bluuebunny/crossref_metadata_2025_split huggingface dataset:
Variation in allele frequencies in benzimidazole resistant and susceptible isolates of Haemonchus contortus during patent infection in lambs
Authors: Dolinská Michaela Urda , Königová Alžbeta , von Samson Himmelstjerna Georg , Várady Marián 
Published: January 2023

AbstractWe evaluated the variation in the frequency of benzimidazole (BZ) resistance-associated alleles at codons 200, 167 and 368 (F200Y, F167Y, V368L) of the β-tubulin isotype 1 gene during the patent period in isolates of Haemonchus contortus susceptible and resistant to BZ using pyrosequencing. Four lambs 5–6 months old were infected with 5000–6000 infective third-stage larvae (L3) of the susceptible MHco1 and the multi-resistant MHco4 isolates, respectively. Faecal samples were collected 28-times during 20–90 days post-infection (dpi). Coprocultures were subsequently prepared to produce L3 for genotyping. The frequency of the resistant allele (TAC) at codon 200 in MHco1 was lowest at 43 and 76 dpi with at each time point 0% and highest at 36 dpi with 10.85%, with a mean of 6.47% ± 2.39 and a coefficient of variation of 37.01%. The frequency of the TAC at codon 200 in MHco4 was lowest at 76 dpi with 25.6% and highest at 90 dpi with 49.25%, with a mean of 35.7% ± 4.42 and a coefficient of variation of 12.39%. No resistance alleles were detected in MHco1 at either codon 167 or 368. For MHco4 isolate, resistance alleles were detected only on codon 167 with a mean of 8.00% ± 4.83 and a mean coefficient of variation of 60.40%. Our results demonstrate the considerable variation in the frequency of resistant alleles in the susceptible and resistant isolates during the patent period. This variation should be considered when testing for the presence of BZ resistance in populations of gastrointestinal parasites, especially those with a low frequency of TAC.
Discovery of structural and functional transition sites for membrane-penetrating activity of sheep myeloid antimicrobial peptide-18
Authors: Jung Bomi , Yun Hyosuk , Min Hye Jung , Yang Sungtae , Shin Song Yub , Lee Chul Won 
Published: January 2023

AbstractCathelicidin antimicrobial peptides have an extended and/or unstructured conformation in aqueous solutions but fold into ordered conformations, such as the α-helical structure, when interacting with cellular membranes. These structural transitions can be directly correlated to their antimicrobial activity and its underlying mechanisms. SMAP-18, the N-terminal segment (residues 1–18) of sheep cathelicidin (SMAP-29), is known to kill microorganisms by translocating across membranes and interacting with their nucleic acids. The amino acid sequence of SMAP-18 contains three Gly residues (at positions 2, 7, and 13) that significantly affect the flexibility of its peptide structure. This study investigated the role of Gly residues in the structure, membrane interaction, membrane translocation, and antimicrobial mechanisms of SMAP-18. Five analogs were designed and synthesized through Gly → Ala substitution (i.e., G2A, G7A, G13A, G7,13A, and G2,7,13A); these substitutions altered the helical content of SMAP-18 peptides. We found that G7,13A and G2,7,13A changed their mode of action, with circular dichroism and nuclear magnetic resonance studies revealing that these analogs changed the structure of SMAP-18 from a random coil to an α-helical structure. The results of this experiment suggest that the Gly residues at positions 7 and 13 in SMAP-18 are the structural and functional determinants that control its three-dimensional structure, strain-specific activity, and antimicrobial mechanism of action. These results provide valuable information for the design of novel peptide-based antibiotics.
Maintenance intravenous iron in hemodialysis patients to minimize erythropoietin doses: a double-blinded, randomized controlled trial (the MAINTAIN IRON trial)
Authors: Anumas Suthiya , Chatkrailert Aphichat , Tantiyavarong Pichaya 
Published: January 2023

