scholarly journals Oxidative release of natural glycans for functional glycomics

2016 ◽  
Vol 13 (6) ◽  
pp. 528-534 ◽  
Author(s):  
Xuezheng Song ◽  
Hong Ju ◽  
Yi Lasanajak ◽  
Matthew R Kudelka ◽  
David F Smith ◽  
...  
Keyword(s):  
Natural Glycans

Monosaccharide Biosynthesis Pathways Database

Glycobiology ◽  
2021 ◽  
Author(s):  
Jaya Srivastava ◽  
P Sunthar ◽  
Petety V Balaji
Keyword(s):  
Expression Profiling ◽  
Experimental Studies ◽  
Structural Complexity ◽  
Evolutionary Relationships ◽  
Enzyme Assays ◽  
Biosynthesis Pathway ◽  
Knock Out ◽  
Set Up ◽  
Function Relationship ◽  
Natural Glycans

Abstract A distinctive feature of glycans vis-à-vis proteins and nucleic acids is its structural complexity which arises from the huge repertoire of monosaccharides, isomeric linkages and branching. A very large number of monosaccharides have so far been discovered in natural glycans. Experimentally, pathways for the biosynthesis have been characterized completely for 55 monosaccharides and partially for a few more. However, there is no single platform which provides information about monosaccharide biosynthesis pathways and associated enzymes We have gathered 572 experimentally characterized enzymes of 66 biosynthesis pathways from literature and set up a first of its kind database called the Monosaccharide Biosynthesis Pathways Database http://www.bio.iitb.ac.in/mbpd/). Annotations such as the reaction catalysed, substrate specificity, biosynthesis pathway and PubMed IDs are provided for all the enzymes in the database. Sequence homologs of the experimentally characterized enzymes found in nearly 13,000 completely sequenced genomes from Bacteria and Archaea have also been included in the database. This platform will help in the deduction of evolutionary relationships among enzymes such as aminotransferases, nucleotidyltransferases, acetyltransferases and SDR family enzymes. It can also facilitate experimental studies such as direct enzyme assays to validate putative annotations, establish structure–function relationship, expression profiling to determine the function, determine the phenotypic consequences of gene knock-out/knock-in and complementation studies.

scholarly journals Derivatization of Free Natural Glycans for Incorporation onto Glycan Arrays: Derivatizing Glycans on the Microscale for Microarray and Other Applications

2011 ◽  
Vol 3 (2) ◽  
pp. 53-63 ◽  
Author(s):  
Xuezheng Song ◽  
Jamie Heimburg‐Molinaro ◽  
David F. Smith ◽  
Richard D. Cummings
Keyword(s):  
Natural Glycans

Natural glycans and glycoconjugates as immunomodulating agents

2011 ◽  
Vol 28 (5) ◽  
pp. 937 ◽  
Author(s):  
Ilona Chlubnová ◽  
Balla Sylla ◽  
Caroline Nugier-Chauvin ◽  
Richard Daniellou ◽  
Laurent Legentil ◽  
...  
Keyword(s):  
Natural Glycans

ChemInform Abstract: Natural Glycans and Glycoconjugates as Immunomodulating Agents

ChemInform ◽  
2011 ◽  
Vol 42 (33) ◽  
pp. no-no
Author(s):  
Ilona Chlubnova ◽  
Balla Sylla ◽  
Caroline Nugier-Chauvin ◽  
Richard Daniellou ◽  
Laurent Legentil ◽  
...  
Keyword(s):  
Natural Glycans

General Microarray Technique for Immobilization and Screening of Natural Glycans

2007 ◽  
Vol 79 (21) ◽  
pp. 8107-8113 ◽  
Author(s):  
Arjen R. de Boer ◽  
Cornelis H. Hokke ◽  
André M. Deelder ◽  
Manfred Wuhrer
Keyword(s):  
Microarray Technique ◽  
Natural Glycans

CHAPTER 15. Reverse Synthesis of Natural Glycans

2019 ◽  
pp. 356-369 ◽  
Author(s):  
Yuyang Zhu ◽  
David F. Smith ◽  
Xuezheng Song
Keyword(s):  
Natural Glycans

scholarly journals Preparative scale purification of natural glycans by closed-loop recycle HPLC

