19 results on '"Faik, Ahmed"'
Search Results
2. Review: Plant cell wall biochemical omics: The high-throughput biochemistry for polysaccharide biosynthesis.
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Faik, Ahmed and Held, Michael
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PLANT cell walls , *BIOCHEMISTRY , *BIOSYNTHESIS , *BOTANICAL chemistry , *PROTEIN microarrays , *ANALYTICAL chemistry - Abstract
• Biochemistry of plant cell wall biosynthesis lacks high-throughput methods. • Overview of new high-throughput technologies to benefit plant cell wall biosynthesis. • Use of protein array technology in enzyme assays and protein–protein interaction. • Adapting recent advances in analytical chemistry for rapid product identification. Progress in the functional biochemical analysis of plant glycosyltransferases (GTs) has been slow because plant GTs are generally membrane proteins, operate as part of larger, multimeric complexes, and utilize a vast complexity of substrate acceptors. Therefore, the field would benefit from development of adequate high throughput expression as well as product detection and characterization techniques. Here we review current approaches to tackle such obstacles and suggest a new path forward: nucleic acid programmable protein arrays (NAPPA) with liquid sample desorption ionization (LS-DESI-MS) mass spectrometry. NAPPA utilizes in vitro transcription and translation to produce epitope-tagged fusion proteins from cloned GT cDNAs. LS-DESI is a soft ionization technique that allows rapid and sensitive MS-based product characterization in situ. Coupling both approaches provides the opportunity to examine individual GT functions as well as protein–protein interactions. Furthermore, advances in automated oligosaccharide synthesis and lipid nanodisc technology should allow testing of plant GT activity in presence of numerous substrate acceptors and lipid environments in a high throughput fashion. Thus, NAPPA-DESI-MS has great potential to make headway in biochemical characterization of the large number of plant GTs. [ABSTRACT FROM AUTHOR]
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- 2019
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3. Supercritical carbon dioxide pretreatment of corn stover and switchgrass for lignocellulosic ethanol production
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Narayanaswamy, Naveen, Faik, Ahmed, Goetz, Douglas J., and Gu, Tingyue
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CARBON dioxide , *CORN , *SWITCHGRASS , *LIGNOCELLULOSE , *ETHANOL , *BIOMASS , *GLUCOSE , *ENZYMES , *HYDROLYSIS , *X-ray diffraction , *SCANNING electron microscopy - Abstract
Abstract: Supercritical CO2 (SC-CO2), a green solvent suitable for a mobile lignocellulosic biomass processor, was used to pretreat corn stover and switchgrass at various temperatures and pressures. The CO2 pressure was released as quickly as possible by opening a quick release valve during the pretreatment. The biomass was hydrolyzed after pretreatment using cellulase combined with β-glucosidase. The hydrolysate was analyzed for the amount of glucose released. Glucose yields from corn stover samples pretreated with SC-CO2 were higher than the untreated sample’s 12% glucose yield (12g/100g dry biomass) and the highest glucose yield of 30% was achieved with SC-CO2 pretreatment at 3500psi and 150°C for 60min. The pretreatment method showed very limited improvement (14% vs. 12%) in glucose yield for switchgrass. X-ray diffraction results indicated no change in crystallinity of the SC-CO2 treated corn stover when compared to the untreated, while SEM images showed an increase in surface area. [Copyright &y& Elsevier]
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- 2011
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4. Xylan Biosynthesis: News from the Grass.
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Faik, Ahmed
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XYLANS , *BIOSYNTHESIS , *GRASSES , *PLANT cell walls , *POLYSACCHARIDES , *HEMICELLULOSE , *PLANT polymers - Abstract
The article focuses on xylan biosynthesis in grasses. It mentions that xylan is one plant cell wall polysaccharide that plays a role in the well-being of a person. Unique features of xylans from grasses are given which include the presence of Xyl-arabinofuranosyl side chains and feruloyl groups on the C-5 position of Araf residues. It concludes that a cooperative mechanism is likely used by plant cells to synthesize several hemicellulosic polymers in primary cell walls.
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- 2010
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5. An Arabidopsis gene encoding an α-xylosyltransferase involved in xyloglucan biosynthesis.
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Faik, Ahmed, Price, Nicholas J., Raikhel, Natasha V., and Keegstra, Kenneth
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ARABIDOPSIS , *GENES , *BIOSYNTHESIS - Abstract
Examines the role of an Arabidopsis gene encoding an α-xylosyltransferase on xyloglucan biosynthesis. Importance of microsomal membranes on the formation of xyloglucan; Presence of cello-oligosaccharide-dependent xylosyltransferase activity; Characterization of the radiolabeled products.
