Supplementary Table 1. Control System M1 and M2 Significantly Expressed Genes Involved in Macrophage Differentiation and Polarization

Total Page:16

File Type:pdf, Size:1020Kb

Supplementary Table 1. Control System M1 and M2 Significantly Expressed Genes Involved in Macrophage Differentiation and Polarization Supplementary Table 1. Control system M1 and M2 significantly expressed genes involved in macrophage differentiation and polarization. M1 Gene Name Entrez M2 Gene Name Entrez Gene ID Gene ID Interferon, gamma-inducible protein 16 3428 Cystinosis, nephropathic 1497 Hypothetical protein BC012330 116071 Protease, serine, 22 64063 Chemokine (C-C motif) ligand 2 6347 Niemann-Pick disease, type C1 4864 Poly (ADP-ribose) polymerase family, 83666 Phosphatidylinositol binding clathrin assembly 8301 member 9 protein Lipocalin-interacting membrane receptor 55716 Solute carrier family 38, member 6 145389 Epithelial stromal interaction 1 (breast) 94240 Homeobox C14 360030 2'-5'-oligoadenylate synthetase 3, 4940 Selenoprotein T 51714 100kDa Somatostatin receptor 2 6752 Angiopoietin-like 4 51129 Chemokine (C-X-C motif) ligand 16 58191 GRP1 (general receptor for phosphoinositides 160622 1)-associated scaffold protein GTPase, IMAP family member 8 155038 Nuclear receptor subfamily 4, group A, 8013 member 3 DR1-associated protein 1 (negative 10589 Chromosome 21 open reading frame 82 114036 cofactor 2 alpha) Interferon-induced protein 44 10964 Oviductal glycoprotein 1, 120kDa (mucin 9, 5016 oviductin) PTK2B protein tyrosine kinase 2 beta 2185 Chromosome 9 open reading frame 150 286343 Hypothetical protein BC012317 93082 30 kDa protein 55831 N-acetylglucosamine kinase 55577 Growth arrest-specific 2 like 3 283431 TPR domain containing STI2 199223 Serine protease inhibitor, Kunitz type 1 6692 Phosphodiesterase 4D interacting 9659 FK506 binding protein 1A, 12kDa 2280 protein (myomegalin) Baculoviral IAP repeat-containing 2 329 SH3 and cysteine rich domain 2 342667 2'-5'-oligoadenylate synthetase 2, 4939 ATPase, Na+/K+ transporting, beta 3 483 69/71kDa polypeptide V-yes-1 Yamaguchi sarcoma viral 4067 Annexin A1 301 related oncogene homolog Ras homolog gene family, member G 391 Chromosome 12 open reading frame 5 57103 (rho G) Caspase recruitment domain family, 84674 VGF nerve growth factor inducible 7425 member 6 Solute carrier organic anion transporter 28232 Solute carrier family 6 (neurotransmitter 6539 family, member 3A1 transporter, betaine/GABA), member 12 Interleukin 1 receptor, type II 7850 Tissue inhibitor of metalloproteinase 4 7079 Solute carrier family 25, member 27 9481 CD1C antigen, c polypeptide 911 V-src sarcoma (Schmidt-Ruppin A-2) 6714 KIAA1919 91749 viral oncogene homolog (avian) 5,10-methenyltetrahydrofolate 10588 Synuclein, beta 6620 synthetase (5-formyltetrahydrofolate cyclo-ligase) Ligand of numb-protein X 84708 Chromosome 20 open reading frame 139 140809 Discoidin domain receptor family, 4921 Transmembrane 7 superfamily member 1 7107 member 2 (upregulated in kidney) 2'-5'-oligoadenylate synthetase-like 8638 Translation factor sui1 homolog 10289 Hypothetical protein FLJ40722 285966 RCE1 homolog, prenyl protein protease (S. 9986 cerevisiae) Amyotrophic lateral sclerosis 4 23064 Solute carrier family 24 57419 (sodium/potassium/calcium exchanger), member 3 Normal mucosa of esophagus specific 1 84419 Sortilin-related VPS10 domain containing 114815 receptor 1 Ring finger protein (C3HC4 type) 159 84333 Dehydrogenase/reductase (SDR family) 51635 member 7 HEG homolog 57493 Interleukin 6 signal transducer (gp130, 3572 oncostatin M receptor) IBR domain containing 3 127544 Tumor necrosis factor receptor superfamily, 4982 member 11b (osteoprotegerin) Sialyltransferase 4B (beta-galactoside 6483 Stress-induced-phosphoprotein 1 10963 alpha-2,3-sialyltransferase) (Hsp70/Hsp90-organizing