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Anso I, Naegeli A, Cifuente JO, Orrantia A, Andersson E, Zenarruzabeitia O, Moraleda-Montoya A, García-Alija M, Corzana F, Del Orbe RA, Borrego F, Trastoy B, Sjögren J, Guerin ME. Turning universal O into rare Bombay type blood. Nat Commun 2023; 14:1765. [PMID: 36997505 PMCID: PMC10063614 DOI: 10.1038/s41467-023-37324-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2022] [Accepted: 03/09/2023] [Indexed: 04/01/2023] Open
Abstract
AbstractRed blood cell antigens play critical roles in blood transfusion since donor incompatibilities can be lethal. Recipients with the rare total deficiency in H antigen, the Oh Bombay phenotype, can only be transfused with group Oh blood to avoid serious transfusion reactions. We discover FucOB from the mucin-degrading bacteria Akkermansia muciniphila as an α-1,2-fucosidase able to hydrolyze Type I, Type II, Type III and Type V H antigens to obtain the afucosylated Bombay phenotype in vitro. X-ray crystal structures of FucOB show a three-domain architecture, including a GH95 glycoside hydrolase. The structural data together with site-directed mutagenesis, enzymatic activity and computational methods provide molecular insights into substrate specificity and catalysis. Furthermore, using agglutination tests and flow cytometry-based techniques, we demonstrate the ability of FucOB to convert universal O type into rare Bombay type blood, providing exciting possibilities to facilitate transfusion in recipients/patients with Bombay phenotype.
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2
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Mucin utilization by gut microbiota: recent advances on characterization of key enzymes. Essays Biochem 2023; 67:345-353. [PMID: 36695502 PMCID: PMC10154618 DOI: 10.1042/ebc20220121] [Citation(s) in RCA: 16] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2022] [Revised: 01/04/2023] [Accepted: 01/09/2023] [Indexed: 01/26/2023]
Abstract
The gut microbiota interacts with the host through the mucus that covers and protects the gastrointestinal epithelium. The main component of the mucus are mucins, glycoproteins decorated with hundreds of different O-glycans. Some microbiota members can utilize mucin O-glycans as carbons source. To degrade these host glycans the bacteria express multiple carbohydrate-active enzymes (CAZymes) such as glycoside hydrolases, sulfatases and esterases which are active on specific linkages. The studies of these enzymes in an in vivo context have started to reveal their importance in mucin utilization and gut colonization. It is now clear that bacteria evolved multiple specific CAZymes to overcome the diversity of linkages found in O-glycans. Additionally, changes in mucin degradation by gut microbiota have been associated with diseases like obesity, diabetes, irritable bowel disease and colorectal cancer. Thereby understanding how CAZymes from different bacteria work to degrade mucins is of critical importance to develop new treatments and diagnostics for these increasingly prevalent health problems. This mini-review covers the recent advances in biochemical characterization of mucin O-glycan-degrading CAZymes and how they are connected to human health.
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3
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Wu H, Crost EH, Owen CD, van Bakel W, Martínez Gascueña A, Latousakis D, Hicks T, Walpole S, Urbanowicz PA, Ndeh D, Monaco S, Sánchez Salom L, Griffiths R, Reynolds RS, Colvile A, Spencer DIR, Walsh M, Angulo J, Juge N. The human gut symbiont Ruminococcus gnavus shows specificity to blood group A antigen during mucin glycan foraging: Implication for niche colonisation in the gastrointestinal tract. PLoS Biol 2021; 19:e3001498. [PMID: 34936658 PMCID: PMC8730463 DOI: 10.1371/journal.pbio.3001498] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2021] [Revised: 01/05/2022] [Accepted: 11/26/2021] [Indexed: 12/24/2022] Open
Abstract
The human gut symbiont Ruminococcus gnavus displays strain-specific repertoires of glycoside hydrolases (GHs) contributing to its spatial location in the gut. Sequence similarity network analysis identified strain-specific differences in blood-group endo-β-1,4-galactosidase belonging to the GH98 family. We determined the substrate and linkage specificities of GH98 from R. gnavus ATCC 29149, RgGH98, against a range of defined oligosaccharides and glycoconjugates including mucin. We showed by HPAEC-PAD and LC-FD-MS/MS that RgGH98 is specific for blood group A tetrasaccharide type II (BgA II). Isothermal titration calorimetry (ITC) and saturation transfer difference (STD) NMR confirmed RgGH98 affinity for blood group A over blood group B and H antigens. The molecular basis of RgGH98 strict specificity was further investigated using a combination of glycan microarrays, site-directed mutagenesis, and X-ray crystallography. The crystal structures of RgGH98 in complex with BgA trisaccharide (BgAtri) and of RgGH98 E411A with BgA II revealed a dedicated hydrogen network of residues, which were shown by site-directed mutagenesis to be critical to the recognition of the BgA epitope. We demonstrated experimentally that RgGH98 is part of an operon of 10 genes that is overexpresssed in vitro when R. gnavus ATCC 29149 is grown on mucin as sole carbon source as shown by RNAseq analysis and RT-qPCR confirmed RgGH98 expression on BgA II growth. Using MALDI-ToF MS, we showed that RgGH98 releases BgAtri from mucin and that pretreatment of mucin with RgGH98 confered R. gnavus E1 the ability to grow, by enabling the E1 strain to metabolise BgAtri and access the underlying mucin glycan chain. These data further support that the GH repertoire of R. gnavus strains enable them to colonise different nutritional niches in the human gut and has potential applications in diagnostic and therapeutics against infection.
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Affiliation(s)
- Haiyang Wu
- Quadram Institute Bioscience, Norwich, United Kingdom
| | | | - C David Owen
- Diamond Light Source Ltd, Didcot, United Kingdom
- Research Complex at Harwell, Didcot, United Kingdom
| | | | | | | | - Thomas Hicks
- University of East Anglia, Norwich, United Kingdom
| | | | | | - Didier Ndeh
- Quadram Institute Bioscience, Norwich, United Kingdom
| | | | | | | | | | - Anna Colvile
- Diamond Light Source Ltd, Didcot, United Kingdom
- Research Complex at Harwell, Didcot, United Kingdom
| | | | - Martin Walsh
- Diamond Light Source Ltd, Didcot, United Kingdom
- Research Complex at Harwell, Didcot, United Kingdom
| | - Jesus Angulo
- University of East Anglia, Norwich, United Kingdom
- Universidad de Sevilla and Instituto de Investigaciones Químicas, Sevilla, Spain
| | - Nathalie Juge
- Quadram Institute Bioscience, Norwich, United Kingdom
- * E-mail:
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4
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Gamage HKAH, Chong RWW, Bucio-Noble D, Kautto L, Hardikar AA, Ball MS, Molloy MP, Packer NH, Paulsen IT. Changes in dietary fiber intake in mice reveal associations between colonic mucin O-glycosylation and specific gut bacteria. Gut Microbes 2020; 12:1802209. [PMID: 32991816 PMCID: PMC7781582 DOI: 10.1080/19490976.2020.1802209] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 02/03/2023] Open
Abstract
The colonic mucus layer, comprised of highly O-glycosylated mucins, is vital to mediating host-gut microbiota interactions, yet the impact of dietary changes on colonic mucin O-glycosylation and its associations with the gut microbiota remains unexplored. Here, we used an array of omics techniques including glycomics to examine the effect of dietary fiber consumption on the gut microbiota, colonic mucin O-glycosylation and host physiology of high-fat diet-fed C57BL/6J mice. The high-fat diet group had significantly impaired glucose tolerance and altered liver proteome, gut microbiota composition, and short-chain fatty acid production compared to normal chow diet group. While dietary fiber inclusion did not reverse all high fat-induced modifications, it resulted in specific changes, including an increase in the relative abundance of bacterial families with known fiber digesters and a higher propionate concentration. Conversely, colonic mucin O-glycosylation remained similar between the normal chow and high-fat diet groups, while dietary fiber intervention resulted in major alterations in O-glycosylation. Correlation network analysis revealed previously undescribed associations between specific bacteria and mucin glycan structures. For example, the relative abundance of the bacterium Parabacteroides distasonis positively correlated with glycan structures containing one terminal fucose and correlated negatively with glycans containing two terminal fucose residues or with both an N-acetylneuraminic acid and a sulfate residue. This is the first comprehensive report of the impact of dietary fiber on the colonic mucin O-glycosylation and associations of these mucosal glycans with specific gut bacteria.
