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Zeitschriftenartikel zum Thema „Opdbk“

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Autor: Grafiati
Veröffentlicht am 26. Juli 2024
Zuletzt aktualisiert am 30. Juli 2024

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1

Morty, Rory E., Vilmos Fülöp und Norma W. Andrews. „Substrate Recognition Properties of Oligopeptidase B from Salmonella enterica Serovar Typhimurium“. Journal of Bacteriology 184, Nr. 12 (15.06.2002): 3329–37. http://dx.doi.org/10.1128/jb.184.12.3329-3337.2002.

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ABSTRACT Oligopeptidase B (OpdB) is a serine peptidase broadly distributed among unicellular eukaryotes, gram-negative bacteria, and spirochetes which has emerged as an important virulence factor and potential therapeutic target in infectious diseases. We report here the cloning and expression of the opdB homologue from Salmonella enterica serovar Typhimurium and demonstrate that it exhibits amidolytic activity exclusively against substrates with basic residues in P1. While similar to its eukaryotic homologues in terms of substrate specificity, Salmonella OpdB differs significantly in catalytic power and inhibition and activation properties. In addition to oligopeptide substrates, restricted proteolysis of histone proteins was observed, although no cleavage was seen at or near residues that had been posttranslationally modified or at defined secondary structures. This supports the idea that the catalytic site of OpdB may be accessible only to unstructured oligopeptides, similar to the closely related prolyl oligopeptidase (POP). Salmonella OpdB was employed as a model enzyme to define determinants of substrate specificity that distinguish OpdB from POP, which hydrolyzes substrates exclusively at proline residues. Using site-directed mutagenesis, nine acidic residues that are conserved in OpdBs but absent from POPs were converted to their corresponding residues in POP. In this manner, we identified a pair of glutamic acid residues, Glu576 and Glu578, that define P1 specificity and direct OpdB cleavage C terminal to basic residues. We have also identified a second pair of residues, Asp460 and Asp462, that may be involved in defining P2 specificity and thus direct preferential cleavage by OpdB after pairs of basic residues.
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2

Tamber, Sandeep, Martina M. Ochs und Robert E. W. Hancock. „Role of the Novel OprD Family of Porins in Nutrient Uptake in Pseudomonas aeruginosa“. Journal of Bacteriology 188, Nr. 1 (01.01.2006): 45–54. http://dx.doi.org/10.1128/jb.188.1.45-54.2006.

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ABSTRACT To circumvent the permeability barrier of its outer membrane, Pseudomonas aeruginosa has evolved a series of specific porins. These channels have binding sites for related classes of molecules that facilitate uptake under nutrient-limited conditions. Here, we report on the identification of a 19-member family of porins similar to the basic-amino-acid-specific porin OprD. The members of this family fell into one of two phylogenetically distinct clusters, one bearing high similarity to OprD and the other bearing most similarity to the putative phenylacetic acid uptake porin PhaK of Pseudomonas putida. Analysis of the genome context, operon arrangement, and regulation of the PhaK-like porin OpdK indicated that it might be involved in vanillate uptake. This result was confirmed by demonstrating that an opdK mutant had a deficiency in the ability to grow on vanillate as a carbon source. To extrapolate these data to other paralogues within this family, the substrate specificities of 6 of the 17 remaining OprD homologues were inferred using an approach similar to that used with opdK. The specificities determined were as follows: OpdP, glycine-glutamate; OpdC, histidine; OpdB, proline; OpdT, tyrosine; OpdH, cis-aconitate; and OpdO, pyroglutamate. Thus, members of the OprD subfamily took up amino acids and related molecules, and those characterized members most similar to PhaK were responsible for the uptake of a diverse array of organic acids. These results imply that there is a functional basis for the phylogenetic clustering of these proteins and provide a framework for studying OprD homologues in other organisms.
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3

KUMAR, SANJAY, G. S. MANOHAR, S. K. GHORUI, S. K. KASHYAP und S. MAHERCHANDANI. „Isolation and molecular characterization of <i>oligopeptidase B</i> gene of <i>Trypanosoma evansi</i> from Indian dromedaries“. Indian Journal of Animal Sciences 84, Nr. 1 (30.01.2014): 3–7. http://dx.doi.org/10.56093/ijans.v84i1.37285.

