13 results on '"Yi Hsiang Chou"'
Search Results
2. Fast and Precise Positioning in PCBs Using Deep Neural Network Regression
- Author
-
Yi-Hsiang Chou and Du-Ming Tsai
- Subjects
Artificial neural network ,Computer science ,business.industry ,Template matching ,020208 electrical & electronic engineering ,Feature extraction ,Image registration ,Pattern recognition ,Image processing ,02 engineering and technology ,Convolutional neural network ,Support vector machine ,Multilayer perceptron ,0202 electrical engineering, electronic engineering, information engineering ,Artificial intelligence ,Electrical and Electronic Engineering ,business ,Instrumentation - Abstract
Precision positioning is a very important task for automatic assembly and inspection in the manufacturing process. The conventional image processing for image alignment has relied on template matching, which is computationally intensive for objects in arbitrary locations and orientations. In this article, we propose the deep neural network regressors for fast and accurate image alignment. They are especially applied to the positioning of printed circuit boards (PCBs). The simple multilayer perceptron (MLP), the convolutional neural network (CNN), and the CNN models incorporated with support vector regression (SVR) are proposed and evaluated for the PCB positioning task. The proposed deep neural networks require only one single reference sample with a manually marked template window. All training images and the ground-truth geometric parameters are automatically generated for the model training. The effect of illumination changes and the strategies to cope with lighting variations are analyzed and proposed for robust positioning. Experimental results indicate that the proposed regressors can achieve a subpixel accuracy in translation and yield a rotation error less than 1° with 1-ms evaluation time for PCB positioning.
- Published
- 2020
3. A homology model of Xyloglucan Xylosyltransferase 2 reveals critical amino acids involved in substrate binding
- Author
-
Adrienne L. Smith, Alan T. Culbertson, Daniel Tietze, Olga A. Zabotina, Yi-Hsiang Chou, Alesia A. Tietze, and Zachary T. Young
- Subjects
Models, Molecular ,0106 biological sciences ,0301 basic medicine ,Protein Conformation ,Mutant ,Arabidopsis ,01 natural sciences ,Biochemistry ,Substrate Specificity ,Cell wall ,03 medical and health sciences ,chemistry.chemical_compound ,Biosynthesis ,Cell Wall ,Catalytic Domain ,Amino Acid Sequence ,Pentosyltransferases ,Homology modeling ,Amino Acids ,Glucans ,chemistry.chemical_classification ,Binding Sites ,Amino acid ,Xyloglucan ,030104 developmental biology ,Enzyme ,chemistry ,Structural Homology, Protein ,Mutagenesis, Site-Directed ,Xylans ,Heterologous expression ,Protein Binding ,010606 plant biology & botany - Abstract
In dicotyledonous plants, xyloglucan (XyG) is the most abundant hemicellulose of the primary cell wall. The enzymes involved in XyG biosynthesis have been identified through reverse-genetics and activity was characterized by heterologous expression. Currently, there is no information on the atomic structures or amino acids involved in activity or substrate binding of any of the Golgi-localized XyG biosynthetic enzymes. A homology model of the xyloglucan xylosyltransferase 2 (XXT2) catalytic domain was built on the basis of the crystal structure of A64Rp. Molecular dynamics simulations revealed that the homology model retains the glycosyltransferase (GT)-A fold of the template structure used to build the homology model indicating that XXT2 likely has a GT-A fold. According to the XXT2 homology model, six amino acids (Phe204, Lys207, Asp228, Ser229, Asp230, His378) were selected and their contribution in catalytic activity was investigated. Site-directed mutagenesis studies show that Asp228, Asp230 and His378 are critical for XXT2 activity and are predicted to be involved in coordination of manganese ion. Lys207 was also found to be critical for protein activity and the homology model indicates a critical role in substrate binding. Additionally, Phe204 mutants have less of an impact on XXT2 activity with the largest effect when replaced with a polar residue. This is the first study that investigates the amino acids involved in substrate binding of the XyG-synthesizing xylosyltransferases and contributes to the understanding of the mechanisms of polysaccharide-synthesizing GTs and XyG biosynthesis.