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- 2002
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6. A plant surface protein sharing structural properties with animal integrins.
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Faik, Ahmed, Labouré, Anne Marie, Gulino, Danielle, Mandaron, Paul, and Falconet, Denis
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PROTOPLASTS , *MONOCLONAL antibodies , *IMMUNOGLOBULINS - Abstract
Using a polyclonal antibody (P23) generated against the human platelet integrin αIIbβ3 and a FITC-conjugate secondary antibody, fluorescence is observed at the surface of protoplasts isolated from Arabidopsis thaliana and Rubus fruticosus. Arabidopsis thaliana cells grown in suspension culture containing P23 and glycylarginylglycylaspartylserine (GRGDS), a synthetic peptide containing the RGD sequence found in many extracellular matrix adhesive proteins demonstrated aberrant cell wall/plasma membrane interactions and organization. When glycoproteins from these plants, purified on a concanavalin A Sepharose 4B, were subjected to SDS/PAGE and Western blotting, under reduced and non-reduced conditions, immunoblots probed with P23 revealed bands in both species. A shift in electrophoretic mobility is observed to different apparent molecular mass when no reducing agent is present. When purified by immunoaffinity chromatography on anti-αIIbβ3 Sepharose or Sepharose linked to the synthetic peptide D-Arg-Gly-Asp-Trp, the major antigenic components detected migrate at 30 kDa and 60 kDa in the first experiment and 60 kDa in the second one. Only the 60-kDa component is immunodetected with antibodies specific for either the β3 platelet chain or the αIIb polypeptide, suggesting the presence of two polypeptides co-migrating. To address more precisely the structure of this complex in plants, competition assays were performed. A significant inhibition is observed with CS3 a monoclonal antibody that interacts with the complexed form αIIbβ3 but not the dissociated subunits. Further structural similarities with the animal αIIbβ3 complex is demonstrated with Western blotting detection after plant glycoproteins immunoprecipitation with CS3 in absence or presence of 5 mM EDTA to dissociate the complex. We also present data on the characterization of a polyclonal antibody, named AcAt2, raised against Arabidopsis glycocoproteins... [ABSTRACT FROM AUTHOR]
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- 1998
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7. Specific protein interactions between rice members of the GT43 and GT47 families form various central cores of putative xylan synthase complexes.
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Javaid, Tasleem, Bhattarai, Matrika, Venkataraghavan, Akshayaa, Held, Michael, and Faik, Ahmed
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PROTEIN-protein interactions , *ENERGY crops , *AGRICULTURAL productivity , *CONFOCAL microscopy , *GENE regulatory networks , *RICE - Abstract
SUMMARY: Members of the glycosyltransferase (GT)43 and GT47 families have been associated with heteroxylan synthesis in both dicots and monocots and are thought to assemble into central cores of putative xylan synthase complexes (XSCs). Currently, it is unknown whether protein–protein interactions within these central cores are specific, how many such complexes exist, and whether these complexes are functionally redundant. Here, we used gene association network and co‐expression approaches in rice to identify four OsGT43s and four OsGT47s that assemble into different GT43/GT47 complexes. Using two independent methods, we showed that (i) these GTs assemble into at least six unique complexes through specific protein–protein interactions and (ii) the proteins interact directly in vitro. Confocal microscopy showed that, when alone, all OsGT43s were retained in the endoplasmic reticulum (ER), while all OsGT47s were localized in the Golgi. co‐expression of OsGT43s and OsGT47s displayed complexes that form in the ER but accumulate in Golgi. ER‐to‐Golgi trafficking appears to require interactions between OsGT43s and OsGT47s. Comparison of the central cores of the three putative rice OsXSCs to wheat, asparagus, and Arabidopsis XSCs, showed great variation in GT43/GT47 combinations, which makes the identification of orthologous central cores between grasses and dicots challenging. However, the emerging picture is that all central cores from these species seem to have at least one member of the IRX10/IRX10‐L clade in the GT47 family in common, suggesting greater functional importance for this family in xylan synthesis. Our findings provide a new framework for future investigation of heteroxylan biosynthesis and function in monocots. Significance Statement: Our findings support the presence of at least three unique rice OsXSCs, whereby each OsXSC central core is made up of interactions between specific OsGT43 and OsGT47 family members. To effectively improve crops and biofuel production, manipulation of heteroxylan synthesis during plant development must consider the specificity of protein–protein interactions between GT43s and GT47s. [ABSTRACT FROM AUTHOR]
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- 2024
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8. Streamlining assays of glycosyltransferases activity using in vitro GT-array (i-GT-ray) platform: Application to family GT37 fucosyltransferases.
