Profiling of RNA-binding Proteins Interacting With Glucagon and Adipokinetic Hormone mRNAs

Delaney Joe R.,Yeom Eunbyul,Chun Yoo Lim,Mun Hyejin,Howard-McGuire Marina,Millison Nathan T.,Jung Junyang,Lee Kwang-Pyo,Lee Changhan,Lee Kyu-Sun,Ko Seungbeom,Yoon Je-Hyun 한국지질동맥경화학회 2022 지질·동맥경화학회지 Vol.11 No.1

Objective Glucagon in mammals and its homolog (adipokinetic hormone [AKH] in Drosophila melanogaster) are peptide hormones which regulate lipid metabolism by breaking down triglycerides. Although regulatory mechanisms of glucagon and AKH expression have been widely studied, post-transcriptional gene expression of glucagon has not been investigated thoroughly. In this study, we aimed to profile proteins binding with Gcg messenger RNA (mRNA) in mouse and Akh mRNA in Drosophila. Methods Drosophila Schneider 2 (S2) and mouse 3T3-L1 cell lysates were utilized for affinity pull down of Akh and Gcg mRNA respectively using biotinylated anti-sense DNA oligoes against target mRNAs. Mass spectrometry and computational network analysis revealed mRNA-interacting proteins residing in functional proximity. Results We observed that 1) 91 proteins interact with Akh mRNA from S2 cell lysates, 2) 34 proteins interact with Gcg mRNA from 3T3-L1 cell lysates. 3) Akh mRNA interactome revealed clusters of ribosomes and known RNA-binding proteins (RBPs). 4) Gcg mRNA interactome revealed mRNA-binding proteins including Plekha7, zinc finger protein, carboxylase, lipase, histone proteins and a cytochrome, Cyp2c44. 5) Levels of Gcg mRNA and its interacting proteins are elevated in skeletal muscles isolated from old mice compared to ones from young mice. Conclusion Akh mRNA in S2 cells are under active translation in a complex of RBPs and ribosomes. Gcg mRNA in mouse precursor adipocyte is in a condition distinct from Akh mRNA due to biochemical interactions with a subset of RBPs and histones. We anticipate that our study contributes to investigating regulatory mechanisms of Gcg and Akh mRNA decay, translation, and localization.

A Gene-Shuffled Glyphosate Acetyltransferase Protein from Bacillus licheniformis (GAT4601) Shows No Evidence of Allergenicity or Toxicity

Delaney, Bryan,Zhang, John,Carlson, Gabrielle,Schmidt, Jean,Stagg, Barb,Comstock, Brad,Babb, Amy,Finlay, Carol,Cressman, Robert F.,Ladics, Greg,Cogburn, Amarin,Siehl, Dan,Bardina, Luda,Sampson, Hugh,H Oxford University Press 2008 Toxicological sciences Vol.102 No.2

<P>The glyphosate acetyltransferase (gat) gene from Bacillus licheniformis was subjected to multiple rounds of gene shuffling to optimize kinetics of corresponding GAT proteins to acetylate the herbicide active ingredient glyphosate. Genetically modified soybeans expressing the gat4601 gene (356043 soybeans) are tolerant to the application of glyphosate. The current manuscript reports the outcome of the allergenicity and toxicity assessment for the GAT4601 protein. Bioinformatic comparison of the amino acid sequence of GAT4601 did not identify similarities to known allergenic or toxic proteins. In vitro studies conducted with heterologously produced GAT4601 protein demonstrated that it was rapidly degraded in simulated gastric fluid containing pepsin (< 30 s) and in simulated intestinal fluid containing pancreatin (< 2 min) and completely inactivated at temperatures above 56 degrees C. The GAT4601 protein expressed in planta is not glycosylated and similar protein profiles were observed in flour extracts from 356043 soybeans and nontransgenic near isoline comparator soybeans (Jack) using serum from soy allergic persons. No evidence of adverse effects was observed in mice following acute oral exposure to 2000 mg/kg of GAT4601 protein or in a repeated dose dietary exposure study at doses of 800-1000 mg/kg/day. This comprehensive assessment demonstrates that the GAT4601 protein does not present a risk for adverse effects in humans when used in the context of agricultural biotechnology.</P>

