Transcriptome analysis reveals genes connected to temperature adaptation in juvenile antarctic krill Euphausia superba

Liu Yongliang,Li Lingzhi,Yang Jialiang,Huang Hongliang,Song Wei 한국유전학회 2023 Genes & Genomics Vol.45 No.8

Background The Antarctic krill, Euphausia superba (E. superba), is a key organism in the Antarctic marine ecosystem and has been widely studied. However, there is a lack of transcriptome data focusing on temperature responses. Methods In this study, we performed transcriptome sequencing of E. superba samples exposed to three different temperatures: −1.19 °C (low temperature, LT), − 0.37 °C (medium temperature, MT), and 3 °C (high temperature, HT). Results Illumina sequencing generated 772,109,224 clean reads from the three temperature groups. In total, 1,623, 142, and 842 genes were differentially expressed in MT versus LT, HT versus LT, and HT versus MT, respectively. Moreover, Kyoto Encyclopedia of Genes and Genomes analysis revealed that these differentially expressed genes were mainly involved in the Hippo signaling pathway, MAPK signaling pathway, and Toll−like receptor signaling pathway. Quantitative reverse-transcription PCR revealed that ESG037073 expression was significantly upregulated in the MT group compared with the LT group, and ESG037998 expression was significantly higher in the HT group than in the LT group. Conclusions This is the first transcriptome analysis of E. superba exposed to three different temperatures. Our results provide valuable resources for further studies on the molecular mechanisms underlying temperature adaptation in E. superba.

A Facile One-Pot Method for Co3O4/Graphene Composite as Efficient Electrode Materials for Supercapacitors

Yongliang Wang,Rongxin Ma,Lizhu Liu,Zhanchun Xu,Fenghui Li 성균관대학교(자연과학캠퍼스) 성균나노과학기술원 2017 NANO Vol.12 No.8

As one of the electrode materials for supercapacitor, Co3O4/graphene composite was mainly synthesized via two-steps method. Here, a facile one-pot method was used for Co3O4/graphene composite, and the performances of one-pot-synthesized Co3O4/graphene composite were carefully investigated. Liquid-phase exfoliation was used for graphene and the D-band/G-band ratio of liquid-phase exfoliated graphene was only 0.094, which indicated that the graphene had low defect density and enhanced electrical conductivity. Morphologies investigation of Co3O4/graphene composites indicated that Co3O4 nanoparticles with mean diameter of 14 nm were uniformly anchored on graphene sheets. The facile one-pot method associated with liquid-phase exfoliated graphene induced Co3O4/graphene composite with enhanced specific capacitance of 392 F · g -1 at a current density of 1 A · g -1. The Co3O4/graphene composite also expressed relatively small internal resistance and diffusion resistance (0.36 Ω and 0.45 Ω, respectively). Moreover, the synthesized Co3O4/graphene composite yielded excellent rate performances with only 9.5% capacitance loss when current density was increased by a factor of 10.

The non-storm time corrugated upper thermosphere: What is beyond MSIS? : THE CORRUGATED THERMOSPHERE

Liu, Huixin,Thayer, Jeff,Zhang, Yongliang,Lee, Woo Kyoung American Geophysical Union 2017 Space weather Vol.15 No.6

Geometry Characteristics Prediction of Single Track Cladding Deposited by High Power Diode Laser Based on Genetic Algorithm and Neural Network

Huaming Liu,Xunpeng Qin,Song Huang,Lei Jin,Yongliang Wang,Kaiyun Lei 한국정밀공학회 2018 International Journal of Precision Engineering and Vol.19 No.7

This paper aims to establish a correlation between the process parameters and geometrical characteristics of the sectional profile of the single track cladding deposited by high power diode laser with rectangle beam spot. By applying the genetic algorithm and back propagation neural network, a nonlinear model for predicting the geometry features of the single track cladding is developed. A full factorial design method is used to conduct the experiments, and the experimental results are chosen randomly as training dataset and testing dataset for the neural network. Three main input variables such as laser power, scanning speed, and powder thickness were considered. The performance of the genetic algorithm and back propagation artificial neural network was compared to that of the standard back propagation neural network. To improve the accuracy of the neural network, one-hidden-layer and double-hidden-layer neural network with different architectures were performed. Further, one-output and multi-output neural network are also trained and tested. The results indicate that, by using genetic algorithm, the prediction accuracy of the neural network is significantly improved. Meanwhile, the double-hidden-neural network has higher prediction accuracy than the one-hidden-layer-neural network, while the one-output-neural network has higher prediction accuracy than the multi-output-neural network.

