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Title: The soil microbiome — from metagenomics to metaphenomics

Soil microorganisms carry out important processes, including support of plant growth and cycling of carbon and other nutrients. However, the majority of soil microbes have not yet been isolated and their functions are largely unknown. Although metagenomic sequencing reveals microbial identities and functional gene information, it includes DNA from microbes with vastly varying physiological states. Therefore, metagenomics is only predictive of community functional potential. We posit that the next frontier lies in understanding the metaphenome, the product of the combined genetic potential of the microbiome and available resources. Here in this paper we describe examples of opportunities towards gaining understanding of the soil metaphenome.
Authors:
 [1] ;  [2]
  1. Pacific Northwest National Lab. (PNNL), Richland, WA (United States)
  2. Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Iowa State Univ., Ames, IA (United States). Dept. of Ecology, Evolution and Organismal Biology
Publication Date:
Report Number(s):
PNNL-SA-132057
Journal ID: ISSN 1369-5274; PII: S1369527417302205
Grant/Contract Number:
AC05-76RL01830
Type:
Accepted Manuscript
Journal Name:
Current Opinion in Microbiology
Additional Journal Information:
Journal Volume: 43; Journal Issue: C; Journal ID: ISSN 1369-5274
Publisher:
Elsevier
Research Org:
Pacific Northwest National Lab. (PNNL), Richland, WA (United States)
Sponsoring Org:
USDOE
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES
OSTI Identifier:
1422511

Jansson, Janet K., and Hofmockel, Kirsten S.. The soil microbiome — from metagenomics to metaphenomics. United States: N. p., Web. doi:10.1016/J.MIB.2018.01.013.
Jansson, Janet K., & Hofmockel, Kirsten S.. The soil microbiome — from metagenomics to metaphenomics. United States. doi:10.1016/J.MIB.2018.01.013.
Jansson, Janet K., and Hofmockel, Kirsten S.. 2018. "The soil microbiome — from metagenomics to metaphenomics". United States. doi:10.1016/J.MIB.2018.01.013. https://www.osti.gov/servlets/purl/1422511.
@article{osti_1422511,
title = {The soil microbiome — from metagenomics to metaphenomics},
author = {Jansson, Janet K. and Hofmockel, Kirsten S.},
abstractNote = {Soil microorganisms carry out important processes, including support of plant growth and cycling of carbon and other nutrients. However, the majority of soil microbes have not yet been isolated and their functions are largely unknown. Although metagenomic sequencing reveals microbial identities and functional gene information, it includes DNA from microbes with vastly varying physiological states. Therefore, metagenomics is only predictive of community functional potential. We posit that the next frontier lies in understanding the metaphenome, the product of the combined genetic potential of the microbiome and available resources. Here in this paper we describe examples of opportunities towards gaining understanding of the soil metaphenome.},
doi = {10.1016/J.MIB.2018.01.013},
journal = {Current Opinion in Microbiology},
number = C,
volume = 43,
place = {United States},
year = {2018},
month = {2}
}