Integrated Strategy for Large-Scale Investigation on Protein Core Fucosylation Stoichiometry Based on Glycan-Simplification and Paired-Peaks-Extraction

This paper describes a systematic methodology for selecting independent variables to be considered in large-scale research problems. Five specific procedures including brainstorming, prototype interface representation, feasibility/relevance analyses, structured literature reviews, and user subjective ratings are evaluated and incorporated into an integrated strategy. This methodology is demonstrated in the context of designing the user interface for a telephone-based information inquiry system. The procedure was successful in reducing an initial set of 95 independent variables to a subset of 19 factors that warrant subsequent detailed analysis. These results are discussed in terms of a comprehensive sequential research methodology useful for investigating human factors problems.

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Widespread multi-targeted therapy resistance via drug-induced secretome fucosylation

10.1101/2021.04.21.440719 ◽

2021 ◽

Author(s):

Mark Borris D. Aldonza ◽

Junghwa Cha ◽

Insung Yong ◽

Jayoung Ku ◽

Dabin Lee ◽

...

Keyword(s):

Targeted Therapies ◽

Large Scale ◽

Kinase Inhibitors ◽

Tumor Regression ◽

Therapy Resistance ◽

Critical Component ◽

Label Free ◽

Drug Induced ◽

Pan Cancer ◽

Core Fucosylation

AbstractCancer secretome is a reservoir for aberrant glycosylation. How therapies alter this post-translational cancer hallmark and the consequences thereof remain elusive. Here we show that an elevated secretome fucosylation is a pan-cancer signature of both response and resistance to multiple targeted therapies. Large-scale pharmacogenomics revealed that fucosylation genes display widespread association with resistance to these therapies. In both cancer cell cultures and patients, targeted kinase inhibitors distinctively induced core fucosylation of secreted proteins less than 60 kDa. Label-free proteomics of N-glycoproteomes revealed that fucosylation of the antioxidant PON1 is a critical component of the therapy-induced secretome. Core fucosylation in the Golgi impacts PON1 stability and folding prior to secretion, promoting a more degradation-resistant PON1. Non-specific and PON1-specific secretome de-N-glycosylation both limited the expansion of resistant clones in a tumor regression model. Our findings demonstrate that core fucosylation is a common modification indirectly induced by targeted therapies that paradoxically promotes resistance.

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Protein Core Fucosylation Regulates Planarian Head Regeneration via Neoblast Proliferation

Frontiers in Cell and Developmental Biology ◽

10.3389/fcell.2021.625823 ◽

2021 ◽

Vol 9 ◽

Author(s):

Wenjun Wang ◽

Yuan Yu ◽

Hongbo Liu ◽

Hanxue Zheng ◽

Liyuan Jia ◽

...

Keyword(s):

Lens Culinaris ◽

Magnetic Particle ◽

Direct Evidence ◽

Lectin Histochemistry ◽

Protein Glycosylation ◽

Protein Core ◽

Planarian Regeneration ◽

Dugesia Japonica ◽

Head Regeneration ◽

Core Fucosylation

Protein glycosylation is an important posttranslational modification that plays a crucial role in cellular function. However, its biological roles in tissue regeneration remain interesting and primarily ambiguous. In this study, we profiled protein glycosylation during head regeneration in planarian Dugesia japonica using a lectin microarray. We found that 6 kinds of lectins showed increased signals and 16 kinds showed decreased signals. Interestingly, we found that protein core fucosylation, manifested by Lens culinaris agglutinin (LCA) staining, was significantly upregulated during planarian head regeneration. Lectin histochemistry indicated that the LCA signal was intensified within the wound and blastemal areas. Furthermore, we found that treatment with a fucosylation inhibitor, 2F-peracetyl-fucose, significantly retarded planarian head regeneration, while supplement with L-fucose could improve DjFut8 expression and stimulate planarian head regeneration. In addition, 53 glycoproteins that bound to LCA were selectively isolated by LCA-magnetic particle conjugates and identified by LC-MS/MS, including the neoblast markers DjpiwiA, DjpiwiB, DjvlgA, and DjvlgB. Overall, our study provides direct evidence for the involvement of protein core fucosylation in planarian regeneration.

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Map-based cloning of the gene Pm21 that confers broad spectrum resistance to wheat powdery mildew

10.1101/177857 ◽

2017 ◽

Cited By ~ 4

Author(s):

Huagang He ◽

Shanying Zhu ◽

Yaoyong Ji ◽

Zhengning Jiang ◽

Renhui Zhao ◽

...

Keyword(s):

Powdery Mildew ◽

Large Scale ◽

Coiled Coil ◽

Wheat Breeding ◽

Cereal Crops ◽

Dasypyrum Villosum ◽

Leucine Rich Repeat ◽

Wheat Powdery Mildew ◽

Integrated Strategy ◽

Broad Spectrum Resistance

AbstractCommon wheat (Triticum aestivum L.) is one of the most important cereal crops. Wheat powdery mildew caused by Blumeria graminis f. sp. tritici (Bgt) is a continuing threat to wheat production. The Pm21 gene, originating from Dasypyrum villosum, confers high resistance to all known Bgt races and has been widely applied in wheat breeding in China. In this research, we identify Pm21 as a typical coiled-coil, nucleotide-binding site, leucine-rich repeat gene by an integrated strategy of resistance gene analog (RGA)-based cloning via comparative genomics, physical and genetic mapping, BSMV-induced gene silencing (BSMV-VIGS), large-scale mutagenesis and genetic transformation.

