bluuebunny/crossref_metadata_2025_split huggingface dataset:
Expanding the synthetic biology toolbox of Cupriavidus necator for establishing fatty acid production
Authors: Mishra Shivangi , Perkovich Paul M , Mitchell Wayne P , Venkataraman Maya , Pfleger Brian F 
Published: February 2024

Abstract
The Gram-negative betaproteobacterium Cupriavidus necator is a chemolithotroph that can convert carbon dioxide into biomass. Cupriavidus necator has been engineered to produce a variety of high-value chemicals in the past. However, there is still a lack of a well-characterized toolbox for gene expression and genome engineering. Development and optimization of biosynthetic pathways in metabolically engineered microorganisms necessitates control of gene expression via functional genetic elements such as promoters, ribosome binding sites (RBSs), and codon optimization. In this work, a set of inducible and constitutive promoters were validated and characterized in C. necator, and a library of RBSs was designed and tested to show a 50-fold range of expression for green fluorescent protein (gfp). The effect of codon optimization on gene expression in C. necator was studied by expressing gfp and mCherry genes with varied codon-adaptation indices and was validated by expressing codon-optimized variants of a C12-specific fatty acid thioesterase to produce dodecanoic acid. We discuss further hurdles that will need to be overcome for C. necator to be widely used for biosynthetic processes.
Gastric-type adenocarcinoma of the uterine cervix: clinical features and future directions
Authors: Nishio Hiroshi , Matsuda Risa , Iwata Takashi , Yamagami Wataru 
Published: February 2024

Abstract
The concept of gastric-type mucinous carcinoma of the uterine cervix (GAS) has been accepted worldwide because of its aggressive clinical behaviour and the absence of high-risk human papilloma virus infection. The World Health Organization (WHO) 2020 classification divides cervical tumours into two categories: human papilloma virus-associated and human papilloma virus-independent. Hence, GAS is now classified as an human papilloma virus-independent gastric type. Because clinical studies have reported that GAS is refractory to conventional treatments such as chemotherapy and radiotherapy, especially at an advanced stage, and has aggressive features with widespread dissemination to unusual sites, such as the omentum, peritoneum and distant organs, it is urgent to establish new treatment strategies by comparing the molecular profiles of human papilloma virus-associated adenocarcinomas. A series of genetic mutations characteristic to GAS encourage the development of future treatment strategies such as targeted therapy and immunotherapy.
6-Formylindolo[3,2-b]carbazole, a potent ligand for the aryl hydrocarbon receptor, attenuates concanavalin-induced hepatitis by limiting T-cell activation and infiltration of proinflammatory CD11b+ Kupffer cells
Authors: Cannon Alkeiver S , Holloman Bryan L , Wilson Kiesha , Miranda Kathryn , Nagarkatti Prakash S , Nagarkatti Mitzi 
Published: February 2024

Abstract
FICZ (6-formylindolo[3,2-b]carbazole) is a potent aryl hydrocarbon receptor agonist that has a poorly understood function in the regulation of inflammation. In this study, we investigated the effect of aryl hydrocarbon receptor activation by FICZ in a murine model of autoimmune hepatitis induced by concanavalin A. High-throughput sequencing techniques such as single-cell RNA sequencing and assay for transposase accessible chromatin sequencing were used to explore the mechanisms through which FICZ induces its effects. FICZ treatment attenuated concanavalin A–induced hepatitis, evidenced by decreased T-cell infiltration, decreased circulating alanine transaminase levels, and suppression of proinflammatory cytokines. Concanavalin A revealed an increase in natural killer T cells, T cells, and mature B cells upon concanavalin A injection while FICZ treatment reversed the presence of these subsets. Surprisingly, concanavalin A depleted a subset of CD55+ B cells, while FICZ partially protected this subset. The immune cells showed significant dysregulation in the gene expression profiles, including diverse expression of migratory markers such as CCL4, CCL5, and CXCL2 and critical regulatory markers such as Junb. Assay for transposase accessible chromatin sequencing showed more accessible chromatin in the CD3e promoter in the concanavalin A–only group as compared to the naive and concanavalin A–exposed, FICZ-treated group. While there was overall more accessible chromatin of the Adgre1 (F4/80) promoter in the FICZ-treated group, we observed less open chromatin in the Itgam (CD11b) promoter in Kupffer cells, supporting the ability of FICZ to reduce the infiltration of proinflammatory cytokine producing CD11b+ Kupffer cells. Taken together, these data demonstrate that aryl hydrocarbon receptor activation by FICZ suppresses liver injury through the limitation of CD3+ T-cell activation and CD11b+ Kupffer cell infiltration.
Reproductive state alters vocal characteristics of female North American red squirrels (Tamiasciurus hudsonicus)
Authors: Hare Alexander J , McAdam Andrew G , Dantzer Ben , Lane Jeffrey E , Boutin Stan , Newman Amy E M 
Published: February 2024