protein) CASP8 and FADD-like apoptosis 8837 NADPH oxidase organizer 1 124056 regulator Thyroid hormone receptor associated 9969 Epidermal growth factor receptor pathway 2059 protein 1 substrate 8 Chemokine (C-C motif) receptor 7 1236 Hypothetical protein FLJ20753 55036 Glutamine-fructose-6-phosphate 9945 Tubulin, alpha 8 51807 transaminase 2 Histone 1, H2aj 8331 Myosin VI 4646 Chemokine (C-C motif) ligand 1 6346 Aryl hydrocarbon receptor nuclear 406 translocator-like Solute carrier family 43, member 2 124935 Hemicentin 83872 Cancer/testis antigen 1B 1485 RAS p21 protein activator (GTPase activating 5921 protein) 1 Histone 1, H2bg 8339 Visual system homeobox 1 homolog, CHX10- 30813 like (zebrafish) Histone 3, H2a 92815 Hypothetical protein MGC19780 199857 Histone 1, H2bl 8340 Glutaminase 2744 Histone 1, H2be 8344 Solute carrier family 16 (monocarboxylic acid 9120 transporters), member 6 Histone 1, H2bn 8341 Prion protein (p27-30) 5621 TNFAIP3 interacting protein 1 10318 Phosphatidylinositol glycan, class W 284098 TNFAIP3 interacting protein 3 79931 Serine protease inhibitor, Kazal type 6 404203 Serine (or cysteine) proteinase inhibitor, 8710 Chromodomain helicase DNA binding protein 55636 clade B (ovalbumin), member 7 7 Interferon-induced protein with 3434 Syntaxin binding protein 1 6812 tetratricopeptide repeats 1 Tumor protein p53 inducible nuclear 58476 Diacylglycerol O-acyltransferase homolog 2 84649 protein 2 (mouse) Superoxide dismutase 2, mitochondrial 6648 Protein kinase C, alpha 5578 Ankyrin repeat and BTB (POZ) domain 80325 Retinol dehydrogenase 10 (all-trans) 157506 containing 1 Secretogranin III 29106 Hypothetical protein LOC151146 79134 Interferon regulatory factor 7 3665 Hypothetical protein LOC55924 55924 Persephin 5623 Biliverdin reductase B (flavin reductase 645 (NADPH)) Poly (ADP-ribose) polymerase family, 84875 KIAA0802 23255 member 10 F-box protein 32 114907 Protein phosphatase 1 (formerly 2C)-like 151742 SP140 nuclear body protein 11262 HIV-1 induced protein HIN-1 54726 Chromosome 1 open reading frame 38 9473 Methionyl-tRNA formyltransferase, 123263 mitochondrial Myosin regulatory light chain MRLC2 103910 Ubiquitin-like 3 5412 Serine dehydratase 10993 DEAD (Asp-Glu-Ala-Asp) box polypeptide 21 9188 KIAA1404 protein 57169 Phytoceramidase, alkaline 55331 Sidekick homolog 2 (chicken) 54549 ATP-binding cassette, sub-family G (WHITE), 9429 member 2 Rab geranylgeranyltransferase, alpha 5875 Glucose-fructose oxidoreductase domain 54438 subunit containing 1 Tumor necrosis factor receptor 8764 Collagen, type VI, alpha 2 1292 superfamily, member 14 (herpes virus entry mediator) Regulatory factor X, 3 (influences HLA 5991 Chromosome 9 open reading frame 55 55667 class II expression) HORMA domain containing protein 84072 Acid phosphatase-like 2 92370 Hypothetical protein FLJ11286 55337 Collagen, type VI, alpha 1 1291 Hyperparathyroidism 2 (with jaw tumor) 79577 Germ cell associated 1 83445 KIAA1970 protein 124454 Adaptor-related protein complex 2, alpha 2 161 subunit GRIP1 associated protein 1 56850 Sialytransferase 7 30815 Vascular endothelial growth factor C 7424 Solute carrier family 27 (fatty acid 10999 transporter), member 4 RasGEF domain family, member 1B 153020 Protease, serine, 23 11098 Hypothetical protein FLJ32009 220001 Hypothetical protein PP1665 81544 Hypothetical protein LOC348094 348094 Adenosine monophosphate deaminase 2 271 (isoform L) Zinc finger, MYND domain containing 15 84225 Nestin 10763 Hypothetical protein FLJ39575 286006 Protein kinase C and casein kinase substrate 29763 in neurons 3 Tumor necrosis factor receptor 8792 Collomin 342035 superfamily, member 11a, activator of NFKB ADP-ribosylation factor-like 8 221079 Chromodomain helicase DNA binding protein 80205 9 Acyl-Coenzyme A binding domain 91452 Hypothetical