Preparation and indoor virulence determination of a temperature-sensitive insecticide against Zeugodacus cucurbitae (Coquillett).

Zeugodacus cucurbitae (Coquillett) is an important fruit and vegetable pest, especially in high-temperature seasons. In our previous research, we developed a temperature-sensitive sustained-release attractant for Z. cucurbitae, that not only can control the release rate of cuelure according to the temperature change, but also shows an excellent trapping effect on Z. cucurbitae. To further enhance the killing effect of the temperature-sensitive attractant on Z. cucurbitae, this study proposed using it in combination with an insecticide to prepare a temperature-sensitive insecticide for Z. cucurbitae. Based on the controlled release technology of pesticides, a temperature-sensitive Z. cucurbitae insecticide was developed by using PNIPAM gel as a temperature-sensitive switch to carry both cuelure and insecticide at the same time. In addition, the lethal effect of different pesticides on Z. cucurbitae were tested by indoor toxicity test, and the best pesticide combination was screened out. The temperature-sensitive insecticide prepared in this study not only had excellent thermal response and controlled release ability, but also enhanced its toxicological effects on Z. cucurbitae because it contained insecticides. Among them, combining thiamethoxam and clothianidin with the temperature-sensitive attractants was the most effective, and their lethality reached more than 97% against Z. cucurbitae. This study is not only of great practical significance for the monitoring and controlling Z. cucurbitae, but also provides theoretical basis and reference value for the combination of temperature-sensitive attractant and insecticide.

Prediction of the potential distribution area of Spodoptera frugiperda and its parasitic wasp, Trichogramma pretiosum.

Spodoptera frugiperda is a migratory agricultural pest with fast-spreading speed, long migration distance, and wide host range, which seriously threatens the safety of economic crops. To predict the trends of S. frugiperda and its parasitoid wasp Trichogramma pretiosum in their habitats under current and future climatic conditions, based on MaxEnt model and geographic distribution data of their historical occurrence, we project the feasibility of introducing T. pretiosum to control S. frugiperda by evaluating on their potential global distribution. The results show that, under the current greenhouse gas concentration, the potential distribution area of S. frugiperda is concentrated in 50° N-30° S, with a total area of 1.74 × 106 km2 , and the potential distribution area of T. pretiosum in the whole world is 2.91 × 106 km2 . The suitable areas of T. pretiosum cover almost all the suitable areas of S. frugiperda, which indicates that T. pretiosum can be introduced to control S. frugiperda. The results of this study can provide a theoretical basis for the monitoring and early warning of S. frugiperda and the use of T. pretiosum to control S. frugiperda.

DeepmRNALoc: A Novel Predictor of Eukaryotic mRNA Subcellular Localization Based on Deep Learning.

The subcellular localization of messenger RNA (mRNA) precisely controls where protein products are synthesized and where they function. However, obtaining an mRNA's subcellular localization through wet-lab experiments is time-consuming and expensive, and many existing mRNA subcellular localization prediction algorithms need to be improved. In this study, a deep neural network-based eukaryotic mRNA subcellular location prediction method, DeepmRNALoc, was proposed, utilizing a two-stage feature extraction strategy that featured bimodal information splitting and fusing for the first stage and a VGGNet-like CNN module for the second stage. The five-fold cross-validation accuracies of DeepmRNALoc in the cytoplasm, endoplasmic reticulum, extracellular region, mitochondria, and nucleus were 0.895, 0.594, 0.308, 0.944, and 0.865, respectively, demonstrating that it outperforms existing models and techniques.

Metagenomics revealing molecular profiles of microbial community structure and metabolic capacity in Bamucuo lake, Tibet.

Microorganisms play critical ecological roles in the global biogeochemical cycles. However, extensive information on the microbial communities in Qinghai-Tibet Plateau (QTP), which is the highest plateau in the world, is still lacking, particularly in high elevation locations above 4500 m. Here, we performed a survey of th e soil and water microbial communities in Bamucuo Lake, Tibet, by using shotgun metagenomic methods. In the soil and water samples, we reconstructed 75 almost complete metagenomic assembly genomes, and 74 of the metagenomic assembly genomes from the water sample represented novel species. Proteobacteria and Actinobacteria were found to be the dominant bacterial phyla, while Euryarchaeota was the dominant archaeal phylum. The largest virus, Pandoravirus salinus, was found in the soil microbial community. We concluded that the microorganisms in Bamucuo Lake are most likely to fix carbon mainly through the 3-hydroxypropionic bi-cycle pathway. This study, for the first time, characterized the microbial community composition and metabolic capacity in QTP high-elevation locations with 4555 m, confirming that QTP is a vast and valuable resource pool, in which many microorganisms can be used to develop new bioactive substances and new antibiotics to which pathogenic microorganisms have not yet developed resistance.