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Bhattarai, Matrika, Qi Wang, Javaid, Tasleem, Venkataraghavan, Akshayaa, Al Hassan, Md Tanim, O'Neill, Malcolm, Li Tan, Hao Chen, and Faik, Ahmed
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FUCOSYLTRANSFERASES , *GLYCOSYLTRANSFERASES , *POLYSACCHARIDES , *PROTEIN synthesis , *DNA antibodies - Abstract
Numerous putative glycosyltransferases (GTs) have been identified using bioinformatic approaches. However, demonstrating the activity of these GTs remains a challenge. Here, we describe the development of a rapid in vitro GT-array screening platform for activity of GTs. GT-arrays are generated by cell-free in vitro protein synthesis and binding using microplates precoated with a N-terminal Halo- or a C-terminal GST-tagged GT-encoding plasmid DNA and a capture antibody. These arrays are then used for screening of transferase activities and the reactions are monitored by a luminescence GLO assay. The products formed by these reactions can be analyzed directly from the microplates by mass spectrometry. Using this platform, a total of 280 assays were performed to screen 22 putative fucosyltransferases (FUTs) from family GT37 (seven from Arabidopsis and 15 from rice) for activity toward five acceptors: non-fucosylated tamarind xyloglucan (TXyG), arabinotriose (Ara3), non-fucosylated rhamnogalacturonan I (RG-I), and RG-II from the mur1-1 Arabidopsis mutant, and the celery RG-II monomer lacking Arap and MeFuc of chain B and L-Gal of chain A. Our screen showed that AtFUT2, AtFUT5, and AtFUT10 have activity toward RG-I, while AtFUT8 was active on RG-II. Five rice OsFUTs have XyG-FUT activity and four rice OsFUTs have activity toward Ara3. None of the putative OsFUTs were active on the RG-I and RG-II. However, promiscuity toward acceptors was observed for several FUTs. These findings extend our knowledge of cell wall polysaccharide fucosylation in plants. We believe that in vitro GT-array platform provides a valuable tool for cell wall biochemistry and other research fields. [ABSTRACT FROM AUTHOR]
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- 2024
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9. PlantNexus: A Gene Co-expression Network Database and Visualization Tool for Barley and Sorghum.
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Zhou, Yadi, Sukul, Abhijit, Mishler-Elmore, John W, Faik, Ahmed, and Held, Michael A
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GENE regulatory networks , *BARLEY , *FUNCTIONAL genomics , *VISUALIZATION , *SORGHUM , *DATABASES - Abstract
Global gene co-expression networks (GCNs) are powerful tools for functional genomics whereby putative functions and regulatory mechanisms can be inferred by gene co-expression. Cereal crops, such as Hordeum vulgare (barley) and Sorghum bicolor (sorghum), are among the most important plants to civilization. However, co-expression network tools for these plants are lacking. Here, we have constructed global GCNs for barley and sorghum using existing RNA-seq data sets. Meta-information was manually curated and categorized by tissue type to also build tissue-specific GCNs. To enable GCN searching and visualization, we implemented a website and database named PlantNexus. PlantNexus is freely available at https://plantnexus.ohio.edu/. [ABSTRACT FROM AUTHOR]
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- 2022
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10. UDP-Xylose-Stimulated Glucuronyltransferase Activity in Wheat Microsomal Membranes: Characterization and Role in Glucurono(arabino)xylan Biosynthesis.
