Unveiling of active diazotrophs in a flooded rice soil by combination of NanoSIMS and 15N2-DNA-stable isotope probing
Abstract
The biological nitrogen fixation in planted and nonplanted paddy soils was quantified using a chamber-based ¹⁵N₂-labeling technique, and the active diazotrophs of soil were assessed by ¹⁵N₂-DNA-stable isotope probing (SIP). In addition, the nanometer scale secondary ion mass spectrometry (NanoSIMS) was applied to analysis the ¹⁵N-enrichment of soil DNA in SIP fractions. ¹⁵N₂-labeling experiment showed that BNF was 11.33 ± 1.90 kg N ha⁻¹ in the rice-planted soil and 3.55 ± 1.18 kg N ha⁻¹ in the nonplanted soil after 28-day labeling. The biologically fixed ¹⁵N was mainly (> 95%) recovered in the surface layer (0–0.5 cm) in the rice-planted soil. High throughput sequencing of nifH genes extracted from surface soil showed that the presence of rice affected the community composition of diazotrophs. The relative abundance of Nostocales and Stigonematales was significantly higher in rice-planted soil than in nonplanted soil (P < 0.05). After CsCl gradient ultracentrifugation, NanoSIMS images clearly showed that ¹⁵N was incorporated into soil DNA in the ¹⁵N₂-labeling SIP gradient fractions. Analyses of nifH genes in ¹⁵N-enriched SIP gradient fractions suggested that Nostocales and Stigonematales were the major contributors to BNF in the rice-soil system. Taken together, these results have highlighted the contributions of cyanobacteria to the BNF in paddy fields and improved our understanding of the close relationship between rice plants and cyanobacteria.
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Forest ecosystems absorb 45% of anthropogenic GHG emissions, and 85%-90% of terrestrial biomass is produced in forest ecosystems.
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Rafique, K., Gul, A., Altay, V., & Öztürk, M. (2025) · Elsevier eBooks · doi:10.1016/b978-0-443-22320-4.00016-5
Breeding Rice to Recruit Diazotrophs: Plant Genetic Levers for Rhizosphere Nitrogen Fixation
Qingnan, C., Detian, L., Zhihang, F., Wang, M., & Zhimin, S. (2026) · Rice Science · doi:10.1016/j.rsci.2026.04.005
- Authors
- Wang, X., Bei, Q., Yang, W., Zhang, H., Hao, J., Qian, L., Feng, Y., & Xie, Z.
- Affiliations
- Chinese Academy of Sciences (CN)
- Nanjing Agricultural University (CN)
- Auburn University (US)
- Corresponding author
- Bei, Qicheng
- Yang, Wei
- Xie, Zubin
- Venue
- Biology and Fertility of Soils
- Published
- 2020-08-10
- Volume
- 56
- Issue
- 8
- Pages
- 1189-1199
- ISSN
- 0178-2762 (ISSN-L)
- 1432-0789
- OpenAlex
- W3048644149
- Cited by
- 37
- References
- 62
- Citations by year
- 2026: 4 · 2025: 9 · 2024: 9 · 2023: 3 · 2022: 6 · 2021: 6
- FWCI
- 2.48
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Biology and Fertility of Soils (publishedVersion)
- Funders
- Natural Science Foundation of China (31870500, 41501273)
- Special Project on the Basis of National Science and Technology of China (2015FY110700)
- Knowledge Innovation Program of Chinese Academy of Sciences (KZCX2-EW-409)
- Technology Supporting Project of Jiangsu Province (BE2013451)
- Topics
- Life Sciences › Agricultural and Biological Sciences › Soil Science › Soil Carbon and Nitrogen Dynamics
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Legume Nitrogen Fixing Symbiosis
- Physical Sciences › Environmental Science › Ecology › Microbial Community Ecology and Physiology
- Keywords
- nitrogen fixation, nitrogen-fixing bacteria, flooded rice soils, paddy fields, NanoSIMS, nifH gene, cyanobacteria, Nostocales, Stigonematales
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