Potential global distribution area projections of the aphid Lipaphis erysimi and its predator Eupeodes corollae in the context of climate change.

Climate change affects the population distribution of pests and their natural enemies, and predicting these effects is necessary for pest monitoring and green control. Lipaphis erysimi is an important vegetable pest, and its natural enemy, the Eupeodes corollae Fabricius has a strong predatory effect on the L. erysimi. To assess the spread trends of L. erysimi and its natural enemy, the hoverfly, E. corollae under current (1970-2000) and future climates (2041-2060), based on the MaxEnt model, this paper uses data on the geographical distribution of the historical occurrence of L. erysimi and E. corollae to speculate on their potential distribution areas worldwide and analyze the key environmental factors affecting the survival and spread of both. The results showed that the Representative Concentration Pathway (RCP) 2.6 and RCP4.5 climatic conditions are favorable for the spread of L. erysimi, the RCP8.5 climatic conditions are unfavorable for the spread of L. erysimi, and all three future climatic conditions are unfavorable for the spread of E. corollae. The highest fitness of L. erysimi was found at the annual average temperature of 18 °C and the annual average precipitation of 900 mm, while the highest fitness of E. corollae was found at the annual average temperature of 10 °C and the lowest temperature in the coldest month of 0 °C. This study can provide a reference basis for monitoring and early warning and biological control of L. erysimi.

Optimization of Sensors Data Transmission Paths for Pest Monitoring Based on Intelligent Algorithms.

The harm of agricultural pests presents a remarkable effect on the quality and safety of edible farm products and the monitoring and identification of agricultural pests based on the Internet of Things (IoT) produce a large amount of data to be transmitted. To achieve efficient and real-time transmission of the sensors' data for pest monitoring, this paper selects 235 geographic coordinates of agricultural pest monitoring points and uses genetic algorithm (GA), particle swarm optimization (PSO), and simulated annealing (SA) to optimize the data transmission paths of sensors. The three intelligent algorithms are simulated by MATLAB software. The results show that the optimized path based on PSO can make the shortest time used for transmitting data, and its corresponding minimum time is 4.868012 s. This study can provide a reference for improving the transmission efficiency of agricultural pest monitoring data, provide a guarantee for developing real-time and effective pest control strategies, and further reduce the threat of pest damage to the safety of farm products.

Function of Vitellogenin receptor gene in reproductive regulation of Zeugodacus cucurbitae (Coquillett) after short-term high-temperature treatment.

Climate change has increased the frequency of extreme heat events. Zeugodacus cucurbitae (Coquillett) is an important tropical pest that typically changes its reproductive strategies in response to extremely high temperatures. Newly emerged adults of three consecutive generations (F1, F2, and F3) of Z. cucurbitae (Coquillett) were exposed to 25°C, 33°C, 37°C, 41°C, and 45°C treatments for 1 h to clarify the effects of short-term high temperatures on its reproduction. The influence of these temperatures on reproduction was evaluated using indicators, such as egg number. Newly emerged adults were exposed to 25°C and 45°C treatments for 1 h, and the expression of Vitellogenin receptor (VgR) gene in females was interfered with siRNA, and silencing efficiency of RNAi was evaluated. Results showed that short-term high temperatures, except for F1 treated at 45°C for 1 h to stimulate oviposition, exert a general adverse effect on the reproduction of Z. cucurbitae (Coquillett). All F3 died after the 45°C treatment for 1 h. Silencing of the VgR gene resulted in the significant downregulation of VgR gene expression at both 24 and 72 h. The egg number, oviposition days, and hatchability of eggs were significantly lower than those of other treatment groups after interference, and the inhibition effect of egg number was the most evident, with a decrease of 88.4% and 95.2% at 25°C and 45°C, respectively, compared with that of the Control Check (CK). Ovarian development speed and diameter were also significantly lower than those of other treatment groups after the interference. The results of this study can provide a theoretical reference for the integrated control of Z. cucurbitae (Coquillett) during high-temperature seasons.

