Metagenomics, Metatranscriptomics, and Metabolomics Approaches for Microbiome Analysis

被引:318
作者
Aguiar-Pulido, Vanessa [1 ]
Huang, Wenrui [1 ]
Suarez-Ulloa, Victoria [3 ]
Cickovski, Trevor [1 ,4 ]
Mathee, Kalai [2 ,5 ,6 ]
Narasimhan, Giri [1 ,2 ]
机构
[1] Florida Int Univ, Sch Comp & Informat Sci, BioRG, Miami, FL 33199 USA
[2] Florida Int Univ, Biomol Sci Inst, Miami, FL 33199 USA
[3] Florida Int Univ, Dept Biol Sci, Chromatin Struct & Evolut Grp Chromevol, Miami, FL 33199 USA
[4] Eckerd Coll, Dept Comp Sci, St Petersburg, FL 33733 USA
[5] Florida Int Univ, Herbert Wertheim Coll Med, Miami, FL 33199 USA
[6] Florida Int Univ, Global Hlth Consortium, Miami, FL 33199 USA
来源
EVOLUTIONARY BIOINFORMATICS | 2016年 / 12卷
关键词
microbiome; metagenomics; metatranscriptomics; metabolomics; networks; TO-CELL COMMUNICATION; RNA-SEQ DATA; GUT MICROBIOME; GENE-EXPRESSION; INTEGRATIVE ANALYSIS; MAXIMUM-LIKELIHOOD; SEQUENCES; BACTERIAL; DATABASE; OMICS;
D O I
10.4137/EBO.S36436
中图分类号
Q [生物科学];
学科分类号
090105 [作物生产系统与生态工程];
摘要
Microbiomes are ubiquitous and are found in the ocean, the soil, and in/on other living organisms. Changes in the microbiome can impact the health of the environmental niche in which they reside. In order to learn more about these communities, different approaches based on data from multiple omics have been pursued. Metagenomics produces a taxonomical profile of the sample, metatranscriptomics helps us to obtain a functional profile, and metabolomics completes the picture by determining which byproducts are being released into the environment. Although each approach provides valuable information separately, we show that, when combined, they paint a more comprehensive picture. We conclude with a review of network-based approaches as applied to integrative studies, which we believe holds the key to in-depth understanding of microbiomes.
引用
收藏
页码:5 / 16
页数:12
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