protein FLJ32954 151393 containing 5 Pellino homolog 1 (Drosophila) 57162 Adrenergic, alpha-1B-, receptor 147 Brain abundant, membrane attached 10409 Carbonyl reductase 3 874 signal protein 1 IQ motif containing GTPase activating 10788 Transmembrane 4 superfamily member 2 7102 protein 2 Hypothetical protein MGC4655 84752 ATP-binding cassette, sub-family B 5244 (MDR/TAP), member 4 KIAA1463 protein 57609 Solute carrier family 20 (phosphate 6575 transporter), member 2 Thyroid hormone receptor interactor 12 9320 KIAA0690 23223 Tight junction protein 1 (zona occludens 7082 Four and a half LIM domains 3 2275 1) Signal transducer and activator of 6774 Zinc finger CCCH type domain containing 8 84524 transcription 3 (acute-phase response factor) Chemokine (C-X-C motif) ligand 14 9547 Parathyroid hormone-like hormone 5744 Mannosidase, beta A, lysosomal 4126 Pleckstrin homology domain containing, 79156 family F (with FYVE domain) member 1 Hypothetical protein DKFZp761A052 55593 Mitochondrial ribosomal protein S6 64968 RAB43, member RAS oncogene family 339122 Diencephalon/mesencephalon homeobox 1 127343 Chromosome 9 open reading frame 95 54981 Six transmembrane epithelial antigen of the 26872 prostate ERO1-like beta (S. cerevisiae) 56605 Antigen p97 (melanoma associated) 4241 Myosin regulatory light chain MRCL3 10627 Plexin domain containing 2 84898 Butyrophilin, subfamily 2, member A3 54718 Integrin, alpha M (CD11b) 3684 Sialyltransferase 8D (alpha-2, 8- 7903 Tryptophan 2,3-dioxygenase 6999 polysialyltransferase) Cathepsin S 1520 Adenosine A3 receptor 140 FOS-like antigen 2 2355 Mitochondrial tumor suppressor 1 57509 General transcription factor IIF, 2962 Tumor necrosis factor receptor superfamily, 27242 polypeptide 1, 74kDa member 21 GCIP-interacting protein p29 25949 Chromosome 20 open reading frame 32 57091 Hypothetical protein LOC283680 283680 Hypothetical protein MGC34732 220047 Hypothetical protein MGC35194 93190 Hypothetical protein MGC40397 121053 Chemokine (C-C motif) ligand 5 6352 Peroxisome proliferative activated receptor, 5468 gamma Glucosamine (N-acetyl)-6-sulfatase 2799 FCH domain only 1 23149 (Sanfilippo disease IIID) Hypothetical protein LOC285216 285216 Abhydrolase domain containing 6 57406 Chromosome 10 open
Recommended publications
  • Download (PDF)
    Tomono et al.: Glycan evolution based on phylogenetic profiling 1 Supplementary Table S1. List of 173 enzymes that are composed of glycosyltransferases and functionally-linked glycan synthetic enzymes UniProt ID Protein Name Categories of Glycan Localization CAZy Class 1 Q8N5D6 Globoside -1,3-N -acetylgalactosaminyltransferase 1 Glycosphingolipid Golgi apparatus GT6 P16442 Histo-blood group ABO system transferase Glycosphingolipid Golgi apparatus GT6 P19526 Galactoside 2--L-fucosyltransferase 1 Glycosphingolipid Golgi apparatus GT11 Q10981 Galactoside 2--L-fucosyltransferase 2 Glycosphingolipid Golgi apparatus GT11 Q00973 -1,4 N -acetylgalactosaminyltransferase 1 Glycosphingolipid Golgi apparatus GT12 Q8NHY0 -1,4 N -acetylgalactosaminyltransferase 2 O -Glycan, N -Glycan, Glycosphingolipid Golgi apparatus GT12 Q09327 -1,4-mannosyl-glycoprotein 4--N -acetylglucosaminyltransferase N -Glycan Golgi apparatus GT17 Q09328 -1,6-mannosylglycoprotein 6--N -acetylglucosaminyltransferase A N -Glycan Golgi apparatus GT18 Q3V5L5 -1,6-mannosylglycoprotein 6--N -acetylglucosaminyltransferase B O -Glycan, N -Glycan Golgi apparatus GT18 Q92186 -2,8-sialyltransferase 8B (SIAT8-B) (ST8SiaII) (STX) N -Glycan Golgi apparatus GT29 O15466 -2,8-sialyltransferase 8E (SIAT8-E) (ST8SiaV) Glycosphingolipid Golgi apparatus GT29 P61647 -2,8-sialyltransferase 8F (SIAT8-F) (ST8SiaVI) O -Glycan Golgi apparatus GT29 Q9NSC7 -N -acetylgalactosaminide -2,6-sialyltransferase 1 (ST6GalNAcI) (SIAT7-A) O -Glycan Golgi apparatus GT29 Q9UJ37 -N -acetylgalactosaminide -2,6-sialyltransferase