2020 ◽  
Vol 599 ◽  
pp. 113702 ◽  
Author(s):  
Yuyang Zhu ◽  
Thomas J. Bowen ◽  
Xuezheng Song
Keyword(s):  
Closed Loop ◽  
Preparative Scale ◽  
Natural Glycans

scholarly journals Glycan microarrays of fluorescently-tagged natural glycans

2015 ◽  
Vol 32 (7) ◽  
pp. 465-473 ◽  
Author(s):  
Xuezheng Song ◽  
Jamie Heimburg-Molinaro ◽  
David F. Smith ◽  
Richard D. Cummings
Keyword(s):  
Natural Glycans

scholarly journals GlycoPathDB: A database of monosaccharide biosynthesis pathways

2020 ◽  
Author(s):  
Jaya Srivastava ◽  
P. Sunthar ◽  
Petety V. Balaji
Keyword(s):  
Expression Profiling ◽  
Experimental Studies ◽  
Structural Complexity ◽  
Enzyme Assays ◽  
Biosynthesis Pathway ◽  
Knock Out ◽  
Comprehensive Information ◽  
Set Up ◽  
Function Relationship ◽  
Natural Glycans

AbstractA distinctive feature of glycans vis-à-vis proteins and nucleic acids is its structural complexity which arises from the huge repertoire of monosaccharides, isomeric linkages and branching. Around 70 monosaccharides have so far been discovered in natural glycans and the pathway for the biosynthesis of 57 of these have been experimentally characterized. However, there is no common platform with a comprehensive information of monosaccharide pathways and enzymes. We have gathered 542 experimentally characterized enzymes of these pathways from literature and set up a first of its kind database called GlycoPathDB (http://www.bio.iitb.ac.in/glycopathdb/). Annotations such as the reaction catalysed, substrate specificity, biosynthesis pathway and PubMed IDs are provided for all the enzymes in the database. Sequence homologs of the experimentally characterized enzymes found in nearly 13,000 completely sequenced genomes from Bacteria and Archaea have also been included in the database. This platform will help in deduction of evolutionary relationships among enzymes such as aminotransferases, nucleotidyltransferases, acetyltransferases and SDR family enzymes. It can also facilitate experimental studies such as direct enzyme assays to validate putative annotations, establish structure-function relationship, expression profiling to determine the function, determine the phenotypic consequences of gene knock-out/knock-in and complementation studies.

O-Benzylhydroxylamine (BHA) as a Cleavable Tag for Isolation and Purification of Reducing Glycans

2020 ◽  
Vol 25 (4) ◽  
pp. 388-396
Author(s):  
Ying Zhang ◽  
Yuyang Zhu ◽  
Yi Lasanajak ◽  
David F. Smith ◽  
Xuezheng Song
Keyword(s):  
Mass Spectrometry ◽  
High Performance ◽  
Large Scale ◽  
Structural Integrity ◽  
Preparative Scale ◽  
Isolation And Purification ◽  
Flight Mass Spectrometry ◽  
Multidimensional Hplc ◽  
Palladium On Carbon ◽  
Natural Glycans

Glycoscience has been recognized as an important area in biomedical research. Currently, a major obstacle for glycoscience study is the lack of diverse, biomedically relevant, and complex glycans in quantities sufficient for exploring their structural and functional aspects. Complementary to chemoenzymatic synthesis, natural glycans could serve as a great source of biomedically relevant glycans if they are available in sufficient quantities. We have recently developed oxidative release of natural glycans (ORNG) for large-scale release of N-glycans as free reducing glycans. While free reducing glycans can be readily derivatized with ultraviolet or fluorescent tags for high-performance liquid chromatography (HPLC) and mass spectrometry (MS) analysis, it is difficult to remove tags for the regeneration of free reducing glycans without affecting the structural integrity of glycans. To address this inconvenience, we explored the use of a cleavable tag, O-benzylhydroxylamine (BHA). Free reducing glycans are easily and efficiently labeled with BHA under mild conditions, enabling UV detection during HPLC purification. Individual glycan–BHA conjugates can then be separated using multidimensional HPLC and characterized by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF-MS) and MS/MS. The BHA tag can then be easily removed by palladium-on-carbon (Pd/C)-catalyzed hydrogenation to efficiently regenerate free reducing glycans with little effect on glycan structures. This procedure provides a simple and straightforward way to tag free reducing glycans for purification at a preparative scale using multidimensional HPLC and subsequently recover purified free reducing glycans.

Sign in / Sign up

Export Citation Format

Share Document