Abstract
Female advertisement of reproductive state and receptivity has the potential to play a large role in the mating systems of many taxa, but investigations of this phenomenon are underrepresented in the literature. North American red squirrels (Tamiasciurus hudsonicus) are highly territorial and engage in scramble competition mating, with males converging from spatially disparate territories to engage in mating chases. Given the narrow estrus window exhibited in this species, the ubiquitous use of vocalizations to advertise territory ownership, and the high synchronicity of males arriving from distant territories, we hypothesized that female vocalizations contain cues relating to their estrous state. To test this hypothesis, we examined the spectral and temporal properties of female territorial rattle vocalizations collected from females of known reproductive condition over 3 years. While we found no distinct changes associated with estrus specifically, we did identify significant changes in the spectral characteristics of rattles relating to both female body mass and reproductive state relative to parturition. To the best of our knowledge, this is the first evidence of changes in vocal characteristics associated with late pregnancy in a nonhuman mammal.
Diversity and distribution of sodium channel mutations inAedes albopictus(Diptera: Culicidae)
Authors: Endersby-Harshman Nancy M , Schmidt Thomas L , Hoffmann Ary A 
Published: February 2024

AbstractThere is growing interest in insecticide resistance in the mosquito, Aedes albopictus (Skuse), as its potential for spreading diseases is increasing as urbanization and control efforts intensify. Here we review the presence and diversity of mutations in the voltage-sensitive sodium channel (Vssc) gene associated with pyrethroid resistance and report on additional surveys of these mutations in new populations with an analysis of their spread. The known diversity of these mutations has increased in recent years including the identification of 26 non-synonymous mutations, although phenotypic data associating mutations with resistance remain limited. We provide data on mutations in several new locations including those in Timor Leste, Indonesia, and Vanuatu. We use population genomic data from ddRAD analyses of target populations with the 1534C mutation to identify single nucleotide polymorphisms (SNPs) associated with the mutant to test for clustering of SNPs based on the presence of the 1534C mutation rather than population origin. Our findings suggest spread of resistance alleles via genetic invasion, which is further supported by patterns from a genome-wide principal components analysis. These data point to movement of resistance alleles across wide areas with likely impacts on local control options.
Fecundity decline is male derived following transfluthrin exposures in a field strain of Aedes albopictus (Diptera: Culicidae)
Authors: McKay Sean A , McKay Conner J , Bibbs Christopher S , Bloomquist Jeffrey R , Kaufman Phillip E 
Published: February 2024

Abstract
Volatile pyrethroids are effective in reducing mosquito populations and repelling vectors away from hosts. However, many gaps in knowledge exist for the sublethal impacts of volatile pyrethroids on mosquitoes. To that end, transfluthrin exposures were conducted on a field strain of Aedes albopictus (Skuse) held as a laboratory colony. Dose–response analysis was conducted on both sexes at either 1–4 days old or 5–10 days old. Resultant concentration data were used to evaluate the LC20 and LC50 values in various mate pairings of treatments and controls in which either the male or female was from a selectively treated group and mated with a counterpart that was treated independently. Blood feeding proportion, delayed mortality after a 24-h recovery period, egg collection totals, and F1 larval survival were determined following transfluthrin treatment in the F0, but outcomes were not significant. In contrast, sterility was predicated on male treatment, with treated females resulting in higher overall egg viability. Treated males in the mating pair resulted in significantly lower egg viability and accelerated larval hatch in the F1. Additionally, the presence of sperm in female spermathecae was significantly diminished in test groups containing treated male mosquitoes. Male sublethal effects may be a critical determinant of a mixed population’s reproductive success.
A Descriptive Analysis of Countries Represented by Authors’ and Editorial Review Board Members’ Institutional Affiliations in the Journal of Music Therapy, 1998–2022
Authors: Silverman Michael J , Pankaew Parintorn 
Published: February 2024