Broken symmetry and pseudogaps ln ropes of carbon nanotubes

Delaney, Paul,Choi, Hyoung Joon,Ihm, Ji Soon,Louie, Stevea G.,Cohen, Marvin L. 서울대학교 이론물리학연구센터 1998 연구논문집 Vol.7 No.2

Characterization of lac^+ gal^+ Strains of Zymomonas mobilis for Ethanol Production from Lactose

CHO, DONG-WUK,DELANEY, STEPHEN F.,ROGERS, PETER L. 한국미생물 · 생명공학회 1991 Journal of microbiology and biotechnology Vol.1 No.1

Previously RP1::Tn951 which is a derivative of RP1 containing the lactose transposon Tn951 was introduced into Z. mobilis strain ZM6100, and RP1::Tn951 was integrated into its genome to yield ZM6306. The galactose operon was incorporated into ZM6306 to yield ZM6307 for more efficient utilization of lactose. Batch culture study has been carried out on Z. mobilis strains, ZM6306 (lac^+) and ZM6307 (lac^+, gal^+), which can convert lactose directly to ethanol. Using a medium containing 80g·ℓ^-1 glucose and 40g·ℓ^-1 lactose, it was found that ZM6306 and ZM6307 produced maximum ethanol concentration of 40g·ℓ^-1 and 42g·ℓ^-1,respectively, whereas parent strain ZM6 produced 37g·ℓ^-1.

Improving Data Quality of Low-cost IoT Sensors in Environmental Monitoring Networks Using Data Fusion and Machine Learning Approach

Nwamaka U. Okafor,Yahia Alghorani,Declan T. Delaney 한국통신학회 2020 ICT Express Vol.6 No.3

Environmental monitoring has become an active research area due to the current rise in the global climate change crises. Current environmental monitoring solutions, however, are characterized by high cost of acquisition and complexity of installation; often requiring extensive resources, infrastructure and expertise. It is infeasible to achieve with these solutions, high density in-situ networks such as are required to build refined scale models to facilitate robust monitoring, thus, leaving large gaps within the collected dataset. Low-Cost Sensors (LCS) can offer high-resolution spatiotemporal measurements which could be used to supplement existing dataset from current environmental monitoring solutions. LCS however, require frequent calibration in order to provide accurate and reliable data as they are often affected by environmental conditions when deployed on the field. Calibrating LCS can help to improve their data quality and ensure they are collecting accurate data. Achieving effective calibration, however, requires identifying factors that affect sensor’s data quality for a given measurement. This study evaluates the performance of three Feature Selection (FS) algorithms including Forward Feature Selection (FFS), Backward Elimination (BE) and Exhaustive Feature Selection (EFS) in identifying factors that affect data quality of low-cost IoT sensors in environmental monitoring networks. Applying the concept of data fusion, sensors data were merged with environmental factors and integrated into a single calibration equation to calibrate cairclipO3/NO2 and cairclipNO2 sensors using Linear Regression (LR) and Artificial Neural Networks (ANN). The study showed the effectiveness of calibration in improving low-cost IoT sensor data quality and also demonstrated the convenience of feature selection and the ability of data fusion to provide more consistent, accurate and reliable information for calibration models. The analysis showed that the cairclipO3/NO2 sensor provided measurements that have good correlation with reference measurements whereas the cairclipNO2 sensor showed no reasonable correlation with the reference data. Calibrating the cairclipO3/NO2 yielded good improvement in its measurement outputs when compared to reference measurements (R2=0.83). However, calibrating the cairclipNO2 sensor data yielded no significant improvement in its data quality.

Nursing Management Minimum Data Sets (NMMDS) 연구의 최신 동향

Jung, Myun Sook,Park, Jung In,Delaney, Connie W.,Westra, Bonnie L. 한국간호행정학회 2014 간호행정학회지 Vol.20 No.4

Purpose: The purpose of this study was to review articles on Nursing Management Minimum Data Sets (NMMDS) and to suggest strategies to improve practical use of NMMDS in nursing management. Methods: A systematic search for articles published until 2013 was undertaken using the following biomedical databases: CINAHL, PubMed, and Google scholar. Seventeen articles were fully reviewed. Results: The results showed that studies were related to updating NMMDS reflecting current EHR use, mapping NMMDS to standardized national databases, and validating, translating and evaluating NMMDS for international uses. NMMDS has three dimensions and was developed reflecting the needs of nurse managers. Conclusion: The study findings provide a summary of recent trends in NMMDS. These results can serve as basic information to promote practical use of NMMDS in the healthcare organization to provide nursing management data for nurse managers.

