ORIGINAL RESEARCH article
Front. Microbiol.
Sec. Microbe and Virus Interactions with Plants
This article is part of the Research TopicMicrobiome-Based Techniques for Enhancing Crops Productivity and Eliminating Environmental PollutantsView all 7 articles
Bio-organic fertilizers reshape rhizosphere bacterial community and enhance crop productivity in reclaimed soil
Provisionally accepted
Jing Yang1
Xiaomin Lu1Bing Hao1
Shimei Wang2Lijuan Kong3Qingqin Shao1Weiping Li4Xingyu Wang4Youzun Xu2Wenge Wu2
Jianfei Wang1
Lantian Ren1*Gang Chen2*- 1Anhui science and tecnology university, Fengyang, China
- 2Anhui Academy of Agricultural Sciences, Hefei, China
- 3Anhui Agricultural Technology Promotion Bureau, Anhui Hefei, China
- 4Guozhen Environmental Remediation Co., Ltd., Anhui Hefei, China
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Bacillus amyloliquefaciens-modified bio-organic fertilizer (BOF) has shown great potential in improving crop yields and soil quality in degraded or reclaimed soils. However, the underlying microbial mechanisms remain unclear. This study conducted field experiments in reclaimed rice soil to compare the effects of chemical fertilizer (CF), organic fertilizer (OF), and BOF on rice yield and rhizosphere microbial community dynamics. The rice yield of BOF treatment increased by 9.6%, from 7.79 to 8.54 t ha-1 compared with CF, and significantly improved critical soil properties by alleviating acidification, as indicated by an increase in pH from 6.10 to 6.65, achieved a 15.7% rise in organic matter accumulation. Available phosphorus increased by 24.5% and available potassium by 14.4%. High-throughput sequencing revealed that bio-organic fertilizer application markedly altered rhizosphere bacterial communities, enriching sulfur-oxidizing taxa and beneficial plant-associated genera including Sphingomonas. Quantitative analysis indicated a significant positive correlation between the abundance of B. amyloliquefaciens and Sphingomonas, and both were associated with improved soil nutrient status and crop performance. Metabolic pathway analysis based on KEGG showed enrichment of the citric acid cycle (1.8-fold) and amino acid biosynthesis (2.3-fold) pathways, which promote nutrient mobilization and microbial interactions. These findings provide new insights into the synergistic interactions between introduced bacteria and native bacterial communities and establish a mechanistic foundation for designing targeted microbial formulations to promote sustainable rice production in improved soils.
Keywords: Bio-organic fertilizer, reclaimed soil, crop yield, microbial community, Sphingomonas, B. amyloliquefaciens
Received: 25 Sep 2025; Accepted: 24 Nov 2025.
Copyright: © 2025 Yang, Lu, Hao, Wang, Kong, Shao, Li, Wang, Xu, Wu, Wang, Ren and Chen. 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) or licensor 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:
Lantian Ren
Gang Chen
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