Terabase Metagenome Sequencing of Grassland Soil Microbiomes

Nelson, William C.; Anderson, Lindsey N.; Wu, Ruonan; McDermott, Jason E.; Bell, Sheryl L.; Jumpponen, Ari; Fansler, Sarah J.; Tyrrell, Kimberly J.; Farris, Yuliya; Hofmockel, Kirsten S.; Jansson, Janet K.; Stewart, ed., Frank J.

doi:10.1128/MRA.00718-20

Title: Terabase Metagenome Sequencing of Grassland Soil Microbiomes

Journal Article · 05 August 2020 · Microbiology Resource Announcements

DOI: https://doi.org/10.1128/MRA.00718-20 · OSTI ID:1645151

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; Wu, Ruonan; McDermott, Jason E.; Bell, Sheryl L.; Jumpponen, Ari; Fansler, Sarah J.; Tyrrell, Kimberly J.; Farris, Yuliya; Hofmockel, Kirsten S.; Jansson, Janet K.; Stewart, ed., Frank J.

ABSTRACT To enable an in-depth survey of the metabolic potential of complex soil microbiomes, we performed ultra-deep metagenome sequencing, collecting >1 Tb of sequence data from three grassland soils representing different precipitation regimes.

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Research Organization:: Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: AC02-05CH11231; AC05-76RL01830

OSTI ID:: 1645151

Report Number(s):: PNNL-SA-153752; e00718-20

Journal Information:: Microbiology Resource Announcements, Journal Name: Microbiology Resource Announcements Journal Issue: 32 Vol. 9; ISSN 2576-098X

Publisher:: SSPA - American Society for MicrobiologyCopyright Statement

Country of Publication:: United States

Language:: English

References (13)

Altering Rainfall Timing and Quantity in a Mesic Grassland Ecosystem: Design and Performance of Rainfall Manipulation Shelters Fay, Philip A.; Carlisle, Jonathan D.; Knapp, Alan K. Ecosystems, Vol. 3, Issue 3 https://doi.org/10.1007/s100210000028	journal	May 2000
The soil microbiome — from metagenomics to metaphenomics Jansson, Janet K.; Hofmockel, Kirsten S. Current Opinion in Microbiology, Vol. 43 https://doi.org/10.1016/j.mib.2018.01.013	journal	June 2018
Soil microbiomes and climate change Jansson, Janet K.; Hofmockel, Kirsten S. Nature Reviews Microbiology, Vol. 18, Issue 1 https://doi.org/10.1038/s41579-019-0265-7	journal	October 2019
Altered Rainfall Patterns, Gas Exchange, and Growth in Grasses and Forbs Fay, Philip A.; Carlisle, Jonathan D.; Danner, Brett T. International Journal of Plant Sciences, Vol. 163, Issue 4 https://doi.org/10.1086/339718	journal	July 2002
The Sequence Alignment/Map format and SAMtools Li, H.; Handsaker, B.; Wysoker, A. Bioinformatics, Vol. 25, Issue 16 https://doi.org/10.1093/bioinformatics/btp352	journal	June 2009
Fast and accurate long-read alignment with Burrows–Wheeler transform Li, Heng; Durbin, Richard Bioinformatics, Vol. 26, Issue 5 https://doi.org/10.1093/bioinformatics/btp698	journal	January 2010
Pfam: the protein families database Finn, Robert D.; Bateman, Alex; Clements, Jody Nucleic Acids Research, Vol. 42, Issue D1 https://doi.org/10.1093/nar/gkt1223	journal	November 2013
eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences Huerta-Cepas, Jaime; Szklarczyk, Damian; Forslund, Kristoffer Nucleic Acids Research, Vol. 44, Issue D1 https://doi.org/10.1093/nar/gkv1248	journal	November 2015
Extreme Scale De Novo Metagenome Assembly Georganas, Evangelos; Egan, Rob; Hofmeyr, Steven SC18: International Conference for High Performance Computing, Networking, Storage and Analysis https://doi.org/10.1109/SC.2018.00013	conference	November 2018
Nitrogen fertilization increases diversity and productivity of prairie communities used for bioenergy Jarchow, Meghann E.; Liebman, Matt GCB Bioenergy, Vol. 5, Issue 3 https://doi.org/10.1111/j.1757-1707.2012.01186.x	journal	June 2012
Prodigal: prokaryotic gene recognition and translation initiation site identification Hyatt, Doug; Chen, Gwo-Liang; LoCascio, Philip F. BMC Bioinformatics, Vol. 11, Issue 1 https://doi.org/10.1186/1471-2105-11-119	journal	March 2010
Eukaryotic large nucleo-cytoplasmic DNA viruses: Clusters of orthologous genes and reconstruction of viral genome evolution Yutin, Natalya; Wolf, Yuri I.; Raoult, Didier Virology Journal, Vol. 6, Issue 1 https://doi.org/10.1186/1743-422X-6-223	journal	January 2009
Accelerated Profile HMM Searches Eddy, Sean R. PLoS Computational Biology, Vol. 7, Issue 10 https://doi.org/10.1371/journal.pcbi.1002195	journal	October 2011

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