bluuebunny/crossref_metadata_2025_split huggingface dataset:
PpBBX32 and PpZAT5 modulate temperature-dependent and tissue-specific anthocyanin accumulation in peach fruit
Authors: Huang Dan , Xue Lei , Lu Yueqin , Liu Mengfei , Lin-Wang Kui , Allan Andrew C , Zhang Bo , Chen Kunsong , Xu Changjie 
Published: July 2024

Abstract
Anthocyanins are important compounds for fruit quality and nutrition. The R2R3 MYB transcription factor PpMYB10.1 is known to be critical for regulating anthocyanin accumulation in peach. However, regulatory factors upstream of PpMYB10.1 which control temperature-dependent, cultivar-contrasted and tissue-specific anthocyanin accumulation remain to be determined. In this study, differential anthocyanin accumulation in the outer flesh near the peel (OF) of peach [Prunus persica (L.) Batsch] was observed between cultivars ‘Zhonghuashoutao’ and ‘Dongxuemi’, as well as among different storage temperatures and different fruit tissues of ‘Zhonghuashoutao’. By cross-comparisons of RNA-Seq data of samples with differential anthocyanin accumulation, transcription factor genes PpBBX32 and PpZAT5 were identified. These were functionally characterized as two positive regulators for anthocyanin accumulation via transient expression and genetic transformation. Various interaction assays revealed that both PpBBX32 and PpZAT5 can directly activate the PpMYB10.1 promoter and meanwhile interact at protein level as a PpZAT5-PpBBX32-PpMYB10.1 complex. Furthermore, the results of in silico analysis and exogenous application of methyl jasmonate (MeJA) indicated that MeJA favored anthocyanin accumulation, while it was also found that anthocyanin accumulation as well as PpBBX32 and PpZAT5 expression correlated significantly with endogenous JA and JA-Ile in different fruit tissues. In summary, PpBBX32 and PpZAT5 are upstream activators of PpMYB10.1, allowing JAs to take part in temperature-dependent and tissue-specific anthocyanin accumulation by modulating their expression. This work enriches the knowledge of the transcriptional regulatory mechanisms for differential anthocyanin accumulation under internal and external factors.
Multiaspect analysis and optimization of a power and cooling cogeneration plant integrated with a multilevel waste heat recovery system
Authors: Hai Tao , Omar Ihab , El-Sharkawy Mohamed R , Kassim Murizah , Rajab Husam , Said Esraa Ahmed , Hussein Abbas Hameed Abdul , Hassan Alhaidry Wesam Abed AL , Idan Ameer Hassan , Alizadeh Mehrsam 
Published: July 2024

Abstract
This study focuses on the development and improvement of a new combined power and cooling system called the power-cooling cogeneration system (PCCS). The PCCS incorporates a tri-tier waste heat recovery system that includes an organic Rankine cycle (ORC) system and an ejector-driven refrigeration mechanism. The cogeneration system design incorporates a thorough assessment of thermodynamic efficiency, cost-efficiency, and environmental consequences. A dual-objective optimization technique is developed to decrease expenses while simultaneously improving exergy efficiency. In addition, the complex behavior of PCCS is compared to a standard system that uses a one-stage recovery-ORC system and a compressor-based refrigeration approach. Also, the effectiveness of the PCCS was evaluated through the utilization of several environmentally friendly refrigerants. Environmental evaluations employ two metrics: total equivalent-warming impact (TE-WI) and life cycle-climate performance (LC-CP), emphasizing substantial reductions in environmental harm through improved waste heat recovery. The results demonstrate that the R1234-yf refrigerant achieves the best possible performance in both configurations, resulting in a significant increase of roughly 10.1% in exergetic efficiency compared to the standard system. Simultaneously, the PCCS experiences a decrease in exergy loss and annual costs of around 7.25% and 21.16%, respectively, as compared to the baseline. Incorporating an ejector into the refrigeration cycle has the potential to reduce carbon dioxide emissions by up to 11.41 × 106 kg.
Comparison of Predictive Models for Severe Dengue: Logistic Regression, Classification Tree, and the Structural Equation Model
Authors: Lee Hyelan , Srikiatkhachorn Anon , Kalayanarooj Siripen , Farmer Aaron R , Park Sangshin 
Published: July 2024

Abstract

Background
This study aimed to compare the predictive performance of 3 statistical models—logistic regression, classification tree, and structural equation model (SEM)—in predicting severe dengue illness.

