Prevalence and associated risk factors of avian influenza A virus subtypes H5N1 and H9N2 in LBMs of East Java province, Indonesia: a cross-sectional study
Background Avian influenza A virus subtypes H5N1 and H9N2 are contagious zoonotic diseases that are circulating in Indonesia and have raised increasing concern about their potential impacts on poultry and public health. A cross-sectional study was carried out to investigate the prevalence and associated risk factors of avian influenza A virus subtypes H5N1 and H9N2 among poultry in the live bird markets of four cities in East Java province, Indonesia. Methods A total of 600 tracheal and cloacal swabs (267 from backyards, 179 from broilers, and 154 from layers) from healthy birds were collected. The samples were inoculated into specific pathogenic-free embryonated eggs at 9-day-old via the allantoic cavity. qRT-PCR was used for further identification of avian influenza. Results The overall prevalence of circulating influenza A virus subtypes H5N1 and H9N2 was 3.8% (23/600, 95%CI [0.0229–0.0537]). Prevalence was higher in backyards at 5.99% (16/267) followed by broilers (2.23% (4/179)) and layers (1.68% (3/154)). The final multivariable model revealed five risk factors for H9N2 infections: presence of ducks (p = 0.003, OR = 38.2), turkeys (p = 0.017 OR = 0.032), and pheasants in the stall (p = 0.04, OR = 18.422), dry (p = 0.006) and rainy season (p < 0.001), and household birds (p = 0.002) and seven factors for H5N1 infections including: observing rodents (p = 0.036, OR = 0.005), stray dogs access (p = 0.004 OR ≤ 0.001), presence of turkeys (p = 0.03 OR = 0.007), chukars/partridges (p = 0.024 OR = 2500), and peafowls in the stalls (p = 0.0043 OR ≤ 0.001), rainy season (p = 0.001) and birds from the household sources (p = 0.002) in the live bird markets. Conclusions The findings of the current study illustrate the recurring infection and presence of both avian influenza viruses and associated risk factors in the surveyed marketplaces. Effective protective measures and mitigation strategies for risks outlined in this study could help to reduce the burden of H5N1 and H9N2 AI subtypes into the live bird markets of Indonesia.
Rehman et al. (2022) Prevalence and associated risk factors of avian influenza A virus subtypes H5N1 and H9N2 in LBMs of East Java province, Indonesia: a cross-sectional study. PeerJ 10:e14095 https://doi.org/10.7717/peerj.14095
Telomerase activity, relative telomere length, and longevity in alfalfa (Medicago sativa L.)
Background Medicago sativa L. ‘Qingshui’ is a valuable rhizomatous forage germplasm resource. We previously crossed Qingshui with the high-yielding Medicago sativa L. ‘WL168’ and obtained novel rhizomatous hybrid strains (RSA-01, RSA-02, and RSA-03). Telomere dynamics are more accurate predictors of survival and mortality than chronological age. Based on telomere analyses, we aimed to identify alfalfa varieties with increased stamina and longevity for the establishment of artificial grazing grasslands. Methods In this study, we performed longitudinal analysis of telomerase activity and relative telomere length in five alfalfa varieties (Qingshui, WL168, RSA-01, RSA-02, and RSA-03) at the age of 1 year and 5 years to examine the relationship among telomerase activity, rate of change in relative telomere length, and longevity. We further aimed to evaluate the longevity of the examined varieties. Telomerase activity and relative telomere length were measured using enzyme-linked immunosorbent assay and real-time polymerase chain reaction, respectively. Results We observed significant differences in telomerase activity between plants aged 1 year and those aged 5 years in all varieties except WL168, and the rate of change in telomerase activity does not differ reliably with age. As telomerase activity and relative telomere length are complex phenomena, further studies examining the molecular mechanisms of telomere-related proteins are needed. Relative telomere lengths of Qingshui, WL168, RSA-01, RSA-02, and RSA-03 in plants aged 5 years were higher than those aged 1 year by 11.41, 11.24, 9.21, 10.23, and 11.41, respectively. Relative telomere length of alfalfa tended to increase with age. Accordingly, alfalfa varieties can be classified according to rate of change in relative telomere length as long-lived (Qingshui, WL168, and RSA-03), medium-lived (RSA-02) and short-lived (RSA-01). The differences in relative telomere length distances of Qingshui, WL168, RSA-01, RSA-02, and RSA-03 between plants aged 1 and 5 years were 10.40, 13.02, 12.22, 11.22, and 13.25, respectively. The largest difference in relative telomere length was found between Qingshui and RSA-02 at 2.20. Our findings demonstrated that relative telomere length in alfalfa is influenced by genetic variation and age, with age exerting a greater effect.