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The aim of the study was isolation and molecular characterization of oligopeptidase B (opdB) gene of Trypanosoma evansi of camel. Genomic DNA of T. evansi was used to amplify the opdB gene by polymerase chain reaction then amplicon was cloned in a suitable plasmid vector and finally custom sequenced. The desired amplicon of opdB gene of T. evansi was amplified by PCR using gene specific primers. The amplicon of expected size was purified and then ligated to the pGEM- T Easy vector and ligated mixture was transformed into Escherichia coli JM109 strains for cloning. Screening of recombinants was done by restriction enzyme digestion of plasmid DNA. After confirmation of clone of opdB genes the plasmid DNA was sequenced and coding sequences of opdB gene according to the result obtained was of 2092 bp. Tree topology of opdB gene is based on the Neighbor-Joining method and and maximum parsimony method with 100% bootstrap values and identified opdB gene sequence showed a close homology with other Trypanosoma and Leishmania spp. gene sequences.
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4

Shi, X., B. K. Tay und S. P. Lau. „THE DOUBLE BEND FILTERED CATHODIC ARC TECHNOLOGY AND ITS APPLICATIONS“. International Journal of Modern Physics B 14, Nr. 02n03 (30.01.2000): 136–53. http://dx.doi.org/10.1142/s0217979200000145.

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A new Filtered Cathodic Vacuum Arc coating system with a magnetic macroparticle filter design consisting of an off-plane double-bend (OPDB) filter is described. The transport of the vacuum arc plasma through this OPDB filter is investigated using Langmuir and deposition probes. Films of amorphous hard carbon have been deposited a 90° single bend and the OPDB filter and the macroparticle contents of the films are compared. The experimental results were found to be in good agreement with the simulations results based on an improved drift approximation model. The results demonstrate the OPDB filter has a relatively better transmission efficiency than the 90° single bend filter, lower macroparticle counts and is suitable for preparation of diamond-like carbon coatings with high quality. Some important applications of the ta-C coating produced by using the new FCVA system have been identified and where applicable industrial testing results are presented.
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5

Pothula, Karunakar Reddy, und Ulrich Kleinekathöfer. „Theoretical analysis of ion conductance and gating transitions in the OpdK (OccK1) channel“. Analyst 140, Nr. 14 (2015): 4855–64. http://dx.doi.org/10.1039/c5an00036j.

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6

Fenno, J. Christopher, Si Young Lee, Christopher H. Bayer und Yu Ning. „The opdB Locus Encodes the Trypsin-Like Peptidase Activity of Treponema denticola“. Infection and Immunity 69, Nr. 10 (01.10.2001): 6193–200. http://dx.doi.org/10.1128/iai.69.10.6193-6200.2001.

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ABSTRACT High levels of Treponema denticola in subgingival dental plaque are associated with severe periodontal disease.T. denticola, along with Porphyromonas gingivalis and Bacteroides forsythus, are the only cultivatable oral microorganisms that produce significant amounts of “trypsin-like” peptidase activity. The ability of subgingival plaque to hydrolyzeN-α-benzoyl-dl-arginine-2-naphthylamide (BANA) is associated with high levels of one or more of these organisms. The purpose of this study was to identify the gene encoding trypsin-like activity in T. denticola and thus facilitate molecular-level studies of its potential role in disease. Using published peptide sequences of a T. denticolasurface-associated oligopeptidase with BANA-hydrolyzing activity, we identified the gene, designated opdB, in an apparently noncoding region of the T. denticola genome unannotated contigs (11/2000; http://www.tigr.org ). The opdB gene begins with a TTG start codon and encodes a 685-residue peptide with high homology to the oligopeptidase B family in prokaryotes and eukaryotes. An isogenic T. denticola opdB mutant was constructed by allelic replacement mutagenesis using anermF/AM gene cassette. The mutant lacked BANA-hydrolyzing activity and had a slightly slower growth rate than the parent strain. This mutant will be used in future studies of interactions of T. denticola with host cells and tissue.
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7