Methods
We adopted a modified classification of dengue illness severity based on the World Health Organization’s 1997 guideline. We constructed predictive models using demographic factors and laboratory indicators on the day of fever occurrence, with data from 2 hospital cohorts in Thailand (257 Thai children). Different predictive models for each category of severe dengue illness were developed employing logistic regression, classification tree, and SEM. The model’s discrimination abilties were analyzed with external validation data sets from 55 and 700 patients not used in model development.

Results
From external validation based on predictors on the day of presentation to the hospital, the area under the receiver operating characteristic curve was from 0.65 to 0.84 for the regression models from 0.73 to 0.85 for SEMs. Classification tree models showed good results of sensitivity (0.95 to 0.99) but poor specificity (0.10 to 0.44).

Conclusions
Our study showed that SEM is comparable to logistic regression or classification tree, which was widely used for predicting severe forms of dengue.
Effects of Habitat and Fruit Scent on the Interactions between Short-tailed Fruit Bats and Piper Plants
Authors: Sil S , Visconti F , Chaverri G , Santana S E 
Published: July 2024

Synopsis
Piper is a mega-diverse genus of pioneer plants that contributes to the maintenance and regeneration of tropical forests. In the Neotropics, Carollia bats use olfaction to forage for Piper fruit and are a main disperser of Piper seeds via consumption and subsequent defecation during flight. In return, Piper fruits provide essential nutrients for Carollia year-round. There is evidence that the types and diversity of Piper frugivores are influenced by the primary habitat type of different Piper species (forest and gap), with forest Piper depending more on bats for seed dispersal; however, this pattern has not been tested broadly. We aimed to characterize and compare the interactions between Carollia and Piper across forested and gap habitats, and further investigate whether differences in fruit traits relevant to bat foraging (i.e., scent) could underlie differences in Carollia-Piper interactions. We collected nightly acoustic ultrasonic recordings and 24 h camera trap data in La Selva, Costa Rica across 12 species of Piper (six forest, six gap) and integrated this information with data on Carollia diet and Piper fruit scent. Merging biomonitoring modalities allowed us to characterize ecological interactions in a hierarchical manner: from general activity and presence of bats, to visitations and inspections of plants, to acquisition and consumption of fruits. We found significant differences in Carollia-Piper interactions between forested and gap habitats; however, the type of biomonitoring modality (camera trap, acoustics, diet) influenced our ability to detect these differences. Forest Piper were exclusively visited by bats, whereas gap Piper had a more diverse suite of frugivores; the annual diet of Carollia, however, is dominated by gap Piper since these plants produce fruit year-round. We found evidence that fruit scent composition significantly differs between forest and gap Piper, which highlights the possibility that bats could be using chemical cues to differentially forage for gap vs. forest Piper. By integrating studies of Piper fruit scent, plant visitation patterns, and Carollia diet composition, we paint a clearer picture of the ecological interactions between Piper and Carollia, and plant-animal mutualisms more generally.
Reversed oxidative TCA (roTCA) for carbon fixation by an Acidimicrobiia strain from a saline lake
Authors: Gao Lei , Liu Lan , Lv Ai-Ping , Fu Lin , Lian Zheng-Han , Nunoura Takuro , Hedlund Brian P , Xu Qing-Yu , Wu Dildar , Yang Jian , Ali Mukhtiar , Li Meng-Meng , Liu Yong-Hong , Antunes André , Jiang Hong-Chen , Cheng Lei , Jiao Jian-Yu , Li Wen-Jun , Fang Bao-Zhu 
Published: July 2024

