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Du L, Liu Q, Wang L, Lyu H, Tang J. Microplastics enhanced the allelopathy of pyrogallol on toxic Microcystis with additional risks: Microcystins release and greenhouse gases emissions. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 945:173864. [PMID: 38879032 DOI: 10.1016/j.scitotenv.2024.173864] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/21/2024] [Revised: 05/16/2024] [Accepted: 06/07/2024] [Indexed: 06/21/2024]
Abstract
Cyanobacteria blooms (CBs) caused by eutrophication pose a global concern, especially Microcystis aeruginosa (M. aeruginosa), which could release harmful microcystins (MCs). The impact of microplastics (MPs) on allelopathy in freshwater environments is not well understood. This study examined the joint effect of adding polystyrene (PS-MPs) as representative MPs and two concentrations (2 and 8 mg/L) of pyrogallol (PYR) on the allelopathy of M. aeruginosa. The results showed that the addition of PS-MPs intensified the inhibitory effect of 8 mg/L PYR on the growth and photosynthesis of M. aeruginosa. After a 7-day incubation period, the cell density decreased to 69.7 %, and the chl-a content decreased to 48 % compared to the condition without PS-MPs (p < 0.05). Although the growth and photosynthesis of toxic Microcystis decreased with the addition of PS-MPs, the addition of PS-MPs significantly resulted in a 3.49-fold increase in intracellular MCs and a 1.10-fold increase in extracellular MCs (p < 0.05). Additionally, the emission rates of greenhouse gases (GHGs) (carbon dioxide, nitrous oxide and methane) increased by 2.66, 2.23 and 2.17-fold, respectively (p < 0.05). In addition, transcriptomic analysis showed that the addition of PS-MPs led to the dysregulation of gene expression related to DNA synthesis, membrane function, enzyme activity, stimulus detection, MCs release and GHGs emissions in M. aeruginosa. PYR and PS-MPs triggered ROS-induced membrane damage and disrupted photosynthesis in algae, leading to increased MCs and GHG emissions. PS-MPs accumulation exacerbated this issue by impeding light absorption and membrane function, further heightening the release of MCs and GHGs emissions. Therefore, PS-MPs exhibited a synergistic effect with PYR in inhibiting the growth and photosynthesis of M. aeruginosa, resulting in additional risks such as MCs release and GHGs emissions. These results provide valuable insights for the ecological risk assessment and control of algae bloom in freshwater ecosystems.
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Affiliation(s)
- Linqing Du
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education)/Tianjin Engineering Center of Environmental Diagnosis and Contamination Remediation, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China
| | - Qinglong Liu
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education)/Tianjin Engineering Center of Environmental Diagnosis and Contamination Remediation, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China
| | - Lan Wang
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education)/Tianjin Engineering Center of Environmental Diagnosis and Contamination Remediation, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China
| | - Honghong Lyu
- Tianjin Key Laboratory of Clean Energy and Pollution Control, School of Energy and Environmental Engineering, Hebei University of Technology, Tianjin 300401, China
| | - Jingchun Tang
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education)/Tianjin Engineering Center of Environmental Diagnosis and Contamination Remediation, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China.
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Li J, Lei Y, Wen Y, Zhu J, Di X, Zeng Y, Han X, Que Z, Mediatrice H, Rensing C, Lin Z, Lin D. Short-Term Effects of Cenchrus fungigraminus/Potato or Broad Bean Interplanting on Rhizosphere Soil Fertility, Microbial Diversity, and Greenhouse Gas Sequestration in Southeast China. Microorganisms 2024; 12:1665. [PMID: 39203507 PMCID: PMC11356856 DOI: 10.3390/microorganisms12081665] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2024] [Revised: 07/29/2024] [Accepted: 08/06/2024] [Indexed: 09/03/2024] Open
Abstract
Cenchrus fungigraminus is a new species and is largely used as forage and mushroom substrate. However, it can usually not be planted on farmland on account of local agricultural land policy. Interplanting Cenchrus fungigraminus with other crops annually (short-term) is an innovative strategy to promote the sustainable development of the grass industry in southern China. To further investigate this, C. fungigraminus mono-planting (MC), C. fungigraminus-potato interplanting (CIP) and C. fungigraminus-broad bean interplanting (CIB) were performed. Compared to MC, soil microbial biomass carbon (SMBC), soil organic matter (SOM), ammoniacal nitrogen (AMN), pH and soil amino sugars had a positive effect on the rhizosphere soil of CIP and CIB, as well as enhancing soil nitrogenase, nitrite reductase, and peroxidase activities (p < 0.05). Moreover, CIP improved the root vitality (2.08 times) and crude protein (1.11 times). In addition, CIB enhanced the crude fiber of C. fungigraminus seedlings. These two interplanting models also improved the microbial composition and diversity (Actinobacteria, Firmicutes, and Bacteroidota, etc.) in the rhizosphere soil of C. fungigraminus seedlings. Among all the samples, 189 and 59 genes were involved in methane cycling and nitrogen cycling, respectively, which improved the presence of the serine cycle, ribulose monophosphate, assimilatory nitrate reduction, methane absorption, and glutamate synthesis and inhibited denitrification. Through correlation analysis and the Mantel test, the putative functional genes, encoding functions in both nitrogen and methane cycling, were shown to have a significant positive effect on pH, moisture, AMN, SOM, SMBC, and soil peroxidase activity, while not displaying a significant effect on soil nitrogenase activity and total amino sugar (p < 0.05). The short-term influence of the interplanting model was shown to improve land use efficiency and economic profitability per unit land area, and the models could provide sustainable agricultural production for rural revitalization.
