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The evolution and functional divergence of 10 Apolipoprotein D-like genes in Nilaparvata lugens

Insect Science 2024年第1期31卷 91-105页

作者： Jia-Bao Lu Peng-Peng Ren Qiao Li Fang He Zhong-Tian Xu Sai-Nan Wang jian-Ping chen Jun-min Li Chuan-Xi Zhang Citrus Research Institute Southwest University/Chinese Academy of Agricultural SciencesNational Engineering Research Center for CitrusChongqingChina Technology Center of Wuhan Customs District HubeiChina Institute of Insect Science Zhejiang UniversityHangzhouChina

Apolipoprotein D(ApoD),a member of the lipocalin superfamily of proteins,is involved in lipid transport and stress *** only a single copy of the ApoD gene is found in humans and some other vertebrates,there are typically several ApoD-like genes in *** date,there have been relatively few studies that have examined the evolution and functional differentiation of ApoD-like genes in insects,particularly hemi-metabolous *** this study,we identified 10 ApoD-like genes(NlApoD1−10)with distinct spatiotemporal expression patterns in Nilaparvata lugens(BPH),which is an important pest of ***1−10 were found to be distributed on 3 chromosomes in a tandem array of NlApoD1/2,NlApoD3−5,and NlApoD7/8,and show sequence and gene structural divergence in the coding regions,indicating that multiple gene duplication events occurred during *** analysis revealed that NlApoD1−10 can be clustered into 5 clades,with NlApoD3−5 and NlApoD7/8 potentially evolving exclusively in the Delphacidae *** screening using an RNA interference approach revealed that only NlApoD2 was essential for BPH development and survival,whereas NlApoD4/5 are highly expressed in testes,and might play roles in ***,stress response analysis revealed that NlApoD3−5/9,NlApoD3−5,and NlApoD9 were up-regulated after treatment with lipopolysaccharide,H2O2,and ultraviolet-C,respectively,indicating their potential roles in stress resistance.

关键词： Apolipoprotein D BPH evolution functional divergence gene duplication NIApoD

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MARS and RNAcmap3:The Master Database of All Possible RNA Sequences Integrated with RNAcmap for RNA Homology Search

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Genomics, Proteomics & Bioinformatics 2024年第1期22卷 143-150页

作者： Ke chen Thomas Litfin Jaswinder Singh jian Zhan Yaoqi Zhou Institute of Systems and Physical Biology Shenzhen Bay LaboratoryShenzhen 518055China Peking University Shenzhen Graduate School Shenzhen 518055China University of Science and Technology of China Hefei 230026China Suzhou Institute for Advanced Research University of Science and Technology of ChinaSuzhou 215123China Institute for Glycomics Griffith UniversitySouthportQLD 4222Australia

sequences found in the huge,integrated database of protein sequences(Big Fantastic Database).In contrast,the existing nucleotide databases were not consolidated to facilitate wider and deeper homology ***,we built a comprehensive database by incorporating the non-coding RNA(ncRNA)sequences from RNAcentral,the transcriptome assembly and metagenome assembly from metagenomics RAST(MG-RAST),the genomic sequences from Genome Warehouse(GWH),and the genomic sequences from MGnify,in addition to the nucleotide(nt)database and its subsets in National Center of Biotechnology Information(NCBI).The resulting Master database of All possible RNA sequences(MARS)is 20-fold larger than NCBI’s nt database or 60-fold larger than *** new dataset along with a new split-search strategy allows a substantial improvement in homology search over existing state-of-the-art *** also yields more accurate and more sensitive multiple sequence alignments(MSAs)than manually curated MSAs from Rfam for the majority of structured RNAs mapped to *** results indicate that MARS coupled with the fully automatic homology search tool RNAcmap will be useful for improved structural and functional inference of ncRNAs and RNA language models based on *** is accessible at https://***/omix/release/OMIX003037,and RNAcmap3 is accessible at http://***/download/.

关键词： RNA sequence database Homology search Secondary structure MARS RNAcmap3

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Boosting the electrochromic properties by large V_(2)O_(5)nanobelts interlayer spacing tuned via PEDOT

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Chinese Chemical Letters 2024年第9期35卷 408-413页

作者： Haohao Sun Wenxuan Wang Yuli Xiong Zelang jian Wen chen State Key Laboratory of Advanced Technology for Materials Synthesis and Processing School of Materials Science and EngineeringWuhan University of TechnologyWuhan 430070China Sanya Science and Education Innovation Park of Wuhan University of Technology Sanya 572000China