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Affiliation(s)
- Hasinika K. A. H. Gamage
- ARC Industrial Transformation Training Centre for Molecular Technologies in the Food Industry, Macquarie University, Sydney, Australia,Department of Molecular Sciences, Macquarie University, Sydney, Australia
| | - Raymond W. W. Chong
- ARC Industrial Transformation Training Centre for Molecular Technologies in the Food Industry, Macquarie University, Sydney, Australia,Department of Molecular Sciences, Macquarie University, Sydney, Australia
| | - Daniel Bucio-Noble
- ARC Industrial Transformation Training Centre for Molecular Technologies in the Food Industry, Macquarie University, Sydney, Australia,Department of Molecular Sciences, Macquarie University, Sydney, Australia
| | - Liisa Kautto
- ARC Industrial Transformation Training Centre for Molecular Technologies in the Food Industry, Macquarie University, Sydney, Australia,Department of Molecular Sciences, Macquarie University, Sydney, Australia
| | - Anandwardhan A. Hardikar
- Islet Biology and Diabetes, Faculty of Medicine and Health, The University of Sydney, Sydney, Australia
| | | | - Mark P. Molloy
- ARC Industrial Transformation Training Centre for Molecular Technologies in the Food Industry, Macquarie University, Sydney, Australia,Department of Molecular Sciences, Macquarie University, Sydney, Australia,Mark P. Molloy Bowel Cancer and Biomarker Research, Kolling Institute, The University of Sydney, Australia
| | - Nicolle H. Packer
- ARC Industrial Transformation Training Centre for Molecular Technologies in the Food Industry, Macquarie University, Sydney, Australia,Department of Molecular Sciences, Macquarie University, Sydney, Australia,Nicolle H. Packer
| | - Ian T. Paulsen
- ARC Industrial Transformation Training Centre for Molecular Technologies in the Food Industry, Macquarie University, Sydney, Australia,Department of Molecular Sciences, Macquarie University, Sydney, Australia,CONTACT Ian Paulsen Department of Molecular Sciences, Macquarie University, Australia
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5
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Low KE, Smith SP, Abbott DW, Boraston AB. The glycoconjugate-degrading enzymes of Clostridium perfringens: Tailored catalysts for breaching the intestinal mucus barrier. Glycobiology 2020; 31:681-690. [PMID: 32472136 DOI: 10.1093/glycob/cwaa050] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2020] [Revised: 05/21/2020] [Accepted: 06/01/2020] [Indexed: 01/07/2023] Open
Abstract
The gastrointestinal (GI) tract of humans and animals is lined with mucus that serves as a barrier between the gut microbiota and the epithelial layer of the intestine. As the proteins present in mucus are typically heavily glycosylated, such as the mucins, several enteric commensal and pathogenic bacterial species are well-adapted to this rich carbon source and their genomes are replete with carbohydrate-active enzymes targeted toward dismantling the glycans and proteins present in mucus. One such species is Clostridium perfringens, a Gram-positive opportunistic pathogen indigenous to the gut of humans and animals. The genome of C. perfringens encodes numerous carbohydrate-active enzymes that are predicted or known to target glycosidic linkages within or on the termini of mucus glycans. Through this enzymatic activity, the degradation of the mucosal layer by C. perfringens has been implicated in a number of GI diseases, the most severe of which is necrotic enteritis. In this review, we describe the wide array of extracellular glycoside hydrolases, and their accessory modules, that is possessed by C. perfringens, and examine the unique multimodularity of these proteins in the context of degrading the glycoconjugates in mucus as a potential component of disease.
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Affiliation(s)
- Kristin E Low
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, 5403 1 Ave S, Lethbridge T1J 4B1, Canada
| | - Steven P Smith
- Department of Biomedical and Molecular Sciences, Queen's University, 99 University Ave, Kingston K7L 3N6, Canada
| | - D Wade Abbott
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, 5403 1 Ave S, Lethbridge T1J 4B1, Canada
| | - Alisdair B Boraston
- Faculty of Biochemistry and Microbiology, University of Victoria, Victoria V8P 5C2, Canada
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6
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Rahfeld P, Withers SG. Toward universal donor blood: Enzymatic conversion of A and B to O type. J Biol Chem 2019; 295:325-334. [PMID: 31792054 DOI: 10.1074/jbc.rev119.008164] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Abstract
Transfusion of blood, or more commonly red blood cells (RBCs), is integral to health care systems worldwide but requires careful matching of blood types to avoid serious adverse consequences. Of the four main blood types, A, B, AB, and O, only O can be given to any patient. This universal donor O-type blood is crucial for emergency situations where time or resources for typing are limited, so it is often in short supply. A and B blood differ from the O type in the presence of an additional sugar antigen (GalNAc and Gal, respectively) on the core H-antigen found on O-type RBCs. Thus, conversion of A, B, and AB RBCs to O-type RBCs should be achievable by removal of that sugar with an appropriate glycosidase. The first demonstration of a B-to-O conversion by Goldstein in 1982 required massive amounts of enzyme but enabled proof-of-principle transfusions without adverse effects in humans. New α-galactosidases and α-N-acetylgalactosaminidases were identified by screening bacterial libraries in 2007, allowing improved conversion of B and the first useful conversions of A-type RBCs, although under constrained conditions. In 2019, screening of a metagenomic library derived from the feces of an AB donor enabled discovery of a significantly more efficient two-enzyme system, involving a GalNAc deacetylase and a galactosaminidase, for A conversion. This promising system works well both in standard conditions and in whole blood. We discuss remaining challenges and opportunities for the use of such enzymes in blood conversion and organ transplantation.
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Affiliation(s)
- Peter Rahfeld
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada; Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia V6T 1Z4, Canada
| | - Stephen G Withers
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada; Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia V6T 1Z4, Canada; Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, British Columbia V6T 1Z3, Canada.
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7
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An enzymatic pathway in the human gut microbiome that converts A to universal O type blood. Nat Microbiol 2019; 4:1475-1485. [DOI: 10.1038/s41564-019-0469-7] [Citation(s) in RCA: 33] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2018] [Accepted: 04/25/2019] [Indexed: 01/08/2023]
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8
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Quintana-Hayashi MP, Padra M, Padra JT, Benktander J, Lindén SK. Mucus-Pathogen Interactions in the Gastrointestinal Tract of Farmed Animals. Microorganisms 2018; 6:E55. [PMID: 29912166 PMCID: PMC6027344 DOI: 10.3390/microorganisms6020055] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2018] [Revised: 06/09/2018] [Accepted: 06/15/2018] [Indexed: 12/29/2022] Open
Abstract
Gastrointestinal infections cause significant challenges and economic losses in animal husbandry. As pathogens becoming resistant to antibiotics are a growing concern worldwide, alternative strategies to treat infections in farmed animals are necessary in order to decrease the risk to human health and increase animal health and productivity. Mucosal surfaces are the most common route used by pathogens to enter the body. The mucosal surface that lines the gastrointestinal tract is covered by a continuously secreted mucus layer that protects the epithelial surface. The mucus layer is the first barrier the pathogen must overcome for successful colonization, and is mainly composed of densely glycosylated proteins called mucins. The vast array of carbohydrate structures present on the mucins provide an important setting for host-pathogen interactions. This review summarizes the current knowledge on gastrointestinal mucins and their role during infections in farmed animals. We examine the interactions between mucins and animal pathogens, with a focus on how pathogenic bacteria can modify the mucin environment in the gut, and how this in turn affects pathogen adhesion and growth. Finally, we discuss analytical challenges and complexities of the mucus-based defense, as well as its potential to control infections in farmed animals.
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Affiliation(s)
- Macarena P Quintana-Hayashi
- Department of Medical Biochemistry and Cell biology, Institute of Biomedicine, Sahlgrenska Academy, University of Gothenburg, Box 440, 405 30 Gothenburg, Sweden.
| | - Médea Padra
- Department of Medical Biochemistry and Cell biology, Institute of Biomedicine, Sahlgrenska Academy, University of Gothenburg, Box 440, 405 30 Gothenburg, Sweden.
| | - János Tamás Padra
- Department of Medical Biochemistry and Cell biology, Institute of Biomedicine, Sahlgrenska Academy, University of Gothenburg, Box 440, 405 30 Gothenburg, Sweden.
| | - John Benktander
- Department of Medical Biochemistry and Cell biology, Institute of Biomedicine, Sahlgrenska Academy, University of Gothenburg, Box 440, 405 30 Gothenburg, Sweden.
| | - Sara K Lindén
- Department of Medical Biochemistry and Cell biology, Institute of Biomedicine, Sahlgrenska Academy, University of Gothenburg, Box 440, 405 30 Gothenburg, Sweden.