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Affiliation(s)
- Jing Li
- National Engineering Research Center of Juncao Technology, College of Juncao and Ecology, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (J.L.); (Y.L.); (Y.W.); (J.Z.); (X.D.); (Y.Z.); (H.M.); (C.R.); (Z.L.)
| | - Yufang Lei
- National Engineering Research Center of Juncao Technology, College of Juncao and Ecology, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (J.L.); (Y.L.); (Y.W.); (J.Z.); (X.D.); (Y.Z.); (H.M.); (C.R.); (Z.L.)
| | - Yeyan Wen
- National Engineering Research Center of Juncao Technology, College of Juncao and Ecology, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (J.L.); (Y.L.); (Y.W.); (J.Z.); (X.D.); (Y.Z.); (H.M.); (C.R.); (Z.L.)
| | - Jieyi Zhu
- National Engineering Research Center of Juncao Technology, College of Juncao and Ecology, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (J.L.); (Y.L.); (Y.W.); (J.Z.); (X.D.); (Y.Z.); (H.M.); (C.R.); (Z.L.)
| | - Xiaoyue Di
- National Engineering Research Center of Juncao Technology, College of Juncao and Ecology, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (J.L.); (Y.L.); (Y.W.); (J.Z.); (X.D.); (Y.Z.); (H.M.); (C.R.); (Z.L.)
| | - Yi Zeng
- National Engineering Research Center of Juncao Technology, College of Juncao and Ecology, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (J.L.); (Y.L.); (Y.W.); (J.Z.); (X.D.); (Y.Z.); (H.M.); (C.R.); (Z.L.)
| | - Xiao Han
- Shunchang Agriculture Science Research Institute, Nanping 353200, China;
| | - Zuhui Que
- Zhengfang Rural Revitalization and Development Center of Shunchang, Nanping 353216, China;
| | - Hatungimana Mediatrice
- National Engineering Research Center of Juncao Technology, College of Juncao and Ecology, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (J.L.); (Y.L.); (Y.W.); (J.Z.); (X.D.); (Y.Z.); (H.M.); (C.R.); (Z.L.)
| | - Christopher Rensing
- National Engineering Research Center of Juncao Technology, College of Juncao and Ecology, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (J.L.); (Y.L.); (Y.W.); (J.Z.); (X.D.); (Y.Z.); (H.M.); (C.R.); (Z.L.)
- Institute of Environmental Microbiology, College of Resource and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Zhanxi Lin
- National Engineering Research Center of Juncao Technology, College of Juncao and Ecology, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (J.L.); (Y.L.); (Y.W.); (J.Z.); (X.D.); (Y.Z.); (H.M.); (C.R.); (Z.L.)
| | - Dongmei Lin
- National Engineering Research Center of Juncao Technology, College of Juncao and Ecology, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (J.L.); (Y.L.); (Y.W.); (J.Z.); (X.D.); (Y.Z.); (H.M.); (C.R.); (Z.L.)
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Hou A, Fu H, Liu L, Su X, Zhang S, Lai J, Sun F. Exploring the distribution and co-occurrence of rpf-like genes and nitrogen-cycling genes in water reservoir sediments. Front Microbiol 2024; 15:1433046. [PMID: 39104579 PMCID: PMC11298755 DOI: 10.3389/fmicb.2024.1433046] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2024] [Accepted: 07/12/2024] [Indexed: 08/07/2024] Open
Abstract
Water reservoir sediments represent a distinct habitat that harbors diverse microbial resources crucial for nitrogen cycling processes. The discovery of resuscitation promoting factor (Rpf) has been recognized as a crucial development in understanding the potential of microbial populations. However, our understanding of the relationship between microorganisms containing rpf-like genes and nitrogen-cycling functional populations remains limited. The present study explored the distribution patterns of rpf-like genes and nitrogen-cycling genes in various water reservoir sediments, along with their correlation with environmental factors. Additionally, the co-occurrence of rpf-like genes with genes associated with the nitrogen cycle and viable but non-culturable (VBNC) formation was investigated. The findings indicated the ubiquitous occurrence of Rpf-like domains and their related genes in the examined reservoir sediments. Notably, rpf-like genes were predominantly associated with Bradyrhizobium, Nitrospira, and Anaeromyxobacter, with pH emerging as the primary influencing factor for their distribution. Genera such as Nitrospira, Bradyrhizobium, Anaeromyxobacter, and Dechloromonas harbor the majority of nitrogen-cycling functional genes, particularly denitrification genes. The distribution of nitrogen-cycling microbial communities in the reservoir sediments was mainly influenced by pH and NH4 +. Notably, correlation network analysis revealed close connections between microorganisms containing rpf-like genes and nitrogen-cycling functional populations, as well as VBNC bacteria. These findings offer new insights into the prevalence of rpf-like genes in the water reservoir sediments and their correlation with nitrogen-cycling microbial communities, enhancing our understanding of the significant potential of microbial nitrogen cycling.