    [Show full text]
  • Supplementary Table 1: Adhesion Genes Data Set
    Supplementary Table 1: Adhesion genes data set PROBE Entrez Gene ID Celera Gene ID Gene_Symbol Gene_Name 160832 1 hCG201364.3 A1BG alpha-1-B glycoprotein 223658 1 hCG201364.3 A1BG alpha-1-B glycoprotein 212988 102 hCG40040.3 ADAM10 ADAM metallopeptidase domain 10 133411 4185 hCG28232.2 ADAM11 ADAM metallopeptidase domain 11 110695 8038 hCG40937.4 ADAM12 ADAM metallopeptidase domain 12 (meltrin alpha) 195222 8038 hCG40937.4 ADAM12 ADAM metallopeptidase domain 12 (meltrin alpha) 165344 8751 hCG20021.3 ADAM15 ADAM metallopeptidase domain 15 (metargidin) 189065 6868 null ADAM17 ADAM metallopeptidase domain 17 (tumor necrosis factor, alpha, converting enzyme) 108119 8728 hCG15398.4 ADAM19 ADAM metallopeptidase domain 19 (meltrin beta) 117763 8748 hCG20675.3 ADAM20 ADAM metallopeptidase domain 20 126448 8747 hCG1785634.2 ADAM21 ADAM metallopeptidase domain 21 208981 8747 hCG1785634.2|hCG2042897 ADAM21 ADAM metallopeptidase domain 21 180903 53616 hCG17212.4 ADAM22 ADAM metallopeptidase domain 22 177272 8745 hCG1811623.1 ADAM23 ADAM metallopeptidase domain 23 102384 10863 hCG1818505.1 ADAM28 ADAM metallopeptidase domain 28 119968 11086 hCG1786734.2 ADAM29 ADAM metallopeptidase domain 29 205542 11085 hCG1997196.1 ADAM30 ADAM metallopeptidase domain 30 148417 80332 hCG39255.4 ADAM33 ADAM metallopeptidase domain 33 140492 8756 hCG1789002.2 ADAM7 ADAM metallopeptidase domain 7 122603 101 hCG1816947.1 ADAM8 ADAM metallopeptidase domain 8 183965 8754 hCG1996391 ADAM9 ADAM metallopeptidase domain 9 (meltrin gamma) 129974 27299 hCG15447.3 ADAMDEC1 ADAM-like,
    [Show full text]
  • Aberrant Sialylation in Cancer: Biomarker and Potential Target for Therapeutic Intervention?
    cancers Review Aberrant Sialylation in Cancer: Biomarker and Potential Target for Therapeutic Intervention? Silvia Pietrobono * and Barbara Stecca * Tumor Cell Biology Unit, Core Research Laboratory, Institute for Cancer Research and Prevention (ISPRO), Viale Pieraccini 6, 50139 Florence, Italy * Correspondence: [email protected] (S.P.); [email protected] (B.S.); Tel.: +39-055-7944568 (S.P.); +39-055-7944567 (B.S.) Simple Summary: Sialylation is a post-translational modification that consists in the addition of sialic acid to growing glycan chains on glycoproteins and glycolipids. Aberrant sialylation is an established hallmark of several types of cancer, including breast, ovarian, pancreatic, prostate, colorectal and lung cancers, melanoma and hepatocellular carcinoma. Hypersialylation can be the effect of increased activity of sialyltransferases and results in an excess of negatively charged sialic acid on the surface of cancer cells. Sialic acid accumulation contributes to tumor progression by several paths, including stimulation of tumor invasion and migration, and enhancing immune evasion and tumor cell survival. In this review we explore the mechanisms by which sialyltransferases promote cancer progression. In addition, we provide insights into the possible use of sialyltransferases as biomarkers for cancer and summarize findings on the development of sialyltransferase inhibitors as potential anti-cancer treatments. Abstract: Sialylation is an integral part of cellular function, governing many biological processes Citation: Pietrobono, S.; Stecca, B. including cellular recognition, adhesion, molecular trafficking, signal transduction and endocytosis. Aberrant Sialylation in Cancer: Sialylation is controlled by the levels and the activities of sialyltransferases on glycoproteins and Biomarker and Potential Target for lipids. Altered gene expression of these enzymes in cancer yields to cancer-specific alterations of Therapeutic Intervention? Cancers glycoprotein sialylation.