Abstract
Acidimicrobiia are widely distributed in nature and suggested to be autotrophic via the Calvin–Benson–Bassham (CBB) cycle. However, direct evidence of chemolithoautotrophy in Acidimicrobiia is lacking. Here, we report a chemolithoautotrophic enrichment from a saline lake, and the subsequent isolation and characterization of a chemolithoautotroph, Salinilacustristhrix flava EGI L10123T, which belongs to a new Acidimicrobiia family. Although strain EGI L10123T is autotrophic, neither its genome nor Acidimicrobiia metagenome-assembled genomes from the enrichment culture encode genes necessary for the CBB cycle. Instead, genomic, transcriptomic, enzymatic, and stable-isotope probing data hinted at the activity of the reversed oxidative TCA (roTCA) coupled with the oxidation of sulfide as the electron donor. Phylogenetic analysis and ancestral character reconstructions of Acidimicrobiia suggested that the essential CBB gene rbcL was acquired through multiple horizontal gene transfer events from diverse microbial taxa. In contrast, genes responsible for sulfide- or hydrogen-dependent roTCA carbon fixation were already present in the last common ancestor of extant Acidimicrobiia. These findings imply the possibility of roTCA carbon fixation in Acidimicrobiia and the ecological importance of Acidimicrobiia. Further research in the future is necessary to confirm whether these characteristics are truly widespread across the clade.
Dynamics and activity of an ammonia-oxidizing archaea bloom in South San Francisco Bay
Authors: Rasmussen Anna N , Francis Christopher A 
Published: July 2024

Abstract
Transient or recurring blooms of ammonia-oxidizing archaea (AOA) have been reported in several estuarine and coastal environments, including recent observations of AOA blooms in South San Francisco Bay. Here, we measured nitrification rates, quantified AOA abundance, and analyzed both metagenomic and metatranscriptomic data to examine the dynamics and activity of nitrifying microorganisms over the course of an AOA bloom in South San Francisco Bay during the autumn of 2018 and seasonally throughout 2019. Nitrification rates were correlated with AOA abundance in quantitative polymerase chain reaction (PCR) data, and both increased several orders of magnitude between the autumn AOA bloom and spring and summer seasons. From bloom samples, we recovered an extremely abundant, high-quality Candidatus Nitrosomarinus catalina-like AOA metagenome-assembled genome that had high transcript abundance during the bloom and expressed &gt;80% of genes in its genome. We also recovered a putative nitrite-oxidizing bacteria metagenome-assembled genome from within the Nitrospinaceae that was of much lower abundance and had lower transcript abundance than AOA. During the AOA bloom, we observed increased transcript abundance for nitrogen uptake and oxidative stress genes in non-nitrifier metagenome-assembled genomes. This study confirms AOA are not only abundant but also highly active during blooms oxidizing large amounts of ammonia to nitrite—a key intermediate in the microbial nitrogen cycle—and producing reactive compounds that may impact other members of the microbial community.
Effectiveness of direct delabelling of allergy labels in type A adverse drug reactions to penicillin: a multicentre hospitalwide prospective cohort study
Authors: Drummond Kate , Vogrin Sara , Lambros Belinda , Trubiano Jason A , Mitri Elise 
Published: July 2024

Abstract

Background
Patient-reported penicillin allergy labels (PALs) are associated with adverse patient outcomes and inappropriate antibiotic prescribing. Removal of PALs via direct oral challenge (DOC) is associated with increased penicillin utilization post removal.

Objectives
To assess the impact of direct delabelling (allergy label removal via medical reconciliation alone) of type A adverse drug reaction (ADR) PALs on inpatient prescribing.

Methods
From January 2019 to December 2022 at two tertiary hospitals in Melbourne, patients aged ≥18 years with type A ADR PALs, as defined by the validated Antibiotic Allergy Assessment Tool, were offered direct delabelling or single-dose DOC. The primary endpoint was antibiotic use pre- and post-assessment (during index admission and 90 days post assessment). The secondary endpoint was the proportion of patients delabelled in the direct delabelling and DOC cohorts in the electronic medical record at 90 days post assessment.

Results
Allergy labels (n = 4108) were assessed for 488 participants, with 490 individual type A ADR PAL assessments included. Three hundred and thirty-seven patients were directly delabelled, 69 underwent DOC and 84 were not delabelled. There was increased use of any penicillin following direct delabelling (OR 19.19, 95% CI 2.48–148.36) and DOC (OR 56.98, 95% CI 6.82–476.19) during the index admission, higher in the DOC group compared with direct delabelling (OR 2.97, 95% CI 1.39–6.37). Relabelling at 90 days was low with no statistically significant difference between direct delabelling (5/337; 1.5%) and DOC (0/69; 0%).

