Unearthing the soil‐borne microbiome of land plants

Raúl Ochoa‐Hueso; David J. Eldridge; Miguel Berdugo; Pankaj Trivedi; Blessing Sokoya; Concha Cano‐Díaz; Sebastian Abades; Fernando Alfaro; Adebola R. Bamigboye; Felipe Bastida; José L. Blanco‐Pastor; Asunción de los Rios; Jorge Durán; Stefan Geisen; Tine Grebenc; Javier G. Illán; Yu‐Rong Liu; Thulani P. Makhalanyane; Steven Mamet; Marco A. Molina‐Montenegro; José L. Moreno; Tina Unuk Nahberger; Gabriel F. Peñaloza‐Bojacá; César Plaza; Ana Rey; Alexandra Rodríguez; Christina Siebe; Brajesh K. Singh; Alberto L. Teixido; Cristian Torres‐Díaz; Ling Wang; Jianyong Wang; Juntao Wang; Eli Zaady; Xiaobing Zhou; Xin‐Quan Zhou; Leho Tedersoo; Manuel Delgado‐Baquerizo

doi:10.1111/gcb.17295

Unearthing the soil‐borne microbiome of land plants

Raúl Ochoa‐Hueso^* (Corresponding author), David J. Eldridge, Miguel Berdugo, Pankaj Trivedi, Blessing Sokoya, Concha Cano‐Díaz, Sebastian Abades, Fernando Alfaro, Adebola R. Bamigboye, Felipe Bastida, José L. Blanco‐Pastor, Asunción de los Rios, Jorge Durán, Stefan Geisen, Tine Grebenc, Javier G. Illán, Yu‐Rong Liu, Thulani P. Makhalanyane, Steven Mamet, Marco A. Molina‐MontenegroJosé L. Moreno, Tina Unuk Nahberger, Gabriel F. Peñaloza‐Bojacá, César Plaza, Ana Rey, Alexandra Rodríguez, Christina Siebe, Brajesh K. Singh, Alberto L. Teixido, Cristian Torres‐Díaz, Ling Wang, Jianyong Wang, Juntao Wang, Eli Zaady, Xiaobing Zhou, Xin‐Quan Zhou, Leho Tedersoo, Manuel Delgado‐Baquerizo

^*Corresponding author for this work

NIOO - Terrestrial Ecology (TE)

Research output: Contribution to journal/periodical › Article › Scientific › peer-review

Abstract

Plant–soil biodiversity interactions are fundamental for the functioning of terrestrial ecosystems. Yet, the existence of a set of globally distributed topsoil microbial and small invertebrate organisms consistently associated with land plants (i.e., their consistent soil-borne microbiome), together with the environmental preferences and functional capabilities of these organisms, remains unknown. We conducted a standardized field survey under 150 species of land plants, including 58 species of bryophytes and 92 of vascular plants, across 124 locations from all continents. We found that, despite the immense biodiversity of soil organisms, the land plants evaluated only shared a small fraction (less than 1%) of all microbial and invertebrate taxa that were present across contrasting climatic and soil conditions and vegetation types. These consistent taxa were dominated by generalist decomposers and phagotrophs and their presence was positively correlated with the abundance of functional genes linked to mineralization. Finally, we showed that crossing environmental thresholds in aridity (aridity index of 0.65, i.e., the transition from mesic to dry ecosystems), soil pH (5.5; i.e., the transition from acidic to strongly acidic soils), and carbon (less than 2%, the lower limit of fertile soils) can result in drastic disruptions in the associations between land plants and soil organisms, with potential implications for the delivery of soil ecosystem processes under ongoing global environmental change.