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9
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Kwan DH. Structure-Guided Directed Evolution of Glycosidases: A Case Study in Engineering a Blood Group Antigen-Cleaving Enzyme. Methods Enzymol 2018; 597:25-53. [PMID: 28935105 DOI: 10.1016/bs.mie.2017.06.002] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/10/2023]
Abstract
Directed evolution is an incredibly powerful strategy for engineering enzyme function. Applying this approach to glycosidases offers enormous potential for the development of highly specialized tools in chemical glycobiology. Performing enzyme directed evolution requires the generation, by random mutagenesis, of mutant libraries from which large numbers of variant enzymes must be screened in high-throughput assays. A structure-guided "semirational" method for library creation allows researchers to target specific amino acid positions for mutagenesis, concentrating mutations where they might be most effective in order to produce mutant libraries of a manageable size, minimizing screening effort while maximizing the chances of finding improved mutants. Well-designed assays, which may use specially prepared substrates, enable efficient screening of these mutant libraries. This chapter will detail general methods in the structure-guided directed evolution of glycosidases, which have previously been employed in engineering a blood group antigen-cleaving enzyme.
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Affiliation(s)
- David H Kwan
- Centre for Applied Synthetic Biology, Centre for Structural and Functional Genomics, Concordia University, Montréal, Québec, Canada.
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10
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Wu AM, Singh T, Chen YL, Anderson KM, Li SC, Li YT. Glycan binding profile of a fucolectin-related protein (FRP) encoded by the SP2159 gene of Streptococcus pneumoniae. BIOCHIMIE OPEN 2017; 6:17-23. [PMID: 29892558 PMCID: PMC5991896 DOI: 10.1016/j.biopen.2017.12.002] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/27/2017] [Accepted: 12/17/2017] [Indexed: 10/27/2022]
Abstract
The recombinant fucolectin-related protein (FRP) of unknown function, encoded by the SP2159 gene of Streptococcus pneumoniae, was expressed in E. coli. In this study, its glycan-recognition epitopes and their binding potencies were examined by enzyme-linked lectinosorbent and inhibition assays. The results indicate that FRP reacted strongly with human blood group ABH and l-Fucα1→2-active glycotopes and in their polyvalent (super) forms. When expressed by mass relative potency, the binding affinities of FRP to poly-l-Fucα1→glycotopes were about 5.0 × 105 folds higher than that of the mono-l-Fucα1→glycotope form. This unique binding property of FRP can be used as a special tool to differentiate complex forms of l-Fucα1→2 and other forms of glycotopes.
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Affiliation(s)
- Albert M Wu
- Glyco-Immunochemistry Research Laboratory, Institute of Biomedical Sciences, College of Medicine, Chang-Gung University, Kwei-san, Tao-yuan, 333, Taiwan
| | - Tanuja Singh
- Glyco-Immunochemistry Research Laboratory, Institute of Biomedical Sciences, College of Medicine, Chang-Gung University, Kwei-san, Tao-yuan, 333, Taiwan
| | - Yung Liang Chen
- Graduate Institute of Medical Laboratory Science and Biotechnology, Yuanpei University of Medical Technology, Hsinchu City 300, Taiwan
| | - Kimberly M Anderson
- Department of Biochemistry and Molecular Biology, Tulane University, School of Medicine, 1430 Tulane Ave., New Orleans, LA 70112, USA
| | - Su Chen Li
- Department of Biochemistry and Molecular Biology, Tulane University, School of Medicine, 1430 Tulane Ave., New Orleans, LA 70112, USA
| | - Yu Teh Li
- Department of Biochemistry and Molecular Biology, Tulane University, School of Medicine, 1430 Tulane Ave., New Orleans, LA 70112, USA
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11
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Kumbhare SV, Kumar H, Chowdhury SP, Dhotre DP, Endo A, Mättö J, Ouwehand AC, Rautava S, Joshi R, Patil NP, Patil RH, Isolauri E, Bavdekar AR, Salminen S, Shouche YS. A cross-sectional comparative study of gut bacterial community of Indian and Finnish children. Sci Rep 2017; 7:10555. [PMID: 28874767 PMCID: PMC5585376 DOI: 10.1038/s41598-017-11215-y] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2017] [Accepted: 08/21/2017] [Indexed: 02/06/2023] Open
Abstract
The human gut microbiome plays a crucial role in the compositional development of gut microbiota. Though well documented in western pediatrics population, little is known about how various host conditions affect populations in different geographic locations such as the Indian subcontinent. Given the impact of distinct environmental conditions, our study assess the gut bacterial diversity of a small cohort of Indian and Finnish children and investigated the influence of FUT2 secretor status and birth mode on the gut microbiome of these populations. Using multiple profiling techniques, we show that the gut bacterial community structure in 13-14-year-old Indian (n = 47) and Finnish (n = 52) children differs significantly. Specifically, Finnish children possessed higher Blautia and Bifidobacterium, while genera Prevotella and Megasphaera were predominant in Indian children. Our study also demonstrates a strong influence of FUT2 and birth mode variants on specific gut bacterial taxa, influence of which was noticed to differ between the two populations under study.
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Affiliation(s)
- Shreyas V Kumbhare
- Department of Microbiology, R.C. Patel Arts, Science, and Commerce College, Shirpur, Dist. Dhule, Maharashtra, 425405, India
- National Centre for Cell Science, Savitribai Phule University of Pune campus, Ganeshkhind, Pune, Maharashtra, 411007, India
| | - Himanshu Kumar
- Functional Foods Forum, Faculty of medicine, University of Turku, Turku, 20520, Finland
| | - Somak P Chowdhury
- National Centre for Cell Science, Savitribai Phule University of Pune campus, Ganeshkhind, Pune, Maharashtra, 411007, India
- Max Planck Institute for Biogeochemisty, Jena, 07747, Germany
| | - Dhiraj P Dhotre
- National Centre for Cell Science, Savitribai Phule University of Pune campus, Ganeshkhind, Pune, Maharashtra, 411007, India
| | - Akihito Endo
- Department of Food and Cosmetic Science, Tokyo University of Agriculture, Hokkaido, Japan
| | - Jaana Mättö
- Finnish Red Cross Blood Service, Kivihaantie 7, Helsinki, 00310, Finland
| | - Arthur C Ouwehand
- Active Nutrition, DuPont Nutrition & Health, Kantvik, 02460, Finland
| | - Samuli Rautava
- Functional Foods Forum, Faculty of medicine, University of Turku, Turku, 20520, Finland
- Department of Paediatrics, University of Turku, Turku, 20520, Finland
| | - Ruchi Joshi
- King Edward Memorial hospital research centre, Pune, Maharashtra, 411011, India
| | - Nitinkumar P Patil
- Department of Microbiology, Smt. Chandibai Himathmal Mansukhani College, Ulhasnagar, Thane, Maharashtra, 421003, India
| | - Ravindra H Patil
- Department of Microbiology, R.C. Patel Arts, Science, and Commerce College, Shirpur, Dist. Dhule, Maharashtra, 425405, India
| | - Erika Isolauri
- Department of Paediatrics, University of Turku, Turku, 20520, Finland
| | - Ashish R Bavdekar
- King Edward Memorial hospital research centre, Pune, Maharashtra, 411011, India
| | - Seppo Salminen
- Functional Foods Forum, Faculty of medicine, University of Turku, Turku, 20520, Finland.
| | - Yogesh S Shouche
- National Centre for Cell Science, Savitribai Phule University of Pune campus, Ganeshkhind, Pune, Maharashtra, 411007, India.