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Affiliation(s)
- Aiqin Hou
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, China
| | - Huayi Fu
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, China
| | - Leilei Liu
- The Management Center of Wuyanling National Natural Reserve in Zhejiang, Wenzhou, China
| | - Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, China
| | - Shusheng Zhang
- The Management Center of Wuyanling National Natural Reserve in Zhejiang, Wenzhou, China
| | - Jiahou Lai
- The Management Center of Wuyanling National Natural Reserve in Zhejiang, Wenzhou, China
| | - Faqian Sun
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, China
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Wang Q, Pan Y, Chu G, Lu S, Zhang Z, Zhao Y, Jin C, Gao M. Impact of aerobic/anoxic alternation number on performance, microbial community and functional genes of sequencing batch biofilm reactor treating mariculture wastewater. BIORESOURCE TECHNOLOGY 2023; 372:128699. [PMID: 36731617 DOI: 10.1016/j.biortech.2023.128699] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2022] [Revised: 01/27/2023] [Accepted: 01/28/2023] [Indexed: 06/18/2023]
Abstract
The performance, microbial community and functional genes of a sequencing batch biofilm reactor (SBBR) were investigated in treating mariculture wastewater under different aerobic/anoxic alternation number. The removal efficiency of chemical oxygen demand (COD) and NH4+-N kept at 95.66 ± 1.83 % and 90.28 ± 2.42 % under aerobic/anoxic alternation number between 1 and 4. The total nitrogen (TN) removal efficiency gradually decreased from 94.45 ± 1.12 % to 83.06 ± 1.25 % with the increase of aerobic/anoxic alternative number from 1 to 4. The nitrification rates and their corresponding enzymatic activities increased slightly with the increase of aerobic/anoxic alternation number, whereas the denitrifying process had the contrary results. The variation of aerobic/anoxic alternation number obviously affected the microbial diversity and abundance. The microbial network structure and keystone taxa were different under different aerobic/anoxic alternation number. The functional genes abundance for the denitrification pathway decreased with the increase of aerobic/anoxic alternation number.
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Affiliation(s)
- Qianzhi Wang
- Key Lab of Marine Environment and Ecology, Ministry of Education, Ocean University of China, Qingdao 266100, China; Shandong Provincial Key Laboratory of Marine Environment and Geological Engineering, Ocean University of China, Qingdao 266100, China; College of Environmental Science and Engineering, Ocean University of China, Qingdao 266100, China
| | - Yunhao Pan
- Key Lab of Marine Environment and Ecology, Ministry of Education, Ocean University of China, Qingdao 266100, China
| | - Guangyu Chu
- Key Lab of Marine Environment and Ecology, Ministry of Education, Ocean University of China, Qingdao 266100, China; College of Environmental Science and Engineering, Ocean University of China, Qingdao 266100, China
| | - Shuailing Lu
- Key Lab of Marine Environment and Ecology, Ministry of Education, Ocean University of China, Qingdao 266100, China
| | - Zhiming Zhang
- Key Lab of Marine Environment and Ecology, Ministry of Education, Ocean University of China, Qingdao 266100, China
| | - Yangguo Zhao
- Key Lab of Marine Environment and Ecology, Ministry of Education, Ocean University of China, Qingdao 266100, China; Shandong Provincial Key Laboratory of Marine Environment and Geological Engineering, Ocean University of China, Qingdao 266100, China
| | - Chunji Jin
- Key Lab of Marine Environment and Ecology, Ministry of Education, Ocean University of China, Qingdao 266100, China
| | - Mengchun Gao
- Key Lab of Marine Environment and Ecology, Ministry of Education, Ocean University of China, Qingdao 266100, China; Shandong Provincial Key Laboratory of Marine Environment and Geological Engineering, Ocean University of China, Qingdao 266100, China.