    [Show full text]
  • Two Arabidopsis Proteins Synthesize Acetylated Xylan Invitro
    The Plant Journal (2014) 80, 197–206 doi: 10.1111/tpj.12643 FEATURED ARTICLE Two Arabidopsis proteins synthesize acetylated xylan in vitro Breeanna R. Urbanowicz, Maria J. Pena*,~ Heather A. Moniz, Kelley W. Moremen and William S. York* Complex Carbohydrate Research Center, University of Georgia, 315 Riverbend Road, Athens, GA 30602, USA Received 4 June 2014; revised 18 July 2014; accepted 1 August 2014; published online 21 August 2014. *For correspondence (e-mails [email protected]; [email protected]). SUMMARY Xylan is the third most abundant glycopolymer on earth after cellulose and chitin. As a major component of wood, grain and forage, this natural biopolymer has far-reaching impacts on human life. This highly acetylated cell wall polysaccharide is a vital component of the plant cell wall, which functions as a molecular scaffold, pro- viding plants with mechanical strength and flexibility. Mutations that impair synthesis of the xylan backbone give rise to plants that fail to grow normally because of collapsed xylem cells in the vascular system. Phenotypic analysis of these mutants has implicated many proteins in xylan biosynthesis; however, the enzymes directly responsible for elongation and acetylation of the xylan backbone have not been unambiguously identified. Here we provide direct biochemical evidence that two Arabidopsis thaliana proteins, IRREGULAR XYLEM 10–L (IRX10-L) and ESKIMO1/TRICOME BIREFRINGENCE 29 (ESK1/TBL29), catalyze these respective processes in vi- tro. By identifying the elusive xylan synthase and establishing ESK1/TBL29 as the archetypal plant polysaccha- ride O-acetyltransferase, we have resolved two long-standing questions in plant cell wall biochemistry.
    [Show full text]
  • Multiplexed Engineering Glycosyltransferase Genes in CHO Cells Via Targeted Integration for Producing Antibodies with Diverse Complex‑Type N‑Glycans Ngan T
    www.nature.com/scientificreports OPEN Multiplexed engineering glycosyltransferase genes in CHO cells via targeted integration for producing antibodies with diverse complex‑type N‑glycans Ngan T. B. Nguyen, Jianer Lin, Shi Jie Tay, Mariati, Jessna Yeo, Terry Nguyen‑Khuong & Yuansheng Yang* Therapeutic antibodies are decorated with complex‑type N‑glycans that signifcantly afect their biodistribution and bioactivity. The N‑glycan structures on antibodies are incompletely processed in wild‑type CHO cells due to their limited glycosylation capacity. To improve N‑glycan processing, glycosyltransferase genes have been traditionally overexpressed in CHO cells to engineer the cellular N‑glycosylation pathway by using random integration, which is often associated with large clonal variations in gene expression levels. In order to minimize the clonal variations, we used recombinase‑mediated‑cassette‑exchange (RMCE) technology to overexpress a panel of 42 human glycosyltransferase genes to screen their impact on antibody N‑linked glycosylation. The bottlenecks in the N‑glycosylation pathway were identifed and then released by overexpressing single or multiple critical genes. Overexpressing B4GalT1 gene alone in the CHO cells produced antibodies with more than 80% galactosylated bi‑antennary N‑glycans. Combinatorial overexpression of B4GalT1 and ST6Gal1 produced antibodies containing more than 70% sialylated bi‑antennary N‑glycans. In addition, antibodies with various tri‑antennary N‑glycans were obtained for the frst time by overexpressing MGAT5 alone or in combination with B4GalT1 and ST6Gal1. The various N‑glycan structures and the method for producing them in this work provide opportunities to study the glycan structure‑and‑function and develop novel recombinant antibodies for addressing diferent therapeutic applications.
