Establishment of an experimental and computational platform to study host-microbes interactions promoted by sialic acids

• Grant number: 20/08554-9
• Support Opportunities: Research Grants - Young Investigators Grants
• Start date: June 01, 2023
• End date: May 31, 2028
• Field of knowledge: Interdisciplinary Subjects
• Principal Investigator: Lívia Soares Zaramela
• Grantee: Lívia Soares Zaramela
• Host Institution: Faculdade de Medicina de Ribeirão Preto (FMRP). Universidade de São Paulo (USP). Ribeirão Preto , SP, Brazil
• Associated researchers: Frederico Alisson da Silva ; Marcelo Damário Gomes
• Associated scholarship(s): 24/06686-6 - Mapping bacterial sialic acid metabolism pathways in inflammatory bowel disease sequencing data., BP.IC; 23/14358-6 - Large scale study on the mechanism of sialic acid incorporation by microorganisms of intestinal human microbiota, BP.DR; 24/10047-9 - Comparative genomics and metagenomics analysis to assess the genetic basis of the synthesis, metabolism and incorporation of sialic acids by bacteria., BP.DD; 24/03785-3 - Establishment of synthetic microbial communities to study cooperation or competition between pathogenic and commensal bacteria in the presence of sialic acids, BP.MS; 23/17650-0 - Evaluation of the functional activity of enzymes involved in the metabolism of sialic acids in different diets, BP.IC

Abstract

Microorganisms engage in complex interactions with other members of the microbial community, higher organisms as well as their environment. However, determining the exact nature of these interactions can be challenging due to the large number of members in these communities and the manifold of interactions they can engage in. Various omic data, such as 16S rRNA gene sequencing, shotgun metagenomics, metatranscriptomics, metaproteomics, and metabolomics, have been deployed to unravel the community structure, interactions, and resulting community dynamics in situ. Interpretation of these multi-omic data often requires advanced computational methods and robust databases. Interactions between microorganisms and host are very dynamic: they can be facultative or obligatory, they can involve intense molecular responses or not, and in most cases they result in benefits to the host health or diseases. Interactions between microorganisms and hosts mediated by sialic acids have shown an dual nature, being associated with health or with pathologies. Sialic acids are nine-carbon keto-sugars found primarily in animals as terminal subunits of glycoconjugates. These glycans not only function as barriers for microorganisms that inhabit or invade the host, but also represent potential sources of carbon, nitrogen and cell all components. Additionally, sialic acids are involved in the colonization, resistance and growth of bacteria, both commensal and pathogenic. In this project we propose to build an experimental and computational platform to study the different mechanisms of interaction between microorganisms and hosts mediated by sialic acids. The combination of experiments of microbial cooperation using microbial synthetic communities, immunoprecipitation assays using antibodies anti-sialic acid followed by high-hroughput sequencing and classical molecular biology assays will allow the identification of microorganisms able to metabolize and incorporate sialic acids. Computational analyzes of genomics and metagenomics data will reveal a genetic basis for the sialic acids metabolism, which will allow to map the distribution of interaction mechanisms mediated by sialic acid in different contexts (health and disease). As a final goal, the combination of computational and experimental approaches will result on the identification of potential targets for medical interventions which will contribute for the biotechnological development in Brazil. (AU)

Scientific publications

(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)

BRIGAGAO PACHECO DA SILVA, CARLA; NASCIMENTO-SILVA, EDSON ALEXANDRE; ZARAMELA, LIVIA SOARES; DA COSTA, BRUNO RUIZ BRANDAO; RODRIGUES, VANESSA FERNANDES; DE MARTINIS, BRUNO SPINOSA; CARLOS, DANIELA; TOSTES, RITA C.. Drinking pattern and sex modulate the impact of ethanol consumption on the mouse gut microbiome. Physiological Genomics, v. 57, n. 3, p. 16-pg., 2025-03-07. (20/08554-9, 20/11339-2, 13/08216-2)

RODRIGUES, VANESSA FERNANDES; ELIAS-OLIVEIRA, JEFFERSON; PEREIRA, ITALO SOUSA; PEREIRA, JESSICA ASSIS; BARBOSA, SARA CANDIDA; MACHADO, MELISSA SANTANA GONSALEZ; GUIMARAES, JHEFFERSON BARBOSA; PACHECO, THAILLA CRISTINA FARIA; BORTOLUCCI, JONATA; ZARAMELA, LIVIA SOARES; et al. Akkermansia muciniphila restrains type 1 diabetes onset by eliciting cDC2 and Treg cell differentiation in NOD and STZ-induced experimental models. Life Sciences, v. 372, p. 21-pg., 2025-04-14. (18/14815-0, 20/08554-9, 20/05514-6)