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12
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The Details of Glycolipid Glycan Hydrolysis by the Structural Analysis of a Family 123 Glycoside Hydrolase from Clostridium perfringens. J Mol Biol 2016; 428:3253-3265. [DOI: 10.1016/j.jmb.2016.03.020] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2016] [Revised: 03/17/2016] [Accepted: 03/21/2016] [Indexed: 01/02/2023]
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13
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Fan S, Zhang H, Chen X, Lu L, Xu L, Xiao M. Cloning, characterization, and production of three α-l-fucosidases fromClostridium perfringensATCC 13124. J Basic Microbiol 2015; 56:347-57. [DOI: 10.1002/jobm.201500582] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2015] [Accepted: 11/22/2015] [Indexed: 01/12/2023]
Affiliation(s)
- Shuquan Fan
- State Key Lab of Microbial Technology, National Glycoengineering Research Center, and Shandong Provincial Key Lab of Carbohydrate Chemistry and Glycobiology; Shandong University; Jinan China
| | - Huaqin Zhang
- State Key Lab of Microbial Technology, National Glycoengineering Research Center, and Shandong Provincial Key Lab of Carbohydrate Chemistry and Glycobiology; Shandong University; Jinan China
| | - Xiaodi Chen
- State Key Lab of Microbial Technology, National Glycoengineering Research Center, and Shandong Provincial Key Lab of Carbohydrate Chemistry and Glycobiology; Shandong University; Jinan China
| | - Lili Lu
- State Key Lab of Microbial Technology, National Glycoengineering Research Center, and Shandong Provincial Key Lab of Carbohydrate Chemistry and Glycobiology; Shandong University; Jinan China
| | - Li Xu
- State Key Lab of Microbial Technology, National Glycoengineering Research Center, and Shandong Provincial Key Lab of Carbohydrate Chemistry and Glycobiology; Shandong University; Jinan China
| | - Min Xiao
- State Key Lab of Microbial Technology, National Glycoengineering Research Center, and Shandong Provincial Key Lab of Carbohydrate Chemistry and Glycobiology; Shandong University; Jinan China
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14
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Kumar H, Wacklin P, Nakphaichit M, Loyttyniemi E, Chowdhury S, Shouche Y, Mättö J, Isolauri E, Salminen S. Secretor Status Is Strongly Associated with Microbial Alterations Observed during Pregnancy. PLoS One 2015; 10:e0134623. [PMID: 26231005 PMCID: PMC4521695 DOI: 10.1371/journal.pone.0134623] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2015] [Accepted: 07/12/2015] [Indexed: 01/22/2023] Open
Abstract
During pregnancy there are significant changes in gut microbiota composition and activity. The impact of secretor status as determined by genotyping FUT2 (fucosyltransferase 2) gene was taken as one of the confounding factors associated with faecal microbiota changes during pregnancy. In this prospective study, we followed women during pregnancy (total = 123 of which secretors = 108, non-secretors = 15) and characterised their gut microbiota by quantitative polymerase chain reaction (qPCR), Fluorescence In situ Hybridisation (FISH), Denaturing Gradient Gel Electrophoresis (DGGE) and pyrosequencing. qPCR revealed that C. coccoides group counts decreased significantly in non-secretors in comparison to secretors (p = 0.02). Similar tendency was found by FISH analysis in Clostridium histolyticum and Lactobacillus-Enterococcus groups between the secretor and the non-secretor pregnant women. DGGE analysis showed significant decrease in richness of Clostridium sp. between secretor and non-secretor mothers during pregnancy. Pyrosequencing based analysis at phyla level showed that there is greater increase in Actinobacteria in secretors in comparison to non-secretors, whereas Proteobacteria showed more increase in non-secretors. Change in relative abundance of Clostridiaceae family from first to third trimester were significantly associated with secretor status of pregnant women (p = 0.05). Polyphasic approach for microbiota analysis points out that the host secretor status (FUT2 genotype) affects the gut microbiota during pregnancy. This may lead to altered infant gut microbiota colonization.
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Affiliation(s)
- Himanshu Kumar
- Funtional Foods Forum, University of Turku, Turku, Finland, 20520
| | | | - Massalin Nakphaichit
- Department of Biotechnology, Faculty of Agro-Industry, Kasetsart University, Bangkok, Thailand, 10900
| | - Eliisa Loyttyniemi
- Department of statistics, Faculty of Medicine, University of Turku, Turku, Finland, 20520
| | - Somak Chowdhury
- Microbial Culture Collection, National Centre for Cell Science, Pune University Campus, Pune, Maharashtra, India, 411007
| | - Yogesh Shouche
- Microbial Culture Collection, National Centre for Cell Science, Pune University Campus, Pune, Maharashtra, India, 411007
| | - Jaana Mättö
- Finnish Red Cross Blood Service, Helsinki, Finland
| | - Erika Isolauri
- Department of Paediatrics, University of Turku, Turku, Finland, 20520
| | - Seppo Salminen
- Funtional Foods Forum, University of Turku, Turku, Finland, 20520
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15
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Sun Z, Ilie A, Reetz MT. Ansätze zur Produktion von universellem Blut durch strukturgerichtete Evolution von Glykosidhydrolasen. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201504318] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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16
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Sun Z, Ilie A, Reetz MT. Towards the Production of Universal Blood by Structure-Guided Directed Evolution of Glycoside Hydrolases. Angew Chem Int Ed Engl 2015; 54:9158-60. [DOI: 10.1002/anie.201504318] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2015] [Indexed: 12/17/2022]
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17
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Kwan DH, Ernst S, Kötzler MP, Withers SG. Chemoenzymatic Synthesis of a Type 2 Blood Group A Tetrasaccharide and Development of High-throughput Assays Enables a Platform for Screening Blood Group Antigen-cleaving Enzymes. Glycobiology 2015; 25:806-11. [DOI: 10.1093/glycob/cwv031] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2015] [Accepted: 05/06/2015] [Indexed: 12/25/2022] Open
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18
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Kwan DH, Constantinescu I, Chapanian R, Higgins MA, Kötzler MP, Samain E, Boraston AB, Kizhakkedathu JN, Withers SG. Toward Efficient Enzymes for the Generation of Universal Blood through Structure-Guided Directed Evolution. J Am Chem Soc 2015; 137:5695-705. [PMID: 25870881 DOI: 10.1021/ja5116088] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Blood transfusions are critically important in many medical procedures, but the presence of antigens on red blood cells (RBCs, erythrocytes) means that careful blood-typing must be carried out prior to transfusion to avoid adverse and sometimes fatal reactions following transfusion. Enzymatic removal of the terminal N-acetylgalactosamine or galactose of A- or B-antigens, respectively, yields universal O-type blood, but is inefficient. Starting with the family 98 glycoside hydrolase from Streptococcus pneumoniae SP3-BS71 (Sp3GH98), which cleaves the entire terminal trisaccharide antigenic determinants of both A- and B-antigens from some of the linkages on RBC surface glycans, through several rounds of evolution, we developed variants with vastly improved activity toward some of the linkages that are resistant to cleavage by the wild-type enzyme. The resulting enzyme effects more complete removal of blood group antigens from cell surfaces, demonstrating the potential for engineering enzymes to generate antigen-null blood from donors of various types.
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Affiliation(s)
| | | | | | - Melanie A Higgins
- ⊥Department of Biochemistry and Microbiology, University of Victoria, Victoria, British Columbia, Canada V8W 3P6
| | | | - Eric Samain
- #Centre de Recherches sur les Macromolécules Végétales, Centre National de la Recherche Scientifique, Grenoble Cedex 9, France BP 53, 38041
| | - Alisdair B Boraston
- ⊥Department of Biochemistry and Microbiology, University of Victoria, Victoria, British Columbia, Canada V8W 3P6
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19
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Tailford LE, Crost EH, Kavanaugh D, Juge N. Mucin glycan foraging in the human gut microbiome. Front Genet 2015; 6:81. [PMID: 25852737 PMCID: PMC4365749 DOI: 10.3389/fgene.2015.00081] [Citation(s) in RCA: 522] [Impact Index Per Article: 58.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2014] [Accepted: 02/16/2015] [Indexed: 12/21/2022] Open
Abstract
The availability of host and dietary carbohydrates in the gastrointestinal (GI) tract plays a key role in shaping the structure-function of the microbiota. In particular, some gut bacteria have the ability to forage on glycans provided by the mucus layer covering the GI tract. The O-glycan structures present in mucin are diverse and complex, consisting predominantly of core 1-4 mucin-type O-glycans containing α- and β- linked N-acetyl-galactosamine, galactose and N-acetyl-glucosamine. These core structures are further elongated and frequently modified by fucose and sialic acid sugar residues via α1,2/3/4 and α2,3/6 linkages, respectively. The ability to metabolize these mucin O-linked oligosaccharides is likely to be a key factor in determining which bacterial species colonize the mucosal surface. Due to their proximity to the immune system, mucin-degrading bacteria are in a prime location to influence the host response. However, despite the growing number of bacterial genome sequences available from mucin degraders, our knowledge on the structural requirements for mucin degradation by gut bacteria remains fragmented. This is largely due to the limited number of functionally characterized enzymes and the lack of studies correlating the specificity of these enzymes with the ability of the strain to degrade and utilize mucin and mucin glycans. This review focuses on recent findings unraveling the molecular strategies used by mucin-degrading bacteria to utilize host glycans, adapt to the mucosal environment, and influence human health.