A et al. (2022) Telomerase activity, relative telomere length, and longevity in alfalfa (Medicago sativa L.). PeerJ 10:e14102 https://doi.org/10.7717/peerj.14102
Glycyrrhizic acid Poly(D,L-lactide-co-glycolide) nanoparticles: anti-aging cosmeceutical formulation for topical applications
Glycyrrhizic acid (GA) is one of the components of licorice roots (Glycyrrhiza glabra L.). GA is a triterpenoid saponin can be used as a medicinal plant with its antiallergic, antiviral, anti-inflammatory, anti-ulcer, hepatoprotective, anticancer, anti-oxidation activities and several other therapeutic properties. The aim of this study is to develop an anti-aging formulation for topical application containing GA. In this context, GA-loaded Poly (D,L-lactide-co-glycolide) (PLGA) nanoparticles (NPs) were prepared using the double emulsion method, and were characterized by various spectroscopic methods. The efficacy of GA-PLGA NPs was evaluated with in vitro and in silico methods. The encapsulation efficiency and loading capacity were calculated. The in vitro release study was conducted, and the GA release profile was determined. The genotoxic activity of GA and GA-PLGA NPs was evaluated by the Ames test using TA98 and TA100 mutant strains of Salmonella typhimurium. The cytotoxic potential of GA-PLGA NPs was evaluated on the HaCaT cell line using the MTT assay. According to the genotoxicity and cytotoxicity results, it was found that the GA-PLGA NP formulation did not exhibit genotoxic and cytotoxic effects. Moreover, the efficacy of GA in preventing UVB-induced photo-aging in HaCaT cells and the clarification of the molecular mechanism of GA binding to MMPs were revealed by molecular docking analysis. In addition, through molecular dynamics (MD) analysis, the binding interaction of GA with MMPs in a dynamic system, and protein-ligand stability were predicted as a result of 50 ns MD simulation studies considering various analysis parameters. Finally, it was evaluated that GA-PLGA nanoformulation might be used as an alternative anti-aging skin care product candidate via topical application.
Cetin Aluc et al. (2022) Glycyrrhizic acid Poly(D,L-lactide-co-glycolide) nanoparticles: anti-aging cosmeceutical formulation for topical applications. PeerJ 10:e14139 https://doi.org/10.7717/peerj.14139
Body distribution of impetigo and association with host and pathogen factors
Background Impetigo or skin sores are estimated to affect >162 million people worldwide. Detailed descriptions of the anatomical location of skin sores are lacking. Methods We used prospectively collected data from a randomised control trial of treatments for impetigo in Aboriginal children in Australia. We generated heat-map distributions of skin sores on the human body from 56 predefined anatomical locations and stratified skin sore distribution by sex, age, causative pathogen and co-infection with scabies, tinea and head lice. We compared the distribution of sores between males and females, between sores with only Streptococcus pyogenes and sores with only Staphylococcus aureus; and across age groups with a Fisher’s exact test. Results There were 663 episodes of impetigo infections among 508 children enrolled in the trial. For all 663 episodes, the lower limbs were the most affected body sites followed by the distal upper limbs, face and scalp. On the anterior surface of the body, the pre-tibial region was the most affected while on the posterior surface, the dorsum of the hands and calves predominated. There was no observable difference between males and females in distribution of sores. Children up to 3 years of age were more likely to have sores on the upper posterior lower limbs and scalp than older age groups, with the distribution of sores differing across age groups (p = 3 × 10−5). Sores from which only Staphylococcus aureus was cultured differed in distribution to those with only Streptococcus pyogenes cultured (p = 3 × 10−4) and were more commonly found on the upper posterior lower limbs. Conclusions Skin sores were predominantly found on exposed regions of the lower leg and distal upper limbs. The distribution of sores varied by age group and pathogen. These results highlight key areas of the body for clinicians to pay attention to when examining children for skin sores.
