Green manure amendment enhances microbial activity and diversity in antibiotic-contaminated soil

Caban, Jiff Randy; Kuppusamy, Saranya; Kim, Jang Hwan; Yoon, Young-Eun; Kim, Song Yeob; Lee, Yong-Bok

doi:10.1016/j.apsoil.2018.04.013

Cited by 50 publications

(19 citation statements)

References 39 publications

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“…Proteobacteria, Actinobacteria, and Bacteroidetes play a part in organic mineralization and S-, N-, C-cycling (Ali et al 2019;Liang et al 2020), and the main bacterial communities that belong to them are associated with soil antibioticsresistant and antibiotics-degrading (Caban et al 2018). In our study, Proteobacteria and Acidobacteria were the dominant bacteria, accounting for 46.4% and 24.8% of soil bacteria, respectively ( Fig.…”

Section: Discussionmentioning

confidence: 51%

Cadmium Pollution Impact on the Bacterial Community of Haplic Cambisols in Northeast China and Inference of Resistant Genera

Duan

Liu

Zhang

et al. 2020

J Soil Sci Plant Nutr

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Modern industry and agriculture has aggravated heavy metal pollution of soils, of which cadmium (Cd) is among the common most toxic and widely distributed pollutants. Bacteria are a major group of microorganisms and the most abundantly occurring in soils. In Northeastern China, many mining sites occur whose soils need reclamation and Cd pollution has commonly existed. Haplic Cambisols is the zonal forest soil here. Yet, how Cd contamination may affect the bacterial characteristics and chemical properties of Haplic Cambisols is still unknown. Here, we applied different concentrations of Cd contamination to Haplic Cambisols and monitored the resulting changes to bacterial community structure and diversity, as well as the general soil environments; we then inferred Cd-resistant bacteria to provide theoretical support for microbial remediation of Cdcontaminated Haplic Cambisols in Northeast China. Haplic Cambisols were treated with different concentrations of CdCl 2 solutions (0 [CK], 1, 5, 25, 50, 75, 100 mg kg −1 , respectively expressed as T1, T2, T3, T4, T5, and T6) and incubated for 50 days, and then bacterial community composition was identified, and the pH, organic matter, hydrolytic nitrogen, available phosphorus, potassium, and cadmium contents of the soils were measured. Adding higher concentrations of Cd usually significantly increased the richness and diversity of the bacterial community in Haplic Cambisols in terms of both species and abundance with the effects of some treatments being not significant, and this effect varied with Cd concentration. Applying Cd significantly influenced the bacterial community's structure and its metabolic functioning. Cd also influenced bacterial diversity via several key soil environmental factors, namely the pH, organic matter, and hydrolytic nitrogen contents. Pseudolabrys, Ralstonia, Reyranella, Afipia, Pelomonas, Rhizomicrobium, and Bradyrhizobium within Proteobacteria; Rhodanobacter from Bacteroidetes; and Nitrobacter within Nitrospirae were the main resistant bacteria. Higher concentrations of Cd increased the bacterial community richness and diversity of Haplic Cambisols, as well as the relative abundance of their main bacterial populations. The Cd-resistant genera were inferred, and relative abundances of Ralstonia, Bradyrhizobium, Rhizomicrobium, and Afipia were the highest.

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Section: Discussionmentioning

confidence: 51%

Cadmium Pollution Impact on the Bacterial Community of Haplic Cambisols in Northeast China and Inference of Resistant Genera

Duan

Liu

Zhang

et al. 2020

J Soil Sci Plant Nutr

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“…The DNA samples were extracted from 0.5 g of each sample with the FastDNA SPIN for Soil Kit (MP Biomedicals, Santa Ana, CA, USA), following the instructions of the manufacturer. The region of 16S rRNA V3‐V4 was reinforced for each specimen by utilizing primer sets of 338Fand 806R (Xu et al, 2017), and the internal transcribed spacer (ITS) primer regions of gene (ITS1F‐ITS2F) (Caban et al, 2018; Nottingham et al, 2018). The PCR components contained 25 μl of 5 μl of 5× Q5 reaction buffer, 5 μl of 5× Q5 High‐Fidelity GC buffer, 0.25 μl of Q5 High‐Fidelity DNA polymerase (5 U μl −1 ), 1 μl (10 uM) of each Forward and Reverse primers, 2 μl (2.5 mM) of dNTPs, 2 μl of DNA template, and 8.75 μl of ddH 2 O.…”

Section: Methodsmentioning

confidence: 99%

Variations in the diversity of the soil microbial community and structure under various categories of degraded wetland in Sanjiang Plain, northeastern China