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Affiliation(s)
| | | | | | - Nathalie Juge
- The Gut Health and Food Safety Institute Strategic Programme, Institute of Food ResearchNorwich, UK
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20
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Takada N, Mori C, Takai R, Takayama T, Watanabe Y, Nakamura K, Takamizawa K. Involvement of soil bacteria in ABO blood mistyping. Leg Med (Tokyo) 2014; 17:128-33. [PMID: 25464834 DOI: 10.1016/j.legalmed.2014.10.007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2014] [Revised: 09/21/2014] [Accepted: 10/20/2014] [Indexed: 11/16/2022]
Abstract
The current study investigated whether ABO blood mistyping of human biological samples is induced by soil bacteria. A total of 380 bacterial strains were isolated from 50 discrete soil samples using human blood agar, and glycosidase activity evaluated for all strains using 4-nitropheny glycosides (4-nitrophenyl n-acetyl-α-D-galactosaminide, 4-nitrophenyl-α-D-galactopyranoside, 4-nitrophenyl-α-L-fucopyranoside) as substrates. Thirteen strains possessed α-galactosidase activity, and 16S rRNA sequence analysis revealed a close relatedness to the genus Bacillus. An indirect competitive enzyme-linked immunosorbent assay confirmed seven strains exhibited type B antigen degradation activity. These results demonstrated that 1.8% of the bacteria isolated from soil, were Bacillus sp., possessed galactosidase activity, and had the potential to cause ABO blood mistyping.
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Affiliation(s)
- Naoki Takada
- Science of Biological Resources, United Graduate School of Agricultural Sciences, Gifu University, Gifu 501-1193, Japan; Forensic Science Laboratory, Gifu Prefectural Police Headquarters, Gifu 500-8501, Japan.
| | - Chikahiro Mori
- Forensic Science Laboratory, Gifu Prefectural Police Headquarters, Gifu 500-8501, Japan
| | - Rie Takai
- Forensic Science Laboratory, Gifu Prefectural Police Headquarters, Gifu 500-8501, Japan
| | - Tomohiro Takayama
- Forensic Science Laboratory, Gifu Prefectural Police Headquarters, Gifu 500-8501, Japan
| | - Yoshihisa Watanabe
- Forensic Science Laboratory, Gifu Prefectural Police Headquarters, Gifu 500-8501, Japan
| | - Kohei Nakamura
- Faculty of Applied Biological Sciences, Gifu University, Gifu 501-1193, Japan
| | - Kazuhiro Takamizawa
- Faculty of Applied Biological Sciences, Gifu University, Gifu 501-1193, Japan
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21
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Chapanian R, Kwan DH, Constantinescu I, Shaikh FA, Rossi NAA, Withers SG, Kizhakkedathu JN. Enhancement of biological reactions on cell surfaces via macromolecular crowding. Nat Commun 2014; 5:4683. [PMID: 25140641 PMCID: PMC4978540 DOI: 10.1038/ncomms5683] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2014] [Accepted: 07/11/2014] [Indexed: 12/18/2022] Open
Abstract
The reaction of macromolecules such as enzymes and antibodies with cell surfaces is often an inefficient process, requiring large amounts of expensive reagent. Here we report a general method based on macromolecular crowding with a range of neutral polymers to enhance such reactions, using red blood cells (RBCs) as a model system. Rates of conversion of type A and B red blood cells to universal O type by removal of antigenic carbohydrates with selective glycosidases are increased up to 400-fold in the presence of crowders. Similar enhancements are seen for antibody binding. We further explore the factors underlying these enhancements using confocal microscopy and fluorescent recovery after bleaching (FRAP) techniques with various fluorescent protein fusion partners. Increased cell-surface concentration due to volume exclusion, along with two-dimensionally confined diffusion of enzymes close to the cell surface, appear to be the major contributing factors.
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Affiliation(s)
- Rafi Chapanian
- 1] Centre for Blood Research, University of British Columbia, 2350 Health Sciences Mall, Life Sciences Centre, Vancouver, British Columbia, Canada V6T 1Z3 [2] Department of Pathology and Laboratory Medicine, University of British Columbia, 2350 Health Sciences Mall, Life Sciences Centre, Vancouver, British Columbia, Canada V6T 1Z3
| | - David H Kwan
- 1] Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, British Columbia, Canada V6T 1Z1 [2] Centre for High-Throughput Biology, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z3
| | - Iren Constantinescu
- Centre for Blood Research, University of British Columbia, 2350 Health Sciences Mall, Life Sciences Centre, Vancouver, British Columbia, Canada V6T 1Z3
| | - Fathima A Shaikh
- Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, British Columbia, Canada V6T 1Z1
| | - Nicholas A A Rossi
- Centre for Blood Research, University of British Columbia, 2350 Health Sciences Mall, Life Sciences Centre, Vancouver, British Columbia, Canada V6T 1Z3
| | - Stephen G Withers
- 1] Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, British Columbia, Canada V6T 1Z1 [2] Centre for High-Throughput Biology, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z3 [3] Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z3
| | - Jayachandran N Kizhakkedathu
- 1] Centre for Blood Research, University of British Columbia, 2350 Health Sciences Mall, Life Sciences Centre, Vancouver, British Columbia, Canada V6T 1Z3 [2] Department of Pathology and Laboratory Medicine, University of British Columbia, 2350 Health Sciences Mall, Life Sciences Centre, Vancouver, British Columbia, Canada V6T 1Z3 [3] Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, British Columbia, Canada V6T 1Z1
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22
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Nath A, Mondal S, Chakraborty S, Bhattacharjee C, Chowdhury R. Production, purification, characterization, immobilization, and application ofβ-galactosidase: a review. ASIA-PAC J CHEM ENG 2014. [DOI: 10.1002/apj.1801] [Citation(s) in RCA: 46] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Arijit Nath
- Chemical Engineering Department; Jadavpur University; Kolkata West Bengal 700032 India
| | - Subhoshmita Mondal
- Chemical Engineering Department; Jadavpur University; Kolkata West Bengal 700032 India
| | - Sudip Chakraborty
- Chemical Engineering Department; Jadavpur University; Kolkata West Bengal 700032 India
- Department of Chemical Engineering and Materials; University of Calabria; Cubo-44C Rende 87036 CS Italy
| | | | - Ranjana Chowdhury
- Chemical Engineering Department; Jadavpur University; Kolkata West Bengal 700032 India
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23
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Wacklin P, Tuimala J, Nikkilä J, Sebastian Tims, Mäkivuokko H, Alakulppi N, Laine P, Rajilic-Stojanovic M, Paulin L, de Vos WM, Mättö J. Faecal microbiota composition in adults is associated with the FUT2 gene determining the secretor status. PLoS One 2014; 9:e94863. [PMID: 24733310 PMCID: PMC3986271 DOI: 10.1371/journal.pone.0094863] [Citation(s) in RCA: 110] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2013] [Accepted: 03/20/2014] [Indexed: 12/21/2022] Open
Abstract
The human intestine is colonised with highly diverse and individually defined microbiota, which likely has an impact on the host well-being. Drivers of the individual variation in the microbiota compositions are multifactorial and include environmental, host and dietary factors. We studied the impact of the host secretor status, encoded by fucosyltransferase 2 (FUT2) -gene, on the intestinal microbiota composition. Secretor status determines the expression of the ABH and Lewis histo-blood group antigens in the intestinal mucosa. The study population was comprised of 14 non-secretor (FUT2 rs601338 genotype AA) and 57 secretor (genotypes GG and AG) adult individuals of western European descent. Intestinal microbiota was analyzed by PCR-DGGE and for a subset of 12 non-secretor subjects and 12 secretor subjects additionally by the 16S rRNA gene pyrosequencing and the HITChip phylogenetic microarray analysis. All three methods showed distinct clustering of the intestinal microbiota and significant differences in abundances of several taxa representing dominant microbiota between the non-secretors and the secretors as well as between the FUT2 genotypes. In addition, the non-secretors had lower species richness than the secretors. The soft clustering of microbiota into enterotypes (ET) 1 and 3 showed that the non-secretors had a higher probability of belonging to ET1 and the secretors to ET3. Our study shows that secretor status and FUT2 polymorphism are associated with the composition of human intestinal microbiota, and appears thus to be one of the key drivers affecting the individual variation of human intestinal microbiota.