    [Show full text]
  • Induced Structural Changes in a Multifunctional Sialyltransferase
    Biochemistry 2006, 45, 2139-2148 2139 Cytidine 5′-Monophosphate (CMP)-Induced Structural Changes in a Multifunctional Sialyltransferase from Pasteurella multocida†,‡ Lisheng Ni,§ Mingchi Sun,§ Hai Yu,§ Harshal Chokhawala,§ Xi Chen,*,§ and Andrew J. Fisher*,§,| Department of Chemistry and the Section of Molecular and Cellular Biology, UniVersity of California, One Shields AVenue, DaVis, California 95616 ReceiVed NoVember 23, 2005; ReVised Manuscript ReceiVed December 19, 2005 ABSTRACT: Sialyltransferases catalyze reactions that transfer a sialic acid from CMP-sialic acid to an acceptor (a structure terminated with galactose, N-acetylgalactosamine, or sialic acid). They are key enzymes that catalyze the synthesis of sialic acid-containing oligosaccharides, polysaccharides, and glycoconjugates that play pivotal roles in many critical physiological and pathological processes. The structures of a truncated multifunctional Pasteurella multocida sialyltransferase (∆24PmST1), in the absence and presence of CMP, have been determined by X-ray crystallography at 1.65 and 2.0 Å resolutions, respectively. The ∆24PmST1 exists as a monomer in solution and in crystals. Different from the reported crystal structure of a bifunctional sialyltransferase CstII that has only one Rossmann domain, the overall structure of the ∆24PmST1 consists of two separate Rossmann nucleotide-binding domains. The ∆24PmST1 structure, thus, represents the first sialyltransferase structure that belongs to the glycosyltransferase-B (GT-B) structural group. Unlike all other known GT-B structures, however, there is no C-terminal extension that interacts with the N-terminal domain in the ∆24PmST1 structure. The CMP binding site is located in the deep cleft between the two Rossmann domains. Nevertheless, the CMP only forms interactions with residues in the C-terminal domain.
    [Show full text]
  • Sialyltransferase of the 13762 Rat Mammary Ascites Tumor Cells1
    [CANCER RESEARCH 44, 1148-1152, March 1984] Sialyltransferase of the 13762 Rat Mammary Ascites Tumor Cells1 ThérèsePrattand Anne P. Sherblom2 Department of Biochemistry, University of Maine, Orano, Maine 04469 ABSTRACT The MAT-B1 and MAT-C1 sublines of the 13762 rat mammary adenocarcinoma are a suitable system for studying sialic acid The MAT-B1 and MAT-C1 ascites sublines of the 13762 rat metabolism. The 2 cell lines, originally derived from the same mammary adenocarcinoma differ in morphology, agglutinability solid tumor, show marked differences in ability to be transplanted with concanavalin A, and xenotransplantability. Both cell lines into mice, agglutinability with concanavalin A, and total sialic acid contain a major mucin-type glycoprotein, but the MAT-C1 (xen- content (19). Greater than 70% of the protein-bound sialic acid otransplantable) subline contains a 3-fold-greater content of sialic in both cell lines is due to a high-molecular-weight mucin-type acid on the glycoprotein than does the MAT-B1 (nonxeno- glycoprotein, ASGP-1 (16). The 0-linked chains have a core transplantable) subline. structure Gal(01-»4)GlcNAc(01-»6)[Gal(|31-»3)]GalNAc3 where The present work indicates that whole cells of both lines both galactose residues may be substituted with sialic acids incorporate radioactivity from labeled CMP-sialic acid into a linked («2—>3).4TheMAT-C1 subline contains much more of component which comigrates with the major glycoprotein by disialylated hexasaccharide than does the MAT-B1 subline,4 sodium dodecyl sulfate polyacrylamide gel electrophoresis, and whereas the MAT-B1 oligosaccharides are predominantly neutral that label incorporated by MAT-B1 cells is released by alkaline- but may contain sulfate as well as sialic acid (17).
