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Integrating microbiome, transcriptome and metabolome data to investigate gastric disease pathogenesis: a concise review

Published online by Cambridge University Press:  16 August 2021

Dalla Doohan ,
Yudith Annisa Ayu Rezkitha ,
Langgeng Agung Waskito ,
Ratha-korn Vilaichone ,
Yoshio Yamaoka  and
Muhammad Miftahussurur Open the ORCID record for Muhammad Miftahussurur [Opens in a new window]
Dalla Doohan
Affiliation:
Faculty of Medicine, Universitas Airlangga, Surabaya, Indonesia
Yudith Annisa Ayu Rezkitha
Affiliation:
Faculty of Medicine, University of Muhammadiyah Surabaya, Surabaya, Indonesia
Langgeng Agung Waskito
Affiliation:
Faculty of Medicine, Universitas Airlangga, Surabaya, Indonesia
Ratha-korn Vilaichone
Affiliation:
Gastroenterology Unit, Department of Medicine, Thammasat University Hospital, Pathum Thani, Thailand
Yoshio Yamaoka*
Affiliation:
Department of Environmental and Preventive Medicine, Faculty of Medicine, Oita University, Yufu, Japan Division of Gastroentero-Hepatology, Department of Internal Medicine, Faculty of Medicine, Dr Soetomo Teaching Hospital, Universitas Airlangga, Surabaya, Indonesia
Muhammad Miftahussurur*
Affiliation:
Division of Gastroentero-Hepatology, Department of Internal Medicine, Faculty of Medicine, Dr Soetomo Teaching Hospital, Universitas Airlangga, Surabaya, Indonesia Institute of Tropical Disease, Universitas Airlangga, Surabaya, Indonesia
*
Authors for correspondence: Muhammad Miftahussurur, E-mail: [email protected]; Yoshio Yamaoka, E-mail: [email protected]
Authors for correspondence: Muhammad Miftahussurur, E-mail: [email protected]; Yoshio Yamaoka, E-mail: [email protected]
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Abstract

Microbiome, the study of microbial communities in specific environments, has developed significantly since the Human Microbiome Project began. Microbiomes have been associated with changes within environmental niches and the development of various diseases. The development of high-throughput technology such as next-generation sequencing has also allowed us to perform transcriptome studies, which provide accurate functional profiling data. Metabolome studies, which analyse the metabolites found in the environment, are the most direct environmental condition indicator. Although each dataset provides valuable information on its own, the integration of multiple datasets provides a deeper understanding of the relationship between the host, agent and environment. Therefore, network analysis using multiple datasets might give a clearer understanding of disease pathogenesis.

Keywords

Disease burdengastric diseasemetabolomemicrobiomenext-generation sequencingtranscriptome
Type
Review
Information
Expert Reviews in Molecular Medicine , Volume 23 , 2021 , e9
Copyright
Copyright © The Author(s), 2021. Published by Cambridge University Press

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