AbstractIn patients on chronic hemodialysis, there is no standard protocol for maintenance iron supplementation. This study aimed to compare two fixed-dose intravenous (IV) iron protocols to reduce erythropoiesis-stimulating agents (ESA). We conducted a double-blinded, randomized controlled study on hemodialysis patients having ferritin levels between 200 and 700 ng/dl and transferrin saturation values between 20 and 40%. Patients were assigned to receive either 100 or 200 mg of IV iron each month. ESA was adjusted every month to keep Hb between 10 and 12 g/dl. ESA dose at 12 months was the primary outcome. The secondary outcomes were all-cause mortality, cardiovascular events, absolute iron deficiency anemia (IDA), blood transfusion, adverse events, and iron withholding rate. Of the 79 eligible patients, 40 received 100 mg of IV iron, while 39 received 200 mg. At month 12, the mean monthly ESA dose in the 100-mg IV iron group was 35,706 ± 21,637 IU, compared to 26,382 ± 14,983 IU in the 200-mg group (P = 0.03). IDA was found in twelve patients (30%) in the 100-mg group and four patients (10.5%) in the 200-mg group (P = 0.05). In each group, three patients died (P = 0.9). Hospitalization, venous access thrombosis, and infection rates were similar in both groups. The withholding rate of IV iron was higher in 200-mg group (25% vs. 64.1%), but the protocol compliance was found more in 100-mg group (50% vs. 28.2%) (P = 0.001). In conclusion, monthly 200-mg IV iron infusions significantly reduce ESA doses but have a higher withholding rate. (Funded by the Kidney Foundation of Thailand and the Research Group in Nephrology and Renal Replacement Therapy from the Faculty of Medicine, Thammasat University).Thai Clinical Trials Registry number, TCTR20190707001.
Breastfeeding competency and its influencing factors among pregnant women in third trimester pregnancy: a cross-sectional study
Authors: Wu Yu , Liu Wenwen , Liu Xia , Li Yunfeng , Wang Ying , Chu Yanxin , Pi Qian , Zhao Xin , Lu Jinxiang , Wang Aihua 
Published: January 2023

AbstractCompetency is closely related to the occurrence of the behavior. Breastfeeding competence is the mastery of different breastfeeding factors which intervene in breastfeeding behavior. Breastfeeding competence could improve the breastfeeding behavior. However, few studies have paid attention to the status and the influencing factors of breastfeeding competency. The breastfeeding competency of pregnant women in third trimester pregnancy has the greatest impact on breastfeeding behavior after childbirth. Therefore, the objective of this study were to investigate the breastfeeding competency level and independent risk factors for breastfeeding competency among pregnant women in third trimester pregnancy. A cross-sectional survey method and convenience sampling method was used in the study. The general information questionnaire including age, gestational week, educational background, and so on were used to investigate the general information of pregnant women and their husbands. A breastfeeding competency scale (BCS) was used to investigate the breastfeeding competency of pregnant women. The total score of the BCS ranges from 38 to 190, with higher scores indicating greater breastfeeding competency. Lower level, medium level and higher level are 38–89, 90–140 and 141–190 respectively. Type-D Scale-14 (DS14) was used to investigate the type D personality of pregnant women. A multivariable linear regression was used to examine the independent predictors of breastfeeding competency. A total of 550 questionnaires were collected and finally 525 effective questionnaires were collected. The age of 525 pregnant women is (30.24 ± 3.954) years old. The breastfeeding competency score of pregnant women was (134 ± 19.741). Multivariable linear regression analysis showed that higher breastfeeding competency in pregnant women were reported among pregnant women who gestational age ≥ 256 days (37 weeks) (B = 8.494, p < 0.001), the previous breastfeeding experience were exclusive breastfeeding (B = 17.384, p < 0.001) and partial breastfeeding (B = 16.878, p < 0.001), participating in pregnant women school 2–3 times (B = 10.968, p = 0.013) and ≥ 5 times (B = 13.731, p = 0.034). Pregnant women with lower breastfeeding competency were found in women who were judged to have type D personality (B = − 6.358, p < 0.001). The result can explain 25.8% of the variation in the total breastfeeding competency score. This should be considered an important issue by maternal and child health care in the medical system that the moderate level of breastfeeding capacity among pregnant women. Differentiated and targeted breastfeeding support and services for pregnant women should be carried out based on influencing factors of breastfeeding competency.
Proposal of simplified CT syndesmophyte score (sCTSS) and comparison with CTSS in patients with ankylosing spondylitis
Authors: Min Hong Ki , Kim Se Hee , Lee Sang-Heon , Kim Hae-Rim 
Published: January 2023