Abstract
The Journal of Music Therapy (JMT) authors’ and editorial review board members’ (ERBM) affiliation locations represent an aspect of diversity through differing cultures and political, healthcare, and educational systems. Therefore, the purpose of this study was to examine the countries of JMT authors’ and ERBM’s institutional affiliations from 1998 to 2022. We established inclusion and exclusion criteria, operationally defined categories, and built databases. A total of 433 articles met our inclusion criteria. Most articles were published by authors/author teams located in the United States (n = 305; 70.44%) or in a single international country (n = 85; 19.63%), while fewer articles were published by author teams located in multiple international countries (n = 23, 5.31%) or in international countries and the United States (n = 20, 4.62%). Authors were from 21 countries, and there tended to be a slight decline over time in articles by United States authors. When examining the total countries represented, United States authors (n = 330) had the most articles followed by Australia (n = 32), Norway (n = 18), England (n = 14), Israel (n = 13), and Canada, Denmark, and South Korea (all n = 12). There were 632 total JMT ERBM with 470 located within the United States and 162 located internationally. Although all ERBM’s affiliations were in the United States in 1998, these data gradually changed. There were more ERBM located internationally than in the United States from 2020 to 2022. Most international ERBM were from Australia, Canada, England, Israel, and Spain. Implications, limitations, and suggestions for future research are provided.
Neoadjuvant platinum-based chemotherapy and lymphadenectomy for penile cancer: an international, multi-institutional, real-world study
Authors: Rose Kyle M , Pham Rachel , Zacharias Niki M , Ionescu Filip , Paravathaneni Mahati , Marchetti Kathryn A , Sanchez Darren , Mustasam Arfa , Sandstrom Reagan , Vikram Raghu , Dhillon Jasreman , Rao Priya , Schneider Amy , Pagliaro Lance , Alifrangis Constantine , Albersen Maarten , Roussel Eduard , Master Viraj A , Nazha Bassel , Hernandez Cindy , Moses Kelvin A , Protzel Chris , Montgomery Jeffrey , Angel Martin , Tobias-Machado Marcos , Spiess Philippe E , Pettaway Curtis A , Chahoud Jad 
Published: February 2024

Abstract

Introduction
This study investigated the efficacy and safety of neoadjuvant chemotherapy for locally advance penile squamous cell carcinoma for which current evidence is lacking.

Methods
Included patients had locally advanced penile squamous cell carcinoma with clinical lymph node metastasis treated with at least 1 dose of neoadjuvant chemotherapy prior to planned consolidative lymphadenectomy. Objective response rates were assessed using Response Evaluation Criteria in Solid Tumors v1.1. The primary and secondary outcomes were overall survival and progression-free survival, estimated by the Kaplan–Meier method. Treatment-related adverse events were graded per the Common Terminology Criteria for Adverse Events v5.0.

Results
A total of 209 patients received neoadjuvant chemotherapy for locally advanced and clinically node-positive penile squamous cell carcinoma. The study population consisted of 7% of patients with stage II disease, 48% with stage III, and 45% with stage IV. Grade 2 treatment-related adverse events occurred in 35 (17%) patients, and no treatment-related mortality was observed. Of the patients, 201 (97%) completed planned consolidative lymphadenectomy. During follow-up, 106 (52.7%) patients expired, with a median overall survival of 37.0 months (95% confidence interval [CI] = 23.8 to 50.1 months) and median progression-free survival of 26.0 months (95% CI = 11.7 to 40.2 months). Objective response rate was 57.2%, with 87 (43.2%) having partial response and 28 (13.9%) having a complete response. Patients with objective response to neoadjuvant chemotherapy had a longer median overall survival (73.0 vs 17.0 months, P &lt; .01) compared with those who did not. The lymph node pathologic complete response rate was 24.8% in the cohort.