Yerramilli et al. (2022) Body distribution of impetigo and association with host and pathogen factors. PeerJ 10:e14154 https://doi.org/10.7717/peerj.14154
Enhancing yogurt products’ ingredients: preservation strategies, processing conditions, analytical detection methods, and therapeutic delivery—an overview
As a dairy product, yogurt delivers nourishing milk components through the beneficial microbial fermentation process, improved by bioavailability and bioaccessibility–an exclusive combined food asset. In recent decades, there has been considerable attention to yogurt product development particularly in areas like influence by antioxidant-rich fruits, different factors affecting its probiotic viability, and the functionality of inulin and probiotics. Essentially, many published reviews frequently focus on the functionalities associated with yogurt products, however, those articulating yogurt ingredients specific to associated preservation strategies, processing conditions, and analytical detection techniques are very few, to the best of our knowledge. The knowledge and understanding of preservation strategies that enhance the ingredients in yogurt products, and their function as modern drug delivery systems are essential, given the opportunities it can provide for future research. Therefore, this overview discussed how yogurt product ingredients have been enhanced, from preservation strategies, processing conditions, analytical detection methods, and therapeutic delivery standpoints. The survey methodology involved major stages, from the brainstorming of research questions, search strategy, effective utilization of databases, inclusion and exclusion criteria, etc. The innovative successes of yogurts would be enhanced via the physicochemical, nutritional and therapeutic aspects of the ingredients/products. Besides processing conditions to influence the yogurt constituents, overall acceptability, quality, and shelf-life, the analytical assays would help detect the hidden product constituents, toxins, and other storage-related changes. The therapeutic role of yogurt-a modern drug delivery system, would be demonstrated via the supplementation (of yogurt) either alone or with bioactive ingredients. The future of yogurt requires the collective action of stakeholders to formulate unique variants with different natural blends, where synthetic ingredients become completely replaced by the plant’s derivatives, which enhance the acidification rate and extend shelf life.
Mehra et al. (2022) Enhancing yogurt products’ ingredients: preservation strategies, processing conditions, analytical detection methods, and therapeutic delivery—an overview. PeerJ 10:e14177 https://doi.org/10.7717/peerj.14177
Overexpression of LINC00551 promotes autophagy-dependent ferroptosis of lung adenocarcinoma via upregulating DDIT4 by sponging miR-4328
According to mounting evidence, long noncoding RNAs (lncRNAs) play a vital role in regulated cell death (RCD). A potential strategy for cancer therapy involves triggering ferroptosis, a novel form of RCD. Although it is thought to be an autophagy-dependent process, it is still unclear how the two processes interact. This study characterized a long intergenic noncoding RNA, LINC00551, expressed at a low level in lung adenocarcinoma (LUAD) and some other cancers. Overexpression of LINC00551 suppresses cell viability while promoting autophagy and RSL-3-induced ferroptosis in LUAD cells. LINC00551 acts as a competing endogenous RNA (ceRNA) and binds with miR-4328 which up-regulates the target DNA damage-inducible transcript 4 (DDIT4). DDIT4 inhibits the activity of mTOR, promotes LUAD autophagy, and then promotes the ferroptosis of LUAD cells in an autophagy-dependent manner. This study provided an insight into the molecular mechanism regulating ferroptosis and highlighted LINC00551 as a potential therapeutic target for LUAD.