Original language	English
Article number	e17295
Journal	Global Change Biology
Volume	30
Issue number	5
DOIs	https://doi.org/10.1111/gcb.17295
Publication status	Published - 28 May 2024

Keywords

belowground networks
environmental thresholds
moss microbiome
plant microbiome
plant–soil interactions

Access to Document

10.1111/gcb.17295Licence: CC BY-NC-ND

data from: Unearthing the soil‐borne microbiome of land plants
Ochoa-Hueso, R. (Creator), Eldridge, D. J. (Creator), Berdugo, M. (Creator), Trivedi, P. (Creator), Sokoya, B. (Creator), Cano‐Díaz, C. (Creator), Abades, S. (Creator), Alfaro, F. (Creator), Bamigboye, A. R. (Creator), Bastida, F. (Creator), Blanco-Pastor, J. L. (Creator), de los Rios, A. (Creator), Durán, J. (Creator), Geisen, S. (Creator), Grebenc, T. (Creator), Illán, J. G. (Creator), Liu, Y. R. (Creator), Makhalanyane, T. P. (Creator), Mamet, S. (Creator), Molina‐Montenegro, M. A. (Creator), Moreno, J. L. (Creator), Nahberger, T. U. (Creator), Peñaloza‐Bojacá, G. F. (Creator), Plaza, C. (Creator), Rey, A. (Creator), Rodríguez, A. (Creator), Siebe, C. (Creator), Singh, B. K. (Creator), Teixido, A. L. (Creator), Torres‐Díaz, C. (Creator), Wang, L. (Creator), Wang, J. (Creator), Wang, J. (Creator), Zaady, E. (Creator), Zhou, X. (Creator), Zhou, X. (Creator), Tedersoo, L. (Creator) & Delgado-Baquerizo, M. (Creator), Figshare, 15 Apr 2024
DOI: 10.6084/m9.figshare.25254673
Dataset
data from: Unearthing the soil‐borne microbiome of land plants
Ochoa-Hueso, R. (Creator), Eldridge, D. J. (Creator), Berdugo, M. (Creator), Trivedi, P. (Creator), Sokoya, B. (Creator), Cano‐Díaz, C. (Creator), Abades, S. (Creator), Alfaro, F. (Creator), Bamigboye, A. R. (Creator), Bastida, F. (Creator), Blanco-Pastor, J. L. (Creator), de los Rios, A. (Creator), Durán, J. (Creator), Geisen, S. (Creator), Grebenc, T. (Creator), Illán, J. G. (Creator), Liu, Y. R. (Creator), Makhalanyane, T. P. (Creator), Mamet, S. (Creator), Molina‐Montenegro, M. A. (Creator), Moreno, J. L. (Creator), Nahberger, T. U. (Creator), Peñaloza‐Bojacá, G. F. (Creator), Plaza, C. (Creator), Rey, A. (Creator), Rodríguez, A. (Creator), Siebe, C. (Creator), Singh, B. K. (Creator), Teixido, A. L. (Creator), Torres‐Díaz, C. (Creator), Wang, L. (Creator), Wang, J. (Creator), Wang, J. (Creator), Zaady, E. (Creator), Zhou, X. (Creator), Zhou, X. (Creator), Tedersoo, L. (Creator) & Delgado-Baquerizo, M. (Creator), Figshare, 15 Apr 2024
DOI: 10.6084/m9.figshare.25254673
Dataset

Cite this

Ochoa‐Hueso, R., Eldridge, D. J., Berdugo, M., Trivedi, P., Sokoya, B., Cano‐Díaz, C., Abades, S., Alfaro, F., Bamigboye, A. R., Bastida, F., Blanco‐Pastor, J. L., de los Rios, A., Durán, J., Geisen, S., Grebenc, T., Illán, J. G., Liu, YR., Makhalanyane, T. P., Mamet, S., ... Delgado‐Baquerizo, M. (2024). Unearthing the soil‐borne microbiome of land plants. Global Change Biology, 30(5), Article e17295. https://doi.org/10.1111/gcb.17295

