Identification of male- and female-specific olfaction genes in antennae of the oriental fruit fly (Bactrocera dorsalis)

The oriental fruit fly (Bactrocera dorsalis) is a species of tephritid fruit fly, endemic to Southeast Asia but also introduced to many regions of the US, and it is one of the major pest species with a broad host range of cultivated and wild fruits. Although males of B. dorsalis respond strongly to methyl eugenol and this is used for monitoring and estimating populations, the molecular mechanism of the oriental fruit fly olfaction has not been elucidated yet. Therefore, in this project, using next generation sequencing technologies, we sequenced the transcriptome of the antennae of male and female adults of B. dorsalis. We identified a total of 20 candidate odorant binding proteins (OBPs), 5 candidate chemosensory proteins (CSPs), 35 candidate odorant receptors (ORs), 12 candidate ionotropic receptors (IRs) and 4 candidate sensory neuron membrane proteins (SNMPs). The sex-specific expression of these genes was determined and a subset of 9 OR genes was further characterized by qPCR with male and female antenna, head, thorax, abdomen, leg and wing samples. In the male antennae, 595 genes showed a higher expression, while 128 genes demonstrated a higher expression in the female antennae. Interestingly, 2 ORs (BdorOR13 and BdorOR14) were highly and specifically expressed in the antennae of males, and 4 ORs (BdorOR13, BdorOR16, BdorOR18 and BdorOR35) clustered with DmOR677, suggesting pheromone reception. We believe this study with these antennae-enriched OBPs, CSPs, ORs, IRs and SNMPs can play an important role in the detection of pheromones and general odorants, and so in turn our data improve our current understanding of insect olfaction at the molecular level and provide important information for disrupting the behavior of the oriental fruit fly using chemical communication methods

Subgraph Frequency Distribution Estimation using Graph Neural Networks

Small subgraphs (graphlets) are important features to describe fundamental units of a large network. The calculation of the subgraph frequency distributions has a wide application in multiple domains including biology and engineering. Unfortunately due to the inherent complexity of this task, most of the existing methods are computationally intensive and inefficient. In this work, we propose GNNS, a novel representational learning framework that utilizes graph neural networks to sample subgraphs efficiently for estimating their frequency distribution. Our framework includes an inference model and a generative model that learns hierarchical embeddings of nodes, subgraphs, and graph types. With the learned model and embeddings, subgraphs are sampled in a highly scalable and parallel way and the frequency distribution estimation is then performed based on these sampled subgraphs. Eventually, our methods achieve comparable accuracy and a significant speedup by three orders of magnitude compared to existing methods.Comment: accepted by KDD 2022 Workshop on Deep Learning on Graph

Expression of GCRG213p, LINE-1 endonuclease variant, significantly different in gastric complete and incomplete intestinal metaplasia.

BACKGROUND: Intestinal metaplasia (IM) of the gastric mucosa is classified as complete (Type I) and incomplete IM (Type II and III) subtypes, which showed significantly different risk for developing to gastric adenocarcinoma (GAC). GCRG213, a variant of L1-endonuclease (L1-EN), first identified in our lab, was upregulated in GAC tissue. However, the relationship between GCRG213 and IM subtypes is not clear. Our study explored the association of GCRG213 protein (GCRG213p) with IM subtypes. METHODS: Gastric cancer and/or para-tumor tissue samples were collected from 123 patients who underwent gastrectomy for intestinal type gastric adenocarcinoma. The subtypes of IM were characterized with Alcian blue-periodic acid-Schiff and High Iron Diamine-Alcian blue staining methods. Immunohistochemistry of GCRG213p was performed, and its expression in gastric adenocarcinoma and para-tumor tissue including dysplasia, IM, and normal mucosa were analyzed. RESULTS: GCRG213p was expressed in 48.94% IM, 57.14% dysplasia and 55.32% GAC, respectively. GCRG213p expression was higher in well and moderately differentiated adenocarcinoma (P = 0.037). In IM glands, GCRG213p expressed mainly in the cytoplasm of absorptive enterocytes with defined brush borders, but not in goblet cells. The expression of GCRG213p in type I IM (90.00%) was significantly higher than that in type II (36.36%) and type III (25.00%) (P \u3c 0.001). In normal gastric mucosa, GCRG213p was exclusively positive in the cytoplasm of gastric chief cells. CONCLUSIONS: The expression of GCRG213p in complete IM was significantly higher than in incomplete IM, which implies that GCRG213p may play a role on the developing of IM to adenocarcinoma. GCRG213p was exclusively expressed in chief cells, suggesting that it might be involved in cell differentiation from the chief cells to IM

Cloning and Functional Analysis of the MADS-box CiMADS9 Gene from Carya illinoinensis