Zhang, Yufei, Yuehan Geng, Shengyang Li, Taozhong Shi, Xin Ma, Rimao Hua und Liancheng Fang. „Efficient Knocking Out of the Organophosphorus Insecticides Degradation Gene opdB in Cupriavidus nantongensis X1T via CRISPR/Cas9 with Red System“. International Journal of Molecular Sciences 24, Nr. 6 (22.03.2023): 6003. http://dx.doi.org/10.3390/ijms24066003.

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Cupriavidus nantongensis X1T is a type strain of the genus Cupriavidus, that can degrade eight kinds of organophosphorus insecticides (OPs). Conventional genetic manipulations in Cupriavidus species are time-consuming, difficult, and hard to control. The clustered regularly interspaced short palindromic repeat (CRISPR)/associated protein 9 (Cas9) system has emerged as a powerful tool for genome editing applied in prokaryotes and eukaryotes due to its simplicity, efficiency, and accuracy. Here, we combined CRISPR/Cas9 with the Red system to perform seamless genetic manipulation in the X1T strain. Two plasmids, pACasN and pDCRH were constructed. The pACasN plasmid contained Cas9 nuclease and Red recombinase, and the pDCRH plasmid contained the dual single-guide RNA (sgRNA) of organophosphorus hydrolase (OpdB) in the X1T strain. For gene editing, two plasmids were transferred to the X1T strain and a mutant strain in which genetic recombination had taken place, resulting in the targeted deletion of opdB. The incidence of homologous recombination was over 30%. Biodegradation experiments suggested that the opdB gene was responsible for the catabolism of organophosphorus insecticides. This study was the first to use the CRISPR/Cas9 system for gene targeting in the genus Cupriavidus, and it furthered our understanding of the process of degradation of organophosphorus insecticides in the X1T strain.
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8

Cheneke, Belete R., Bert van den Berg und Liviu Movileanu. „Three-State Discrete Kinetics of the OpdK Protein Pore“. Biophysical Journal 100, Nr. 3 (Februar 2011): 336a. http://dx.doi.org/10.1016/j.bpj.2010.12.2037.

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9

Wang, Sheng, Yiran Li, Huorong Li, Feifei Li, Chengjin Tian, Le Su, Yanshan Zhang et al. „Operon“. Proceedings of the VLDB Endowment 15, Nr. 12 (August 2022): 3332–45. http://dx.doi.org/10.14778/3554821.3554826.

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The past decade has witnessed the rapid development of cloud computing and data-centric applications. While these innovations offer numerous attractive features for data processing, they also bring in new issues about the loss of data ownership. Though some encrypted databases have emerged recently, they can not fully address these concerns for the data owner. In this paper, we propose an ownership-preserving database (OPDB), a new paradigm that characterizes different roles' responsibilities from nowadays applications and preserves data ownership throughout the entire application. We build Operon to follow the OPDB paradigm, which utilizes the trusted execution environment (TEE) and introduces a behavior control list (BCL). Different from access controls that merely handle accessibility permissions, BCL further makes data operation behaviors under control. Besides, we make Operon practical for real-world applications, by extending database capabilities towards flexibility, functionality and ease of use. Operon is the first database framework with which the data owner exclusively controls its data across different roles' subsystems. We have successfully integrated Operon with different TEEs, i.e. , Intel SGX and an FPGA-based implementation, and various database services on Alibaba Cloud, i.e. , PolarDB and RDS PostgreSQL. The evaluation shows that Operon achieves 71% - 97% of the performance of plaintext databases under the TPC-C benchmark while preserving the data ownership.
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10

Biswas, Shyamasri, Mohammad M. Mohammad, Liviu Movileanu und Bert van den Berg. „Crystal Structure of the Outer Membrane Protein OpdK from Pseudomonas aeruginosa“. Structure 16, Nr. 7 (Juli 2008): 1027–35. http://dx.doi.org/10.1016/j.str.2008.04.009.