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Affiliation(s)
| | | | | | - Sebastian Tims
- Laboratory of Microbiology, Wageningen University, Wageningen, The Netherlands
| | | | | | - Pia Laine
- Institute of Biotechnology, University of Helsinki, Helsinki, Finland
| | | | - Lars Paulin
- Institute of Biotechnology, University of Helsinki, Helsinki, Finland
| | - Willem M. de Vos
- Department of Veterinary Biosciences and Department of Bacteriology and Immunology, University of Helsinki, Helsinki, Finland
- Laboratory of Microbiology, Wageningen University, Wageningen, The Netherlands
| | - Jaana Mättö
- Finnish Red Cross Blood Service, Helsinki, Finland
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24
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Abel B, Aslan K. Immobilization of enzymes to silver island films for enhanced enzymatic activity. J Colloid Interface Sci 2014; 415:133-42. [PMID: 24267340 PMCID: PMC3863589 DOI: 10.1016/j.jcis.2013.10.026] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2013] [Revised: 10/10/2013] [Accepted: 10/13/2013] [Indexed: 11/25/2022]
Abstract
HYPOTHESIS The performance of the enzyme-based biosensors depends on the enzymatic activity and the use of an appropriate technique for immobilization of enzymes. The incorporation of silver island films (SIFs) into the enzyme-based biosensors is expected to enhance the enzymatic activity and to increase the detectability of analytes of interest. EXPERIMENTS Two enzymes, β-galactosidase (β-Gal) and alkaline phosphatase (AP) were immobilized onto SIFs using the interactions of avidin-modified enzymes with (i) a monolayer of biotinylated bovine serum albumin (b-BSA) and/or (ii) a monolayer of biotinylated poly(ethylene-glycol)-amine (BEA molecular weight: 550-10,000Da). To confirm the effect of SIFs on enzymatic activity, two control surfaces (no silver) were also employed. FINDINGS No enhancement in enzymatic activity for β-Gal on all SIFs was observed, which was attributed to the inhibition of β-Gal activity due to direct interactions of β-Gal with SIFs. The AP activity on SIFs with BEA was significantly larger than that observed on SIFs with b-BSA, where a 300% increase in AP activity was observed as compared to control surfaces. These observations suggest that SIFs can significantly enhance AP activity, which could help improve the detection limits of ELISAs and immunoassays that employ AP.
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Affiliation(s)
- Biebele Abel
- Morgan State University, Department of Chemistry, 1700 East Cold Spring Lane, Baltimore, MD 21251 USA
| | - Kadir Aslan
- Morgan State University, Department of Chemistry, 1700 East Cold Spring Lane, Baltimore, MD 21251 USA
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25
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Wakinaka T, Kiyohara M, Kurihara S, Hirata A, Chaiwangsri T, Ohnuma T, Fukamizo T, Katayama T, Ashida H, Yamamoto K. Bifidobacterial α-galactosidase with unique carbohydrate-binding module specifically acts on blood group B antigen. Glycobiology 2012; 23:232-40. [PMID: 23089618 DOI: 10.1093/glycob/cws142] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
Bifidobacterium bifidum is one of the most frequently found bifidobacteria in the intestines of newborn infants. We previously reported that B. bifidum possesses unique metabolic pathways for O-linked glycans on gastrointestinal mucin (Yoshida E, Sakurama H, Kiyohara M, Nakajima M, Kitaoka M, Ashida H, Hirose J, Katayama T, Yamamoto K, Kumagai H. 2012. Bifidobacterium longum subsp. infantis uses two different β-galactosidases for selectively degrading type-1 and type-2 human milk oligosaccharides. Glycobiology. 22:361-368). The nonreducing termini of O-linked glycans on mucin are frequently covered with histo-blood group antigens. Here, we identified a gene agabb from B. bifidum JCM 1254, which encodes glycoside hydrolase (GH) family 110 α-galactosidase. AgaBb is a 1289-amino acid polypeptide containing an N-terminal signal sequence, a GH110 domain, a carbohydrate-binding module (CBM) 51 domain, a bacterial Ig-like (Big) 2 domain and a C-terminal transmembrane region, in this order. The recombinant enzyme expressed in Escherichia coli hydrolyzed α1,3-linked Gal in branched blood group B antigen [Galα1-3(Fucα1-2)Galβ1-R], but not in a linear xenotransplantation antigen (Galα1-3Galβ1-R). The enzyme also acted on group B human salivary mucin and erythrocytes. We also revealed that CBM51 specifically bound blood group B antigen using both isothermal titration calorimetry and a solid-phase binding assay, and it enhanced the affinity of the enzyme toward substrates with multivalent B antigens. We suggest that this enzyme plays an important role in degrading B antigens to acquire nutrients from mucin oligosaccharides in the gastrointestinal tracts.
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Affiliation(s)
- Takura Wakinaka
- Graduate School of Biostudies, Kyoto University, Kyoto 606-8502, Japan
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26
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Kościelak J. The hypothesis on function of glycosphingolipids and ABO blood groups revisited. Neurochem Res 2012; 37:1170-84. [PMID: 22407244 DOI: 10.1007/s11064-012-0734-0] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2011] [Revised: 12/23/2011] [Accepted: 02/15/2012] [Indexed: 12/12/2022]
Abstract
Twenty-five years ago the author proposed new ideas of glycoprotein (GPs) and glycosphingolipid (GSLs) functions at the cell membrane. The GPs, apart from their glycan carrying capacity, were assumed to have specific, protein associated, functions. In contrast, GSLs such as those of globo and neolacto/lacto series, were considered to be energetically cheap membrane packing substances, filling in membrane spaces not covered with functional GPs. The terminal carbohydrate structures of the neolacto/lacto GSLs, i.e., sialic acid residues and ABH glycotopes, were postulated to have either regulatory or protective functions, respectively. A special active role was ascribed to terminal β-galactosyl residues of GSLs and GPs. Gangliosides were considered to be functional GSLs. In the present review the author discusses these old ideas in context of the contemporary knowledge and comes to the conclusion that they have not aged.
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Affiliation(s)
- Jerzy Kościelak
- Department of Biochemistry, Institute of Hematology and Transfusion Medicine, Warsaw, Poland.
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27
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Li SC, Anderson KM, Li YT. A unique endo-β-galactosidase that cleaves both blood group A and B glycotopes. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2011; 705:81-95. [PMID: 21618105 DOI: 10.1007/978-1-4419-7877-6_5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/20/2023]
Affiliation(s)
- Su-Chen Li
- Department of Biochemistry, Tulane University Health Sciences Center, School of Medicine, New Orleans, LA 70112, USA.