Conclusions
Both direct delabelling and DOC of type A ADR PALs increased penicillin usage; however, the impact was greatest with DOC. Most patients remain delabelled at 90 days.
Genomic analysis of enterococci carrying optrA, poxtA, and vanA resistance genes from wild boars, Italy
Authors: Cinthi Marzia , Coccitto Sonia Nina , Massacci Francesca Romana , Albini Elisa , Binucci Giorgia , Gobbi Marco , Tentellini Michele , D'Avino Nicoletta , Ranucci Alice , Papa Paola , Magistrali Chiara Francesca , Brenciani Andrea , Giovanetti Eleonora 
Published: July 2024

Abstract

Aims
To investigate enterococci carrying linezolid and vancomycin resistance genes from fecal samples recovered from wild boars

Methods and results
Florfenicol- and vancomycin-resistant enterococci, isolated on selective agar plates, were screened by PCR for the presence of linezolid and vancomycin resistance genes. Five isolates carried optrA or poxtA linezolid resistance genes; one strain was resistant to vancomycin for the presence of vanA gene. All isolates were tested for their antibiotic susceptibility and subjected to Whole Genome Sequencing (WGS) analysis. In Enterococcus faecalis (E. faecalis) V1344 and V1676, the optrA was located on the new pV1344-optrA and pV1676-optrA plasmids, respectively, whereas in Enterococcus faecium (E. faecium) V1339 this gene was on a 22 354-bp chromosomal genetic context identical to the one detected in a human E. faecium isolate. In both E. faecium V1682 and E. durans V1343, poxtA was on the p1818-c plasmid previously found in a human E. faecium isolate. In E. faecium V1328, the vanA gene was on the Tn1546 transposon in turn located on a new pV1328-vanA plasmid. Only E. faecium V1682 successfully transferred the poxtA gene to an enterococcal recipient in filter mating assays.

Conclusions
The occurrence of genetic elements carrying linezolid and vancomycin resistance genes in enterococci from wild boars is a matter of concern, moreover, the sharing of plasmids and transposons between isolates from wild animals, human, and environment indicates an exchange of genetic material between these settings.
Sequential post-translational modifications regulate damaged DNA-binding protein DDB2 function
Authors: Kaneoka Hidenori , Arakawa Kazuhiko , Masuda Yusuke , Ogawa Daiki , Sugimoto Kota , Fukata Risako , Tsuge-Shoji Maasa , Nishijima Ken-ichi , Iijima Shinji 
Published: July 2024

Abstract
Nucleotide excision repair (NER) is a major DNA repair system and hereditary defects in this system cause critical genetic diseases (e.g. xeroderma pigmentosum, Cockayne syndrome and trichothiodystrophy). Various proteins are involved in the eukaryotic NER system and undergo several post-translational modifications. Damaged DNA-binding protein 2 (DDB2) is a DNA damage recognition factor in the NER pathway. We previously demonstrated that DDB2 was SUMOylated in response to UV irradiation; however, its physiological roles remain unclear. We herein analysed several mutants and showed that the N-terminal tail of DDB2 was the target for SUMOylation; however, this region did not contain a consensus SUMOylation sequence. We found a SUMO-interacting motif (SIM) in the N-terminal tail that facilitated SUMOylation. The ubiquitination of a SUMOylation-deficient DDB2 SIM mutant was decreased, and its retention of chromatin was prolonged. The SIM mutant showed impaired NER, possibly due to a decline in the timely handover of the lesion site to XP complementation group C. These results suggest that the SUMOylation of DDB2 facilitates NER through enhancements in ubiquitination.
Benefits of Targeted Vibration for Bone Strength and Bone Density in Postmenopausal Women with Osteopenia: A Randomized, Sham-Controlled Trial
Authors: Bilek Laura D , Flores Laura E , Waltman Nancy , Mack Lynn R , Smith Kara , Kelly Colleen , Keaveny Tony M , Hillstrom Derek , Griffin Meghan , Yecies Laura , Jaasma Michael J 
Published: July 2024

