An integrated metagenomic, metabolomic and transcriptomic survey of Populus across genotypes and environments

Schadt, Christopher; Martin, Stanton; Carrell, Alyssa; Fortner, Allison; Hopp, Dan; Jacobson, Dan; Klingeman, Dawn; Kristy, Brandon; Phillips, Jana; Piatkowski, Bryan; Miller, Mark A.; Smith, Montana; Patil, Sujay; Flynn, Mark; Canon, Shane; Clum, Alicia; Mungall, Christopher J.; Pennacchio, Christa; Bowen, Benjamin; Louie, Katherine; Northen, Trent; Eloe-Fadrosh, Emiley A.; Mayes, Melanie A.; Muchero, Wellington; Weston, David J.; Mitchell, Julie; Doktycz, Mitchel

doi:10.1038/s41597-024-03069-7

An integrated metagenomic, metabolomic and transcriptomic survey of Populus across genotypes and environments

Journal Article · Fri Apr 05 00:00:00 EDT 2024 · Scientific Data

DOI:https://doi.org/10.1038/s41597-024-03069-7· OSTI ID:2335378

; Martin, Stanton; Carrell, Alyssa; Fortner, Allison; ; ; ; Kristy, Brandon; Phillips, Jana; ; Miller, Mark A.; ; Patil, Sujay; Flynn, Mark; ; Clum, Alicia; Mungall, Christopher J.; ; Bowen, Benjamin; Louie, Katherine more »

Abstract

Bridging molecular information to ecosystem-level processes would provide the capacity to understand system vulnerability and, potentially, a means for assessing ecosystem health. Here, we present an integrated dataset containing environmental and metagenomic information from plant-associated microbial communities, plant transcriptomics, plant and soil metabolomics, and soil chemistry and activity characterization measurements derived from the model tree species Populus trichocarpa . Soil, rhizosphere, root endosphere, and leaf samples were collected from 27 different P. trichocarpa genotypes grown in two different environments leading to an integrated dataset of 318 metagenomes, 98 plant transcriptomes, and 314 metabolomic profiles that are supported by diverse soil measurements. This expansive dataset will provide insights into causal linkages that relate genomic features and molecular level events to system-level properties and their environmental influences.

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Sponsoring Organization:: USDOE

OSTI ID:: 2335378

Alternate ID(s):: OSTI ID: 2333828
OSTI ID: 2432321
OSTI ID: 2439242

Journal Information:: Scientific Data, Journal Name: Scientific Data Journal Issue: 1 Vol. 11; ISSN 2052-4463

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United Kingdom

Language:: English

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An integrated metagenomic, metabolomic and transcriptomic survey of Populus across genotypes and environments

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An integrated metagenomic, metabolomic and transcriptomic survey of Populus across genotypes and environments

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