Comparative Genomic-Based Study of Reproduction-Related Genes in Three Fruit Fly Species.

Zeugodacus cucurbitae (Coquillett), Bactrocera dorsalis (Hendel), and Ceratitis capitata (Wiedemann) are important pests of fruit and vegetable crops and are difficult to control because of their rapid reproduction rate and egg production. To investigate the key genes regulating reproduction in three fruit fly species, we selected genomic information of three fruit fly species, screened specific genes and single-copy homolog genes, and performed KEGG and GO enrichment analysis on specific genes and single-copy homolog genes of the strong positive select (SP); the results showed that Z. cucurbitae (Coquillett), B. dorsalis (Hendel), and C. capitata (Wiedemann) had seven, 11, and one Vitellogenin-related genes, respectively; Z. cucurbitae (Coquillett) had 84 specific genes enriched in immune system-related pathways; B. dorsalis (Hendel) had 1,121 specific genes enriched in signaling pathways related to cell growth and differentiation; C. capitata (Wiedemann) had 42 specific genes enriched in the degradation and metabolism pathways of exogenous organisms; Z. cucurbitae (Coquillett) may have a stronger immune system; B. dorsalis (Hendel) has a faster developmental and reproductive rate; and C. capitata (Wiedemann) has a higher detoxification capacity. Only one SP single-copy homolog gene (gene name: very long-chain specific acyl-CoA dehydrogenase, mitochondrial) is enriched in the fatty acid metabolic pathway in both Z. cucurbitae (Coquillett) and B. dorsalis (Hendel) as well as in Z. cucurbitae (Coquillett) and C. capitata (Wiedemann). This study provides a molecular basis for studying the reproductive mechanisms of three fruit fly species and provides a scientific basis for developing effective control strategies for fruit flies.

Technology for Rapid Detection of Cyromazine Residues in Fruits and Vegetables: Molecularly Imprinted Electrochemical Sensors.

Cyromazine is an insect growth regulator insecticide with high selectivity and is widely used in the production and cultivation of fruits and vegetables. In recent years, incidents of excessive cyromazine residues in food have occurred frequently, and it is urgent to establish an accurate, fast, and convenient method for the detection of cyromazine residues to ensure the safety of edible agricultural products. To achieve rapid detection of cyromazine residues, we prepared a molecularly imprinted electrochemical sensor for the detection of cyromazine residues in agricultural products. Samples of tomato (Lycopersicon esculentum Miller), cowpea (Vigna unguiculata), and water were tested for the recovery rate of cyromazine. The results showed that the concentration of cyromazine showed a good linear relationship with the peak response current of the sensor developed in this study. The lower limit of detection for cyromazine was 0.5 µmol/L, and the sensor also had good reproducibility and interference resistance. This paper can be used as a basis for the study of methods for the detection of cyromazine residues in edible agricultural products.

Identification of male and female pupal characteristics of Zeugodacus cucurbitae (Coquillett) via machine vision.

Images of original pupae of Zeugodacus cucurbitae (Coquillett) were normalized, grayed, and segmented to identify male and female pupae of this species via machine vision. The image of each pupa was divided into 25 small areas. The differences in surface texture features in each small area within 11 days were compared. The texture characteristics of both male and female pupae were screened by combining the eclosion of both sexes of Z. cucurbitae (Coquillett). Results indicated that the pectinate setae on the abdominal backplane could be used as a basis for the identification of the male and female pupa of Z. cucurbitae (Coquillett). Moreover, machine vision correctly identified these characteristics with an accuracy of 96.0%. This study lays a foundation for the identification of male and female pupae using machine vision and also for the comprehensive control of Z. cucurbitae (Coquillett).

Clarifying real receptor binding site between coronavirus HCoV-HKU1 and 9-O-Ac-Sia based on molecular docking.