- Published
- 2016
4. New insights into the functional organization of xyloglucan biosynthetic enzymes and their catalytic mechanism
- Author
-
Yi-Hsiang Chou
- Subjects
Xyloglucan ,Cell wall ,Bimolecular fluorescence complementation ,chemistry.chemical_compound ,chemistry ,Biochemistry ,Mechanism (biology) ,Glycosyltransferase ,biology.protein ,Biology ,Biosynthetic enzyme ,Protein–protein interaction ,Catalysis - Published
- 2018
5. Mutations in Multiple XXT Genes of Arabidopsis Reveal the Complexity of Xyloglucan Biosynthesis
- Author
-
Sivakumar Pattathil, Olga A. Zabotina, Kenneth Keegstra, Michael G. Hahn, David Cavalier, Linda Danhof, Yi Hsiang Chou, Stefan Eberhard, and Utku Avci
- Subjects
chemistry.chemical_classification ,Physiology ,Mutant ,Plant Science ,Biology ,biology.organism_classification ,Glycome ,Xyloglucan ,Cell wall ,chemistry.chemical_compound ,chemistry ,Biochemistry ,Arabidopsis ,Gene expression ,Genetics ,Gene ,Glucan - Abstract
Xyloglucan is an important hemicellulosic polysaccharide in dicot primary cell walls. Most of the enzymes involved in xyloglucan synthesis have been identified. However, many important details of its synthesis in vivo remain unknown. The roles of three genes encoding xylosyltransferases participating in xyloglucan biosynthesis in Arabidopsis (Arabidopsis thaliana) were further investigated using reverse genetic, biochemical, and immunological approaches. New double mutants (xxt1 xxt5 and xxt2 xxt5) and a triple mutant (xxt1 xxt2 xxt5) were generated, characterized, and compared with three single mutants and the xxt1 xxt2 double mutant that had been isolated previously. Antibody-based glycome profiling was applied in combination with chemical and immunohistochemical analyses for these characterizations. From the combined data, we conclude that XXT1 and XXT2 are responsible for the bulk of the xylosylation of the glucan backbone, and at least one of these proteins must be present and active for xyloglucan to be made. XXT5 plays a significant but as yet uncharacterized role in this process. The glycome profiling data demonstrate that the lack of detectable xyloglucan does not cause significant compensatory changes in other polysaccharides, although changes in nonxyloglucan polysaccharide amounts cannot be ruled out. Structural rearrangements of the polysaccharide network appear responsible for maintaining wall integrity in the absence of xyloglucan, thereby allowing nearly normal plant growth in plants lacking xyloglucan. Finally, results from immunohistochemical studies, combined with known information about expression patterns of the three genes, suggest that different combinations of xylosyltransferases contribute differently to xyloglucan biosynthesis in the various cell types found in stems, roots, and hypocotyls.