AbstractA MADS-box gene, CiMADS9, was cloned from the male flowers of Carya illinoinensis by rapid amplification of cDNA ends. The gene was 1 077bp with a 768bp open reading frame encoding 255 amino acids. Multiple sequence comparisons revealed that CiMADS9 is a typical MIKC-type MADS-box gene with a MADS-box domain and a K semi-conserved region. Phylogenetic analysis indicated that CiMADS9 belongs to the AGL15 group of the MADS-box gene family. Quantitative reverse transcription polymerase chain reaction analysis indicated that the expression levels in reproductive organs (i.e., flowers and young fruits) were considerably higher than in vegetative tissues (i.e., leaves and branches). The highest expression levels were observed in male flowers. An overexpression vector for CiMADS9 was constructed and the gene was inserted into the Arabidopsis thaliana genome. CiMADS9 expression was confirmed in all transgenic lines. Compared with wild-type plants, transgenic A. thaliana plants overexpressing CiMADS9 exhibited delayed flowering and an increased number of leaves

Estimating the burden and modeling mitigation strategies of pork-related hepatitis E virus foodborne transmission in representative European countries

Hepatitis E virus (HEV) is an emerging zoonotic pathogen posing global health burden, and the concerns in Europe are tremendously growing. Pigs serve as a main reservoir, contributing to pork-related foodborne transmission. In this study, we aim to specifically simulate this foodborne transmission route and to assess potential interventions. We firstly established a dose-response relationship between the risk of transmission to human and the amount of ingested viruses. We further estimated the incidence of HEV infection specifically attributed to pork-related foodborne transmission in four representative European countries. Finally, we demonstrated a proof-of-concept of mitigating HEV transmission by implementing vaccination in human and pig populations. Our modeling approach bears essential implications for better understanding the transmission of pork-related foodborne HEV and for developing mitigation strategies

Impacts of Tibetan Plateau sensible heat and El Niño–Southern Oscillation on precipitation over South China under the background of the PDO

This study aims to investigate the impacts of the spring sensible heat (SH) over the Tibetan Plateau (TP) and the El Niño–Southern Oscillation (ENSO) in the preceding wintertime on midsummer (July–August) precipitation over South China under the different Pacific decadal oscillation (PDO) phases. More specifically, eight classifications are adopted at the demarcation point around 1996 when the spring SH over the TP and the midsummer precipitation in South China occurred as well as the PDO phase transition, including positive and negative SHs and ENSOs under a positive PDO phase (1979–1996) and a negative PDO phase (1997–2019), respectively, based on the Niño-3 index and the spring SH calculated from 48 stations over the central and eastern parts of the TP. The results show that both the spring SH and the ENSO in preceding wintertime have a significant impact on the midsummer precipitation over South China; that is, when the two factors are in their respective positive (negative) phase, the midsummer precipitation in South China is generally less (more). Importantly, the phase change of background field PDO can significantly enhance the effect of the SH and the ENSO on summer precipitation over South China. Moreover, compared with the preceding wintertime ENSO, the spring SH over the TP contributes more to the midsummer precipitation in South China based on analyses of their independent and synergistic effects. The main mechanism responsible for the anomalous midsummer precipitation over South China are the combined effects of the South Asian high (SAH) and the western Pacific subtropical high (WPSH), which are controlled by the spring SH anomaly over the TP and the ENSO, respectively. Deep understanding of the dominant factors of the midsummer precipitation over South China will help understand the local climate change and reduce the losses caused by drought and flood disasters

DSRC versus 4G-LTE for Connected Vehicle Applications: A Study on Field Experiments of Vehicular Communication Performance

Dedicated short-range communication (DSRC) and 4G-LTE are two widely used candidate schemes for Connected Vehicle (CV) applications. It is thus of great necessity to compare these two most viable communication standards and clarify which one can meet the requirements of most V2X scenarios with respect to road safety, traffic efficiency, and infotainment. To the best of our knowledge, almost all the existing studies on comparing the feasibility of DRSC or LTE in V2X applications use software-based simulations, which may not represent realistic constraints. In this paper, a Connected Vehicle test-bed is established, which integrates the DSRC roadside units, 4G-LTE cellular communication stations, and vehicular on-board terminals. Three Connected Vehicle application scenarios are set as Collision Avoidance, Traffic Text Message Broadcast, and Multimedia File Download, respectively. A software tool is developed to record GPS positions/velocities of the test vehicles and record certain wireless communication performance indicators. The experiments have been carried out under different conditions. According to our results, 4G-LTE is more preferred for the nonsafety applications, such as traffic information transmission, file download, or Internet accessing, which does not necessarily require the high-speed real-time communication, while for the safety applications, such as Collision Avoidance or electronic traffic sign, DSRC outperforms the 4G-LTE. Document type: Articl