Abstract
The Human Microbiome Project (HMP) focuses on the study of microbial communities that inhabit the healthy human body. Human microbiome studies have revealed that diseases and disorders are strongly correlated with changes in microbial community profiles. Molecular approaches to microbiome studies involve extracting microbial DNA from a sample followed by a process of determining the profile of the microbial community present. Exploiting sequence heterogeneity is clearly a more informative approach than using length heterogeneity. More recent methods involve the use of next-generation sequencing. A large number of open-source analytical tools for metagenomics have emerged in recent years. These include MG-RAST, MOTHUR, QIIME, CloVR, VAMPS, and others. Metagenomic studies require an efficient PCR amplification of the DNA. A study has revealed that the gene content of the bacterial community is more constant than the phylogenetic content. Bacterial communities are intricate collections of bacterial species that each provide functions which contribute to the stability of the community.
| Original language | English (US) |
|---|---|
| Title of host publication | Computational Methods for Next Generation Sequencing Data Analysis |
| Publisher | wiley |
| Pages | 401-424 |
| Number of pages | 24 |
| ISBN (Electronic) | 9781119272182 |
| ISBN (Print) | 9781118169483 |
| DOIs | |
| State | Published - Sep 6 2016 |
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Keywords
- Bacterial communities
- Human Microbiome Project
- Microbial communities
- Open-source analytical tools
- PCR amplification
- Sequence heterogeneity
ASJC Scopus subject areas
- Computer Science(all)
Cite this
Microbiome Analysis : State of the Art and Future Trends. / Fernandez, Mitch; Aguiar-Pulido, Vanessa; Riveros, Juan; Huang, Wenrui; Segal, Jonathan; Zeng, Erliang; Campos, Michael A; Mathee, Kalai; Narasimhan, Giri.
Computational Methods for Next Generation Sequencing Data Analysis. wiley, 2016. p. 401-424.Research output: Chapter in Book/Report/Conference proceeding › Chapter
}
TY - CHAP
T1 - Microbiome Analysis
T2 - State of the Art and Future Trends
AU - Fernandez, Mitch
AU - Aguiar-Pulido, Vanessa
AU - Riveros, Juan
AU - Huang, Wenrui
AU - Segal, Jonathan
AU - Zeng, Erliang
AU - Campos, Michael A
AU - Mathee, Kalai
AU - Narasimhan, Giri
PY - 2016/9/6
Y1 - 2016/9/6
N2 - The Human Microbiome Project (HMP) focuses on the study of microbial communities that inhabit the healthy human body. Human microbiome studies have revealed that diseases and disorders are strongly correlated with changes in microbial community profiles. Molecular approaches to microbiome studies involve extracting microbial DNA from a sample followed by a process of determining the profile of the microbial community present. Exploiting sequence heterogeneity is clearly a more informative approach than using length heterogeneity. More recent methods involve the use of next-generation sequencing. A large number of open-source analytical tools for metagenomics have emerged in recent years. These include MG-RAST, MOTHUR, QIIME, CloVR, VAMPS, and others. Metagenomic studies require an efficient PCR amplification of the DNA. A study has revealed that the gene content of the bacterial community is more constant than the phylogenetic content. Bacterial communities are intricate collections of bacterial species that each provide functions which contribute to the stability of the community.
AB - The Human Microbiome Project (HMP) focuses on the study of microbial communities that inhabit the healthy human body. Human microbiome studies have revealed that diseases and disorders are strongly correlated with changes in microbial community profiles. Molecular approaches to microbiome studies involve extracting microbial DNA from a sample followed by a process of determining the profile of the microbial community present. Exploiting sequence heterogeneity is clearly a more informative approach than using length heterogeneity. More recent methods involve the use of next-generation sequencing. A large number of open-source analytical tools for metagenomics have emerged in recent years. These include MG-RAST, MOTHUR, QIIME, CloVR, VAMPS, and others. Metagenomic studies require an efficient PCR amplification of the DNA. A study has revealed that the gene content of the bacterial community is more constant than the phylogenetic content. Bacterial communities are intricate collections of bacterial species that each provide functions which contribute to the stability of the community.
KW - Bacterial communities
KW - Human Microbiome Project
KW - Microbial communities
KW - Open-source analytical tools
KW - PCR amplification
KW - Sequence heterogeneity
UR - http://www.scopus.com/inward/record.url?scp=85019552394&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=85019552394&partnerID=8YFLogxK
U2 - 10.1002/9781119272182.ch18
DO - 10.1002/9781119272182.ch18
M3 - Chapter
AN - SCOPUS:85019552394
SN - 9781118169483
SP - 401
EP - 424
BT - Computational Methods for Next Generation Sequencing Data Analysis
PB - wiley
ER -