- Published
- 2012
6. Protein-protein interactions among xyloglucan-synthesizing enzymes and formation of Golgi-localized multiprotein complexes
- Author
-
Olga A. Zabotina, Gennady Pogorelko, Yi-Hsiang Chou, and Zachary T. Young
- Subjects
Multiprotein complex ,Fucosyltransferase ,Physiology ,Arabidopsis ,Golgi Apparatus ,Plant Science ,Fluorescence ,Protein–protein interaction ,Bimolecular fluorescence complementation ,chemistry.chemical_compound ,symbols.namesake ,Catalytic Domain ,Protein Interaction Mapping ,Arabidopsis thaliana ,Immunoprecipitation ,Glucans ,biology ,Chemistry ,Arabidopsis Proteins ,Protoplasts ,Cell Biology ,General Medicine ,Golgi apparatus ,biology.organism_classification ,Galactosyltransferases ,Xyloglucan ,Protein Subunits ,Biochemistry ,Multiprotein Complexes ,biology.protein ,symbols ,Xylans ,Protein Binding - Abstract
Arabidopsis thaliana xyloglucan has an XXXG structure, with branches of xylosyl residues, β-D-galacosyl-(1,2)-α-d-xylosyl motifs and fucosylated β-D-galactosyl-(1,2)-α-D-xylosyl motifs. Most of the enzymes involved in xyloglucan biosynthesis in Arabidopsis have been identified, including the glucan synthase CSLC4 (cellulose synthase-like C4), three xylosyltransferases (XXT1, XXT2 and XXT5), two galactosyltransferases (MUR3 and XLT2) and the fucosyltransferase FUT1. The XXTs and CSLC4 form homo- and heterocomplexes and were proposed to co-localize in the same complex, but the organization of the other xyloglucan-synthesizing enzymes remains unclear. Here we investigate whether the glycosyltransferases MUR3, XLT2 and FUT1 interact with the XXT-CSLC4 complexes in the Arabidopsis Golgi. We used co-immunoprecipitation and bimolecular fluorescence complementation, with signal quantification by flow cytometry, to demonstrate that CSLC4 interacts with MUR3, XLT2 and FUT1. FUT1 forms homocomplexes and interacts with MUR3, XLT2, XXT2 and XXT5. XLT2 interacts with XXT2 and XXT5, but MUR3 does not. Co-immunoprecipitation assays showed that FUT1 forms a homocomplex through disulfide bonds, and formation of the heterocomplexes does not involve covalent interactions. In vitro pull-down assays indicated that interactions in the FUT1-MUR3 and FUT1-XXT2 complexes occur through the protein catalytic domains. We propose that enzymes involved in xyloglucan biosynthesis are functionally organized in multiprotein complexes localized in the Golgi.
- Published
- 2014
7. Xyloglucan xylosyltransferases XXT1, XXT2, and XXT5 and the glucan synthase CSLC4 form Golgi-localized multiprotein complexes
- Author
-
Olga A. Zabotina, Yi-Hsiang Chou, and Gennady Pogorelko
- Subjects
Multiprotein complex ,Physiology ,Recombinant Fusion Proteins ,Immunoblotting ,Arabidopsis ,Biochemical Processes and Macromolecular Structures ,Golgi Apparatus ,Plant Science ,Cell wall ,chemistry.chemical_compound ,symbols.namesake ,Bimolecular fluorescence complementation ,Genetics ,Arabidopsis thaliana ,Immunoprecipitation ,Pentosyltransferases ,Golgi membrane ,biology ,Arabidopsis Proteins ,Protoplasts ,Golgi apparatus ,biology.organism_classification ,Flow Cytometry ,Xyloglucan ,Protein Transport ,chemistry ,Biochemistry ,Microscopy, Fluorescence ,Glucosyltransferases ,Multiprotein Complexes ,symbols ,Protein Multimerization ,Plasmids ,Protein Binding - Abstract
Xyloglucan is the major hemicellulosic polysaccharide in the primary cell walls of most vascular dicotyledonous plants and has important structural and physiological functions in plant growth and development. In Arabidopsis (Arabidopsis thaliana), the 1,4-β-glucan synthase, Cellulose Synthase-Like C4 (CSLC4), and three xylosyltransferases, XXT1, XXT2, and XXT5, act in the Golgi to form the xylosylated glucan backbone during xyloglucan biosynthesis. However, the functional organization of these enzymes in the Golgi membrane is currently unknown. In this study, we used bimolecular fluorescence complementation and in vitro pull-down assays to investigate the supramolecular organization of the CSLC4, XXT1, XXT2, and XXT5 proteins in Arabidopsis protoplasts. Quantification of bimolecular fluorescence complementation fluorescence by flow cytometry allowed us to perform competition assays that demonstrated the high probability of protein-protein complex formation in vivo and revealed differences in the abilities of these proteins to form multiprotein complexes. Results of in vitro pull-down assays using recombinant proteins confirmed that the physical interactions among XXTs occur through their catalytic domains. Additionally, coimmunoprecipitation of XXT2YFP and XXT5HA proteins from Arabidopsis protoplasts indicated that while the formation of the XXT2-XXT2 homocomplex involves disulfide bonds, the formation of the XXT2-XXT5 heterocomplex does not involve covalent interactions. The combined data allow us to propose that the proteins involved in xyloglucan biosynthesis function in a multiprotein complex composed of at least two homocomplexes, CSLC4-CSLC4 and XXT2-XXT2, and three heterocomplexes, XXT2-XXT5, XXT1-XXT2, and XXT5-CSLC4.