Vanadium pentoxide(V_(2)O_(5))with a layered structure is of great interest in the field of electrochromic(EC)due to its abundance of color ***,there are still a series of problems such as slow ion diffusion,poor electronic conductivity and cyclic stability in the reaction ***,we successfully prepared a stable and fast multi-color electrochromic material V_(2)O_(5)-PEDOT by a simple“one-pot”*** layer space of V_(2)O_(5)could be tuned by 3,4-ethylenedioxythiophene(named V_(2)O_(5)-PEDOT)during the dissolution and recrystallization of vanadium *** expanded layer spacing facilitates rapid ion insertion and *** serves as an internal conductive pillar to improve the overall conductivity of the *** obtained intercrossing structure of the nanobelts shortens the ion diffusion distance and ensures electrolyte *** V_(2)O_(5)-PEDOT exhibits the fast response time(1.1 s for coloration and 3.5 s for bleaching at 422 nm),high optical contrast(ΔT=45%at 422 nm andΔT=35.2%at 1000 nm),great coloration efficiency(CE=97.1 cm2/C),and high cyclic stability(86%preserved after 3000 cycles).The electrochromic devices(ECD)were successfully assembled by using V_(2)O_(5)-PEDOT films as ion storage layers and electrochromic layers,demonstrating remarkable performance.

关键词： Vanadium oxide PEDOT Nanobelts Interlayer spacing Electrochromic

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An efficient schedulability analysis based on worst-case interference time for real-time systems

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Science China(Information Sciences) 2024年第9期67卷 88-104页

作者： Hongbiao LIU Mengfei YANG Lei QIAO Xi chen jian GONG School of Computer Science and Technology Xidian University China Academy of Space Technology Beijing Institute of Control Engineering

Real-time systems are widely implemented in the Internet of Things(IoT) and safety-critical systems, both of which have generated enormous social value. Aiming at the classic schedulability analysis problem in real-time systems, we proposed an exact Boolean analysis based on interference(EBAI) for schedulability analysis in real-time systems. EBAI is based on worst-case interference time(WCIT), which considers both the release jitter and blocking time of the task. We improved the efficiency of the three existing tests and provided a comprehensive summary of related research results in the field. Abundant experiments were conducted to compare EBAI with other related results. Our evaluation showed that in certain cases, the runtime gain achieved using our analysis method may exceed 73% compared to the stateof-the-art schedulability test. Furthermore, the benefits obtained from our tests grew with the number of tasks, reaching a level suitable for practical application. EBAI is oriented to the five-tuple real-time task model with stronger expression ability and possesses a low runtime overhead. These characteristics make it applicable in various real-time systems such as spacecraft, autonomous vehicles, industrial robots, and traffic command systems.

关键词： five-tuple real-time task model real-time system spacecraft Internet of Things exact schedulability analysis worst-case interference time

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CRISPR/Cpf1–FOKI-induced gene editing in Gluconobacter oxydans

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Synthetic and Systems Biotechnology 2024年第2期9卷 369-379页

作者： Xuyang Wang Dong Li Zhijie Qin jian chen Jingwen Zhou Engineering Research Center of ministry of Education on Food Synthetic Biotechnology Jiangnan University1800 Lihu RoadWuxiJiangsu214122China Science Center for Future Foods Jiangnan University1800 Lihu RoadWuxiJiangsu214122China Key Laboratory of Industrial Biotechnology Ministry of Education and School of BiotechnologyJiangnan University1800 Lihu RoadWuxiJiangsu214122China jiangsu Province Engineering Research Center of Food Synthetic Biotechnology Jiangnan UniversityWuxi214122China

Gluconobacter oxydans is an important Gram-negative industrial microorganism that produces vitamin C and other products due to its efficient membrane-bound dehydrogenase *** incomplete oxidation system has many crucial industrial ***,it also leads to slow growth and low biomass,requiring further metabolic modification for balancing the cell growth and incomplete oxidation *** a non-model strain,*** lacks efficient genome editing tools and cannot perform rapid multi-gene editing and complex metabolic network *** the last 15 years,our laboratory attempted to deploy multiple CRISPR/Cas systems in different *** strains and found none of them as *** this study,Cpf1-based or dCpf1-based CRISPRi was constructed to explore the targeted binding ability of Cpf1,while Cpf1–FokI was deployed to study its nuclease activity.A study on Cpf1 found that the CRISPR/Cpf1 system could locate the target genes in *** but lacked the nuclease cleavage ***,the CRISPR/Cpf1–FokI system based on FokI nuclease was ***-gene knockout with efficiency up to 100%and double-gene iterative editing were achieved in *** this system,AcrVA6,the anti-CRISPR protein of *** was discovered for the first time,and efficient genome editing was realized.

