CARBOHYDRATE STRUCTURE DATABASE: TOOLS FOR STATISTICAL ANALYSIS OF BACTERIAL, PLANT AND FUNGAL GLYCOMES

K.S Egorova, A.N. Kondakova, Ph.V. Toukach

N. D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Moscow, Russia

KEYWORDS: Database, Bacteria, Fungi, Plants, Carbohydrate, Glycan, Distribution, Statistical analysis, Phenetic tree, Glycome, Taxon clusterization

Database, 2015, 2015, ID. bav073

DOI: 10.1093/database/bav073, open-access


Glycan-based phenetic tree at the genus level

Carbohydrates are biological blocks participating in diverse and crucial processes both at cellular and organism levels. They protect individual cells, establish intracellular interactions, take part in the immune reaction and participate in many other processes. Glycosylation is considered as one of the most important modifications of proteins and other biologically active molecules. Still, the data on the enzymatic machinery involved in the carbohydrate synthesis and processing are scattered, and the advance on its study is hindered by the vast bulk of accumulated genetic information not supported by any experimental evidences for functions of proteins that are encoded by these genes. In this article, we present novel instruments for statistical analysis of glycomes in taxa. These tools may be helpful for investigating carbohydrate-related enzymatic activities in various groups of organisms and for comparison of their carbohydrate content. The instruments are developed on the Carbohydrate Structure Database (CSDB) platform and are available freely on the CSDB web-site at http://csdb.glycoscience.ru.

Clustering tool flow-chart

Two representative figures display the flow chart of the clustering tool (on the left) and the phenetic tree obtained on most studied genera from the distribution of dimeric carbohydrate fragments (on the right).



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