- Published
- 2012
8. Thermal-driven white space redistribution for block-level floorplans
- Author
-
Herming Chiueh, Yi-Hsiang Chou, Shun-Hua Lin, Jin-Tai Yan, and Zhi-Wei Chen
- Subjects
Engineering ,Mathematical optimization ,Iterative method ,business.industry ,CPU time ,Hardware_PERFORMANCEANDRELIABILITY ,Solid modeling ,Integrated circuit layout ,Floorplan ,Computer Science::Hardware Architecture ,Thermal conductivity ,White spaces ,Thermal ,Hardware_INTEGRATEDCIRCUITS ,business ,Algorithm - Abstract
Given an LB-compact floorplan, a 3D block-level thermal model is firstly proposed to calculate the temperature of each circuit block in reasonable time. Furthermore, based on the temperature calculation in the proposed 3D block-level thermal model and the final floorplan region, an iterative approach is proposed to reduce the final floorplan temperature by inserting or redistribution the feasible white space. The experimental results show that our proposed iterative approach obtains very promising temperature reduction in reasonable CPU time for MCNC benchmarks.
- Published
- 2008
9. Packing-driven sliceable transformation for 3D floorplan designs
- Author
-
Jin-Tai Yan, Yi-Hsiang Chou, Yue-Fong Luo, and Chih-Wei Chen
- Subjects
Very-large-scale integration ,Computer science ,Hardware_INTEGRATEDCIRCUITS ,Algorithm design ,Electronic design automation ,Hardware_PERFORMANCEANDRELIABILITY ,Parallel computing ,Routing (electronic design automation) ,Integrated circuit layout ,Slicing ,Floorplan ,Block (data storage) - Abstract
Given a 3D non-slicing floorplan, based on the property of packing-driven ordering in the floorplan, all the blocks can be ordered as a block list. Furthermore, according to the maintenance of a dynamic sliceable floorplan, any 3D non-slicing floorplan can be transformed into a 3D slicing floorplan by shifting the related blocks to minimize the final floorplan volume. The experimental results show the proposed approach is more effective than the modified FTP-1 algorithm. Clearly, the proposed approach can serve as a post-processing phase for other non-slicing floorplan algorithms.
- Published
- 2008
10. A homology model of Xyloglucan Xylosyltransferase 2 reveals critical amino acids involved in substrate binding.
- Author
-
Culbertson, Alan T., Tietze, Alesia A., Tietze, Daniel, Yi-Hsiang Chou, Smith, Adrienne L., Young, Zachary T., and Zabotina, Olga A.