Peng et al. (2022) Overexpression of LINC00551 promotes autophagy-dependent ferroptosis of lung adenocarcinoma via upregulating DDIT4 by sponging miR-4328. PeerJ 10:e14180 https://doi.org/10.7717/peerj.14180
When disturbances favour species adapted to stressful soils: grazing may benefit soil specialists in gypsum plant communities
Background Herbivory and extreme soils are drivers of plant evolution. Adaptation to extreme soils often implies substrate-specific traits, and resistance to herbivory involves tolerance or avoidance mechanisms. However, little research has been done on the effect of grazing on plant communities rich in edaphic endemics growing on extreme soils. A widespread study case is gypsum drylands, where livestock grazing often prevails. Despite their limiting conditions, gypsum soils host a unique and highly specialised flora, identified as a conservation priority. Methods We evaluated the effect of different grazing intensities on the assembly of perennial plant communities growing on gypsum soils. We considered the contribution of species gypsum affinity and key functional traits of species such as traits related to gypsum specialisation (leaf S accumulation) or traits related to plant tolerance to herbivory such as leaf C and N concentrations. The effect of grazing intensity on plant community indices (i.e., richness, diversity, community weighted-means (CWM) and functional diversity (FD) indices for each trait) were modelled using Generalised Linear Mixed Models (GLMM). We analysed the relative contribution of interspecific trait variation and intraspecific trait variation (ITV) in shifts of community index values. Results Livestock grazing may benefit gypsum plant specialists during community assembly, as species with high gypsum affinity, and high leaf S contents, were more likely to assemble in the most grazed plots. Grazing also promoted species with traits related to herbivory tolerance, as species with a rapid-growth strategy (high leaf N, low leaf C) were promoted under high grazing conditions. Species that ultimately formed gypsum plant communities had sufficient functional variability among individuals to cope with different grazing intensities, as intraspecific variability was the main component of species assembly for CWM values. Conclusions The positive effects of grazing on plant communities in gypsum soils indicate that livestock may be a key tool for the conservation of these edaphic endemics.
Cera et al. (2022) When disturbances favour species adapted to stressful soils: grazing may benefit soil specialists in gypsum plant communities. PeerJ 10:e14222 https://doi.org/10.7717/peerj.14222
Seasonal variation characteristics of water quality in the Sunxi River Watershed, Three Gorges Reservoir Area
The seasonal change characteristics of water quality in the Sunxi River watershed, which is a typical watershed in the tail area of the Three Gorges Reservoir Area, must be studied to provide remediation ideas and specific measures for agricultural nonpoint source pollution in the reservoir area. A two-way repeated measures ANOVA was used to analyze the variation characteristics of chemical oxygen demand (COD), total nitrogen (TN), and total phosphorus (TP) concentrations in the upstream and downstream of the Sunxi River watershed in spring, summer, and autumn of 2018–2021. With data from autumn 2018 taken as an example, path analysis was applied to study the effect degree of influencing factors on TN concentrations. The two-way repeated measures ANOVA illustrated that the COD, TN, and TP concentrations in the downstream were significantly higher than those in the upstream (P < 0.05). In addition, the COD concentrations were the highest in summer 2019, followed by spring of 2019 and 2021, and TN and TP concentrations were higher in spring and summer. The TN and TP concentrations were comparatively lower in the autumn. The path analysis showed that electrical conductance and dissolved oxygen directly affected the TN concentrations, and water temperature mainly affected the TN concentrations via the indirect effects of electrical conductance and dissolved oxygen. The water quality of upstream Sunxi River watershed was better than that of downstream, and the water quality in autumn was better than spring and summer in 2018–2021. For water quality management and ecological restoration of the Sunxi River watershed, further attention should be paid to the water quality changes in the downstream and in spring and summer and to the impact of water temperature, electrical conductivity, and dissolved oxygen on the water quality.