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Wei Zeng, Chatterjee, Mohor, and Faik, Ahmed
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WHEAT , *GLUCURONIC acid , *MICROSOMES , *BIOSYNTHESIS , *ASPERGILLUS - Abstract
Microsomal membranes from etiolated wheat (Triticum aestivum) seedlings cooperatively incorporated xylose (Xyl), arabinose, and glucuronic acid residues from their corresponding uridine 5′-diphosphosugars into an ethanol-insoluble glucurono(arabino)xylan (GAX)-like product. A glucuronyltransferase activity that is enhanced by the presence of UDP-Xyl was also identified in these microsomes. Wheat glucuronyltransferase activity was optimal at pH 7 and required manganese ions, and several lines of evidence suggest its involvement in GAX-like biosynthesis. The GAX characteristics of the 14C-product were confirmed by digestion with a purified endo-xylanase from Aspergillus awamori (endo-xylanase III) and by total acid hydrolysis, resulting in a Xyl:arabinose:glucuronic acid molar ratio of approximately 105:34:1. Endoxylanase III released only three types of oligosaccharides in addition to free Xyl. No radiolabel was released as xylobiose, xylotriose, or xylotetraose, indicating the absence of long stretches of unbranched Xyl residues in the nascent GAX-like product. High-pH anion exchange chromatography analysis of the resulting oligosaccharides along with known arabinoxylan oligosaccharide standards suggests that a portion of the nascent GAX-like product has a relatively regular structure. The other portion of the [14C]GAX-like polymer was resistant to proteinase K, endo-polygalacturonase, and endo-xylanase III (GH11 family) but was degraded by Driselase, supporting the hypothesis that the xylan backbone in this portion of the product is most likely highly substituted. Size exclusion chromatography indicated that the nascent GAX-like polymer had an apparent molecular mass of approximately 10 to 15 kD; however, mature GAXs from wheat cell walls had larger apparent molecular masses (>66 kD). [ABSTRACT FROM AUTHOR]
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- 2008
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11. Composition, Assembly, and Trafficking of a Wheat Xylan Synthase Complex.
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Nan Jiang, Wiemels, Richard E., Soya, Aaron, Whitley, Rebekah, Held, Michael, and Faik, Ahmed
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CHEMICAL composition of plants , *WHEAT , *XYLANS , *PLANT cell walls , *BIOSYNTHESIS , *COMPLEX compounds , *SYNTHASES - Abstract
Xylans play an important role in plant cell wall integrity and have many industrial applications. Characterization of xylan synthase (XS) complexes responsible for the synthesis of these polymers is currently lacking. We recently purified XS activity from etiolated wheat (Triticum aestivum) seedlings. To further characterize this purified activity, we analyzed its protein composition and assembly. Proteomic analysis identified six main proteins: two glycosyltransferases (GTs) TaGT43-4 and TaGT47-13; two putative mutases (TaGT75-3 and TaGT75-4) and two non-GTs; a germin-like protein (TaGLP); and a vernalization related protein (TaVER2). Coexpression of TaGT43-4, TaGT47-13, TaGT75-3, and TaGT75-4 in Pichia pastoris confirmed that these proteins form a complex. Confocal microscopy showed that all these proteins interact in the endoplasmic reticulum (ER) but the complexes accumulate in Golgi, and TaGT43-4 acts as a scaffold protein that holds the other proteins. Furthermore, ER export of the complexes is dependent of the interaction between TaGT43-4 and TaGT47-13. Immunogold electron microscopy data support the conclusion that complex assembly occurs at specific areas of the ER before export to the Golgi. A di-Arg motif and a long sequence motif within the transmembrane domains were found conserved at the NH2-terminal ends of TaGT43-4 and homologous proteins from diverse taxa. These conserved motifs may control the forward trafficking of the complexes and their accumulation in the Golgi. Our findings indicate that xylan synthesis in grasses may involve a new regulatory mechanism linking complex assembly with forward trafficking and provide new insights that advance our understanding of xylan biosynthesis and regulation in plants. [ABSTRACT FROM AUTHOR]
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- 2016
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12. Biochemical and physiological characterization of fut4 and fut6 mutants defective in arabinogalactan-protein fucosylation in Arabidopsis.
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Liang, Yan, Basu, Debarati, Pattathil, Sivakumar, Xu, Wen-liang, Venetos, Alexandra, Martin, Stanton L., Faik, Ahmed, Hahn, Michael G., and Showalter, Allan M.