Conclusion
Neoadjuvant chemotherapy with lymphadenectomy for locally advanced penile squamous cell carcinoma is well tolerated and active to reduce the disease burden and improve long-term survival outcomes.
PM2.5, vegetation density, and childhood cancer: a case-control registry-based study from Texas 1995-2011
Authors: Williams Lindsay A , Haynes David , Sample Jeannette M , Lu Zhanni , Hossaini Ali , McGuinn Laura A , Hoang Thanh T , Lupo Philip J , Scheurer Michael E 
Published: February 2024

Abstract

Background
Air pollution is positively associated with some childhood cancers, whereas greenness is inversely associated with some adult cancers. The interplay between air pollution and greenness in childhood cancer etiology is unclear. We estimated the association between early-life air pollution and greenness exposure and childhood cancer in Texas (1995 to 2011).

Methods
We included 6101 cancer cases and 109 762 controls (aged 0 to 16 years). We linked residential birth address to census tract annual average fine particulate matter &lt;2.5 µg/m³ (PM2.5) and Normalized Difference Vegetation Index (NDVI). We estimated odds ratios (ORs) and 95% confidence intervals (CIs) between PM2.5/NDVI interquartile range increases and cancer. We assessed statistical interaction between PM2.5 and NDVI (likelihood ratio tests).

Results
Increasing residential early-life PM2.5 exposure was associated with all childhood cancers (OR = 1.10, 95% CI = 1.06 to 1.15), lymphoid leukemias (OR = 1.15, 95% CI = 1.07 to 1.23), Hodgkin lymphomas (OR = 1.27, 95% CI = 1.02 to 1.58), non-Hodgkin lymphomas (OR = 1.24, 95% CI = 1.02 to 1.51), ependymoma (OR = 1.27, 95% CI = 1.01 to 1.60), and others. Increasing NDVI exposure was inversely associated with ependymoma (0- to 4-year-old OR = 0.75, 95% CI = 0.58 to 0.97) and medulloblastoma (OR = 0.75, 95% CI = 0.62 to 0.91) but positively associated with malignant melanoma (OR = 1.75, 95% CI = 1.23 to 2.47) and Langerhans cell histiocytosis (OR = 1.56, 95% CI = 1.07 to 2.28). There was evidence of statistical interaction between NDVI and PM2.5 (P &lt; .04) for all cancers.

Conclusion
Increasing early-life exposure to PM2.5 increased the risk of childhood cancers. NDVI decreased the risk of 2 cancers yet increased the risk of others. These findings highlight the complexity between PM2.5 and NDVI in cancer etiology.
Mechanisms of sleep disturbances in long-term cancer survivors: a childhood cancer survivor study report
Authors: Daniel Lauren C , Wang Huiqi , Brinkman Tara M , Ruble Kathy , Zhou Eric S , Palesh Oxana , Stremler Robyn , Howell Rebecca , Mulrooney Daniel A , Crabtree Valerie M , Mostoufi-Moab Sogol , Oeffinger Kevin , Neglia Joseph , Yasui Yutaka , Armstrong Gregory T , Krull Kevin 
Published: February 2024

Abstract

Background
Sleep problems following childhood cancer treatment may persist into adulthood, exacerbating cancer-related late effects and putting survivors at risk for poor physical and psychosocial functioning. This study examines sleep in long-term survivors and their siblings to identify risk factors and disease correlates.

Methods
Childhood cancer survivors (≥5 years from diagnosis; n = 12 340; 51.5% female; mean [SD] age = 39.4 [9.6] years) and siblings (n = 2395; 57.1% female; age = 44.6 [10.5] years) participating in the Childhood Cancer Survivor Study completed the Pittsburgh Sleep Quality Index (PSQI). Multivariable Poisson-error generalized estimating equation compared prevalence of binary sleep outcomes between survivors and siblings and evaluated cancer history and chronic health conditions (CHC) for associations with sleep outcomes, adjusting for age (at diagnosis and current), sex, race/ethnicity, and body mass index.

