Microbial community assembly differs across minerals in a rhizosphere microcosm

Whitman, Thea; Neurath, Rachel; Perera, Adele; Chu-Jacoby, Ilexis; Ning, Daliang; Zhou, Jizhong; Nico, Peter; Pett-Ridge, Jennifer; Firestone, Mary

doi:10.1111/1462-2920.14366

Title: Microbial community assembly differs across minerals in a rhizosphere microcosm

Journal Article · Wed Jul 25 00:00:00 EDT 2018 · Environmental Microbiology

DOI:https://doi.org/10.1111/1462-2920.14366· OSTI ID:1479071

^[1]; Neurath, Rachel ^[2]; Perera, Adele ^[3]; Chu-Jacoby, Ilexis ^[3]; Ning, Daliang ^[4]; Zhou, Jizhong ^[5]; Nico, Peter ^[6]; Pett-Ridge, Jennifer ^[7]; Firestone, Mary ^[8]

Univ. of California, Berkeley, CA (United States); Univ. of Wisconsin, Madison, WI (United States)
Univ. of California, Berkeley, CA (United States); Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
Univ. of California, Berkeley, CA (United States)
Univ. of Oklahoma, Norman, OK (United States)
Univ. of Oklahoma, Norman, OK (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Tsinghua Univ., Beijing (China)
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
Univ. of California, Berkeley, CA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

Mineral-associated microbes drive many critical soil processes, including mineral weathering, soil aggregation and cycling of mineral-sorbed organic matter. To investigate the interactions between soil minerals and microbes in the rhizosphere, we incubated three types of minerals (ferrihydrite, kaolinite and quartz) and a native soil mineral fraction near roots of a common Californian annual grass, Avena barbata, growing in its resident soil. We followed microbial colonization of these minerals for up to 2.5 months - the plant's lifespan. Bacteria and fungi that colonized mineral surfaces during this experiment differed across mineral types and differed from those in the background soil, implying that microbial colonization was the result of processes in addition to passive movement with water to mineral surfaces. Null model analysis revealed that dispersal limitation was a dominant factor structuring mineral-associated microbial communities for all mineral types. Once bacteria arrived at a mineral surface, capacity for rapid growth appeared important, as ribosomal copy number was significantly correlated with relative enrichment on minerals. Glomeromycota (a phylum associated with arbuscular mycorrhizal fungi) appeared to preferentially associate with ferrihydrite surfaces. The mechanisms enabling the colonization of soil minerals may be foundational in shaping the overall soil microbiome composition and development of persistent organic matter in soils.

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Research Organization:: Lawrence Livermore National Laboratory (LLNL), Livermore, CA (United States); Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

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

Grant/Contract Number:: AC52-07NA27344; SC0010570; AC52‐07NA27344; AC02-05CH11231

OSTI ID:: 1479071

Alternate ID(s):: OSTI ID: 1469402; OSTI ID: 1563985

Report Number(s):: LLNL-JRNL-729889; 880806

Journal Information:: Environmental Microbiology, Vol. 20, Issue 12; ISSN 1462-2912

Publisher:: WileyCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 61 works

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Community Assembly Mechanisms Underlying the Core and Random Bacterioplankton and Microeukaryotes in a River–Reservoir System Isabwe, Alain; Ren, Kexin; Wang, Yongming Water, Vol. 11, Issue 6 https://doi.org/10.3390/w11061127	journal	May 2019
Metatranscriptomic reconstruction reveals RNA viruses with the potential to shape carbon cycling in soil Starr, Evan P.; Nuccio, Erin E.; Pett-Ridge, Jennifer Proceedings of the National Academy of Sciences, Vol. 116, Issue 51 https://doi.org/10.1073/pnas.1908291116	journal	November 2019