HCoV-HKU1 is a [Formula: see text]-coronavirus with low pathogenicity, which usually leads to respiratory diseases. At present, a controversial issue is that whether the receptor binding site (RBS) of HCoV-HKU1 is located in the N-terminal domain (NTD) or the C-terminal domain (CTD) in the HCoV-HKU1 S protein. To address this issue, we used molecular docking technology to dock the NTD and CTD with 9-oxoacetylated sialic acid (9-O-Ac-Sia), respectively, with the results showing that the RBS of HCoV-HKU1 is located in the NTD (amino acid residues 80-95, 25-32). Our findings clarified the structural basis and molecular mechanism of the HCoV-HKU1 infection, providing important information for the development of therapeutic antibody drugs and the design of vaccines.

Dynamic expression analysis of Vitelloin-related genes in Zeugodacus cucurbitae (Coquillett) driven by short-term high-temperature stress.

Zeugodacus cucurbitae (Coquillett) is an important pest of fruit and vegetable crops in tropical and subtropical regions. Previous studies have shown that short-term high-temperature stress has a significant effect on the oviposition behavior of three successive generations (F1 -F3 ) of Z. cucurbitae (Coquillett). For the clarification of the molecular response of the oviposition behavior of Z. cucurbitae (Coquillett) to short-term high-temperature stress, three Vitellogenin (Vg) genes, namely, Vg-1, Vg-2, and Vg-3, and one Vitellogenin receptor (VgR) gene were selected; 25°C was used as the control treatment; and 33°C, 37°C, 41°C, and 45°C were set as the high-temperature treatments. Newly emerged adults of the F1 generation were treated for 1 h, and the expression dynamics of the target genes were analyzed 7 days after the emergence of three successive generations of adults. Results showed that the expression of the Vg gene in the 33°C and 37°C groups was upregulated compared with that in the control group, and the difference among the 41°C, 45°C, and control groups was small. VgR gene expression level gradually increased in each treatment group with the increase in the number of days and peaked on Days 6 and 7. Compared with the control group, the expression of VgR gene in the F1 generation was downregulated in the high-temperature treatment group over 7 days. On Day 7, the expression level of the VgR gene in the F2 and F3 generations in the 37°C and 45°C groups was significantly higher than that in the F2 and F3 generations in the control group. In conclusion, Vg and VgR are transformed and utilized differently after short-term high-temperature treatment.

The vitellogenin receptor gene is involved in lifespan regulation of Zeugodacus cucurbitae (Coquillett) after short-term high-temperature treatment.

Zeugodacus cucurbitae (Coquillett) is a highly damaging agricultural pest in many tropical and subtropical countries around the world and high temperatures usually affect its survival. To clarify the effect of short-term high temperatures on the survival and lifespan of Z. cucurbitae, newly emerged adults of three consecutive generations (F1, F2, and F3) were exposed to 25 °C, 33 °C, 37 °C, 41 °C, or 45 °C treatments for 1 h. The effect of these temperatures on survival and lifespan was evaluated using biological indicators such as lifespan and pupation rate. Then, to study the molecular regulatory mechanism of the lifespan of Z. cucurbitae after short-term high-temperature treatment, we exposed the newly emerged adults to 25 °C or 45 °C treatments for 1 h and used siRNA to interfere with the expression of the vitellogenin receptor (VgR) gene in the female to study the effect of the VgR gene on the lifespan of Z. cucurbitae. The results showed that the survival rate, lifespan, pupae weight, pupation rate, and emergence rate of Z. cucurbitae decreased with increased temperature, while the female sex ratio of offspring increased. The heat resistance of females was higher than that of males. Interference with the expression of the VgR gene resulted in shortening of the female's lifespan by approximately 60% after exposure to 25 °C or 45 °C treatments for 1 h, which indicated involvement of the VgR gene in the regulation of Z. cucurbitae lifespan. This study provides a reference to guide integrated control of Z. cucurbitae in high-temperature seasons.

Molecular evolutionary characteristics of SARS-CoV-2 emerging in the United States.