Wang

et al. 2021

Land Degrad Dev

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Understanding the changes in microbial community composition in wetlands affected by different types of degradation can help enrich theoretical knowledge about wetland degradation. However, studies of the relative role of microorganisms under different types of degradation of wetlands are rare in wetland ecology. Because of agricultural development, a large volume of groundwater has been extracted from the Sanjiang Plain over the last few decades, which has caused wetland degradation.To provide information for the development and protection of this wetland ecosystem, investigations into the processes of wetland degradation are important. The aim of the present work was to assess the impacts of wetland degradation on soil microbial communities under four different types of wetlands degradation in the Sanjiang Plain: swamp meadow (SW), meadow wetland (MW), paddy farmland (PF), and cropland (CL). Both 16S and ITS rRNA gene amplicon sequencing were used to evaluate the diversity and composition of bacteria and fungi. A total of 638,758 effective 16S rRNA and 916,211 valid internal transcribed spacer rRNA gene sequences were obtained, which were classified into 11 fungal and 40 bacterial phyla. The dominant fungal and bacterial phyla were Ascomycota and Proteobacteria, respectively. In addition, wetland degradation increased the relative abundances of Chloroflexi and Gemmatimonadetes, but the relative abundances of Proteobacteria and Verrucomicrobia significantly decreased. The bacterial Shannon index of SW was lower than those of the other investigated sites. Fungal diversity showed no significant differences for different types of degraded wetlands. In addition to wetland degradation, different reactions of the dominant microbial phyla and their diversity were clearly coorelated with total phosphorus (TP), total potassium (TK), available potassium (AK), and soil organic matter (SOM), which formed essential criteria that influenced the soil microbial communities. Wetland degradation resulted in the decrease of soil nutrient and the decline of the abundance of dominant phylum in soil bacterial and fungal communities. These changes can be used as an early warning signal for the degrading wetland of the Sanjiang Plain.Yining Wu and Nan Xu have contributed equally to this work.

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“…The DNA of samples was extracted from 0.5 g of soil with the FastDNA SPIN Kit for Soil (MP Biomedicals, Santa Ana, California), according to the manufacturer's instructions. The genomic DNA was amplified by PCR using the 16 S rRNA gene V3-V4 hypervariable region primers (338F and 806R) (Xu, Tan, Wang, & Gai, 2016), and the Internal Transcribed Spacer (ITS) gene region primers (ITS1F-ITS2) (Caban et al, 2018;Nottingham et al, 2018). PCR reactions: 8.75 μl of ddH 2 O; 5 μl of Q5 reaction buffer (×5) and Q5 High-Fidelity GC buffer (×5), respectively; 2 μl of dNTPs (2.5 mM) and DNA Template, respectively; 1 μl (10 uM) of forward and reverse primers, respectively; 0.25 μl (5 U/μl) of Q5 High-Fidelity DNA Polymerase, a total of 25 μl mixture (Deng, Yin, Zhu, & Zhou, 2018).…”

Section: Soil Dna Extraction and Amplification Of Sequencingmentioning

confidence: 99%

Response of soil environment factors and microbial communities to phytoremediation with Robinia pseudoacacia in an open‐cut magnesite mine

et al. 2020

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Overexploitation of magnesium has caused serious environmental pollution, and the ecological restoration of magnesite mines has attracted increasing attention in China. The aim of this study was to assess the effects of phytoremediation with Robinia pseudoacacia (RP) on soil quality and microbial communities in magnesite mines. Here, soil samples were collected from restored areas (R. pseudoacacia), natural forest (NF), and unrestored areas (CK), and the soil microbial communities were assessed by Illumina high-throughput sequencing. Phytoremediation with R. pseudoacacia could alleviate soil alkalization and contribute to the accumulation of soil nutrients. A total of 531,329 effective 16S rRNA and 596,344 valid Internal Transcribed Spacer rRNA gene sequences were obtained, which were classified into 30 bacterial and 12 fungal phyla. The predominant bacterial and fungal phyla were Proteobacteria and Ascomycota, respectively. Bacterial diversity indices of RP were higher than those of the CK, both of which were lower than those in the NF site. While, fungal Chao1 and ACE (abundance-based coverage estimator) indices of RP were higher than those of the CK and even surpassed those in the NF site. Soil microbial communities significantly differed among different treatments, and the effects of soil factors on microbial communities were comprehensive and not determined by a single factor. Generally, these results indicated that phytoremediation with R. pseudoacacia could effectively improve the soil environment of the abandoned magnesium mine, which provide useful insights and practical references for the suitable species that would be planted on magnesite mine for restoration.

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Green manure amendment enhances microbial activity and diversity in antibiotic-contaminated soil

Cited by 50 publications

References 39 publications

Cadmium Pollution Impact on the Bacterial Community of Haplic Cambisols in Northeast China and Inference of Resistant Genera

Cadmium Pollution Impact on the Bacterial Community of Haplic Cambisols in Northeast China and Inference of Resistant Genera

Variations in the diversity of the soil microbial community and structure under various categories of degraded wetland in Sanjiang Plain, northeastern China

Response of soil environment factors and microbial communities to phytoremediation with Robinia pseudoacacia in an open‐cut magnesite mine

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