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11

Wang, Yibo, Xi Zhao, Baili Sun, Hui Yu und Xuri Huang. „Molecular dynamics simulation study of the vanillate transport channel of Opdk“. Archives of Biochemistry and Biophysics 524, Nr. 2 (August 2012): 132–39. http://dx.doi.org/10.1016/j.abb.2012.05.008.

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12

Li, Zhuo-Wei, Yue-Heng Wang, Chang Liu, Ying-Mei Wu, Guo-Xin Lan, Yan-Bin Xue, Qiang-Sheng Wu und Nong Zhou. „Effects of Organophosphate-Degrading Bacteria on the Plant Biomass, Active Medicinal Components, and Soil Phosphorus Levels of Paris polyphylla var. yunnanensis“. Plants 12, Nr. 3 (31.01.2023): 631. http://dx.doi.org/10.3390/plants12030631.

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Paris polyphylla var. yunnanensis, a medicinal plant that originated in Yunnan (China), has been over-harvested in the wild population, resulting in its artificial cultivation. Given the negative environmental impacts of the excessive use of phosphorus (P) fertilization, the application of organophosphate-degrading bacteria (OPDB) is a sustainable approach for improving the P use efficiency in Paris polyphylla var. yunnanensis production. The present work aimed to analyze the effects of three organic phosphate-solubilizing bacteria of Bacillus on the yield and quality of P. polyphylla var. yunnanensis and the P concentrations in the soil. All the inoculation treatments distinctly increased the rhizome biomass, steroidal, and total saponin concentrations of the rhizomes and the Olsen-P and organic P in the soil. The highest growth rate of rhizomes biomass, steroidal saponins, available phosphorus, and total phosphorus content was seen in the S7 group, which was inoculated with all three OPDB strains, showing increases of 134.58%, 132.56%, 51.64%, and 17.19%, respectively. The highest total saponin content was found in the group inoculated with B. mycoides and B. wiedmannii, which increased by 33.68%. Moreover, the highest organic P content was seen in the group inoculated with B. wiedmannii and B. proteolyticus, which increased by 96.20%. In addition, the rhizome biomass was significantly positively correlated with the saponin concentration, together with the positive correlation between the Olsen-P and organic P and total P. It is concluded that inoculation with organophosphate-degrading bacteria improved the biomass and medicinal ingredients of the rhizome in P. polyphylla var. yunnanensis, coupled with increased soil P fertility, with a mixture of the three bacteria performing best.
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13

Hourihan, Kevin, Jonathan Cherry, Anngret Simms und Arnold Horner. „Reviews of Books“. Irish Geography 39, Nr. 1 (04.05.2014): 105–10. http://dx.doi.org/10.55650/igj.2006.155.

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RENEWING URBAN COMMUNITIES: ENVIRONMENT, CITIZENSHIP AND SUS‐TAINABILITY IN IRELAND, edited by Niamh Moore and Mark Scott. Aldershot: Ashgate, 2005. xvi + 268pp. ISBN 0 7546 4083 3. £49.99stg.SOUTH TIPPERARY, 1570–1841: RELIGION, LAND AND RIVALRY, by David J. Butler. Dublin: Four Courts Press, 2006. 336pp. ISBN 9 781851 828913. €55.00.MEDIEVAL DUBLIN: PROCEEDINGS OF THE FRIENDS OF MEDIEVAL DUBLIN SYMPOSIUM 2004, edited by Sean Duffy. Dublin: Four Courts Press, 2005. 256pp. ISBN 1–85182–885‐Opbk. €24.95pbk.UNDERSTANDING EARTH PROCESSES, ROCKS AND THE GEOLOGICAL HISTORY OF IRELAND: A companion to the 1:1,000,000 scale Bedrock Geological Map of Ireland, by Andrew Sleeman, Brian McConnell & Sarah Gately. Dublin: Geological Survey of Ireland, 2004. 120pp. ISBN 1 899702 50 4. €15.00.
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14

Cheneke, Belete R., Bert van den Berg und Liviu Movileanu. „Analysis of Gating Transitions among the Three Major Open States of the OpdK Channel“. Biochemistry 50, Nr. 22 (07.06.2011): 4987–97. http://dx.doi.org/10.1021/bi200454j.