    [Show full text]
  • LN-EPC Vs CEPC List
    Supplementary Information Table 5. List of genes upregulated on LN-EPC (LCB represents the variation of gene expression comparing LN-EPC with CEPC) Gene dystrophin (muscular dystrophy, Duchenne and Becker types) regulator of G-protein signalling 13 chemokine (C-C motif) ligand 8 vascular cell adhesion molecule 1 matrix metalloproteinase 9 (gelatinase B, 92kDa gelatinase, 92kDa type IV collagenase) chemokine (C-C motif) ligand 2 solute carrier family 2 (facilitated glucose/fructose transporter), member 5 eukaryotic translation initiation factor 1A, Y-linked regulator of G-protein signalling 1 ubiquitin D chemokine (C-X-C motif) ligand 3 transcription factor 4 chemokine (C-X-C motif) ligand 13 (B-cell chemoattractant) solute carrier family 7, (cationic amino acid transporter, y+ system) member 11 transcription factor 4 apolipoprotein D RAS guanyl releasing protein 3 (calcium and DAG-regulated) matrix metalloproteinase 1 (interstitial collagenase) DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, Y-linked /// DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, Y-linked transcription factor 4 regulator of G-protein signalling 1 B-cell linker interleukin 8 POU domain, class 2, associating factor 1 CD24 antigen (small cell lung carcinoma cluster 4 antigen) Consensus includes gb:AK000168.1 /DEF=Homo sapiens cDNA FLJ20161 fis, clone COL09252, highly similar to L33930 Homo sapiens CD24 signal transducer mRNA. /FEA=mRNA /DB_XREF=gi:7020079 /UG=Hs.332045 Homo sapiens cDNA FLJ20161 fis, clone COL09252, highly similar to L33930 Homo sapiens CD24 signal transducer mRNA
    [Show full text]
  • Protein & Peptide Letters
    696 Send Orders for Reprints to [email protected] Protein & Peptide Letters, 2017, 24, 696-709 REVIEW ARTICLE ISSN: 0929-8665 eISSN: 1875-5305 Impact Factor: 1.068 Glycan Phosphorylases in Multi-Enzyme Synthetic Processes BENTHAM Editor-in-Chief: SCIENCE Ben M. Dunn Giulia Pergolizzia, Sakonwan Kuhaudomlarpa, Eeshan Kalitaa,b and Robert A. Fielda,* aDepartment of Biological Chemistry, John Innes Centre, Norwich Research Park, Norwich NR4 7UH, UK; bDepartment of Molecular Biology and Biotechnology, Tezpur University, Napaam, Tezpur, Assam -784028, India Abstract: Glycoside phosphorylases catalyse the reversible synthesis of glycosidic bonds by glyco- A R T I C L E H I S T O R Y sylation with concomitant release of inorganic phosphate. The equilibrium position of such reac- tions can render them of limited synthetic utility, unless coupled with a secondary enzymatic step Received: January 17, 2017 Revised: May 24, 2017 where the reaction lies heavily in favour of product. This article surveys recent works on the com- Accepted: June 20, 2017 bined use of glycan phosphorylases with other enzymes to achieve synthetically useful processes. DOI: 10.2174/0929866524666170811125109 Keywords: Phosphorylase, disaccharide, α-glucan, cellodextrin, high-value products, biofuel. O O 1. INTRODUCTION + HO OH Glycoside phosphorylases (GPs) are carbohydrate-active GH enzymes (CAZymes) (URL: http://www.cazy.org/) [1] in- H2O O GP volved in the formation/cleavage of glycosidic bond together O O GT O O + HO O + HO with glycosyltransferase (GT) and glycoside hydrolase (GH) O -- NDP OPO3 NDP -- families (Figure 1) [2-6]. GT reactions favour the thermody- HPO4 namically more stable glycoside product [7]; however, these GS R enzymes can be challenging to work with because of their O O + HO current limited availability and relative instability, along R with the expense of sugar nucleotide substrates [7].