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MUTANT proteins , *ARABINOGALACTAN , *ARABIDOPSIS , *PHYSIOLOGICAL effects of proteins , *GLYCOSYLATION , *HYDROXYPROLINE , *GLYCOPROTEINS , *PLANT cells & tissues - Abstract
Arabinogalactan-proteins (AGPs) are highly glycosylated hydroxyproline-rich glycoproteins present in plant cell walls. AGPs are characterized by arabinose-/galactose-rich side chains, which define their interactive molecular surface. Fucose residues are found in some dicotyledon AGPs, and AGP fucosylation is developmentally regulated. We previously identified Arabidopsis thaliana FUT4 and FUT6 genes as AGP-specific fucosyltransferases (FUTs) based on their enzymatic activities when heterologously expressed in tobacco (Nicotiana tabacum) BY2 suspension-cultured cells. Here, the functions of FUT4 and FUT6 and the physiological roles of fucosylated AGPs were further investigated using Arabidopsis fut4, fut6, and fut4/fut6 mutant plants. All mutant plants showed no phenotypic differences compared to wild-type plants under physiological conditions, but showed reduced root growth in the presence of elevated NaCl. However, roots of wild-type and fut4 mutant plants contained terminal fucose epitopes, which were absent in fut6 and fut4/fut6 mutant plants as indicated by eel lectin staining. Monosaccharide analysis showed fucose was present in wild-type leaf and root AGPs, but absent in fut4 leaf AGPs and in fut4/fut6 double mutant leaf and root AGPs, indicating that FUT4 was required for fucosylation of leaf AGPs while both FUT4 and FUT6 contributed to fucosylation of root AGPs. Glycome profiling of cell wall fractions from mutant roots and leaves showed distinct glycome profiles compared to wild-type plants, indicating that fucosyl residues on AGPs may regulate intermolecular interactions between AGPs and other wall components. The current work exemplifies the possibilities of refinement of cell wall structures by manipulation of a single or a few cell wall biosynthetic genes. [ABSTRACT FROM AUTHOR]
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- 2013
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13. α-Fucosidases with different substrate specificities from two species of Fusarium.
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Paper, Janet, Scott-Craig, John, Cavalier, David, Faik, Ahmed, Wiemels, Richard, Borrusch, Melissa, Bongers, Mareike, and Walton, Jonathan
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FUSARIUM oxysporum , *FUCOSIDASES , *XYLOGLUCANS , *HYDROLASES , *CELL adhesion - Abstract
Two fungal-secreted α-fucosidases and their genes were characterized. FoFCO1 was purified from culture filtrates of Fusarium oxysporum strain 0685 grown on l-fucose and its encoding gene identified in the sequenced genome of strain 4287. FoFCO1 was active on p-nitrophenyl-α-fucoside (pNP-Fuc), but did not defucosylate a nonasaccharide (XXFG) fragment of pea xyloglucan. A putative α-fucosidase gene ( FgFCO1) from Fusarium graminearum was expressed in Pichia pastoris. FgFCO1 was ∼1,800 times less active on pNP-Fuc than FoFCO1, but was able to defucosylate the XXFG nonasaccharide. Although FgFCO1 and FoFCO1 both belong to Glycosyl Hydrolase family 29, they share <25 % overall amino acid identity. Alignment of all available fungal orthologs of FoFCO1 and FgFCO1 indicated that these two proteins belong to two subfamilies of fungal GH29 α-fucosidases. Fungal orthologs of subfamily 1 (to which FoFCO1 belongs) are taxonomically more widely distributed than subfamily 2 (FgFCO1), but neither was universally present in the sequenced fungal genomes. Trichoderma reesei and most species of Aspergillus lack genes for either GH29 subfamily. [ABSTRACT FROM AUTHOR]
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- 2013
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14. Functional Identification of a Hydroxyproline-O-galactosyltransferase Specific for Arabinogalactan Protein Biosynthesis in Arabidopsis.
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Basu, Debarati, Yan Liang, Xiao Liu, Himmeldirk, Klaus, Faik, Ahmed, Kieliszewski, Marcia, Held, Michael, and Showalter, Allan M.