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28
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Fujita M, Tsuchida A, Hirata A, Kobayashi N, Goto K, Osumi K, Hirose Y, Nakayama J, Yamanoi T, Ashida H, Mizuno M. Glycoside hydrolase family 89 alpha-N-acetylglucosaminidase from Clostridium perfringens specifically acts on GlcNAc alpha1,4Gal beta1R at the non-reducing terminus of O-glycans in gastric mucin. J Biol Chem 2010; 286:6479-89. [PMID: 21177247 DOI: 10.1074/jbc.m110.206722] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023] Open
Abstract
In mammals, α-linked GlcNAc is primarily found in heparan sulfate/heparin and gastric gland mucous cell type mucin. α-N-acetylglucosaminidases (αGNases) belonging to glycoside hydrolase family 89 are widely distributed from bacteria to higher eukaryotes. Human lysosomal αGNase is well known to degrade heparin and heparan sulfate. Here, we reveal the substrate specificity of αGNase (AgnC) from Clostridium perfringens strain 13, a bacterial homolog of human αGNase, by chemically synthesizing a series of disaccharide substrates containing α-linked GlcNAc. AgnC was found to release GlcNAc from GlcNAcα1,4Galβ1pMP and GlcNAcα1pNP substrates (where pMP and pNP represent p-methoxyphenyl and p-nitrophenyl, respectively). AgnC also released GlcNAc from porcine gastric mucin and cell surface mucin. Because AgnC showed no activity against any of the GlcNAcα1,2Galβ1pMP, GlcNAcα1,3Galβ1pMP, GlcNAcα1,6Galβ1pMP, and GlcNAcα1,4GlcAβ1pMP substrates, this enzyme may represent a specific glycosidase required for degrading α-GlcNAc-capped O-glycans of the class III mucin secreted from the stomach and duodenum. Deletion of the C-terminal region containing several carbohydrate-binding module 32 (CBM32) domains significantly reduced the activity for porcine gastric mucin; however, activity against GlcNAcα1,4Galβ1pMP was markedly enhanced. Dot blot and ELISA analyses revealed that the deletion construct containing the C-terminal CBM-C2 to CBM-C6 domains binds strongly to porcine gastric mucin. Consequently, tandem CBM32 domains located near the C terminus of AgnC should function by increasing the affinity for branched or clustered α-GlcNAc-containing glycans. The agnC gene-disrupted strain showed significantly reduced growth on the class III mucin-containing medium compared with the wild type strain, suggesting that AgnC might have an important role in dominant growth in intestines.
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Affiliation(s)
- Masaya Fujita
- Noguchi Institute, 1-8-1 Kaga, Itabashi, Tokyo 173-0003, Japan.
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29
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Carbohydrate-binding domains: multiplicity of biological roles. Appl Microbiol Biotechnol 2009; 85:1241-9. [DOI: 10.1007/s00253-009-2331-y] [Citation(s) in RCA: 253] [Impact Index Per Article: 16.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2009] [Revised: 10/23/2009] [Accepted: 10/24/2009] [Indexed: 10/20/2022]
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30
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Shaikh FA, Randriantsoa M, Withers SG. Mechanistic Analysis of the Blood Group Antigen-Cleaving endo-β-Galactosidase from Clostridium perfringens. Biochemistry 2009; 48:8396-404. [DOI: 10.1021/bi900991h] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Fathima Aidha Shaikh
- Department of Chemistry, 2036 Main Mall, University of British Columbia, Vancouver V6T 1Z1, Canada
| | - Mialy Randriantsoa
- Centre de Recherches sur les Macromolécules Végétales (CERMAV - CNRS), affiliated with Joseph Fourier University, BP 53, 38041 Grenoble Cedex 9, France
| | - Stephen G. Withers
- Department of Chemistry, 2036 Main Mall, University of British Columbia, Vancouver V6T 1Z1, Canada
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Cummings RD. The repertoire of glycan determinants in the human glycome. MOLECULAR BIOSYSTEMS 2009; 5:1087-104. [PMID: 19756298 DOI: 10.1039/b907931a] [Citation(s) in RCA: 361] [Impact Index Per Article: 24.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The number of glycan determinants that comprise the human glycome is not known. This uncertainty arises from limited knowledge of the total number of distinct glycans and glycan structures in the human glycome, as well as limited information about the glycan determinants recognized by glycan-binding proteins (GBPs), which include lectins, receptors, toxins, microbial adhesins, antibodies, and enzymes. Available evidence indicates that GBP binding sites may accommodate glycan determinants made up of 2 to 6 linear monosaccharides, together with their potential side chains containing other sugars and modifications, such as sulfation, phosphorylation, and acetylation. Glycosaminoglycans, including heparin and heparan sulfate, comprise repeating disaccharide motifs, where a linear sequence of 5 to 6 monosaccharides may be required for recognition. Based on our current knowledge of the composition of the glycome and the size of GBP binding sites, glycoproteins and glycolipids may contain approximately 3000 glycan determinants with an additional approximately 4000 theoretical pentasaccharide sequences in glycosaminoglycans. These numbers provide an achievable target for new chemical and/or enzymatic syntheses, and raise new challenges for defining the total glycome and the determinants recognized by GBPs.
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Affiliation(s)
- Richard D Cummings
- Department of Biochemistry, Emory University School of Medicine, 1510 Clifton Rd. #4001, Atlanta, GA 30322, USA.
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Higgins MA, Whitworth GE, El Warry N, Randriantsoa M, Samain E, Burke RD, Vocadlo DJ, Boraston AB. Differential recognition and hydrolysis of host carbohydrate antigens by Streptococcus pneumoniae family 98 glycoside hydrolases. J Biol Chem 2009; 284:26161-73. [PMID: 19608744 DOI: 10.1074/jbc.m109.024067] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
The presence of a fucose utilization operon in the Streptococcus pneumoniae genome and its established importance in virulence indicates a reliance of this bacterium on the harvesting of host fucose-containing glycans. The identities of these glycans, however, and how they are harvested is presently unknown. The biochemical and high resolution x-ray crystallographic analysis of two family 98 glycoside hydrolases (GH98s) from distinctive forms of the fucose utilization operon that originate from different S. pneumoniae strains reveal that one enzyme, the predominant type among pneumococcal isolates, has a unique endo-beta-galactosidase activity on the LewisY antigen. Altered active site topography in the other species of GH98 enzyme tune its endo-beta-galactosidase activity to the blood group A and B antigens. Despite their different specificities, these enzymes, and by extension all family 98 glycoside hydrolases, use an inverting catalytic mechanism. Many bacterial and viral pathogens exploit host carbohydrate antigens for adherence as a precursor to colonization or infection. However, this is the first evidence of bacterial endoglycosidase enzymes that are known to play a role in virulence and are specific for distinct host carbohydrate antigens. The strain-specific distribution of two distinct types of GH98 enzymes further suggests that S. pneumoniae strains may specialize to exploit host-specific antigens that vary from host to host, a factor that may feature in whether a strain is capable of colonizing a host or establishing an invasive infection.
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Affiliation(s)
- Melanie A Higgins
- Biochemistry and Microbiology, University of Victoria, Victoria, British Columbia V8W 3P6, Canada
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Removal of blood group A/B antigen in organs by ex vivo and in vivo administration of endo-beta-galactosidase (ABase) for ABO-incompatible transplantation. Transpl Immunol 2008; 20:132-8. [PMID: 18838121 DOI: 10.1016/j.trim.2008.09.007] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2008] [Revised: 09/10/2008] [Accepted: 09/10/2008] [Indexed: 01/18/2023]
Abstract
BACKGROUND ABO incompatibility in organ transplantation is still a high risk factor for antibody-mediated rejection, despite the progress in effective treatments. We have explored the possibility of using the enzyme to remove the blood type A/B antigen in organs. METHODS Recombinant endo-beta-galactosidase (ABase), which releases A/B antigen, was produced in E. coli BL-21. Human A/B red blood cells (RBC) were digested with ABase, and subjected to flow cytometric analysis after incubation with human sera. Purified recombinant ABase was intravenously administered to a baboon. Biopsies were taken from kidney and liver before and 1, 4 and 24 h after in vivo administration. Excised baboon kidneys were perfused with cold UW solution+/-purified recombinant ABase and preserved at 4 degrees C. Biopsies were taken before and 1 and 4 h after ex vivo perfusion. The change in A/B antigen expression was analyzed by immunohistochemical study. RESULTS ABase removed 82% of A antigen and 95% of B antigen in human A/B red blood cells, and suppressed anti-A/B antibody binding and complement activation effectively. ABase was also found to remain active at 4 degrees C. In vivo infusion of ABase into a blood type A baboon demonstrated a marked reduction of A antigen expression in the glomeruli of kidney (85% at 1 h, 9% at 4 h and 13% at 24 h) and the sinusoids of liver (47% at 1 h, 1% at 4 h and 3% at 24 h) without serious adverse effects. After ex vivo perfusion and cold storage of excised baboon kidney (blood type B) with ABase, the expression levels of B antigen in glomeruli were reduced to 49% at 1 h and 6% at 4 h. CONCLUSIONS This alternative approach might be useful for minimizing antibody removal and anti-B cell immunosuppression as an adjuvant therapy in ABO-incompatible kidney, liver and possibly heart transplantation.