Results
Survivors were more likely to report clinically elevated composite PSQI scores (&gt;5; 45.1% vs 40.0%, adjusted prevalence ratio [PR] = 1.20, 95% CI = 1.13 to 1.27), symptoms of insomnia (38.8% vs 32.0%, PR = 1.26, 95% CI = 1.18 to 1.35), snoring (18.0% vs 17.4%, PR = 1.11, 95% CI = 1.01 to 1.23), and sleep medication use (13.2% vs 11.5%, PR = 1.28, 95% CI = 1.12 to 1.45) compared with siblings. Within cancer survivors, PSQI scores were similar across diagnoses. Anthracycline exposure (PR = 1.13, 95% CI = 1.03 to 1.25), abdominal radiation (PR = 1.16, 95% CI = 1.04 to 1.29), and increasing CHC burden were associated with elevated PSQI scores (PRs = 1.21-1.48).

Conclusions
Among survivors, sleep problems were more closely related to CHC than diagnosis or treatment history, although longitudinal research is needed to determine the direction of this association. Frequent sleep-promoting medication use suggests interest in managing sleep problems; behavioral sleep intervention is advised for long-term management.
Analysis of Forest Inventory Data Shows Disparity in Tree Mortality and Resistance in Texas National Forests
Authors: Dewez Nicholas P , Xi Weimin , Duffie Duston R , Subedi Mukti R , Chaudhary Tilak , Rideout-Hanzak Sandra , Anoruo Ambrose O , Estabrook Thomas 
Published: February 2024

Abstract
In 2011, the forestlands of Texas were affected by one of the most severe droughts in the state’s history, killing an estimated 65 million trees in the East Texas region. This study uses USDA Forest Service Forest Inventory and Analysis data and a standardized precipitation-evapotranspiration index to estimate major tree species responses to the 2011 drought in Texas’ four national forests. We used an analysis of variance and a linear mixed-effect model to evaluate factors contributing to tree mortality and growth. We found that tree mortality rates varied greatly during the drought period relative to predrought levels; higher stand age, higher stand density, and higher mean summer temperature contributed to tree mortality volume.
Study Implications: Drought is a recurring disturbance agent and is likely to continue to increase in frequency and severity in the future. We provide an understanding of an exceptional drought as a disturbance agent and its impacts on tree mortality and resistance. The effects of the 2011 drought on national forests in Texas have not previously been evaluated. Texas’ national forests represent over 256,975 ha (635,000 ac) in the state’s eastern region and nearly 10% of all public land in Texas. Our results are useful to decision makers in developing strategies and protecting forestlands in the face of potential future droughts.
Perceived Obstacles in Land Use Change for Hybrid Sweetgum Plantations: Landowner Opinions from the South Central United States
Authors: Lenning Aspen , Joshi Omkar , Will Rodney E 
Published: February 2024

Abstract
Hybrid sweetgum (Liquidambar styraciflua × L. formosana) has received considerable attention as a potential feedstock for traditional and nontraditional forest-based enterprises due to its fast growth and large specific gravity. However, the perceptions of landowners are important to understand the degree of acceptance concerning land use change to consider this opportunity in the United States. We administered a survey instrument to three thousand landowners representing the states of Texas, Oklahoma, Louisiana, and Arkansas where hybrid sweetgum plantations would be feasible. A seemingly unrelated regression analysis was used to explore the attributes that may influence the environmental and economic obstacles in land use change for hybrid sweetgum plantations. Study results suggest that landowners who perceived higher importance of marketing aspects of hybrid sweetgum expressed greater economic concerns for land use change. In contrast, those having higher planted pine acres had higher environmental concerns about land use change. Female landowners were more concerned than their male counterparts. Landowners need access to accurate information from their trusted sources to make informed management decisions, especially when making decisions to adopt new opportunities such as hybrid sweetgum.
Study Implications: Study results reveal the need for outreach to landowners in the south central United States, as many were not aware of fast-growing hardwood species such as hybrid sweetgum. Information on growth potential, economics, and management techniques can help facilitate the adoption of hybrid sweetgum. Field visits and peer-to-peer learning facilitated by early adopters can be effective strategies for outreach.