Hou et al. (2022) Seasonal variation characteristics of water quality in the Sunxi River Watershed, Three Gorges Reservoir Area. PeerJ 10:e14233 https://doi.org/10.7717/peerj.14233
Intensive hunting changes human-wildlife relationships
Wildlife alter their behaviors in a trade-off between consuming food and fear of becoming food themselves. The risk allocation hypothesis posits that variation in the scale, intensity and longevity of predation threats can influence the magnitude of antipredator behavioral responses. Hunting by humans represents a threat thought to be perceived by wildlife similar to how they perceive a top predator, although hunting intensity and duration varys widely around the world. Here we evaluate the effects of hunting pressure on wildlife by comparing how two communities of mammals under different management schemes differ in their relative abundance and response to humans. Using camera traps to survey wildlife across disturbance levels (yards, farms, forests) in similar landscapes in southern Germany and southeastern USA, we tested the prediction of the risk allocation hypothesis: that the higher intensity and longevity of hunting in Germany (year round vs 3 months, 4x higher harvest/km2/year) would reduce relative abundance of hunted species and result in a larger fear-based response to humans (i.e., more spatial and temporal avoidance). We further evaluated how changes in animal abundance and behavior would result in potential changes to ecological impacts (i.e., herbivory and predation). We found that hunted species were relatively less abundant in Germany and less associated with humans on the landscape (i.e., yards and urban areas), but did not avoid humans temporally in hunted areas while hunted species in the USA showed the opposite pattern. These results are consistent with the risk allocation hypothesis where we would expect more spatial avoidance in response to threats of longer duration (i.e., year-round hunting in Germany vs. 3-month duration in USA) and less spatial avoidance but more temporal avoidance for threats of shorter duration. The expected ecological impacts of mammals in all three habitats were quite different between countries, most strikingly due to the decreases in the relative abundance of hunted species in Germany, particularly deer, with no proportional increase in unhunted species, resulting in American yards facing the potential for 25x more herbivory than German yards. Our results suggest that the duration and intensity of managed hunting can have strong and predictable effects on animal abundance and behavior, with the potential for corresponding changes in the ecological impacts of wildlife. Hunting can be an effective tool for reducing wildlife conflict due to overabundance but may require more intensive harvest than is seen in much of North America.
Parsons et al. (2022) Intensive hunting changes human-wildlife relationships. PeerJ 10:e14159 https://doi.org/10.7717/peerj.14159
Estimation methods for the ratio of medians of three-parameter lognormal distributions containing zero values and their application to wind speed data from northern Thailand
Wind speed has an important impact on the formation and dispersion of fine particulate matter (PM), which can cause several health problems. During the transition from the winter to the summer season in northern Thailand, the wind speed has been low for longer than usual, which has resulted in fine PM accumulating in the air. Motivated by this, we have identified a need to investigate wind speed due to its effect on PM formation and dispersion and to raise awareness among the general public. The hourly windspeed can be approximated by using confidence intervals for the ratio of the medians of three-parameter lognormal distributions containing zero values. Thus, we constructed them by using fiducial, normal approximation, and Bayesian methods. By way of comparison, the performance measures for all ofthe proposed methods (the coverage percentage, lower and upper error probabilities (LEP and UEP,respectively), and expected length) were assessed via Monte Carlo simulation. The results of Monte Carlo simulation studies show that the Bayesian method provided coverage percentages close to the nominal confidence level and shorter intervals than the other methods. Importantly, it maintained a good balance between LEP and UEP even for large variation and percentage of zero-valued observations. To illustrate the efficacy of our proposed methods, we applied them to hourly wind speed data from northern Thailand.
Environmental Contamination and Remediation
Maneerat et al. (2022) Estimation methods for the ratio of medians of three-parameter lognormal distributions containing zero values and their application to wind speed data from northern Thailand. PeerJ 10:e14194 https://doi.org/10.7717/peerj.14194