- Subjects
HOMOLOGY (Biology) ,XYLOGLUCANS ,AMINO acid amides ,PLANT proteins ,PLANT immunology ,REACTIVE oxygen species - Abstract
In dicotyledonous plants, xyloglucan (XyG) is the most abundant hemicellulose of the primary cell wall. The enzymes involved in XyG biosynthesis have been identified through reverse-genetics and activity was characterized by heterologous expression. Currently, there is no information on the atomic structures or amino acids involved in activity or substrate binding of any of the Golgilocalized XyG biosynthetic enzymes. A homology model of the xyloglucan xylosyltransferase 2 (XXT2) catalytic domain was built on the basis of the crystal structure of A64Rp. Molecular dynamics simulations revealed that the homology model retains the glycosyltransferase (GT)-A fold of the template structure used to build the homology model indicating that XXT2 likely has a GT-A fold. According to the XXT2 homology model, six amino acids (Phe204, Lys207, Asp228, Ser229, Asp230, His378) were selected and their contribution in catalytic activity was investigated. Sitedirected mutagenesis studies show that Asp228, Asp230 and His378 are critical for XXT2 activity and are predicted to be involved in coordination of manganese ion. Lys207 was also found to be critical for protein activity and the homology model indicates a critical role in substrate binding. Additionally, Phe204 mutants have less of an impact on XXT2 activity with the largest effect when replaced with a polar residue. This is the first study that investigates the amino acids involved in substrate binding of the XyG-synthesizing xylosyltransferases and contributes to the understanding of the mechanisms of polysaccharide-synthesizing GTs and XyG biosynthesis. [ABSTRACT FROM AUTHOR]
- Published
- 2016
- Full Text
- View/download PDF
11. Enzymatic Activity of Xyloglucan Xylosyltransferase 5.
- Author
-
Culbertson, Alan T., Yi-Hsiang Chou, Smith, Adrienne L., Young, Zachary T., Tietze, Alesia A., Cottaz, Sylvain, Fauré, Régis, and Zabotina, Olga A.
- Abstract
Xyloglucan, the most abundant hemicellulosic component of the primary cell wall of flowering plants, is composed of a β-(1,4)-glucan backbone decorated with d-xylosyl residues. Three xyloglucan xylosyltransferases (XXTs) participate in xyloglucan biosynthesis in Arabidopsis (Arabidopsis thaliana). Two of these, XXT1 and XXT2, have been shown to be active in vitro, whereas the catalytic activity of XXT5 has yet to be demonstrated. By optimizing XXT2 expression in a prokaryotic system and in vitro activity assay conditions, we demonstrate that nonglycosylated XXT2 lacking its cytosolic amino-terminal and transmembrane domain displays high catalytic activity. Using this optimized procedure for the expression of XXT5, we report, to our knowledge for the first time, that recombinant XXT5 shows enzymatic activity in vitro, although at a significantly slower rate than XXT1 and XXT2. Kinetic analysis showed that XXT5 has a 7-fold higher Km and 9-fold lower kcat compared with XXT1 and XXT2. Activity assays using XXT5 in combination with XXT1 or XXT2 indicate that XXT5 is not specific for their products. In addition, mutagenesis experiments showed that the in vivo function and in vitro catalytic activity of XXT5 require the aspartate-serine-aspartate motif. These results demonstrate that XXT5 is a catalytically active xylosyltransferase involved in xylosylation of the xyloglucan backbone. [ABSTRACT FROM AUTHOR]
- Published
- 2016
- Full Text
- View/download PDF
12. Xyloglucan Xylosyltransferases XXT1, XXT2, and XXT5 and the Glucan Synthase CSLC4 Form Golgi-Localized Multiprotein Complexes1[W][OA].
- Author
-
Yi Hsiang Chou, Pogorelko, Gennady, and Zabotina, Olga A.