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ARABINOGALACTAN , *GLYCOSYLATION , *GALACTOSYLTRANSFERASES , *ESTERIFICATION , *ARABIDOPSIS , *HYDROLYSIS - Abstract
Although plants contain substantial amounts of arabinogalactan proteins (AGPs), the enzymes responsible for AGP glycosylation are largely unknown. Bioinformatics indicated that AGP galactosyltransferases (GALTs) are members of the carbohydrate-active enzyme glycosyltransferase (GT) 31 family (CAZy GT31) involved in N- and O-glycosylation. Six Arabidopsis GT31 members were expressed in Pichia pastoris and tested for enzyme activity. The At4g21060 gene (named AtGALT2) was found to encode activity for adding galactose (Gal) to hydroxyproline (Hyp) in AGP protein backbones. AtGALT2 specifically catalyzed incorporation of [14C]Gal from UDP-[14C]Gal to Hyp of model substrate acceptors having AGP peptide sequences, consisting of non-contiguous Hyp residues, such as (Ala-Hyp) repetitive units exemplified by chemically synthesized (AO)7 and anhydrous hydrogen fluoride-deglycosylated d(AO)51. Microsomal preparations from Pichia cells expressing AtGALT2 incorporated [14C]Gal to (AO)7, and the resulting product co-eluted with (AO)7 by reverse-phase HPLC. Acid hydrolysis of the [14C]Gal-(AO)7 product released 14C-radiolabel as Gal only. Base hydrolysis of the [14C]Gal-(AO)7 product released a 14C-radiolabeled fragment that co-eluted with a Hyp-Gal standard after high performance anion-exchange chromatography fractionation. AtGALT2 is specific for AGPs because substrates lacking AGP peptide sequences did not act as acceptors. Moreover, AtGALT2 uses only UDP-Gal as the substrate donor and requires Mg2+ or Mn2+ for high activity. Additional support that AtGALT2 encodes an AGP GALT was provided by two allelic AtGALT2 knock-out mutants, which demonstrated lower GALT activities and reductions in β-Yariv-precipitated AGPs compared with wild type plants. Confocal microscopic analysis of fluorescently tagged AtGALT2 in tobacco epidermal cells indicated that AtGALT2 is probably localized in the endomembrane system consistent with its function. [ABSTRACT FROM AUTHOR]
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- 2013
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15. A Glucurono(arabino)xylan Synthase Complex from Wheat Contains Members of the GT43, GT47, and GT75 Families and Functions Cooperatively.
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Wei Zeng, Nan Jiang, Nadella, Ramya, Killen, Tara L., Nadella, Vijayanand, and Faik, Ahmed
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HEMICELLULOSE , *WHEAT , *PLANT cell walls , *GLYCOSYLTRANSFERASES , *BIOSYNTHESIS - Abstract
Glucuronoarabinoxylans (GAXs) are the major hemicelluloses in grass cell walls, but the proteins that synthesize them have previously been uncharacterized. The biosynthesis of GAXs would require at least three glycosyltransferases (GTs): xylosyltransferase (XylT), arabinosyltransferase (AraT), and glucuronosyltransferase (GlcAT). A combination of proteomics and transcriptomics analyses revealed three wheat (Triticum aestivum) glycosyltransferase (TaGT) proteins from the GT43, GT47, and GT75 families as promising candidates involved in GAX synthesis in wheat, namely TaGT43-4, TaGT47-13, and TaGT75-4. Coimmunoprecipitation experiments using specific antibodies produced against TaGT43-4 allowed the immunopurification of a complex containing these three GT proteins. The affinity-purified complex also showed GAX-XylT, GAX-AraT, and GAX-GlcAT activities that work in a cooperative manner. UDP Xyl strongly enhanced both AraT and GlcAT activities. However, while UDP arabinopyranose stimulated the XylT activity, it had only limited effect on GlcAT activity. Similarly, UDP GIcUA stimulated the XylT activity but had only limited effect on AraT activity. The [14C]GAX polymer synthesized by the affinity-purified complex contained Xyl, Ara, and GlcUA in a ratio of 45:12:1, respectively. When this product was digested with purified endoxylanase III and analyzed by high-pH anion-exchange chromatography, only two oligosaccharides were obtained, suggesting a regular structure. One of the two oligosaccharides has six Xyls and two Aras, and the second oligosaccharide contains Xyl, Ara, and GIcUA in a ratio of 40:8:1, respectively. Our results provide a direct link of the involvement of TaGT43-4, TaGT47-13, and TaGT75-4 proteins (as a core complex) in the synthesis of GAX polymer in wheat. [ABSTRACT FROM AUTHOR]
- Published
- 2010
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16. Functional Identification of Two Nonredundant Arabidopsis α(1 ,2)Fucosyltransferases Specific to Arabinogalactan Proteins.