@article{c221262625264ed39453f0c09bb45945,

title = "Unearthing the soil‐borne microbiome of land plants",

abstract = "Plant–soil biodiversity interactions are fundamental for the functioning of terrestrial ecosystems. Yet, the existence of a set of globally distributed topsoil microbial and small invertebrate organisms consistently associated with land plants (i.e., their consistent soil-borne microbiome), together with the environmental preferences and functional capabilities of these organisms, remains unknown. We conducted a standardized field survey under 150 species of land plants, including 58 species of bryophytes and 92 of vascular plants, across 124 locations from all continents. We found that, despite the immense biodiversity of soil organisms, the land plants evaluated only shared a small fraction (less than 1%) of all microbial and invertebrate taxa that were present across contrasting climatic and soil conditions and vegetation types. These consistent taxa were dominated by generalist decomposers and phagotrophs and their presence was positively correlated with the abundance of functional genes linked to mineralization. Finally, we showed that crossing environmental thresholds in aridity (aridity index of 0.65, i.e., the transition from mesic to dry ecosystems), soil pH (5.5; i.e., the transition from acidic to strongly acidic soils), and carbon (less than 2%, the lower limit of fertile soils) can result in drastic disruptions in the associations between land plants and soil organisms, with potential implications for the delivery of soil ecosystem processes under ongoing global environmental change.",

keywords = "belowground networks, environmental thresholds, moss microbiome, plant microbiome, plant–soil interactions",

author = "Ra{\'u}l Ochoa‐Hueso and Eldridge, {David J.} and Miguel Berdugo and Pankaj Trivedi and Blessing Sokoya and Concha Cano‐D{\'i}az and Sebastian Abades and Fernando Alfaro and Bamigboye, {Adebola R.} and Felipe Bastida and Blanco‐Pastor, {Jos{\'e} L.} and {de los Rios}, Asunci{\'o}n and Jorge Dur{\'a}n and Stefan Geisen and Tine Grebenc and Ill{\'a}n, {Javier G.} and Yu‐Rong Liu and Makhalanyane, {Thulani P.} and Steven Mamet and Molina‐Montenegro, {Marco A.} and Moreno, {Jos{\'e} L.} and Nahberger, {Tina Unuk} and Pe{\~n}aloza‐Bojac{\'a}, {Gabriel F.} and C{\'e}sar Plaza and Ana Rey and Alexandra Rodr{\'i}guez and Christina Siebe and Singh, {Brajesh K.} and Teixido, {Alberto L.} and Cristian Torres‐D{\'i}az and Ling Wang and Jianyong Wang and Juntao Wang and Eli Zaady and Xiaobing Zhou and Xin‐Quan Zhou and Leho Tedersoo and Manuel Delgado‐Baquerizo",

note = "Data archiving: figshare",

year = "2024",

month = may,

day = "28",

doi = "10.1111/gcb.17295",

language = "English",

volume = "30",

journal = "Global Change Biology",

issn = "1354-1013",

publisher = "John Wiley and Sons Ltd",

number = "5",

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Ochoa‐Hueso, R, Eldridge, DJ, Berdugo, M, Trivedi, P, Sokoya, B, Cano‐Díaz, C, Abades, S, Alfaro, F, Bamigboye, AR, Bastida, F, Blanco‐Pastor, JL, de los Rios, A, Durán, J, Geisen, S, Grebenc, T, Illán, JG, Liu, YR, Makhalanyane, TP, Mamet, S, Molina‐Montenegro, MA, Moreno, JL, Nahberger, TU, Peñaloza‐Bojacá, GF, Plaza, C, Rey, A, Rodríguez, A, Siebe, C, Singh, BK, Teixido, AL, Torres‐Díaz, C, Wang, L, Wang, J, Wang, J, Zaady, E, Zhou, X, Zhou, XQ, Tedersoo, L & Delgado‐Baquerizo, M 2024, 'Unearthing the soil‐borne microbiome of land plants', Global Change Biology, vol. 30, no. 5, e17295. https://doi.org/10.1111/gcb.17295

TY - JOUR

T1 - Unearthing the soil‐borne microbiome of land plants

AU - Ochoa‐Hueso, Raúl

AU - Eldridge, David J.

AU - Berdugo, Miguel

AU - Trivedi, Pankaj

AU - Sokoya, Blessing

AU - Cano‐Díaz, Concha

AU - Abades, Sebastian

AU - Alfaro, Fernando

AU - Bamigboye, Adebola R.

AU - Bastida, Felipe

AU - Blanco‐Pastor, José L.