AbstractThe CT syndesmophyte score (CTSS) can evaluate spinal progression more precisely than mSASSS in ankylosing spondylitis (AS); however, it is complex and time consuming. Here, we propose a simplified CTSS (sCTSS) for measuring spinal structural changes in AS. Patients with AS were recruited from a single tertiary hospital. Baseline and 2-year follow-up whole spine CT images were used to calculate CTSS and sCTSS. The sCTSS used the anterior and posterior vertebral corners, and ranged 0–184. Intraclass correlation coefficients (ICC) were calculated, as well as the smallest detectable changes. Fifty AS patients were included. For reader 1, the mean sCTSS at baseline and 2-year follow-up were 11.7 ± 14.6 and 15.8 ± 16.1, whereas those for reader 2 were 12.0 ± 12.5 and 15.8 ± 15.7, respectively. The ICCs for CTSS at baseline and at 2-year follow-up were 0.97 (95% confidence interval [CI] 0.96–0.99) and 0.98 (0.97–0.99), respectively, and that for changes over the 2 years was 0.48 (95% CI 0.23–0.67). For sCTSS, the ICCs were 0.96 (95% CI 0.92–0.97), 0.97 (95% CI 0.94–0.98), and 0.58 (95% CI 0.36–0.74), respectively. Detection rates for syndesmophyte progression were comparable between CTSS and sCTSS. The detection rate for syndesmophytes on only lateral side was 13.2 and 11.4%, and 11.4 and 15.2% at baseline and 2-year follow-up (reader 1 and 2). sCTSS and CTSS showed similar detection rates for syndesmophyte progression. sCTSS may be a reliable method for evaluating spinal structural damage in AS.
Intrinsic chiral field as vector potential of the magnetic current in the zig-zag lattice of magnetic dipoles
Authors: Mellado Paula , Concha Andrés , Hofhuis Kevin , Tapia Ignacio 
Published: January 2023

AbstractChiral magnetic insulators manifest novel phases of matter where the sense of rotation of the magnetization is associated with exotic transport phenomena. Effective control of such phases and their dynamical evolution points to the search and study of chiral fields like the Dzyaloshinskii–Moriya interaction. Here we combine experiments, numerics, and theory to study a zig-zag dipolar lattice as a model of an interface between magnetic in-plane layers with a perpendicular magnetization. The zig-zag lattice comprises two parallel sublattices of dipoles with perpendicular easy plane of rotation. The dipolar energy of the system is exactly separable into a sum of symmetric and antisymmetric long-range exchange interactions between dipoles, where the antisymmetric coupling generates a nonlocal Dzyaloshinskii–Moriya field which stabilizes winding textures with the form of chiral solitons. The Dzyaloshinskii–Moriya interaction acts as a vector potential or gauge field of the magnetic current and gives rise to emergent magnetic and electric fields that allow the manifestation of the magnetoelectric effect in the system.
Genomic landscape of 891 RET fusions detected across diverse solid tumor types
Authors: Parimi Vamsi , Tolba Khaled , Danziger Natalie , Kuang Zheng , Sun Daokun , Lin Douglas I. , Hiemenz Matthew C. , Schrock Alexa B. , Ross Jeffrey S. , Oxnard Geoffrey R. , Huang Richard S. P. 
Published: January 2023

AbstractIn this study, we report the clinicopathologic and genomic profiles of 891 patients with RET fusion driven advanced solid tumors. All patient samples were tested using a tissue-based DNA hybrid capture next generation sequencing (NGS) assay and a subset of the samples were liquid biopsies tested using a liquid-based hybrid capture NGS assay. RET fusions were found in 523 patients with NSCLC and in 368 patients with other solid tumors. The two tumor types with the highest number of RET fusion were lung adenocarcinoma and thyroid papillary carcinoma, and they had a prevalence rate 1.14% (455/39,922) and 9.09% (109/1199), respectively. A total of 61 novel fusions were discovered in this pan-tumor cohort. The concordance of RET fusion detection across tumor types among tissue and liquid-based NGS was 100% (8/8) in patients with greater than 1% composite tumor fraction (cTF). Herein, we present the clinicopathologic and genomic landscape of a large cohort of RET fusion positive tumors and we observed that liquid biopsy-based NGS is highly sensitive for RET fusions at cTF ≥1%.
Molecular mechanism of topoisomerase poisoning by the peptide antibiotic albicidin
Authors: Michalczyk Elizabeth , Hommernick Kay , Behroz Iraj , Kulike Marcel , Pakosz-Stępień Zuzanna , Mazurek Lukasz , Seidel Maria , Kunert Maria , Santos Karine , von Moeller Holger , Loll Bernhard , Weston John B. , Mainz Andi , Heddle Jonathan G. , Süssmuth Roderich D. , Ghilarov Dmitry 
Published: January 2023

