Host-microbiota interactions: from holobiont theory to analysis DOI Creative Commons
Jean‐Christophe Simon, Julian R. Marchesi, Christophe Mougel

et al.

Microbiome, Journal Year: 2019, Volume and Issue: 7(1)

Published: Jan. 11, 2019

In the recent years, holobiont concept has emerged as a theoretical and experimental framework to study interactions between hosts their associated microbial communities in all types of ecosystems. The spread this many branches biology results from fairly realization ubiquitous nature host-associated microbes central role host biology, ecology, evolution. Through special series "Host-microbiota interactions: theory analysis," we wanted promote field research which considerable implications for human health, food production, ecosystem protection. preface, highlight collection articles selected issue that show, use, or debate approach taxonomically ecologically diverse organisms, humans plants sponges insects. We also identify some methodological challenges propose directions future on holobionts.

Language: Английский

Microbial disease and the coral holobiont DOI
David G. Bourne,

Melissa Garren,

Thierry M. Work

et al.

Trends in Microbiology, Journal Year: 2009, Volume and Issue: 17(12), P. 554 - 562

Published: Oct. 13, 2009

Language: Английский

Citations

426
Current challenges and best-practice protocols for microbiome analysis DOI Creative Commons
Richa Bharti, Dominik G. Grimm

Briefings in Bioinformatics, Journal Year: 2019, Volume and Issue: 22(1), P. 178 - 193

Published: Nov. 7, 2019

Analyzing the microbiome of diverse species and environments using next-generation sequencing techniques has significantly enhanced our understanding on metabolic, physiological ecological roles environmental microorganisms. However, analysis is affected by experimental conditions (e.g. errors genomic repeats) computationally intensive cumbersome downstream quality control, assembly, binning statistical analyses). Moreover, introduction new technologies protocols led to a flood methodologies, which also have an immediate effect results analyses. The aim this work review most important workflows for 16S rRNA shotgun long-read metagenomics, as well provide best-practice design, sample processing, sequencing, binning, annotation visualization. To simplify standardize computational analysis, we set metagenomic data (available at https://github.com/grimmlab/MicrobiomeBestPracticeReview).

Language: Английский

Citations

419
Eco-Evo-Devo: developmental symbiosis and developmental plasticity as evolutionary agents DOI
Scott F. Gilbert, Thomas C. G. Bosch, Cristina C. Ledón‐Rettig

et al.

Nature Reviews Genetics, Journal Year: 2015, Volume and Issue: 16(10), P. 611 - 622

Published: Sept. 15, 2015

Language: Английский

Citations

406
Bacterial diversity and White Plague Disease-associated community changes in the Caribbean coral Montastraea faveolata DOI Open Access
Shinichi Sunagawa,

Todd Z. DeSantis,

Yvette M. Piceno

et al.

The ISME Journal, Journal Year: 2009, Volume and Issue: 3(5), P. 512 - 521

Published: Jan. 8, 2009

Language: Английский

Citations

403
Host-microbiota interactions: from holobiont theory to analysis DOI Creative Commons
Jean‐Christophe Simon, Julian R. Marchesi, Christophe Mougel

et al.

Microbiome, Journal Year: 2019, Volume and Issue: 7(1)

Published: Jan. 11, 2019

In the recent years, holobiont concept has emerged as a theoretical and experimental framework to study interactions between hosts their associated microbial communities in all types of ecosystems. The spread this many branches biology results from fairly realization ubiquitous nature host-associated microbes central role host biology, ecology, evolution. Through special series "Host-microbiota interactions: theory analysis," we wanted promote field research which considerable implications for human health, food production, ecosystem protection. preface, highlight collection articles selected issue that show, use, or debate approach taxonomically ecologically diverse organisms, humans plants sponges insects. We also identify some methodological challenges propose directions future on holobionts.

Language: Английский

Citations

391