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15

Islam, Shah Md Asraful, Renukaradhya K. Math, Kye Man Cho, Woo Jin Lim, Su Young Hong, Jong Min Kim, Myoung Geun Yun, Ji Joong Cho und Han Dae Yun. „Organophosphorus Hydrolase (OpdB) of Lactobacillus brevis WCP902 from Kimchi Is Able To Degrade Organophosphorus Pesticides“. Journal of Agricultural and Food Chemistry 58, Nr. 9 (12.05.2010): 5380–86. http://dx.doi.org/10.1021/jf903878e.

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16

Fang, Liancheng, Yujing Zhou, Tianming Chen, Yuehan Geng, Zijing Li, Wei Zha, Taozhong Shi und Rimao Hua. „Efficient biodegradation characteristics and detoxification pathway of organophosphorus insecticide profenofos via Cupriavidus nantongensis X1T and enzyme OpdB“. Science of The Total Environment 862 (März 2023): 160782. http://dx.doi.org/10.1016/j.scitotenv.2022.160782.

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17

Shi, Fang, Qin, Chen, Wu und Hua. „Rapid Biodegradation of the Organophosphorus Insecticide Chlorpyrifos by Cupriavidus nantongensis X1T“. International Journal of Environmental Research and Public Health 16, Nr. 23 (20.11.2019): 4593. http://dx.doi.org/10.3390/ijerph16234593.

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Chlorpyrifos was one of the most widely used organophosphorus insecticides and the neurotoxicity and genotoxicity of chlorpyrifos to mammals, aquatic organisms and other non-target organisms have caused much public concern. Cupriavidus nantongensis X1T, a type of strain of the genus Cupriavidus, is capable of efficiently degrading 200 mg/L of chlorpyrifos within 48 h. This is ~100 fold faster than Enterobacter B-14, a well-studied chlorpyrifos-degrading bacterial strain. Strain X1T can tolerate high concentrations (500 mg/L) of chlorpyrifos over a wide range of temperatures (30–42 °C) and pH values (5–9). RT-qPCR analysis showed that the organophosphorus hydrolase (OpdB) in strain X1T was an inducible enzyme, and the crude enzyme isolated in vitro could still maintain 75% degradation activity. Strain X1T can simultaneously degrade chlorpyrifos and its main hydrolysate 3,5,6-trichloro-2-pyridinol. TCP could be further metabolized through stepwise oxidative dechlorination and further opening of the benzene ring to be completely degraded by the tricarboxylic acid cycle. The results provide a potential means for the remediation of chlorpyrifos- contaminated soil and water.
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18

Pham, Huyen Thanh, Thang Vu Nguyen, Loan Pham-Nguyen, Heisuke Sakai und Toan Thanh Dao. „Design and Simulation of a 6-Bit Successive-Approximation ADC Using Modeled Organic Thin-Film Transistors“. Active and Passive Electronic Components 2016 (2016): 1–11. http://dx.doi.org/10.1155/2016/7201760.

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We have demonstrated a method for using proper models of pentacene P-channel and fullerene N-channel thin-film transistors (TFTs) in order to design and simulate organic integrated circuits. Initially, the transistors were fabricated, and we measured their main physical and electrical parameters. Then, these organic TFTs (OTFTs) were modeled with support of an organic process design kit (OPDK) added in Cadence. The key specifications of the modeled elements were extracted from measured data, whereas the fitting ones were elected to replicate experimental curves. The simulating process proves that frequency responses of the TFTs cover all biosignal frequency ranges; hence, it is reasonable to deploy the elements to design integrated circuits used in biomedical applications. Complying with complementary rules, the organic circuits work properly, including logic gates, flip-flops, comparators, and analog-to-digital converters (ADCs) as well. The proposed successive-approximation-register (SAR) ADC consumes a power of 883.7 µW and achieves an ENOB of 5.05 bits, a SNR of 32.17 dB at a supply voltage of 10 V, and a sampling frequency of about 2 KHz.
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19