关键词： Cell growth CRISPRi Anti-CRISPR protein Multi-gene editing Vitamin C

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Evaluating CMIP6 models in simulating the North Pacific decadal variability in sea surface salinity

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Science China Earth Sciences 2024年第8期67卷 2661-2680页

作者： jian chen Hailong LIU Pengfei LIN Wenrong BAI chengzu BAI Lu WANG Institute of Atmospheric Physics Chinese Academy of SciencesBeijing 100029China State Key Laboratory of Geo-Information Engineering Xi’an 710054China Beijing Municipal Climate Center Beijing Meteorological BureauBeijing 100089China Space System Department Equipment Department Beijing 100096China

The North Pacific sea surface salinity(SSS)decadal variability(NPSDV)and its potential forcing were evaluated from 25 coupled models of the Coupled Model Intercomparison Project phase 6(CMIP6)considering the prospects for decadal climate *** results indicated that the CMIP6 models generally reproduced the spatial patterns of *** large standard deviation of the SSS anomaly over the strong current regions,such as the Kuroshio-Oyashio Extension(KOE),North Pacific Current(NPC),California Current System(CCS),and Alaskan Coastal Current(ACC),is reflected in the two leading modes of NPSDV:a dipole with out-of-phase loadings in the KOE-NPC versus CCS-ACC and a monopole with positive loading over the *** order of modes is sensitive to individual models that exhibit discrepancies,especially in temporal phases and power *** autoregressive model of order-1 was used to reconstruct the NPSDV with several forcing *** generally weaker influence of forcings in an autoregressive model of order-1 is partly related to the overestimated response time of NPSDV relative to *** NPSDV variances originate from the persistence of SSS anomalies,but the dominant forcing factors are diverse among *** model diversity for the NPSDV simulation mainly arises from the influence of the tropical El Ni?o-Southern Oscillation through teleconnection on the North Pacific Oscillation or Aleutian Low with timescale ***,models that can reproduce the NPSDV well are not dependent on those with larger impacts from the North Pacific oceanic processes.

关键词： North Pacific Sea surface salinity Decadal variability CMIP6 Leading mode

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A data-driven approach for predicting the fatigue life and failure mode of self-piercing rivet joints

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Advances in Manufacturing 2024年第3期12卷 538-555页

作者： jian Wang Qiu-Ren chen Li Huang chen-Di Wei Chao Tong Xian-Hui Wang Qing Liu Nanjing University of Science and Technology Nanjing210094People’s Republic of China Material Academy JitriSuzhou215100JiangsuPeople’s Republic of China Key Laboratory for Light-weight Materials Nanjing Tech UniversityNanjing210009People’s Republic of China Xi’an Jiaotong-Liverpool University Suzhou215123JiangsuPeople’s Republic of China

In lightweight automotive vehicles,the application of self-piercing rivet(SPR)joints is becoming increasingly *** the importance of automotive service performance,the fatigue performance of SPR joints has received considerable ***,this study proposes a data-driven approach to predict the fatigue life and failure modes of SPR *** dataset comprises three specimen types:cross-tensile,cross-peel,and *** ensure data consistency,a finite element analysis was employed to convert the external loads of the different *** selection was implemented using various machine-learning algorithms to determine the model *** Gaussian process regression algorithm was used to predict fatigue life,and its performance was compared with different kernel functions commonly used in the *** results revealed that the Matern kernel exhibited an exceptional predictive capability for fatigue *** the data points,95.9%fell within the 3-fold error band,and the remaining 4.1%exceeded the 3-fold error band owing to inherent dispersion in the fatigue *** predict the failure location,various tree and artificial neural network(ANN)models were *** findings indicated that the ANN models slightly outperformed the tree *** ANN model accurately predicts the failure of joints with varying dimensions and ***,minor deviations were observed for the joints with the same ***,this data-driven approach provided a reliable predictive model for estimating the fatigue life and failure location of SPR joints.

关键词： Self-piercing rivet(SPR)joints Fatigue life prediction Failure mode prediction Machine learning

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Non-monotonic behavior of jam probability and stretchedexponential distribution in pedestrian counterflow

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Chinese Physics B 2024年第9期33卷 259-266页

作者： Ze-Hao chen Zhi-Xi Wu jian-Yue Guan College of Physical Science and Technology Guangxi Normal UniversityGuilin 541004China Lanzhou Center for Theoretical Physics Key Laboratory of Theoretical Physics of Gansu Provinceand Key Laboratory for Quantum Theory and Applications of the Ministry of EducationLanzhou UniversityLanzhou 730000China

We adopt a floor field cellular automata model to study the statistical properties of bidirectional pedestrian flow movingin a straight corridor. We introduce a game-theoretic framework to deal with the conflict of multiple pedestrians tryingto move to the same target location. By means of computer simulations, we show that the complementary cumulative distributionof the time interval between two consecutive pedestrians leaving the corridor can be fitted by a stretched exponentialdistribution, and surprisingly, the statistical properties of the two types of pedestrian flows are affected differently by theflow ratio, i.e., the ratio of the pedestrians walking toward different directions. We also find that the jam probability exhibitsa non-monotonic behavior with the flow ratio, where the worst performance arises at an intermediate flow ratio of around0.2. Our simulation results are consistent with some empirical observations, which suggest that the peculiar characteristicsof the pedestrians may attributed to the anticipation mechanism of collision avoidance.