AbstractThe peptide antibiotic albicidin is a DNA topoisomerase inhibitor with low-nanomolar bactericidal activity towards fluoroquinolone-resistant Gram-negative pathogens. However, its mode of action is poorly understood. We determined a 2.6 Å resolution cryoelectron microscopy structure of a ternary complex between Escherichia coli topoisomerase DNA gyrase, a 217 bp double-stranded DNA fragment and albicidin. Albicidin employs a dual binding mechanism where one end of the molecule obstructs the crucial gyrase dimer interface, while the other intercalates between the fragments of cleaved DNA substrate. Thus, albicidin efficiently locks DNA gyrase, preventing it from religating DNA and completing its catalytic cycle. Two additional structures of this trapped state were determined using synthetic albicidin analogues that demonstrate improved solubility, and activity against a range of gyrase variants and E. coli topoisomerase IV. The extraordinary promiscuity of the DNA-intercalating region of albicidins and their excellent performance against fluoroquinolone-resistant bacteria holds great promise for the development of last-resort antibiotics.
A high-throughput, 28-day, microfluidic model of gingival tissue inflammation and recovery
Authors: Gard Ashley L. , Luu Rebeccah J. , Maloney Ryan , Cooper Madeline H. , Cain Brian P. , Azizgolshani Hesham , Isenberg Brett C. , Borenstein Jeffrey T. , Ong Jane , Charest Joseph L. , Vedula Else M. 
Published: January 2023

AbstractNearly half of American adults suffer from gum disease, including mild inflammation of gingival tissue, known as gingivitis. Currently, advances in therapeutic treatments are hampered by a lack of mechanistic understanding of disease progression in physiologically relevant vascularized tissues. To address this, we present a high-throughput microfluidic organ-on-chip model of human gingival tissue containing keratinocytes, fibroblast and endothelial cells. We show the triculture model exhibits physiological tissue structure, mucosal barrier formation, and protein biomarker expression and secretion over several weeks. Through inflammatory cytokine administration, we demonstrate the induction of inflammation measured by changes in barrier function and cytokine secretion. These states of inflammation are induced at various time points within a stable culture window, providing a robust platform for evaluation of therapeutic agents. These data reveal that the administration of specific small molecule inhibitors mitigates the inflammatory response and enables tissue recovery, providing an opportunity for identification of new therapeutic targets for gum disease with the potential to facilitate relevant preclinical drug efficacy and toxicity testing.
TRPV3-ANO1 interaction positively regulates wound healing in keratinocytes
Authors: Yamanoi Yu , Lei Jing , Takayama Yasunori , Hosogi Shigekuni , Marunaka Yoshinori , Tominaga Makoto 
Published: January 2023

AbstractTransient receptor potential vanilloid 3 (TRPV3) belongs to the TRP ion channel super family and functions as a nonselective cation channel that is highly permeable to calcium. This channel is strongly expressed in skin keratinocytes and is involved in warmth sensation, itch, wound healing and secretion of several cytokines. Previous studies showed that anoctamin1 (ANO1), a calcium-activated chloride channel, was activated by calcium influx through TRPV1, TRPV4 or TRPA1 and that these channel interactions were important for TRP channel-mediated physiological functions. We found that ANO1 was expressed by normal human epidermal keratinocytes (NHEKs). We observed that ANO1 mediated currents upon TRPV3 activation of NHEKs and mouse skin keratinocytes. Using an in vitro wound-healing assay, we observed that either a TRPV3 blocker, an ANO1 blocker or low chloride medium inhibited cell migration and proliferation through p38 phosphorylation, leading to cell cycle arrest. These results indicated that chloride influx through ANO1 activity enhanced wound healing by keratinocytes.
Combined metagenomic and metabolomic analyses reveal that Bt rice planting alters soil C-N metabolism
Authors: Li Peng , Ye Shuifeng , Chen Jun , Wang Luyao , Li Yujie , Ge Lei , Wu Guogan , Song Lili , Wang Cui , Sun Yu , Wang Jinbin , Pan Aihu , Quan Zhexue , Wu Yunfei 
Published: January 2023

