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Original Research ARTICLE Provisionally accepted The full-text will be published soon. Notify me

Front. Microbiol. | doi: 10.3389/fmicb.2019.01680

Acidobacteria subgroups and their metabolic potential for carbon degradation in sugarcane soil amended with vinasse and nitrogen fertilizers

 Miriam G. Chaves1,  Genivaldo G. Silva2, Raffaella Rossetto3, Robert A. Edwards2,  Siu M. Tsai1 and  Acacio A. Navarrete4, 5*
  • 1Cell and Molecular Biology Lab, Center for Nuclear Energy in Agriculture, University of São Paulo, Brazil
  • 2Computational Science Research Center, San Diego State University, United States
  • 3Sao Paulo Agency of Agribusiness and Technology (APTA), Brazil
  • 4Department of Environmental Sciences, Federal University of São Carlos, Brazil
  • 5Cell and Molecular Lab, Center for Nuclear Energy in Agriculture, University of São Paulo, Brazil

Acidobacteria is a predominant bacterial phylum in tropical agricultural soils, including sugarcane cultivated soils. The increased need for fertilizers due to the expansion of sugarcane production is a threat to the ability of the soil to maintain its potential for self-regulation in the long term, in witch carbon degradation has essential role. In this study, a culture-independent approach based on high-throughput DNA sequencing and microarray technology was used to perform taxonomic and functional profiling of the Acidobacteria community in a tropical soil under sugarcane (Saccharum spp.) that was supplemented with nitrogen (N) combined with vinasse. These analyses were conducted to identify the subgroup-level responses to chemical changes and the carbon (C) degradation potential of the different Acidobacteria subgroups. Eighteen Acidobacteria subgroups from a total of 26 phylogenetically distinct subgroups were detected based on high-throughput DNA sequencing, and 16 gene families associated with C degradation were quantified using Acidobacteria-derived DNA microarray probes. The subgroups Gp13 and Gp18 presented the most positive correlations with the gene families associated with C degradation, especially those involved in hemicellulose degradation. However, both subgroups presented low abundance in the treatment containing vinasse. In turn, the Gp4 subgroup was the most abundant in the treatment that received vinasse, but did not present positive correlations with the gene families for C degradation analyzed in this study. The metabolic potential for C degradation of the different Acidobacteria subgroups in sugarcane soil amended with N and vinasse can be driven in part through the increase in soil nutrient availability, especially calcium (Ca), magnesium (Mg), potassium (K), aluminum (Al), boron (B) and zinc (Zn). This soil management practice reduces the abundance of Acidobacteria subgroups, including those potentially involved with C degradation in this agricultural soil.

Keywords: Soil metagenome, DNA microarray, Mineral and organic fertilizers, carbon cycling, microbe-mediated process in soil

Received: 24 Apr 2019; Accepted: 08 Jul 2019.

Edited by:

Luiz Fernando W. Roesch, Federal University of Pampa, Brazil

Reviewed by:

Hui Li, Institute of Applied Ecology (CAS), China
Carl-Eric Wegner, Friedrich Schiller University Jena, Germany  

Copyright: © 2019 Chaves, Silva, Rossetto, Edwards, Tsai and Navarrete. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence: Dr. Acacio A. Navarrete, Federal University of São Carlos, Department of Environmental Sciences, São Carlos, Brazil, acacionavarrete@gmail.com