    [Show full text]
  • 1471-2164-8-41.Pdf
    BMC Genomics BioMed Central Research article Open Access Loss of Parp-1 affects gene expression profile in a genome-wide manner in ES cells and liver cells Hideki Ogino1,2, Tadashige Nozaki2, Akemi Gunji2, Miho Maeda3, Hiroshi Suzuki4, Tsutomu Ohta5, Yasufumi Murakami3, Hitoshi Nakagama2, Takashi Sugimura2 and Mitsuko Masutani*1,2 Address: 1ADP-ribosylation in Oncology Project, National Cancer Center Research Institute, 1-1, Tsukiji 5-chome, Chuo-ku, Tokyo 104-0045, Japan, 2Biochemistry Division, National Cancer Center Research Institute, 1-1, Tsukiji 5-chome, Chuo-ku, Tokyo 104-0045, Japan, 3Department of Biological Science & Technology, Faculty of Industrial Science & Technology, Tokyo University of Science, 2641, Yamazaki, Noda, Chiba 278- 8510, Japan, 4Chugai Pharmaceutical Co Ltd., 1-135, Komakado, Gotemba, Shizuoka, 412-0038, Japan and 5Center for Medical Genomics, National Cancer Center Research Institute, 1-1, Tsukiji 5-chome, Chuo-ku, Tokyo 104-0045, Japan Email: Hideki Ogino - [email protected]; Tadashige Nozaki - [email protected]; Akemi Gunji - [email protected]; Miho Maeda - [email protected]; Hiroshi Suzuki - [email protected]; Tsutomu Ohta - [email protected]; Yasufumi Murakami - [email protected]; Hitoshi Nakagama - [email protected]; Takashi Sugimura - [email protected]; Mitsuko Masutani* - [email protected] * Corresponding author Published: 7 February 2007 Received: 5 August 2006 Accepted: 7 February 2007 BMC Genomics 2007, 8:41 doi:10.1186/1471-2164-8-41 This article is available from: http://www.biomedcentral.com/1471-2164/8/41 © 2007 Ogino et al; licensee BioMed Central Ltd.
    [Show full text]
  • Release of Glycosyltransferase and Glycosidase Activities from Normal and Transformed Cell Lines1
    [CANCER RESEARCH 41, 2611-2615, July 1981J 0008-5472/81 /0041-OOOOS02.00 Release of Glycosyltransferase and Glycosidase Activities from Normal and Transformed Cell Lines1 Wayne D. Klohs,2 Ralph Mastrangelo, and Milton M. Weiser Division of Gastroenterology and Nutrition, Department of Medicine, State University of New York at Buffalo, Buffalo, New York 14215 ABSTRACT Indeed, a cancer-associated isoenzyme of serum galactosyl transferase has been reported in humans and animals with The release of galactosyltransferase, sialyltransferase, and certain malignant cancers (24, 26). Bernacki and Kim (2) and several glycosidase activities into the growth media from sev Weiser and Podolsky (34) have suggested that such increases eral normal and transformed cell lines was examined. Six of in serum glycosyltransferase levels may be the consequence the seven cell lines released galactosyltransferase into their of both an increased production and release from the tumor culture media. Only the human leukemia CCRF-CEM cells cells, perhaps through cell surface shedding of the enzymes, failed to release demonstrable galactosyltransferase activity. but the validity of this supposition has yet to be demonstrated. Release of galactosyltransferase activity into the media closely It is also not clear whether the elevated levels of circulating paralleled the growth curves for all but the BHKpy cells. These glycosyltransferases perform any molecular or physiological cells continued to release peak levels of galactosyltransferase function relative to the malignant
    [Show full text]
  • Novel Targets of Apparently Idiopathic Male Infertility
    International Journal of Molecular Sciences Review Molecular Biology of Spermatogenesis: Novel Targets of Apparently Idiopathic Male Infertility Rossella Cannarella * , Rosita A. Condorelli , Laura M. Mongioì, Sandro La Vignera * and Aldo E. Calogero Department of Clinical and Experimental Medicine, University of Catania, 95123 Catania, Italy; [email protected] (R.A.C.); [email protected] (L.M.M.); [email protected] (A.E.C.) * Correspondence: [email protected] (R.C.); [email protected] (S.L.V.) Received: 8 February 2020; Accepted: 2 March 2020; Published: 3 March 2020 Abstract: Male infertility affects half of infertile couples and, currently, a relevant percentage of cases of male infertility is considered as idiopathic. Although the male contribution to human fertilization has traditionally been restricted to sperm DNA, current evidence suggest that a relevant number of sperm transcripts and proteins are involved in acrosome reactions, sperm-oocyte fusion and, once released into the oocyte, embryo growth and development. The aim of this review is to provide updated and comprehensive insight into the molecular biology of spermatogenesis, including evidence on spermatogenetic failure and underlining the role of the sperm-carried molecular factors involved in oocyte fertilization and embryo growth. This represents the first step in the identification of new possible diagnostic and, possibly, therapeutic markers in the field of apparently idiopathic male infertility. Keywords: spermatogenetic failure; embryo growth; male infertility; spermatogenesis; recurrent pregnancy loss; sperm proteome; DNA fragmentation; sperm transcriptome 1. Introduction Infertility is a widespread condition in industrialized countries, affecting up to 15% of couples of childbearing age [1]. It is defined as the inability to achieve conception after 1–2 years of unprotected sexual intercourse [2].
    [Show full text]