Core microbiomes for sustainable agroecosystems

Hirokazu Toju; Kabir G. Peay; Masato Yamamichi; Kazuhiko Narisawa; Kei Hiruma; Ken Naito; Shinji Fukuda; Masayuki Ushio; Shinji Nakaoka; Yusuke Onoda; Kentaro Yoshida; Klaus Schlaeppi; Yang Bai; Ryo Sugiura; Yasunori Ichihashi; Kiwamu Minamisawa; E. Toby Kiers

doi:10.1038/s41477-018-0139-4

Core microbiomes for sustainable agroecosystems

Hirokazu Toju^*, Kabir G. Peay, Masato Yamamichi, Kazuhiko Narisawa, Kei Hiruma, Ken Naito, Shinji Fukuda, Masayuki Ushio, Shinji Nakaoka, Yusuke Onoda, Kentaro Yoshida, Klaus Schlaeppi, Yang Bai, Ryo Sugiura, Yasunori Ichihashi, Kiwamu Minamisawa, E. Toby Kiers

^*Corresponding author for this work

Research output: Contribution to Journal › Review article › Academic › peer-review

Abstract

In an era of ecosystem degradation and climate change, maximizing microbial functions in agroecosystems has become a prerequisite for the future of global agriculture. However, managing species-rich communities of plant-associated microbiomes remains a major challenge. Here, we propose interdisciplinary research strategies to optimize microbiome functions in agroecosystems. Informatics now allows us to identify members and characteristics of 'core microbiomes', which may be deployed to organize otherwise uncontrollable dynamics of resident microbiomes. Integration of microfluidics, robotics and machine learning provides novel ways to capitalize on core microbiomes for increasing resource-efficiency and stress-resistance of agroecosystems.

Original language	English
Pages (from-to)	247-257
Number of pages	11
Journal	Nature Plants
Volume	4
Issue number	5
Early online date	30 Apr 2018
DOIs	https://doi.org/10.1038/s41477-018-0139-4
Publication status	Published - May 2018

Funding

We thank Takashi Akagi and three anonymous reviewers for their insightful comments on the manuscript. This work was financially supported by JSPS KAKENHI Grant (26711026), JST PRESTO (JPMJPR16Q6), and the Funding Program for Next Generation World-Leading Researchers of Cabinet Office, the Government of Japan (GS014) to H.T, DOE Award DE-SC0016097 to KGP, and by a European Research Council Grant (335542) to E.T.K.

Funders	Funder number
European Commission
European Research Council
Seventh Framework Programme	335542
Government of Japan	GS014
Japan Society for the Promotion of Science	16H04846, 16K18618, 26711026
U.S. Department of Energy	DE-SC0016097
Precursory Research for Embryonic Science and Technology	JPMJPR16Q6

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1038/s41477-018-0139-4

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title = "Core microbiomes for sustainable agroecosystems",

abstract = "In an era of ecosystem degradation and climate change, maximizing microbial functions in agroecosystems has become a prerequisite for the future of global agriculture. However, managing species-rich communities of plant-associated microbiomes remains a major challenge. Here, we propose interdisciplinary research strategies to optimize microbiome functions in agroecosystems. Informatics now allows us to identify members and characteristics of 'core microbiomes', which may be deployed to organize otherwise uncontrollable dynamics of resident microbiomes. Integration of microfluidics, robotics and machine learning provides novel ways to capitalize on core microbiomes for increasing resource-efficiency and stress-resistance of agroecosystems.",

author = "Hirokazu Toju and Peay, \{Kabir G.\} and Masato Yamamichi and Kazuhiko Narisawa and Kei Hiruma and Ken Naito and Shinji Fukuda and Masayuki Ushio and Shinji Nakaoka and Yusuke Onoda and Kentaro Yoshida and Klaus Schlaeppi and Yang Bai and Ryo Sugiura and Yasunori Ichihashi and Kiwamu Minamisawa and Kiers, \{E. Toby\}",

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month = may,

doi = "10.1038/s41477-018-0139-4",

language = "English",

volume = "4",

pages = "247--257",

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T1 - Core microbiomes for sustainable agroecosystems

AU - Toju, Hirokazu

AU - Peay, Kabir G.

AU - Yamamichi, Masato

AU - Narisawa, Kazuhiko

AU - Hiruma, Kei

AU - Naito, Ken

AU - Fukuda, Shinji

AU - Ushio, Masayuki

AU - Nakaoka, Shinji

AU - Onoda, Yusuke

AU - Yoshida, Kentaro

AU - Schlaeppi, Klaus

AU - Bai, Yang

AU - Sugiura, Ryo

AU - Ichihashi, Yasunori

AU - Minamisawa, Kiwamu

AU - Kiers, E. Toby

PY - 2018/5

Y1 - 2018/5

N2 - In an era of ecosystem degradation and climate change, maximizing microbial functions in agroecosystems has become a prerequisite for the future of global agriculture. However, managing species-rich communities of plant-associated microbiomes remains a major challenge. Here, we propose interdisciplinary research strategies to optimize microbiome functions in agroecosystems. Informatics now allows us to identify members and characteristics of 'core microbiomes', which may be deployed to organize otherwise uncontrollable dynamics of resident microbiomes. Integration of microfluidics, robotics and machine learning provides novel ways to capitalize on core microbiomes for increasing resource-efficiency and stress-resistance of agroecosystems.

AB - In an era of ecosystem degradation and climate change, maximizing microbial functions in agroecosystems has become a prerequisite for the future of global agriculture. However, managing species-rich communities of plant-associated microbiomes remains a major challenge. Here, we propose interdisciplinary research strategies to optimize microbiome functions in agroecosystems. Informatics now allows us to identify members and characteristics of 'core microbiomes', which may be deployed to organize otherwise uncontrollable dynamics of resident microbiomes. Integration of microfluidics, robotics and machine learning provides novel ways to capitalize on core microbiomes for increasing resource-efficiency and stress-resistance of agroecosystems.

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U2 - 10.1038/s41477-018-0139-4

DO - 10.1038/s41477-018-0139-4

M3 - Review article

AN - SCOPUS:85046532495

SN - 2055-0278

VL - 4

SP - 247

EP - 257

JO - Nature Plants

JF - Nature Plants

IS - 5

ER -

Core microbiomes for sustainable agroecosystems

Abstract

Funding

UN SDGs

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