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      Rhizobacterial community structure in response to nitrogen addition varied between two Mollisols differing in soil organic carbon

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          Abstract

          Excessive nitrogen (N) fertilizer input to agroecosystem fundamentally alters soil microbial properties and subsequent their ecofunctions such as carbon (C) sequestration and nutrient cycling in soil. However, between soils, the rhizobacterial community diversity and structure in response to N addition is not well understood, which is important to make proper N fertilization strategies to alleviate the negative impact of N addition on soil organic C and soil quality and maintain plant health in soils. Thus, a rhizo-box experiment was conducted with soybean grown in two soils, i.e. soil organic C (SOC)-poor and SOC-rich soil, supplied with three N rates in a range from 0 to 100 mg N kg −1. The rhizospheric soil was collected 50 days after sowing and MiSeq sequencing was deployed to analyze the rhizobacterial community structure. The results showed that increasing N addition significantly decreased the number of phylotype of rhizobacteria by 12.3%, and decreased Shannon index from 5.98 to 5.36 irrespective of soils. Compared to the SOC-rich soil, the increases in abundances of  Aquincola affiliated to Proteobacteria, and Streptomyces affiliated to Actinobacteria were greater in the SOC-poor soil in response to N addition. An opposite trend was observed for Ramlibacter belong to Proteobacteria. These results suggest that N addition reduced the rhizobacterial diversity and its influence on rhizobacterial community structure was soil-specific.

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              Cross-biome metagenomic analyses of soil microbial communities and their functional attributes.

              For centuries ecologists have studied how the diversity and functional traits of plant and animal communities vary across biomes. In contrast, we have only just begun exploring similar questions for soil microbial communities despite soil microbes being the dominant engines of biogeochemical cycles and a major pool of living biomass in terrestrial ecosystems. We used metagenomic sequencing to compare the composition and functional attributes of 16 soil microbial communities collected from cold deserts, hot deserts, forests, grasslands, and tundra. Those communities found in plant-free cold desert soils typically had the lowest levels of functional diversity (diversity of protein-coding gene categories) and the lowest levels of phylogenetic and taxonomic diversity. Across all soils, functional beta diversity was strongly correlated with taxonomic and phylogenetic beta diversity; the desert microbial communities were clearly distinct from the nondesert communities regardless of the metric used. The desert communities had higher relative abundances of genes associated with osmoregulation and dormancy, but lower relative abundances of genes associated with nutrient cycling and the catabolism of plant-derived organic compounds. Antibiotic resistance genes were consistently threefold less abundant in the desert soils than in the nondesert soils, suggesting that abiotic conditions, not competitive interactions, are more important in shaping the desert microbial communities. As the most comprehensive survey of soil taxonomic, phylogenetic, and functional diversity to date, this study demonstrates that metagenomic approaches can be used to build a predictive understanding of how microbial diversity and function vary across terrestrial biomes.

                Author and article information

                Contributors
                jinjian29@hotmail.com
                Journal
                Sci Rep
                Sci Rep
                Scientific Reports
                Nature Publishing Group UK (London )
                2045-2322
                16 August 2018
                16 August 2018
                2018
                : 8
                : 12280
                Affiliations
                [1 ]ISNI 0000 0004 1799 2093, GRID grid.458493.7, Key Laboratory of Mollisols Agroecology, , Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, ; Harbin, 150081 China
                [2 ]ISNI 0000 0000 9546 5767, GRID grid.20561.30, College of Agriculture, , South China Agricultural University, ; Guangzhou, 510642 China
                [3 ]ISNI 0000 0001 2342 0938, GRID grid.1018.8, Centre for AgriBioscience, , La Trobe University, Melbourne Campus, Bundoora, ; VIC, 3086 Australia
                [4 ]Stockbridge School of Agriculture, University of Massachusetts, Amherst, MA 01003 USA
                [5 ]Soybean Research Institute of Heilongjiang Academy of Agricultural Sciences, Key Laboratory of Soybean Cultivation of Ministry of Agriculture P. R. China, Harbin, China
                Author information
                http://orcid.org/0000-0003-4737-8126
                Article
                30769
                10.1038/s41598-018-30769-z
                6095926
                30116033
                a2cb9576-e718-4d51-a99b-6deca8a37dc5
                © The Author(s) 2018

                Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

                History
                : 2 February 2018
                : 5 July 2018
                Funding
                Funded by: the National Natural Science Foundation of China (41771326), Heilongjiang Provincial Funds for Distinguished Young Scientists (JC201413) and the Hundred Talents Program of Chinese Academy of Sciences.
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