关键词： traffic and crowd dynamics evolutionary game theory

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Mitigated lattice distortion and oxygen loss of Li-rich layered cathode materials through anion/cation regulation by Ti^(4+)-substitution

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Chinese Chemical Letters 2024年第2期35卷 548-552页

作者： Kaicheng Zhang Yu Tian Xuanjin chen Shan Hu Zelang jian State Key Laboratory of Advanced Technology for Materials Synthesis and Processing School of Materials Science and EngineeringWuhan University of TechnologyWuhan 430070China

Lithium-rich layered cathode material(LLM)can meet the requirement of power lithium-ion energy storage devices due to the great energy ***,the de/intercalation of Li+will cause the irreversible loss of lattice oxygen and trigger transition metal(TM)ions migrate to Li+vacancies,resulting in capacity *** we brought Ti4+in substitution of TM ions in Li_(1.2)Mn_(0.54)Ni_(0.13)Co_(0.13)O_(2),which could stabilize structure and expand the layer spacing of ***,optimized Ti-substitution can regulate the anions and cations of LLM,enhance the interaction with lattice oxygen,increase Ni^(3+) and Co^(3+),and improve Mn^(4+) coordination,improving reversibility of oxygen redox activation,maintaining the stable framework and facilitating the Li^(+) ***,we found 5%Ti-substitution sample delivered a high discharge capacity of 244.2 mAh/g at 50 mA/g,an improved cycling stability to 87.3%after 100 cycles and enhanced rate *** Ti-substitution gives a new pathway to achieve high reversible cycle retention for LLMs.

关键词： Lithium-rich layered cathode material Ti-substitution Anion/cation regulation Structural stability Cycling stability

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Mandarin fish von Hippel-Lindau protein regulates the NF-κB signaling pathway via interaction with IκB to promote fish ranavirus replication

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Zoological Research 2024年第5期45卷 990-1000页

作者： Zhi-min Li Xiao-Wei Qin Qi Zhang jian He min-Cong Liang Chuan-Rui Li Yang Yu Weng-Hui Liu Shao-Ping Weng jian-Guo He Chang-Jun Guo School of Marine Sciences State Key Laboratory for BiocontrolSouthern Marine Science and Engineering Guangdong Laboratory(Zhuhai)Guangdong Province Key Laboratory of Aquatic Economic Animals&Guangdong Provincial Observation and Research Station for Marine Ranching of the Lingdingyang BaySun Yat-sen UniversityGuangzhouGuangdong 510275China Guangdong Laboratory for Lingnan Modern Agriculture South China Agricultural UniversityGuangzhouGuangdong 510640China

The von Hippel-Lindau tumor suppressor protein(VHL),an E3 ubiquitin ligase,functions as a critical regulator of the oxygen-sensing pathway for targeting hypoxia-inducible *** evidence suggests that mammalian VHL may also be critical to the NF-κB signaling pathway,although the specific molecular mechanisms remain ***,the roles of mandarin fish(Siniperca chuatsi)VHL(scVHL)in the NF-κB signaling pathway and mandarin fish ranavirus(MRV)replication were *** transcription of scVHL was induced by immune stimulation and MRV infection,indicating a potential role in innate ***-luciferase reporter gene assays and reverse transcription quantitative PCR(RT-qPCR)results demonstrated that scVHL evoked and positively regulated the NF-κB signaling *** with NF-κB signaling pathway inhibitors indicated that the role of scVHL may be mediated through scIKKα,scIKKβ,scIκBα,or ***-immunoprecipitation(Co-IP)analysis identified scIκBαas a novel target protein of ***,scVHL targeted scIκBαto catalyze the formation of K63-linked polyubiquitin chains to activate the NF-κB signaling *** MRV infection,NF-κB signaling remained activated,which,in turn,promoted MRV *** findings suggest that scVHL not only positively regulates NF-κB but also significantly enhances MRV *** study reveals a novel function of scVHL in NF-κB signaling and viral infection in fish.

关键词： VHL NF-κB IκBα Ranavirus Mandarin fish

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