AU - de los Rios, Asunción

AU - Durán, Jorge

AU - Geisen, Stefan

AU - Grebenc, Tine

AU - Illán, Javier G.

AU - Liu, Yu‐Rong

AU - Makhalanyane, Thulani P.

AU - Mamet, Steven

AU - Molina‐Montenegro, Marco A.

AU - Moreno, José L.

AU - Nahberger, Tina Unuk

AU - Peñaloza‐Bojacá, Gabriel F.

AU - Plaza, César

AU - Rey, Ana

AU - Rodríguez, Alexandra

AU - Siebe, Christina

AU - Singh, Brajesh K.

AU - Teixido, Alberto L.

AU - Torres‐Díaz, Cristian

AU - Wang, Ling

AU - Wang, Jianyong

AU - Wang, Juntao

AU - Zaady, Eli

AU - Zhou, Xiaobing

AU - Zhou, Xin‐Quan

AU - Tedersoo, Leho

AU - Delgado‐Baquerizo, Manuel

N1 - Data archiving: figshare

PY - 2024/5/28

Y1 - 2024/5/28

N2 - Plant–soil biodiversity interactions are fundamental for the functioning of terrestrial ecosystems. Yet, the existence of a set of globally distributed topsoil microbial and small invertebrate organisms consistently associated with land plants (i.e., their consistent soil-borne microbiome), together with the environmental preferences and functional capabilities of these organisms, remains unknown. We conducted a standardized field survey under 150 species of land plants, including 58 species of bryophytes and 92 of vascular plants, across 124 locations from all continents. We found that, despite the immense biodiversity of soil organisms, the land plants evaluated only shared a small fraction (less than 1%) of all microbial and invertebrate taxa that were present across contrasting climatic and soil conditions and vegetation types. These consistent taxa were dominated by generalist decomposers and phagotrophs and their presence was positively correlated with the abundance of functional genes linked to mineralization. Finally, we showed that crossing environmental thresholds in aridity (aridity index of 0.65, i.e., the transition from mesic to dry ecosystems), soil pH (5.5; i.e., the transition from acidic to strongly acidic soils), and carbon (less than 2%, the lower limit of fertile soils) can result in drastic disruptions in the associations between land plants and soil organisms, with potential implications for the delivery of soil ecosystem processes under ongoing global environmental change.

AB - Plant–soil biodiversity interactions are fundamental for the functioning of terrestrial ecosystems. Yet, the existence of a set of globally distributed topsoil microbial and small invertebrate organisms consistently associated with land plants (i.e., their consistent soil-borne microbiome), together with the environmental preferences and functional capabilities of these organisms, remains unknown. We conducted a standardized field survey under 150 species of land plants, including 58 species of bryophytes and 92 of vascular plants, across 124 locations from all continents. We found that, despite the immense biodiversity of soil organisms, the land plants evaluated only shared a small fraction (less than 1%) of all microbial and invertebrate taxa that were present across contrasting climatic and soil conditions and vegetation types. These consistent taxa were dominated by generalist decomposers and phagotrophs and their presence was positively correlated with the abundance of functional genes linked to mineralization. Finally, we showed that crossing environmental thresholds in aridity (aridity index of 0.65, i.e., the transition from mesic to dry ecosystems), soil pH (5.5; i.e., the transition from acidic to strongly acidic soils), and carbon (less than 2%, the lower limit of fertile soils) can result in drastic disruptions in the associations between land plants and soil organisms, with potential implications for the delivery of soil ecosystem processes under ongoing global environmental change.

KW - belowground networks

KW - environmental thresholds

KW - moss microbiome

KW - plant microbiome

KW - plant–soil interactions

U2 - 10.1111/gcb.17295

DO - 10.1111/gcb.17295

M3 - Article

SN - 1354-1013

VL - 30

JO - Global Change Biology

JF - Global Change Biology

IS - 5

M1 - e17295

ER -

Unearthing the soil‐borne microbiome of land plants

Abstract

Keywords

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Datasets

data from: Unearthing the soil‐borne microbiome of land plants

data from: Unearthing the soil‐borne microbiome of land plants

Cite this