Abstract
Postmenopausal women are at increased risk of fractures due to higher bone turnover that accompanies reduced estrogen production. Vibration may be an effective intervention for maintaining bone strength and bone density. The Osteoboost Belt is a wearable, home-use device that delivers targeted vibration to the lumbar spine and hips. This randomized, sham-controlled trial evaluated the safety and effectiveness of targeted vibration on bone strength and density in postmenopausal women with osteopenia. Participants (n = 126) were randomized (1:1) to receive the Active (vibration therapy device) or Sham (inactive device) treatment for 30 minutes/day over 12 months. At baseline and 12 months, computed tomography scans of the lumbar spine were analyzed to measure finite element analysis-assessed vertebral bone compressive strength (vertebral strength) and volumetric bone mineral density (vBMD) of the L1 vertebra. The primary endpoint, the difference in percentage change of vertebral strength between the Active (-1.40%, [95% CI: -2.73, -0.08]) and Sham (-2.74% [-4.04, -1.43]) groups in the modified intent-to-treat population, did not reach statistical significance (relative benefit: +1.33% [-0.57, 3.24], P=.17). However, a statistically significant benefit of targeted vibration was observed for participants who met the prespecified per-protocol compliance criterion (averaged ≥3 treatment sessions/week): -0.48% [-2.12, 1.17]) and -2.84% [-4.21, -1.47] (n = 73, P=.028) for Active and Sham groups, respectively. Similarly, in this compliant cohort, targeted vibration provided a statistically significant benefit on vertebral bone density, with the percentage change in vBMD of -0.29% [-1.28, 0.70] and -1.97% [-2.92, -1.01] (P=.016) for the Active and Sham groups, respectively. The vibration therapy was well-tolerated, and there were no serious device-related adverse events. These results demonstrate that targeted vibration is safe and, in adherent individuals, can significantly mitigate the decline in vertebral bone strength and vertebral bone density in postmenopausal women with osteopenia.
New okra genotypes for the management of aphids (Hemiptera: Aphididae) in the diverse ecological landscapes of Central Africa
Authors: Abang Albert Fomumbod , Ramasamy Srinivasan , Hanna Rachid , Kekeunou Sevillor , Fotso Kuate Apollin , Tenkouano Abdou , Fiaboe Komi Kouma Mokpokpo , Bilong Bilong Charles-Félix 
Published: July 2024

Abstract
Various aphid species, including Aphis gossypii Glover (Hemiptera: Aphididae), are considered important pests of okra and other vegetables. Previous studies under 1 environment in Cameroon, Central Africa, had found multiple okra genotypes with resistance to A. gossypii. However, the stability and yield performance of the “resistant” genotypes across different environments were unknown. Ten previously identified aphid-resistant okra genotypes along with 1 commercial variety and a local landrace (specific to a given location) were compared during 2 seasons in replicated trials in 4 agro-ecological zones of Cameroon that also represent large areas of Central Africa. Aphid populations and okra yield parameters were evaluated. Breeding values were predicted using a linear mixed model for all data, and genotypes by location interactions were identified. The area under the infestation pressure curve (AUIPC) was calculated using aphid count data and subjected to resistance analysis. The Local—the most susceptible with the highest breeding value (+2.33)—and VI060794—one of the moderately resistant—genotypes had the highest yield per hectare. The only resistant genotype VI036213 had the lowest breeding value (–2.20). Genotype × location interactions were significant for yield, pod width, and plant height, while location variance was significant for all parameters evaluated. When considering that higher aphid densities could lead to greater pesticide use and, therefore higher production and environmental costs, the high-yielding VI060794—with moderate aphid resistance across multiple environments—presents an alternative or substitute for local landraces across multiple agro-ecologies of Cameroon and (by extension) Central Africa.
A method for assessing the operational status of a microseismic monitoring system using energy distribution changes of observed data
Authors: Zeng Han , Ye Fang , Cai Jinhui , Xu Yiwen 
Published: July 2024

Abstract
The operational status of geophones plays a pivotal role in ensuring the accuracy and reliability of microseismic monitoring systems. However, conventional techniques used to evaluate the operational status of geophones require human intervention or significant time delays. To address this issue, we propose a method for online monitoring of geophone status using observed data obtained from a microseismic system. First, the energy features of the preprocessed observation data are extracted via wavelet packet decomposition. Subsequently, the distribution parameters of energy features are obtained through log-logistic distribution fitting. These parameters are then applied to a change-point detection model, enabling the online monitoring of seismic geophones. In addition, we select a long short-term memory network to classify the operational status of the geophones, which is trained using the obtained energy distribution data and the time-frequency characteristics of the observed data. The experimental results indicate that the model achieves an accuracy of 98.33%, surpassing the 89.58% accuracy of the support vector machine. The proposed method not only contributes to online monitoring and precise determination of the operating status of detectors, but also has enormous application potential in other fields that require monitoring and evaluating the operating status of instruments.