Roles of bulk and rhizosphere denitrifying bacteria in denitrification from paddy soils under straw return condition

Abstract

Roles of bulk and rhizosphere denitrifying bacteria in paddy soil denitrification under straw return conditions are rarely discriminated, limiting our understanding on nitrogen biogeochemistry in soils amended with straw. The objective of this study was to explore the microbial mechanisms accounting for the altered rhizosphere and bulk soil denitrification with straw amendment. In this study, straw was added into two representative paddy soils (0.5% w/w) from Yixing (YX) and Taizhou (TZ) in Jiangsu city, China, for rice growth over a 37-day period. Denitrification potentials (net N2O emission, total denitrification, and N2O reduction rates) of rhizosphere and bulk soils at the end of rice growth were measured using an acetylene inhibition technique. In addition, denitrifying bacterial community compositions and functional gene abundances were analyzed using Illumina sequencing and quantitative real-time PCR. For control treatment without straw addition, total denitrification and N2O reduction rates were significantly higher in the rhizosphere than that in bulk soils; however, net N2O emission potentials were similar between rhizosphere and bulk for TZ (22.6–53.3 vs. 9.44–46.6 mg N kg−1) and YX (946 ± 126 vs. 699 ± 350 mg N kg−1). Under straw return condition, N2O emission potentials from the bulk of both soils were significantly elevated, corresponding to the increase in the relative abundance of some taxa of denitrifying bacteria (unnamed environmental samples and unclassified proteobacteria) and increase in nirK, nirS, and nosZ genes. This indicates a positive response of bulk soil denitrifying bacteria to straw addition. In contrast, straw addition produced inhibitive effects on the growth of denitrifying bacteria with decreased nirK, nirS, and nosZ gene abundances in the rhizosphere. This led to decreased N2O emission potentials at the end of incubation for rhizosphere soils, which were 98.2% and 25.2% lower for TZ and YX compared to those of bulk soils. These results suggested that the roles of bulk and rhizosphere denitrifying bacteria in paddy soil denitrification shifted with straw addition, which might inspire further studies to target the denitrification hotspots to effectively mitigate greenhouse emissions at the early period of rice growth.