the environment but were a means to reinforce the power of the State.Research limitations/implicationsThe paper can inform future works that investigate the ways in which environmental policies and accounting are used to pursue far-reaching governmental goals. It encourages scholars to examine further the origins of environmental accounting and its early forms.Social implicationsThe study documents how environmental strategies and the related use of accounting can have a significant influence on how individuals are allowed to conduct themselves. It also shows that environmental accounting practices can be an important tool in a State’s machinery of power.Originality/valueThe study offers a novel perspective on the use of environmental accounting information as a tool in the exercise of State power. It explores explicitly the interrelations between accounting, sustainability and power. It also adds new evidence to historical research that has engaged with early forms of environmental accounting.
Job demands and technology overload influencing work stress in organizations during the COVID-19 pandemic
Authors: Yen Yung-Shen 
Published: December 2022

PurposeThis study is based on the stimulus–organism–response (SOR) model to examine how job demands and technology overload affect work stress for workers using video conferencing apps (VCAs) in organizations during the COVID-19 pandemic. Moreover, the moderating effect of technology self-efficacy was tested in the model on the relationship between technology overload and work stress.Design/methodology/approachAn online survey was conducted to investigate workers on PTT forums in Taiwan. A sample was obtained of 253 workers, and structural equation modeling was conducted using AMOS to test the hypotheses.FindingsJob demands positively affect work stress through information overload, communication overload and system feature overload. Moreover, high technology self-efficacy may weaken the relationship between technology overload and work stress.Research limitations/implicationsThe study may have sample bias because our sample was obtained from an online survey on social networking sites. Regarding the theoretical implications, this study demonstrated that technology overload, as an internal organism, is a critical mediator influencing the relationship between job demands (stimulus) and work stress (response). Thus, this study extended the applicability of the SOR model in the context of working with VCAs in organizations.Practical implicationsCompany managers need to effectively control the information amount, communication interruptions and system features of social media at optimum levels for workers. Moreover, companies should recruit workers with high technology self-efficacy or provide technology training and technology-related consulting to those with low technology self-efficacy.Originality/valueThe extant work stress knowledge is extended to workers using VCAs in organizations.