Abstract
The environmental impacts of genetically modified (GM) plants remain a controversial global issue. To address these issues, comprehensive environmental risk assessments of GM plants is critical for the sustainable development and application of transgenic technology. In this paper, significant differences were not observed between microbial metagenomic and metabolomic profiles in surface waters of the Bt rice (T1C-1, the transgenic line) and non-Bt cultivars (Minghui 63 (the isogenic line) and Zhonghua 11 (the conventional japonica cultivar)). In contrast, differences in these profiles were apparent in the rhizospheres. T1C-1 planting increased soil microbiome diversity and network stability, but did not significantly alter the abundances of potential probiotic or phytopathogenic microorganisms compared with Minghui 63 and Zhonghua 11, which revealed no adverse effects of T1C-1 on soil microbial communities. T1C-1 planting could significantly alter soil C and N, probably via the regulation of the abundances of enzymes related to soil C and N cycling. In addition, integrated multi-omic analysis of root exudate metabolomes and soil microbiomes showed that the abundances of various metabolites released as root exudates were significantly correlated with subsets of microbial populations including the Acidobacteria, Actinobacteria, Chloroflexi, and Gemmatimonadetes that were differentially abundant in T1C-1 and Mnghui 63 soils. Finally, the potential for T1C-1-associated root metabolites to exert growth effects on T1C-1-associated species was experimentally validated by analysis of bacterial cultures, revealing that Bt rice planting could selectively modulate specific root microbiota. Overall, this study indicate that Bt rice can directly modulate rhizosphere microbiome assemblages by altering the metabolic compositions of root exudates that then alters soil metabolite profiles and physiochemical properties. This study unveils the mechanistic associations of Bt plant-microorganism-environment, which provides comprehensive insights into the potential ecological impacts of GM plants.
Learning from mixed datasets: A monotonic image quality assessment model
Authors: Feng Zhaopeng , Zhang Keyang , Jia Shuyue , Chen Baoliang , Wang Shiqi 
Published: January 2023

AbstractDeep learning based image quality assessment models usually learn to predict image quality from a single dataset, leading the model to overfit specific scenes. To account for this, mixed datasets training can be an effective way to enhance the generalization capability of the model. However, it is nontrivial to combine different image quality assessment datasets, as their quality evaluation criteria, score ranges, view conditions, as well as subjects are usually not shared during the image quality annotation. Instead of aligning the annotations, this paper proposes a monotonic neural network for image quality assessment model learning with different datasets combined. In particular, this model consists of a dataset‐shared quality regressor and several dataset‐specific quality transformers. The quality regressor aims to obtain the perceptual quality of each image of each dataset and the quality transformer maps the perceptual quality to the corresponding annotation monotonically. The experimental results verify the effectiveness of the proposed learning strategy and the code is available at https://github.com/fzp0424/MonotonicIQA.
Temperature of quiet Sun small scale brightenings observed by EUI on board Solar Orbiter: Evidence for a cooler component
Authors: Dolliou A. , Parenti S. , Auchère F. , Bocchialini K. , Pelouze G. , Antolin P. , Berghmans D. , Harra L. , Long D. M. , Schühle U. , Kraaikamp E. , Stegen K. , Verbeeck C. , Gissot S. , Aznar Cuadrado R. , Buchlin E. , Mierla M. , Teriaca L. , Zhukov A. N. 
Published: January 2023

Context. On May 30, 2020, small and short-lived extreme-UV (EUV) brightenings in the quiet Sun were observed over a four-minute sequence by the EUV channel of the Extreme Ultraviolet Imager – High Resolution Imager (EUIHRIEUV) on board the Solar Orbiter. The brightenings’ physical origin and possible impact on coronal or transition region (TR) heating are still to be determined.
Aims. Our aim is to derive the statistical thermal evolution of these events in order to establish their coronal or TR origin.
Methods. Our thermal analysis took advantage of the multithermal sensitivity of the Atmospheric Imaging Assembly (AIA) imager on board the Solar Dynamics Observatory. We first identified the HRIEUV events in the six coronal bands of AIA. We then performed a statistical time lag analysis that quantified the delays between the light curves from different bands, as these time lags can give significant insight into the temperature evolution of the events. The analysis was performed taking into account the possible contribution of the background and foreground emissions to the results.
Results. For all nine couples of AIA bands analyzed, the brightening events are characterized by time lags inferior to the AIA cadence of 12 s. Our interpretation for these short time lags is the possible copresence of events that reach or do not reach coronal temperatures (≈1 MK). We believe that the cool population dominates the events analyzed in this work.