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An integrated strategy based on characteristic fragment filter supplemented by multivariate statistical analysis in multi-stage mass spectrometry chromatograms for the large-scale detection and identification of natural plant-derived components in rat: The rhubarb case

Journal of Pharmaceutical and Biomedical Analysis ◽

10.1016/j.jpba.2019.05.049 ◽

2019 ◽

Vol 174 ◽

pp. 89-103 ◽

Cited By ~ 1

Author(s):

Yang Xu ◽

Li Zhang ◽

Qing Wang ◽

Gan Luo ◽

Xiaoyan Gao

Keyword(s):

Mass Spectrometry ◽

Statistical Analysis ◽

Large Scale ◽

Multivariate Statistical ◽

Natural Plant ◽

Integrated Strategy ◽

Multi Stage ◽

Detection And Identification ◽

Characteristic Fragment ◽

Scale Detection

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FUT8 and Protein Core Fucosylation in Tumours: From Diagnosis to Treatment

Journal of Cancer ◽

10.7150/jca.58268 ◽

2021 ◽

Vol 12 (13) ◽

pp. 4109-4120

Author(s):

Chengcheng Liao ◽

Jiaxing An ◽

Suqin Yi ◽

Zhangxue Tan ◽

Hui Wang ◽

...

Keyword(s):

Protein Core ◽

Core Fucosylation

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Some comments about observations and image processing of comet 29P/Schwassmann-Wachmann 1

International Astronomical Union Colloquium ◽

10.1017/s0252921100031493 ◽

1999 ◽

Vol 173 ◽

pp. 243-248

Author(s):

D. Kubáček ◽

A. Galád ◽

A. Pravda

Keyword(s):

Image Processing ◽

Large Scale ◽

Harvard College ◽

Oak Ridge ◽

Large Scale Structures ◽

Short Period Comet ◽

Short Period ◽

Scale Structures ◽

Harvard College Observatory ◽

Period Comet

AbstractUnusual short-period comet 29P/Schwassmann-Wachmann 1 inspired many observers to explain its unpredictable outbursts. In this paper large scale structures and features from the inner part of the coma in time periods around outbursts are studied. CCD images were taken at Whipple Observatory, Mt. Hopkins, in 1989 and at Astronomical Observatory, Modra, from 1995 to 1998. Photographic plates of the comet were taken at Harvard College Observatory, Oak Ridge, from 1974 to 1982. The latter were digitized at first to apply the same techniques of image processing for optimizing the visibility of features in the coma during outbursts. Outbursts and coma structures show various shapes.

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Evolution of Large-Scale Coronal Structures

International Astronomical Union Colloquium ◽

10.1017/s0252921100024945 ◽

1994 ◽

Vol 144 ◽

pp. 29-33

Author(s):

P. Ambrož

Keyword(s):

Magnetic Field ◽

Field Line ◽

Large Scale ◽

Coronal Magnetic Field ◽

Source Surface ◽

Solar Cycles ◽

Characteristic Relationship ◽

The Magnetic Field ◽

Coronal Structures

AbstractThe large-scale coronal structures observed during the sporadically visible solar eclipses were compared with the numerically extrapolated field-line structures of coronal magnetic field. A characteristic relationship between the observed structures of coronal plasma and the magnetic field line configurations was determined. The long-term evolution of large scale coronal structures inferred from photospheric magnetic observations in the course of 11- and 22-year solar cycles is described.Some known parameters, such as the source surface radius, or coronal rotation rate are discussed and actually interpreted. A relation between the large-scale photospheric magnetic field evolution and the coronal structure rearrangement is demonstrated.

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Large-scale Motion of Solar Filaments

International Astronomical Union Colloquium ◽

10.1017/s0252921100064502 ◽

2000 ◽

Vol 179 ◽

pp. 205-208

Author(s):

Pavel Ambrož ◽

Alfred Schroll

Keyword(s):

Magnetic Flux ◽

Proper Motion ◽

Time Scale ◽

Large Scale ◽

Accuracy Of Measurements ◽

Solar Filaments ◽

General Movement ◽

Scale Motion ◽

Velocity Scatter

AbstractPrecise measurements of heliographic position of solar filaments were used for determination of the proper motion of solar filaments on the time-scale of days. The filaments have a tendency to make a shaking or waving of the external structure and to make a general movement of whole filament body, coinciding with the transport of the magnetic flux in the photosphere. The velocity scatter of individual measured points is about one order higher than the accuracy of measurements.

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Some applications of electron beam microanalysis techniques in VLSI process evaluation

Proceedings, annual meeting, Electron Microscopy Society of America ◽

10.1017/s042482010007463x ◽

1983 ◽

Vol 41 ◽

pp. 160-161

Author(s):

Simon Thomas

Keyword(s):

Integrated Circuits ◽

Process Evaluation ◽

Large Scale ◽

Technology Development ◽

Analytical Techniques ◽

Successful Implementation ◽

Analysis Of Failures ◽

Characterization Of Materials ◽

Circuits Vlsi

Trends in the technology development of very large scale integrated circuits (VLSI) have been in the direction of higher density of components with smaller dimensions. The scaling down of device dimensions has been not only laterally but also in depth. Such efforts in miniaturization bring with them new developments in materials and processing. Successful implementation of these efforts is, to a large extent, dependent on the proper understanding of the material properties, process technologies and reliability issues, through adequate analytical studies. The analytical instrumentation technology has, fortunately, kept pace with the basic requirements of devices with lateral dimensions in the micron/ submicron range and depths of the order of nonometers. Often, newer analytical techniques have emerged or the more conventional techniques have been adapted to meet the more stringent requirements. As such, a variety of analytical techniques are available today to aid an analyst in the efforts of VLSI process evaluation. Generally such analytical efforts are divided into the characterization of materials, evaluation of processing steps and the analysis of failures.

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