Publication - Journal Article Terabase Metagenome Sequencing of Grassland Soil Microbiomes

https://doi.org/10.1128/MRA.00718-20
Description

As part of the Pacific Northwest National Laboratory’s (PNNL) Science Focus Area program, we are investigating the impact of environmental change on microbial community function in grassland soils. Three grassland soils, representing different moisture regimes, were selected for ultra-deep metagenomic sequencing, resulting in >1 terabase (Tb) of sequence data per location. This dataset serves as a resource for deep analysis of soil microbiome composition and metabolic potential.

 

Terabase soil metagenome samples were collected from Washington State University’s Irrigated Agriculture Research and Extension Center (IAREC), Konza Prairie Biological Station (KPBS), and Iowa State University’s Comparison of Biofuel Systems (COBS).The versions described in this paper are the first version. Dataset downloads contain raw read sequencing files, assembly files, functional annotations, field site collection plot maps, MIMS.me.soil.5.0 metadata information, and dataset “Read Me” files.

Soil Microbiology
Microbiome
Metagenomics
sequencing
Projects (1)
Project
PNNL Soil Microbiome SFA

The Phenotypic Response of the Soil Microbiome to Environmental Perturbations Project (Soil Microbiome SFA) at Pacific Northwest National Laboratory is a Genomic Sciences Program Science Focus Area (SFA) Project operating under the Environmental Microbiome Science Research Area. The Soil Microbiome...

Biology
Microbiome Science
Earth System Science

  1. Datasets

    35
English
Datasets (3)
WA-TmG.1.0 (Metagenome, WA)
IA-TmG.1.0 (Metagenome, IA)
KS-TmG.1.0 (Metagenome, KS)
People (11)
William C Nelson

Dr. Nelson is a computational scientist at PNNL. Since coming to PNNL, he has focused on methods to determine precise understanding of microbial community structure and function through the resolution of individual genome sequences from metagenomic data, and exploration of variation between...

Lindsey N. Anderson

Lindsey Anderson’s research has been dedicated to the identification and characterization of novel, targeted and non-targeted, functional metabolic interactions using a high-throughput systems biology and computational biology approach. Her expertise in functional metabolism and multidisciplinary...

Janet K. Jansson

Janet Jansson is Chief Scientist for Biology in the Biological Sciences Division and a Laboratory Fellow at the Pacific Northwest National Laboratory (PNNL). Jansson has more than 30 years of experience in microbial ecology. Jansson earned an M.S.in Soil Microbiology at Colorado State University...

Ruonan Wu

Staff Scientist at Pacific Northwest National Laboratory

Jason McDermott

Dr. Jason McDermott, senior research scientist, has extensive research experience in molecular and structural virology and data resource design, data integration and prediction of biological networks, bridging experimental and computational biology. Currently, his research interests include data...

Sheryl L. Bell

Earth Scientist at PNNL Disciplines and Skills: Biogeochemical Cycles Carbon Cycle Isotopes Microbial Communities Microbial Ecology Microbiology Microbiome Science Nitrogen Education: Morningside College : Bachelor of Science, Biology

Ari Jumpponen

Education Ph.D. 1998, Oregon State University. Forest Science. Area(s) of Specialization Mycology; fungal ecology; fungus-plant interactions. Research Focus My laboratory studies the environmental selection processes that dictate the extant community structures. Towards these goals, we have adopted...

Sarah J. Fansler

Publications: 2018 Stegen JC, TC Johnson, JK Fredrickson, MJ Wilkins, AE Konopka, WC Nelson, EV Arntzen, WB Chrisler, RK Chu, SJ Fansler, EB Graham, DW Kennedy, CT Resch, MM Tfaily, and JM Zachara. 2018. "Influences of organic carbon speciation on hyporheic corridor biogeochemistry and microbial...

Kimberly J. Tyrrell

PNNL Publications 2020 Smith J.N., K.J. Tyrrell, J.P. Smith, J.P. Smith, K.K. Weitz, and W.D. Faber. 2020. "Linking Internal Dosimetries of the Propyl Metabolic Series in Rats and Humans Using Physiologically Based Pharmacokinetic (PBPK) Modeling." Regulatory Toxicology and Pharmacology 110. PNNL...

Yuliya Farris

PNNL Publications 2020 Ogden A.J., T.W. Wietsma, T.E. Winkler, Y. Farris, G.L. Myers, and A. Ahkami. 2020. "Dynamics of Global Gene Expression and Regulatory Elements in Growing Brachypodium Root System." Scientific Reports 10. PNNL-SA-145907. doi:10.1038/s41598-020-63224-z 2019 Boiteau R.M., S.J...

Kirsten Hofmockel

As Integrative Research Scientist, Dr. Hofmockel develops the overall science and technology strategy for EMSL in collaboration with the Deputy Directors. Responsible for EMSL’s Strategic Science Area in collaboration with the Deputy Directors. Is the interface with BER and the user community for...

Data Sources (1)
Illumina HiSeq X Sequencing System