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Human RBCs blood group conversion from A to O using a novel α-N-acetylgalactosaminidase of high specific activity. Sci Bull (Beijing) 2008. [DOI: 10.1007/s11434-008-0248-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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Ashida H, Maki R, Ozawa H, Tani Y, Kiyohara M, Fujita M, Imamura A, Ishida H, Kiso M, Yamamoto K. Characterization of two different endo-alpha-N-acetylgalactosaminidases from probiotic and pathogenic enterobacteria, Bifidobacterium longum and Clostridium perfringens. Glycobiology 2008; 18:727-34. [PMID: 18559962 DOI: 10.1093/glycob/cwn053] [Citation(s) in RCA: 55] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022] Open
Abstract
Endo-alpha-N-acetylgalactosaminidase (endo-alpha-GalNAc-ase) catalyzes the hydrolysis of the O-glycosidic bond between alpha-GalNAc at the reducing end of mucin-type sugar chains and serine/threonine of proteins to release oligosaccharides. Previously, we identified the gene engBF encoding endo-alpha-GalNAc-ase from Bifidobacterium longum, which specifically released the disaccharide Gal beta 1-3GalNAc (Fujita K, Oura F, Nagamine N, Katayama T, Hiratake J, Sakata K, Kumagai H, Yamamoto K. 2005. Identification and molecular cloning of a novel glycoside hydrolase family of core 1 type O-glycan-specific endo-alpha-N-acetylgalactosaminidase from Bifidobacterium longum. J Biol Chem. 280:37415-37422). Here we cloned a similar gene named engCP from Clostridium perfringens, a pathogenic enterobacterium, and characterized the gene product EngCP. Detailed analyses on substrate specificities of EngCP and EngBF using a series of p-nitrophenyl-alpha-glycosides chemically synthesized by the di-tert-butylsilylene-directed method revealed that both enzymes released Hex/HexNAc beta 1-3GalNAc (Hex = Gal or Glc). EngCP could also release the core 2 trisaccharide Gal beta 1-3(GlcNAc beta 1-6)GalNAc, core 8 disaccharide Gal alpha 1-3GalNAc, and monosaccharide GalNAc. Our results suggest that EngCP possesses broader substrate specificity than EngBF. Actions of the two enzymes on native glycoproteins and cell surface glycoproteins were also investigated.
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Affiliation(s)
- Hisashi Ashida
- Graduate School of Biostudies, Kyoto University, Kyoto 606-8502, Japan.
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Gregg KJ, Finn R, Abbott DW, Boraston AB. Divergent modes of glycan recognition by a new family of carbohydrate-binding modules. J Biol Chem 2008; 283:12604-13. [PMID: 18292090 DOI: 10.1074/jbc.m709865200] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
The genomes of myonecrotic Clostridium perfringens isolates contain genes encoding a large and fascinating array of highly modular glycoside hydrolase enzymes. Although the catalytic activities of many of these enzymes are somewhat predictable based on their amino acid sequences, the functions of their abundant ancillary modules are not and remain poorly studied. Here, we present the structural and functional analysis of a new family of ancillary carbohydrate-binding modules (CBMs), CBM51, which was previously annotated in data bases as the novel putative CBM domain. The high resolution crystal structures of two CBM51 members, GH95CBM51 and GH98CBM51, from a putative family 95 alpha-fucosidase and from a family 98 blood group A/B antigen-specific endo-beta-galactosidase, respectively, showed them to have highly similar beta-sandwich folds. However, GH95CBM51 was shown by glycan microarray screening, isothermal titration calorimetry, and x-ray crystallography to bind galactose residues, whereas the same analyses of GH98CBM51 revealed specificity for the blood group A/B antigens through non-conserved interactions. Overall, this work identifies a new family of CBMs with many members having apparent specificity for eukaryotic glycans, in keeping with the glycan-rich environment C. perfringens would experience in its host. However, a wider bioinformatic analysis of this CBM family also indicated a large number of members in non-pathogenic environmental bacteria, suggesting a role in the recognition of environmental glycans.
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Affiliation(s)
- Katie J Gregg
- Department of Biochemistry and Microbiology, University of Victoria, Victoria, British Columbia V8W 3P6, Canada
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Kestwal RM, Bhide SV. Purification of β-galactosidase from Erythrina indica: Involvement of tryptophan in active site. Biochim Biophys Acta Gen Subj 2007; 1770:1506-12. [PMID: 17761389 DOI: 10.1016/j.bbagen.2007.07.002] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2007] [Revised: 07/06/2007] [Accepted: 07/06/2007] [Indexed: 10/23/2022]
Abstract
beta-Galactosidase (EC: 3.2.1.23), one of the glycosidases detected in Erythrina indica seeds, was purified to 135 fold. Amongst the four major glycosidases detected beta-galactosidase was found to be least glycosylated, and was not retained by Con-A CL Seralose affinity matrix. A homogenous preparation of the enzyme was obtained by ion-exchange chromatography, followed by gel filtration. The enzyme was found to be a dimmer with a molecular weight of 74 kDa and 78 kDa, by gel filtration and SDS-PAGE, respectively. The optimum pH and optimum temperature for enzyme activity were 4.4 and 50 degrees C, respectively. The enzyme showed a K(m) value of 2.6 mM and V(max) of 3.86 U/mg for p-nitrophenyl-beta-D-galactopyranoside as substrate and was inhibited by Zn(2+) and Hg(2+). The enzyme activity was regulated by feed back inhibition as it was found to be inhibited by beta-D-galactose. Chemical modification studies revealed involvement of tryptophan and histidine for enzyme activity. Involvement of tryptophan was also supported by fluorescence studies and one tryptophan was found to be present in the active site of beta-galactosidase. Circular dichroism studies revealed 37% alpha helix, 27% beta sheet and 38% random coil in the secondary structure of the purified enzyme.
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Affiliation(s)
- Rakesh M Kestwal
- Division of Biochemistry, Department of Chemistry, University of Pune, Pune-411007, Maharashtra, India
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Kobayashi T, Liu D, Ogawa H, Miwa Y, Nagasaka T, Maruyama S, Li YT, Onishi A, Kuzuya T, Kadomatsu K, Uchida K, Nakao A. Alternative strategy for overcoming ABO incompatibility. Transplantation 2007; 83:1284-6. [PMID: 17496551 DOI: 10.1097/01.tp.0000260634.85690.c4] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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Boraston AB, Wang D, Burke RD. Blood group antigen recognition by a Streptococcus pneumoniae virulence factor. J Biol Chem 2006; 281:35263-71. [PMID: 16987809 DOI: 10.1074/jbc.m607620200] [Citation(s) in RCA: 50] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
The Streptococcus pneumoniae fucose utilization operon includes a gene encoding a virulence factor that belongs to family 98 in the glycoside hydrolase classification. This protein contains a C-terminal triplet of fucose binding modules that have significant amino acid sequence identity with the Anguilla anguilla fucolectin. Functional studies of these fucose binding modules reveal binding to fucosylated oligosaccharides and suggest the importance of multivalent binding. The high resolution crystal structures of ligand bound forms of one fucose binding module uncovers the molecular basis of fucose, ABH blood group antigen, and Lewisy antigen binding. These studies are extended by fluorescence microscopy to show specific binding to mouse lung tissue. These modules define a new family of carbohydrate binding modules now classified as family 47.
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Affiliation(s)
- Alisdair B Boraston
- Biochemistry and Microbiology, University of Victoria, Victoria, British Columbia V8W 3P6, Canada.
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Rigden DJ. Analysis of glycoside hydrolase family 98: catalytic machinery, mechanism and a novel putative carbohydrate binding module. FEBS Lett 2005; 579:5466-72. [PMID: 16212961 DOI: 10.1016/j.febslet.2005.09.011] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2005] [Accepted: 09/08/2005] [Indexed: 10/25/2022]
Abstract
Glycoside hydrolases (GHs) are diverse enzymes of biotechnological and medical importance. Bioinformatics contributes to our understanding of GH structure and function in various ways, including dissection of their typically modular structures and detection of the distant evolutionary relationships between families that often allow for prediction of catalytic sites. Here these twin strands are applied to the recently described GH98 family, the founder member of which is a blood group glycotope-cleaving endo-beta-galactosidase of potential medical importance from Clostridium perfringens. Three domains can be discerned including a central catalytic TIM barrel domain in which putative catalytic residues can be assigned. Distant homologies and domain contexts suggest that the N-terminal domain is a novel carbohydrate binding module.
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