SARS-CoV-2 is a newly discovered beta coronavirus at the end of 2019, which is highly pathogenic and poses a serious threat to human health. In this paper, 1875 SARS-CoV-2 whole genome sequences and the sequence coding spike protein (S gene) sampled from the United States were used for bioinformatics analysis to study the molecular evolutionary characteristics of its genome and spike protein. The MCMC method was used to calculate the evolution rate of the whole genome sequence and the nucleotide mutation rate of the S gene. The results showed that the nucleotide mutation rate of the whole genome was 6.677 × 10-4 substitution per site per year, and the nucleotide mutation rate of the S gene was 8.066 × 10-4 substitution per site per year, which was at a medium level compared with other RNA viruses. Our findings confirmed the scientific hypothesis that the rate of evolution of the virus gradually decreases over time. We also found 13 statistically significant positive selection sites in the SARS-CoV-2 genome. In addition, the results showed that there were 101 nonsynonymous mutation sites in the amino acid sequence of S protein, including seven putative harmful mutation sites. This paper has preliminarily clarified the evolutionary characteristics of SARS-CoV-2 in the United States, providing a scientific basis for future surveillance and prevention of virus variants.

Smartphone-based molecularly imprinted sensors for rapid detection of thiamethoxam residues and applications.

In order to achieve rapid detection of thiamethoxam residues in mango, cowpea and water, this study modified the screen printed carbon electrode (SPCE) to make a specific molecular imprinting sensor (Thiamethoxam-MIP/Au/rGO/SPCE) for thiamethoxam. An integrated smartphone platform was also built for thiamethoxam residue analysis. The performance of the complete system was analyzed by cyclic voltammetry (CV) and differential pulse voltammetry (DPV). The system was then applied for the rapid determination of thiamethoxam residues in water, mango and cowpea samples. The results showed that the molecular sensor showed good linearity in the range 0.5-3.0 µmol/L of thiamethoxam. The detection limit of thiamethoxam was 0.5 µmol/L. Moreover, the sensor had good reproducibility and anti-interference performance. The average recovery rates of the pesticide residues in water, mango and cowpea samples were in the range of 90-110% with relative standard deviations < 5%. The rapid detection system for thiamethoxam residue constructed in this study was simple, reliable, reproducible and had strong anti-interference. It has broad application prospects in the field detection of thiamethoxam residue, and serves as a valuable reference for the further development of rapid detection technology of pesticide residues in the field of environment and food safety.

Analysis of imidacloprid residues in mango, cowpea and water samples based on portable molecular imprinting sensors.

Imidacloprid is a neonicotinoid insecticide widely used in the production and cultivation of crops. In recent years, the extensive use of imidacloprid in agricultural production has resulted in large amounts of pesticide residues in agricultural products and the environment. Therefore, it is necessary to establish a rapid, accurate, sensitive and convenient method for detecting imidacloprid pesticide residues to ensure the safety of agricultural products and the environment. To clarify how to use the molecular imprinting method for the electrochemical rapid residue detection of imidacloprid. This paper selected reduced graphene oxide and gold nanoparticles as modifiers modified on screen-printed carbon electrodes (SPCE) chitosan as a functional monomer, and imidacloprid as template molecule to prepare molecularly imprinted polymer, and applied this sensor to the residue detection of imidacloprid. The results showed that the concentration of imidacloprid showed a good linear relationship with the peak response current, and the detection limit of imidacloprid was 0.5 µM, while the sensor had good repeatability and interference resistance. The recoveries of imidacloprid spiked on three samples, mango, cowpea and water, were in the range of 90-110% (relative standard deviation, RSD<5%), which proved the practicality and feasibility of the assay established in this paper. The results of this paper can be used as a basis for the research on the detection of imidacloprid pesticide residues in food or environment.

Prognostic value of immune scores in the microenvironment of colorectal cancer.

Cancer immunotherapy has become an important means of cancer treatment; however, the complex composition and heterogeneity of the colorectal cancer (CRC) microenvironment pose a huge challenge to cancer immunotherapy. Using data downloaded from The Cancer Genome Atlas database, the differences in the microenvironment between cases with low and high immune scores were examined at the multiomics level using bioinformatics approaches. It was revealed that the samples with high immune scores had good cytolytic immune responses and relatively abundant stromal cells, as well as significant infiltration of 22 immune cell subsets and a high non-synonymous mutation burden and neoantigen burden. All of these characteristics contribute to a good prognosis. To better understand the impact of immune-related genes on prognosis, differentially expressed genes between the low and high immune score samples were identified and it was concluded that serpin family Emember 1 (SERPINE1) and ubiquitin C-terminal hydrolase L1 (UCHL1) may be potential therapeutic targets. The relationship between the immune score and the infiltration of 22 immune cells and the difference in SERPINE1 expression were verified by analyzing the GSE17536 and GSE21510 data sets downloaded from the Gene Expression Omnibus database. The present study analyzed the unique properties of immune cells in the CRC microenvironment, which are of great significance for understanding CRC immune mechanism and may also provide novel ideas for the targeted design of cancer immunotherapy.