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Yingying Wu, Williams, Matthew, Bernard, Sophie, Driouich, Azeddine, Showalter, Allan M., and Faik, Ahmed
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ARABIDOPSIS , *FUCOSYLTRANSFERASES , *GLYCOSYLATION , *ARABINOGALACTAN , *ELECTROSPRAY ionization mass spectrometry , *CHROMATOGRAPHIC analysis - Abstract
Virtually nothing is known about the mechanisms and enzymes responsible for the glycosylation of arabinogalactan proteins (AGPs). The glycosyltransferase 37 family contains plant-specific enzymes, which suggests involvement in plantspecific organs such as the cell wall. Our working hypothesis is that AtFUT4 and AtFUT6 genes encode α(1,2)fucosyltransferases (FUTs) for AGPs. Multiple lines of evidence support this hypothesis. First, overexpression of the two genes in tobacco BY2 cells, known to contain nonfucosylated AGPs, resulted in a staining of transgenic cells with eel lectin, which specifically binds to terminal a-linked fucose. Second, monosaccharide analysis by high pH anion exchange chromatography and electrospray ionization mass spectrometry indicated the presence of fucose in AGPs from transgenic cell lines but not in AGPs from wild type cells. Third, detergent extracts from microsomal membranes prepared from transgenic lines were able to fucosylate, in vitro, purified AGPs from BY2 wild type cells. Susceptibility of [14C]fucosylated AGPs to α(1,2)fucosidase, and not to α(1,3/4)fucosidase, indicated that an α(1,2) linkage is formed. Furthermore, dearabinosylated AGPs were not substrate acceptors for these enzymes, indicating that arabinosyl residues represent the fucosylation sites on these molecules. Testing of several polysaccharides, oligosaccharides, and glycoproteins as potential substrate acceptors in the fucosyl transfer reactions indicated that the two enzymes are specific for AGPs but are not functionally redundant because they differentially fucosylate certain AGPs. AtFUT4 and AtFUT6 are the first enzymes to be characterized for AGP glycosylation and further our understanding of cell wall biosynthesis. [ABSTRACT FROM AUTHOR]
- Published
- 2010
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17. Desalting paper spay mass spectrometry (DPS-MS) for rapid detection of glycans and glycoconjugates.
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Chiu, Kai-Yuan, Wang, Qi, Gunawardena, Harsha P., Held, Michael, Faik, Ahmed, and Chen, Hao
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GLYCOCONJUGATES , *MASS spectrometry , *GLYCANS , *IMMUNOGLOBULIN G , *COMPLEX matrices , *OLIGOSACCHARIDES - Abstract
The detection of glycans and glycoconjugates has gained increasing attention in biological fields. Traditional mass spectrometry (MS)-based methods for glycoconjugate analysis are challenged with poor sensitivity when dealing with complex biological samples. We developed a desalting paper spray mass spectrometry (DPS-MS) strategy to overcome the issue of signal suppression of carbohydrates in salted buffers. Glycans and glycoconjugates (i.e., glycopeptides, nucleotide sugars, etc.) in non-volatile buffer (e.g., Tris buffer) can be loaded on the paper substrate from which buffers can be removed by washing with ACN/H 2 O (90/10 v/v) solvent. Glycans or glycoconjugates can then be eluted and spray ionized by adding ACN/H 2 O/formic acid (FA) (10/90/1 v/v/v) solvent and applying a high voltage (HV) to the paper substrate. Our results showed that DPS-MS is applicable for direct detection of intact glycopeptides and nucleotide sugars as well as determination of glycosylation profiling of antibody, such as NIST monoclonal antibody IgG (NISTmAb). NISTmAb was deglycosylated with PNGase F to release N-linked oligosaccharides. Twenty-six N-linked oligosaccharides were detected by DPS-MS within a 5-min timeframe without the need for enrichment or derivatization. This work demonstrates that DPS-MS allows fast and sensitive detection of glycans/oligosaccharides and glycosylated species in complex matrices and has great potential in bioanalysis. [Display omitted] • DPS-MS can be used for directly analyzing glycans and glycoconjugates in non-volatile buffers. • DPS-MS can be used for directly identifying 26 glycans from PNGase F-digested antibody IgG. • DPS-MS is fast (less than 5 min each sample) and sensitive. [ABSTRACT FROM AUTHOR]
- Published
- 2021
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18. Arabidopsis thaliana RGXT1 and RGXT2 Encode Golgi-Localized (1,3)-α-D-Xylosyltransferases Involved in the Synthesis of Pectic Rhamnogalacturonan-II.
