Long-term organic fertilizer substitution increases rice yield by improving soil properties and regulating soil bacteria

Liu, Jiai; Ai-ping, Shu; Song, Weifeng; Shi, Wenchong; Li, Mingcong; Zhang, Wenxue; Zu-zhang, LI; Liu, Guangrong; Yuan, Fengming; Zhang, Shuxin; Liu, Zengbing; Gao, Zheng

doi:10.1016/j.geoderma.2021.115287

Cited by 219 publications

(128 citation statements)

References 45 publications

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“…Distinctive taxa, and changes in their relative distribution under different agricultural practices, have been previously investigated [8]. Case reports have indicated that soil microbial biomass, diversity and activity can be altered by changes in the fertilization regime [3,9]. These differences were mainly attributed to variations in the levels of soil nitrogen, carbon, and pH among fertilization systems [10].…”

Section: Introductionmentioning

confidence: 99%

Understanding the Responses of Soil Bacterial Communities to Long-Term Fertilization Regimes Using DNA and RNA Sequencing

Li¹,

Wen²,

Yang³

2021

Agronomy

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Studies of soil DNA-based and RNA-based bacterial communities under contrasting long-term fertilization regimes can provide valuable insights into how agricultural management affects soil microbial structure and functional diversity. In this study, soil bacterial communities subjected to six fertility treatments in an alkaline soil over 27 years were investigated by 454 pyrosequencing based on 16S rDNA and 16S rRNA. Long-term fertilization showed significant influences on the diversity of the soil DNA-based bacteria, as well as on their RNA-based members. The top five phyla (Proteobacteria, Acidobacteria, Chloroflexi, Actinobacteria, and Planctomycetes) were found in both the DNA- and RNA-based samples. However, the relative abundances of these phyla at both DNA and RNA levels were showed significantly different. Analysis results showed that the diversity of the 16S rRNA samples was consistently lower than that of the rDNA samples, however, 16S rRNA samples had higher relative abundance. PICRUSt analysis indicated that glycan biosynthesis and metabolism were detected mainly in the DNA samples, while metabolism and degradation of xenobiotics and the metabolism of amino acids, terpenoids and polyketides were relatively higher in the RNA samples. Bacilli were significantly more abundant in all the OM-fertilized soils. Redundancy analysis indicated that the relative abundances of both DNA- and RNA-based bacterial groups were correlated with soil total organic carbon content, nitrogen content, Olsen-P, and soil pH. Moreover, the RNA-based Bacilli were positively correlated with available phosphorus (Olsen-P).

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Section: Introductionmentioning

confidence: 99%

Understanding the Responses of Soil Bacterial Communities to Long-Term Fertilization Regimes Using DNA and RNA Sequencing

Li¹,

Wen²,

Yang³

2021

Agronomy

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“…Hence, replacing the inorganic with bioorganic fertilizers is a prerequisite for sustainable agriculture [13]. Previous studies have shown that applying organic fertilizers improves soil and plant health and contributes to high crop yield [12]. In this study, we investigated the effect of a bioorganic fertilizer on the soil physicochemical characteristics, soil metabolites, Sanqi ginseng growth, and rhizosphere microbiome.…”

Section: Discussionmentioning

confidence: 99%

“…Over the past decades, farmers have amended agricultural field soils with significantly high amounts of chemical fertilizers, which have reduced soil pH and changed the microbiome composition [9][10][11]. Excessive application of chemical fertilizers has been recently hypothesized as suppressive for the development of sustainable agriculture [12]. As such, replacing chemical fertilizers with organic fertilizers is a prerequisite for positively influencing soil health and microbial biomass in order to enhance crop productivity [12,13].…”