THE POWER OF PROGRAMMED GRAMMARS WITH GRAPHS FROM VARIOUS CLASSES

Barbaiani, Madalina,Bibire, Cristina,Dassow, Jurgen,Delaney, Aidan,Fazekas, Szilard,Ionescu, Mihai,Liu, Guangwu,Lodhi, Atif,Nagy, Benedek 한국전산응용수학회 2006 Journal of applied mathematics & informatics Vol.22 No.1

Programmed grammars, one of the most important and well investigated classes of grammars with context-free rules and a mechanism controlling the application of the rules, can be described by graphs. We investigate whether or not the restriction to special classes of graphs restricts the generative power of programmed grammars with erasing rules and without appearance checking, too. We obtain that Eulerian, Hamiltonian, planar and bipartite graphs and regular graphs of degree at least three are pr-universal in that sense that any language which can be generated by programmed grammars (with erasing rules and without appearance checking) can be obtained by programmed grammars where the underlying graph belongs to the given special class of graphs, whereas complete graphs, regular graphs of degree 2 and backbone graphs lead to proper subfamilies of the family of programmed languages.

Expression of lac and gal operons in Zymomonas mobilis

CHO, DONG-WUK,ROGERS, PETER L.,DELANEY, STEPHEN F. 한국미생물 · 생명공학회 1994 Journal of microbiology and biotechnology Vol.4 No.2

Two Zymomonas mobilis strains (ZM63 and ZM6307), containing both lactose and galactose operons, were constructed. β-Galactosidase and galactokinase assays indicated that both operons were expressed in both strains. The transport systems available for lactose uptake by Zymomonas mobilis were investigated using ^14C-labelled lactose. After the outer membrane, which was considered to be a possible barrier to lactose uptake, was disrupted by treatment with EDTA and Ca^2+ ions, some increase in lactose uptake was observed in ZM6306 (lac^+) and ZM6307 (lac^+ gal^+), but not in the parent, ZM6. This suggested that the outer membrane of Zymomonas mobilis acts as a barrier to lactose uptake to some degree, and also that the lactose permease is operational in Zymomonas mobilis.

The power of programmed grammars with graphs from various classes

Madalina Barbaiani,Cristina Bibire,J urgen Dassow,Aidan Delaney,Szilard Fazekas,Mihai Ionescu,Guangwu Liu,Atif Lodhi,Benedek Nagy 한국전산응용수학회 2006 Journal of applied mathematics & informatics Vol.22 No.1-2

Programmed grammars, one of the most important and well investigated classes of grammars with context-free rules and a mechanism controlling the application of the rules, can be described by graphs. We investigate whether or not the restriction to special classes of graphs re- stricts the generative power of programmed grammars with erasing rules and without appearance checking, too. We obtain that Eulerian, Hamil- tonian, planar and bipartite graphs and regular graphs of degree at least three are pr-universal in that sense that any language which can be gener- ated by programmed grammars (with erasing rules and without appearance checking) can be obtained by programmed grammars where the underly- ing graph belongs to the given special class of graphs, whereas complete graphs, regular graphs of degree 2 and backbone graphs lead to proper subfamilies of the family of programmed languages.

Nursing Management Minimum Data Sets (NMMDS) 연구의 최신 동향

정면숙(Myun Sook Jung),박정인(Jung In Park),Connie W. Delaney,Bonnie L. Westra 한국간호행정학회 2014 간호행정학회지 Vol.20 No.4

The purpose of this study was to review articles on Nursing Management Minimum Data Sets (NMMDS) and to suggest strategies to improve practical use of NMMDS in nursing management. Methods: A systematic search for articles published until 2013 was undertaken using the following biomedical databases: CINAHL, PubMed, and Google scholar. Seventeen articles were fully reviewed. Results: The results showed that studies were related to updating NMMDS reflecting current EHR use, mapping NMMDS to standardized national databases, and validating, translating and evaluating NMMDS for international uses. NMMDS has three dimensions and was developed reflecting the needs of nurse managers. Conclusion: The study findings provide a summary of recent trends in NMMDS. These results can serve as basic information to promote practical use of NMMDS in the healthcare organization to provide nursing management data for nurse managers.