Identification of key lncRNAs as prognostic prediction models for colorectal cancer based on LASSO.

Colorectal cancer (CRC) is one of the most common malignancies, with varying prognoses and a high mortality. There is an urgent need to establish a new prediction model to predict the survival risk of CRC patients. The long non-coding RNAs (lncRNAs) expression profiles and corresponding clinical information of CRC patients were obtained from The Cancer Genome Atlas, TCGA. We identified a total of 1,176 lncRNAs differentially expressed between 480 CRC and 41 normal tissues. In the training test, we combined these differentially expressed lncRNAs with overall survival of CRC patients. Six lncRNAs (AL356270.1, LINC02257, AC020891.2, LINC01485, AC083967.1 and RBAKDN) were finally screened out by using LASSO regression mode to establish a novel prediction model as a prognostic indicator for CRC patients. The area under the curve (AUC) of 3- and 5-year ROC analysis in CRC were 0.6923 and 0.7328 for training set, and were 0.6803 and 0.7035 for testing set, respectively. K-M analysis revealed a significant difference between high risk and low risk in the training set (P-value = 5.0e-05) and testing set (P-value = 0.00052), respectively. Our study shows that the six lncRNAs model can improve the survival prediction mechanism of patients with CRC and provide help for patients through personalized treatment.

Prognostic value of miR-21 in gliomas: comprehensive study based on meta-analysis and TCGA dataset validation.

Recent studies have highlighted the value of microRNA-21 (miR-21) as a prognostic biomarker in gliomas. However, the role of miR-21 in predicting prognosis remains controversial. We performed a comprehensive study based upon a meta-analysis and The Cancer Genome Atlas (TCGA) glioma dataset validation to clarify the prognostic significance of miR-21 in glioma patients. In this study, we searched Embase, PubMed, Web of science, CNKI, SinoMed, and Wanfang databases for records up to May 2018. Relevant data were extracted to assess the correlation between miR-21 expression and survival in glioma patients. Pooled hazard ratios (HRs) with 95% confidence intervals (CIs) were used to describe association strength. We further used multivariate Cox regression analysis to assess miR-21 expression in the TCGA glioma dataset to validate the relationship between miR-21 expression and survival. Nine studies were included in the meta-analysis. Among them, eight studies provided data on overall survival (OS) with a pooled HR of 1.91 (95% CI: 1.34, 2.73), indicating that higher expression of miR-21 was significantly associated with worse OS in glioma patients; for the other study, which provided data on progression-free survival (PFS), no statistically significant HR was reported for PFS in the glioma patients (HR = 1.23, 95% CI: 0.41, 3.72). A multivariate Cox regression analysis of the miR-21 expression in the TCGA glioma dataset revealed that overexpression of miR-21 was a potential independent prognostic biomarker of poorer OS (HR = 1.27, 95% CI: 1.01, 1.59) and poorer PFS (HR = 1.46, 95% CI: 1.17, 1.82). Our findings suggest that higher expression of miR-21 is correlated with poorer glioma prognosis.

Protein Network Analysis of the Fifth Chromosome of Zebrafish.

In the past 20 years, zebrafish has gradually become an important animal model for studying the function of human genes. At the same time, identification of zebrafish reference genome sequences and >10,000 protein-coding genes indicates that they are at least 75% homologous to human genes, further validating its utility as a research model for growth and developments (GDs). However, the molecular mechanism of zebrafish GDs has almost no molecular interactions, so a protein-protein interaction (PPI) network is highly desirable. The project extracted 58 genes on the fifth chromosome of the model organism, and studied and modeled its GDs mechanisms, which encompassed 296 interactions between the 58 proteins involved in GDs. This includes not only accurate predictions of PPI but also those molecular interactions collected from the literature and experimentally derived. These molecules then interact, modularize, look for central genes, analyze, and predict their GDs processes, and hope to help scholars study the process of GDs, providing hypotheses and help.