Section: Introductionmentioning

confidence: 99%

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Application of Bioorganic Fertilizer on Panax notoginseng Improves Plant Growth by Altering the Rhizosphere Microbiome Structure and Metabolism

et al. 2022

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Bioorganic fertilizers can alleviate (a) biotic stresses and sustainably increase crop yields. The effect of bioorganic fertilizers on the rhizosphere bacterial community of Panax notoginseng and soil metabolism remains unknown. Here, we tracked the changes in the soil physicochemical properties, bacterial microbiota responses, and soil metabolic functions after the addition of a bioorganic fertilizer in a P. notoginseng field. The application of a bioorganic fertilizer reduced the soil acidification, improved the organic matter, and increased the contents of the total/available soil nutrients. Soil amendment with a bioorganic fertilizer significantly affected the structure of the rhizosphere bacterial community, leading to the enrichment of specific bacterial consortia such as Rhodanobacter, Arthrobacter, Sphingomonas, Devosia, Pseudolabrys, Luteimonas, Lysobacter, Nitrosospira, and Nakamurella. Previously, many of these genera have been associated with nutrient cycling, plant productivity, and disease suppression. Metabolome analysis further highlighted that the bioorganic fertilizer treatment significantly reduced phenolic acids and flavonoids and enhanced organic acids, saccharides and alcohols, and amino acids. This result indicates a high survival of bacterial microbiota in the rhizosphere and an availability of nutrients for P. notoginseng growth. This work showed that the application of bioorganic fertilizers significantly improves soil health status, alters soil metabolic functions, and stimulates a specific subset of rhizosphere microbiota for nutrient cycling and disease protection in P. notoginseng.

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“…Compost fertilization can drive the assembly of the rhizosphere microbiome in several crops, such as maize ( Qiao et al, 2019 ), cucumber ( Huang et al, 2017 ), pepper ( Li et al, 2019a ), and rice ( Liu et al, 2021 ), and such alternation may attribute to soil physicochemical changes by compost ( Liang et al, 2018 ). In seedling nursery, compost is frequently used as growing substrate, which may provide first reservoir for plant to recruit its microbiome ( Anastasis et al, 2017 ).…”

Section: Introductionmentioning

confidence: 99%

Taxonomic and Functional Diversity of Rhizosphere Microbiome Recruited From Compost Synergistically Determined by Plant Species and Compost

Wang

et al. 2022

Front. Microbiol.

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Compost is frequently served as the first reservoir for plants to recruit rhizosphere microbiome when used as growing substrate in the seedling nursery. In the present study, recruitment of rhizosphere microbiome from two composts by tomato, pepper, or maize was addressed by shotgun metagenomics and 16S rRNA amplicon sequencing. The 16S rRNA amplicon sequencing analysis showed that 41% of variation in the rhizosphere bacterial community was explained by compost, in contrast to 23% by plant species. Proteobacterial genera were commonly recruited by all three plant species with specific selections for Ralstonia by tomato and Enterobacteria by maize. These findings were confirmed by analysis of 16S rRNA retrieved from the shotgun metagenomics library. Approximately 70% of functional gene clusters differed more than sevenfold in abundance between rhizosphere and compost. Functional groups associated with the sensing and up-taking of C3 and C4 carboxylic acids, amino acids, monosaccharide, production of antimicrobial substances, and antibiotic resistance were over-represented in the rhizosphere. In summary, compost and plant species synergistically shaped the composition of the rhizosphere microbiome and selected for functional traits associated with the competition on root exudates.

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Long-term organic fertilizer substitution increases rice yield by improving soil properties and regulating soil bacteria

Cited by 219 publications

References 45 publications

Understanding the Responses of Soil Bacterial Communities to Long-Term Fertilization Regimes Using DNA and RNA Sequencing

Understanding the Responses of Soil Bacterial Communities to Long-Term Fertilization Regimes Using DNA and RNA Sequencing

Application of Bioorganic Fertilizer on Panax notoginseng Improves Plant Growth by Altering the Rhizosphere Microbiome Structure and Metabolism

Taxonomic and Functional Diversity of Rhizosphere Microbiome Recruited From Compost Synergistically Determined by Plant Species and Compost

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