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Egelund, Jack, Petersen, Bent Larsen, Motawia, Mohammed Saddik, Damager, Iben, Faik, Ahmed, Olsen, Carl Erik, Ishii, Tadashi, Clausen, Henrik, Ulvskov, Peter, and Geshia, Naomi
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ARABIDOPSIS thaliana , *GLYCOSYLTRANSFERASES , *PLANT cell walls , *MEMBRANE proteins , *DISACCHARIDES , *STEREOCHEMISTRY , *POLYSACCHARIDES , *BIOSYNTHESIS - Abstract
Two homologous plant-specific Arabidopsis thaliana genes, RGXT1 and RGXT2, belong to a new family of glycosyltransferases (CAZy GT-family-77) and encode cell wall (1,3)-α-D-xylosyltransferases. The deduced amino acid sequences contain single transmembrane domains near the N terminus, indicative of a type II membrane protein structure. Soluble secreted forms of the corresponding proteins expressed in insect cells showed xylosyltrensferase activity, transferring D-xylose from UDP-α-xylose to L-fucose. The disaccharide product was hydrolyzed by α-xylosidase, whereas no reaction was catalyzed by β-xylosidase. Furthermore, the regio- and stereochemistry of the methyl xylosyl-fucoside was determined by nuclear magnetic resonance to be an α-(1,3) linkage, demonstrating the isolated glycosyltransferases to be (1,3)-α-D-xylosyltransferases. This particular linkage is only known in rhamnogalacturonan-II, a complex polysaccharide essential to vascular plants, and is conserved across higher plant families. Rhamnogalacturonan-II isolated from both RGXT1 and RGXT2 T-DNA insertional mutants functioned as specific acceptor molecules in the xylosyltransferase assay. Expression of RGXT1- and RGXT2-enhanced green fluorescent protein constructs in Arabidopsis revealed that both fusion proteins were targeted to a Brefeldin A-sensitive compartment and also colocalized with the Golgi marker dye BODIPY TR ceramide, consistent with targeting to the Golgi apparatus. Taken together, these results suggest that RGXT1 and RGXT2 encode Golgi-localized (1,3)-α-D-xylosyltransferases involved in the biosynthesis of pectic rhamnogalacturonan-II. [ABSTRACT FROM AUTHOR]
- Published
- 2006
- Full Text
- View/download PDF
19. Evidence that knock down of GSK-3β in Chronic Myelogenous Leukemia cells augments IFN-γ-induced apoptosis.
- Author
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Kauffman, Melissa R., Nazemidashtarjandi, Saeed, Ghazanfari, Davoud, Allen, Abigail E., Reynolds, Nathan M., Faik, Ahmed, Burdick, Monica M., McCall, Kelly D., and Goetz, Douglas J.
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CHRONIC myeloid leukemia , *GLYCOGEN synthase kinase-3 , *APOPTOSIS , *MYELOID leukemia , *CELL death - Abstract
• Role of IFN-γ in apoptosis of Chronic Myelogenous/Myeloid Leukemia (CML) is unclear. • Glycogen synthase kinase–3 (GSK-3) has been implicated in cell death and survival. • IFN-γ induces modest apoptosis in a CML cell line. • CML cells in which GSK-3β is knocked down exhibited enhanced IFN-γ induced apoptosis. • Suggests GSK-3β protects against IFN-γ induced apoptosis of CML cells. The role of interferon-gamma (IFN-γ) in Chronic Myelogenous/Myeloid Leukemia (CML) and in the treatment of CML remains unclear; specifically, the effect of IFN-γ on apoptosis. There is reported interplay between IFN-γ and glycogen synthase kinase–3 (GSK-3), a kinase which has been implicated in both cell death and, conversely, cell survival. Thus, we utilized the CML-derived HAP1 cell line and a mutant HAP1 GSK-3β knocked-down cell line (GSK-3β 31bp) to investigate whether GSK-3 modulates IFN-γ's action on CML cells. Significantly less GSK-3β 31bp cells, relative to HAP1 cells, were present after 48 h treatment with IFN-γ. IFN-γ treatment significantly decreased GSK-3β 31bp substrate adhesiveness (relative to HAP1 cells); an observation often correlated with cell death. Fluorescence microscopy revealed that IFN-γ induces a modest level of apoptosis in the HAP1 cells and that IFN-γ induced apoptosis is significantly enhanced in GSK-3β 31bp cells. Utilizing a complementary GSK-3β knocked-down cell line (8bp) we found, via flow cytometric analysis, that IFN-γ induced apoptosis is significantly enhanced in GSK-3β 8bp cells relative to HAP1 cells. Combined, our findings suggest that IFN-γ induces apoptosis of CML cells and that loss of GSK-3β significantly augments IFN-γ-induced apoptosis. [ABSTRACT FROM AUTHOR]
- Published
- 2020
- Full Text
- View/download PDF
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