Stabilization of iron-arsenic deposits by encapsulation with montmorillonite inorganic gels

Jingmin Yan,Yongliang Wang,Yanhua Wang,Xiang Liu,Shufeng Ye 대한환경공학회 2022 Environmental Engineering Research Vol.27 No.2

Encapsulation is recognized as an effective technique for enhancing the stability of hazardous waste by coating it with an inert material. In this work, an eco-friendly montmorillonite (Mt) inorganic gel with the characteristics of high viscosity, adsorption and easy preparation was developed and coated on the surface of iron-arsenic deposits (IAD) to restrain the release of arsenic (As). The encapsulation system investigated involves Mt/IAD mass ratio and aging temperature of the coated iron-arsenic deposits (C-IAD). The C-IAD was characterized by XRF, XRD, SEM-EDS, TEM, FTIR and BET. The results revealed that the IAD was completely encapsulated by the montmorillonite inorganic gel. From the experiment of stability, when IAD was coated with montmorillonite inorganic gel (Mt/IAD mass ratio 0.75) and aged at 25℃, As release decreased from 3.15 mg/L to 0.64 mg/L at pH 5 after 24 h, and then dropped to 0.11 mg/L after 7 d. Furthermore, the results indicated that the IAD encapsulated with montmorillonite inorganic gel was effective in suppressing the release of As under both weakly acidic and alkaline conditions.

Comparative transcriptome profiling of chilling tolerant rice chromosome segment substitution line in response to early chilling stress

Rongbai Li,Jijing Luo,Yongliang Wang,Qigui Jiang,Jianbin Liu,Wei Zeng,Yindi Zeng 한국유전학회 2017 Genes & Genomics Vol.39 No.2

Rice (Oryza sativa L.) is thermophilic crop and all of its growth stages are affected by low temperature stress. However, some populations of common wild rice in Guangxi Province (China) (GXWR) can tolerate low temperature stress. To understand the molecular mechanisms underlying chilling tolerance in these wild rice resources, transcriptome sequencing was performed to study the differentially expressed genes (hereafter referred to as DEGs) between GXWR-derived chilling-tolerant chromosome segment substitution line (hereafter referred to as CSSL), DC90, and its chilling-sensitive recurrent parent 9311 under early chilling stress. Comparative transcriptomic analysis revealed 659 DEGs exclusively identified in DC90 in response to early chilling stress. Functional clustering by CARMO (comprehensive annotation platform for functional exploration of rice multiomics data) showed that majority of the DEGs were enriched in chloroplasts, suggesting a connection between chilling stress tolerance and photosynthesis regulation exists in rice. KEGG analysis of these DEGs presented a complicated chilling responsive regulatory network, including ‘phytohormone signaling’, ‘photosynthesis pathway’, ‘ribosome translation machinery’, ‘phenylpropanoid biosynthesis’, which is coordinately involved in early chilling response. Here, the identified DEGs and unveiled molecular regulatory network sheds light on deep understanding the mechanisms underlying rice chilling stress tolerance. As well, KEGG term-enriched DEGs, chilling tolerant QTLs (quantitative trait loci), and co-localized DEGs in introgression interval, will be focused for further functional investigation of the molecular mechanisms of chilling stress response in rice.

Integration and Reanalysis of Four RNA-Seq Datasets Including BALF, Nasopharyngeal Swabs, Lung Biopsy, and Mouse Models Reveals Common Immune Features of COVID-19

Alberts Rudi,Chan Sze Chun,Meng Qian-Fang,He Shan,Rao Lang,Liu Xindong,Zhang Yongliang 대한면역학회 2022 Immune Network Vol.22 No.3

Coronavirus disease 2019 (COVID-19), caused by severe acute respiratory syndrome-coronavirus-2 (SARS-CoV-2), has spread over the world causing a pandemic which is still ongoing since its emergence in late 2019. A great amount of effort has been devoted to understanding the pathogenesis of COVID-19 with the hope of developing better therapeutic strategies. Transcriptome analysis using technologies such as RNA sequencing became a commonly used approach in study of host immune responses to SARS-CoV-2. Although substantial amount of information can be gathered from transcriptome analysis, different analysis tools used in these studies may lead to conclusions that differ dramatically from each other. Here, we re-analyzed four RNA-sequencing datasets of COVID-19 samples including human bronchoalveolar lavage fluid, nasopharyngeal swabs, lung biopsy and hACE2 transgenic mice using the same standardized method. The results showed that common features of COVID-19 include upregulation of chemokines including CCL2, CXCL1, and CXCL10, inflammatory cytokine IL-1β and alarmin S100A8/S100A9, which are associated with dysregulated innate immunity marked by abundant neutrophil and mast cell accumulation. Downregulation of chemokine receptor genes that are associated with impaired adaptive immunity such as lymphopenia is another common feather of COVID-19 observed. In addition, a few interferon-stimulated genes but no type I IFN genes were identified to be enriched in COVID-19 samples compared to their respective control in these datasets. These features are in line with results from single-cell RNA sequencing studies in the field. Therefore, our re-analysis of the RNA-seq datasets revealed common features of dysregulated immune responses to SARS-CoV-2 and shed light to the pathogenesis of COVID-19.