- Subjects
- *
XYLOGLUCANS , *GLUCANS , *GLUCAN synthase , *GOLGI apparatus , *PLANT physiology , *ARABIDOPSIS thaliana , *PHYSIOLOGY - Abstract
Xyloglucan is the major hemicellulosic polysaccharide in the primary cell walls of most vascular dicotyledonous plants and has important structural and physiological functions in plant growth and development. In Arabidopsis (Ambidopsis thaliana), the 1,4-β-glucan synthase, Cellulose Synthase-Like C4 (CSLC4), and three xylosyltransferases, XXT1, XXT2, and XXT5, act in the Golgi to form the xylosylated glucan backbone during xyloglucan biosynthesis. However, the functional organization of these enzymes in the Golgi membrane is currently unknown. In this study, we used bimolecular fluorescence complementation and in vitro pull-down assays to investigate the supramolecular organization of the CSLC4, XXT1, XXT2, and XXT5 proteins in Arabidopsis protoplasts. Quantification of bimolecular fluorescence complementation fluorescence by flow cytometry allowed us to perform competition assays that demonstrated the high probability of protein-protein complex formation in vivo and revealed differences in the abilities of these proteins to form multiprotein complexes. Results of in vitro pull-down assays using recombinant proteins confirmed that the physical interactions among XXTs occur through their catalytic domains. Additionally, coimmunoprecipitation of XXT2YFP and XXT5HA proteins from Arabidopsis protoplasts indicated that while the formation of the XXT2-XXT2 homocomplex involves disulfide bonds, the formation of the XXT2-XXT5 heterocomplex does not involve covalent interactions. The combined data allow us to propose that the proteins involved in xyloglucan biosynthesis function in a multiprotein complex composed of at least two homocomplexes, CSLC4-CSLC4 and XXT2-XXT2, and three heterocomplexes, XXT2-XXT5, XXT1-XXT2, and XXT5-CSLC4. [ABSTRACT FROM AUTHOR]
- Published
- 2012
- Full Text
- View/download PDF
13. Xyloglucan Xylosyltransferases XXT1, XXT2, and XXT5 and the Glucan Synthase CSLC4 Form Golgi-Localized Multiprotein Complexes1[W][OA].
- Author
-
Yi Hsiang Chou, Pogorelko, Gennady, and Zabotina, Olga A.
- Subjects
XYLOGLUCANS ,GLUCANS ,GLUCAN synthase ,GOLGI apparatus ,PLANT physiology ,ARABIDOPSIS thaliana ,PHYSIOLOGY - Abstract
Xyloglucan is the major hemicellulosic polysaccharide in the primary cell walls of most vascular dicotyledonous plants and has important structural and physiological functions in plant growth and development. In Arabidopsis (Ambidopsis thaliana), the 1,4-β-glucan synthase, Cellulose Synthase-Like C4 (CSLC4), and three xylosyltransferases, XXT1, XXT2, and XXT5, act in the Golgi to form the xylosylated glucan backbone during xyloglucan biosynthesis. However, the functional organization of these enzymes in the Golgi membrane is currently unknown. In this study, we used bimolecular fluorescence complementation and in vitro pull-down assays to investigate the supramolecular organization of the CSLC4, XXT1, XXT2, and XXT5 proteins in Arabidopsis protoplasts. Quantification of bimolecular fluorescence complementation fluorescence by flow cytometry allowed us to perform competition assays that demonstrated the high probability of protein-protein complex formation in vivo and revealed differences in the abilities of these proteins to form multiprotein complexes. Results of in vitro pull-down assays using recombinant proteins confirmed that the physical interactions among XXTs occur through their catalytic domains. Additionally, coimmunoprecipitation of XXT2YFP and XXT5HA proteins from Arabidopsis protoplasts indicated that while the formation of the XXT2-XXT2 homocomplex involves disulfide bonds, the formation of the XXT2-XXT5 heterocomplex does not involve covalent interactions. The combined data allow us to propose that the proteins involved in xyloglucan biosynthesis function in a multiprotein complex composed of at least two homocomplexes, CSLC4-CSLC4 and XXT2-XXT2, and three heterocomplexes, XXT2-XXT5, XXT1-XXT2, and XXT5-CSLC4. [ABSTRACT FROM AUTHOR]
- Published
- 2012
- Full Text
- View/download PDF
Catalog
Discovery Service for Jio Institute Digital Library
For full access to our library's resources, please sign in.