Zhu, Xiaoli, Bingxin Lv, Xiaoqing Shang, Junqiang Wang, Meng Li und Xiangyang Yu. „The immobilization effects on Pb, Cd and Cu by the inoculation of organic phosphorus-degrading bacteria (OPDB) with rapeseed dregs in acidic soil“. Geoderma 350 (September 2019): 1–10. http://dx.doi.org/10.1016/j.geoderma.2019.04.015.

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20

Serang, Serlin, Andi Ritamariani, Jeni Kamase und Achmad Gani. „The Influence of Work Motivation, Compensation, and Work Procedures on Job Satisfaction and Field Extension Performance Family Planning in South Sulawesi“. International Journal of Professional Business Review 8, Nr. 5 (16.05.2023): e02180. http://dx.doi.org/10.26668/businessreview/2023.v8i5.2180.

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Purpose: This study was conducted with the aim of (1). Analyzing and interpreting the impact of work motivation on job satisfaction of family planning instructors (PLKBs) in South Sulawesi. (2) Analyzing and interpreting the impact of compensation on PLKB job satisfaction in South Sulawesi. Theoretical framework: The theoretical implication is that this study integrates the theory of reinforcement of motivation and self-determination to investigate the determinants of extension worker performance. The theory of motivational reinforcement was put forward by Skinner (2014), who states that behavior is influenced by its consequences. Design/methodology/approach: The research methods used in this study are descriptive analysis and SEM (structural equation modeling) analysis using the AMOS program. The research method used is a survey research method, i.e., primary data collection using a questionnaire (Suzerweni, 2020: 13). A representative of the Regional Family Planning Agency (OPDKB) of the National Family Planning Population Organization of South Sulawesi developed the questionnaire to measure job motivation, compensation, work methods, job satisfaction, and employee performance. Findings: The results of the study show that (1). Job motivation (X1) has a direct positive and significant effect on job satisfaction. Compensation has a positive and significant effect on job satisfaction (3). Work methods have a positive and significant effect on job satisfaction (4). Expanding work motivation has a positive and negligible impact on employee performance. Research, practical and social implications: The summary of the discussion of the results of this study is that according to the results of the research analysis, each observation is described in a coherent manner based on the interpretation of the effect between variable variables and variable indicators, then supported by several relevant theories and links to several previous studies. Originality/Value: Compensation indirectly has a positive and significant impact on the performance of extension workers. Indirect expansion of work approaches has a positive and not significant impact on employee performance.
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21

Tziantzioulis, Georgios, Ting-Jung Chang, Jonathan Balkind, Jinzheng Tu, Fei Gao und David Wentzlaff. „OPDB: A Scalable and Modular Design Benchmark“. IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems, 2021, 1. http://dx.doi.org/10.1109/tcad.2021.3096794.

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22

Nagvekar, Devdatt S., Patrick T. Mather, Hong G. Jeon und Loon-Seng Tan. „New Wholly-Aromatic Thermotropic Polyesters with Controlled Flexibility“. MRS Proceedings 559 (1999). http://dx.doi.org/10.1557/proc-559-165.

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ABSTRACTIn this work, we present the synthesis and characterization of a new series of wholly-aromatic copolyesters derived from the condensation of various weight fractions of 4,4'-(o- phenylenedioxy)dibenzoic acid (OPDB) and substituted terephthalic acid (BTA) with 2-phenylhydroquinone (PHQ). The Higashi method, involving tosyl chloride and pyridine as solvent, was employed to yield polymer with significant molecular weight. These polymers are intended to enable accessible clearing transition and to control the balance of stiffness and toughness in melt-spun fibers systematically. We report the synthetic details along with characterization of quiescent phase behavior and morphology.
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