Evaluating the soil microbe community-level physiological profile using EcoPlate and soil properties at 33 forest sites across Japan

Masahiro Nakamura, Chisato Terada, Kinya Ito, Kazuaki Matsui, Shigeru Niwa, Masae Ishihara, Tanaka Kenta, Tetsuro Yoshikawa, Taku Kadoya, Tsutom Hiura, Hiroyuki Muraoka, Ken Ishida, Naoki Agetsuma, Ryosuke Nakamura, Hitoshi Sakio, Masahiro Takagi, Akira S. Mori, Megumi K. Kimura, Hiroko Kurokawa, Tsutomu EnokiTatsuyuki Seino, Atsushi Takashima, Hajime Kobayashi, Kazuho Matsumoto, Koichi Takahashi, Ryunosuke Tateno, Tomohiro Yoshida, Tatsuro Nakaji, Masayuki Maki, Kazutaka Kobayashi, Karibu Fukuzawa, Kazuhiko Hoshizaki, Kazuhide Ohta, Keito Kobayashi, Motohiro Hasegawa, Satoshi N. Suzuki, Michinori Sakimoto, Yoichiro Kitagawa, Akiko Sakai, Hirofumi Kondo, Tomoaki Ichie, Koji Kageyama, Ayaka Hieno, Shogo Kato, Tatsuya Otani, Yasuhiro Utsumi, Tomonori Kume, Kosuke Homma, Koju Kishimoto, Kazuhiko Masaka, Kenta Watanabe, Motomu Toda, Dai Nagamatsu, Yuko Miyazaki, Tamon Yamashita, Naoko Tokuchi

Research output: Contribution to journalArticlepeer-review

Abstract

We present the largest freely available EcoPlate dataset for Japan, comprising data collected from a network of 33 natural forest sites (77 plots) in regions of East Asia ranging from cool temperate to subtropical. EcoPlate is a 96-well microplate that contains three repeated sets of 31 response wells with different sole carbon substrates. The utilization of each carbon substrate by the microbial community is quantified by the color density of the well during incubation. EcoPlate can provide a multifunctional index of a soil microbial community. Soil properties (water content, carbon [C] and nitrogen [N] contents, the C/N ratio, and pH) that are essential for interpreting the EcoPlate results were also measured. The network is part of the Forest and Grassland Survey of the Monitoring Sites 1000 Project established by the Ministry of the Environment. Using a standardized protocol, soil was sampled between September and December 2020. A preliminary principal component analysis was performed on the temporal integration of color density using 31 substrates. For the temporal integration, we calculated the cumulative amount of color development by integrating the color density development curve. PC1 contributed 55.6% and is thought to represent the magnitude of the overall absorbance of all substrates. The model of environmental factors including elevation and the model of soil properties, including water content and pH, were selected as the best-fit models for variation in PC1. EcoPlate data enable the meta-analysis of comparative studies among forest types and testing community ecology and ecosystem function hypotheses at broad spatial scales. The complete data set for this abstract published in the Data Paper section of the journal is available in electronic format in MetaCat in JaLTER at http://db.cger.nies.go.jp/JaLTER/metacat/metacat/ERDP-2022-01.1/jalter-en.

Original languageEnglish
Pages (from-to)432-445
Number of pages14
JournalEcological Research
Volume37
Issue number3
DOIs
Publication statusPublished - May 2022

Keywords

  • microbial community
  • multifunctional index
  • site-network survey
  • standardized protocol
  • the Monitoring Sites 1000 Project

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics

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