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5
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Guan Y, Hou T, Li X, Feng L, Wang Z. Metagenomic insights into comparative study of nitrogen metabolic potential and microbial community between primitive and urban river sediments. ENVIRONMENTAL RESEARCH 2022; 212:113592. [PMID: 35654160 DOI: 10.1016/j.envres.2022.113592] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2022] [Revised: 05/17/2022] [Accepted: 05/29/2022] [Indexed: 05/27/2023]
Abstract
As a result of anthropogenic pollution, the nitrogen nutrients load in urban rivers has increased, potentially raising the risk of river eutrophication. Here, we studied how anthropogenic impacts alter nitrogen metabolism in river sediments by comparing the metagenomic function of microbial communities between relatively primitive and human-disturbed sediments. The contents of organic matter (OM), total nitrogen (TN), NO3--N and NO2--N were higher in primitive site than in polluted sites, which might be due to vegetation density, sediment type, hydrology, etc. Whereas, NH4+-N content was higher in midstream and downstream, indicating that nitrogen loading increased in the anthropogenic regions and subsequently leading higher NH4+-N. Hierarchical cluster analyses revealed significant changes in the community structure and functional potential between the primitive and human-affected sites. Metagenomic analysis demonstrated that Demequina, Streptomyces, Rubrobacter and Dechloromonas were the predominant denitrifiers. Ardenticatena and Dechloromonas species were the most important contributors to dissimilatory nitrate reduction. Furthermore, anthropogenic pollution significantly increased their abundance, and resulting in a decrease in NO3-, NO2--N and an increase in NH4+-N contents. Additionally, the SOX metabolism of Dechloromonas and Sulfuritalea may involve in the sulfur-dependent autotrophic denitrification process by coupling the conversion of thiosulfate to sulfate with the reduction of NO3--N to N2. From pristine to anthropogenic pollution sediments, the major nitrifying bacteria harboring Hao transitioned from Nitrospira to Nitrosomonas. This study sheds light on the consequences of anthropogenic activities on nitrogen metabolism in river sediments, allowing for better management of nitrogen pollution and eutrophication in river.
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Affiliation(s)
- Yongjing Guan
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Tingting Hou
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Xiangju Li
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Leilei Feng
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Zaizhao Wang
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China.
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Dai H, Sun Y, Wan D, Abbasi HN, Guo Z, Geng H, Wang X, Chen Y. Simultaneous denitrification and phosphorus removal: A review on the functional strains and activated sludge processes. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 835:155409. [PMID: 35469879 DOI: 10.1016/j.scitotenv.2022.155409] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2022] [Revised: 04/15/2022] [Accepted: 04/16/2022] [Indexed: 06/14/2023]
Abstract
Eutrophication has attracted extensive attention owing to its harmful effects to the organisms and aquatic environment. Studies on the functional microorganisms with the ability of simultaneously nitrogen (N) and phosphorus (P) removal is of great significance for alleviating eutrophication. Thus far, several strains from various genera have been reported to accomplish simultaneous N and P removal, which is primarily observed in Bacillus, Pseudomonas, Paracoccus, and Arthrobacter. The mechanism of N and P removal by denitrifying P accumulating organisms (DPAOs) is different from the traditional biological N and P removal. The denitrifying P removal (DPR) technology based on the metabolic function of DPAOs can overcome the problem of carbon source competition and sludge age contradiction in traditional biological N and P removal processes and can be applied to the treatment of urban sewage with low C/N ratio. This paper reviews the mechanism of N and P removal by DPAOs from the aspect of the metabolic pathways and enzymatic processes. The research progress on DPR processes is also summarized and elucidated. Further research should focus on the efficient removal of N and P by improving the performance of functional microorganisms and development of new coupling processes. This review can serve as a basis for screening DPAOs with high N and P removal efficiency and developing new DPR processes in the future.
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Affiliation(s)
- Hongliang Dai
- School of Environmental and Chemical Engineering, Jiangsu University of Science and Technology, Zhenjiang, China; School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan, China
| | - Yang Sun
- School of Environmental and Chemical Engineering, Jiangsu University of Science and Technology, Zhenjiang, China
| | - Dong Wan
- School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan, China
| | - Haq Nawaz Abbasi
- Department of Environmental science, Federal Urdu University of Arts, Science and Technology, Karachi, Pakistan
| | - Zechong Guo
- School of Environmental and Chemical Engineering, Jiangsu University of Science and Technology, Zhenjiang, China; School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan, China
| | - Hongya Geng
- Department of Materials, Imperial College London, Prince Consort Road, London SW7 2AZ, UK
| | - Xingang Wang
- School of Environmental and Chemical Engineering, Jiangsu University of Science and Technology, Zhenjiang, China.
| | - Yong Chen
- School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan, China
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Sharifi R, Jeon JS, Ryu CM. Belowground plant-microbe communications via volatile compounds. JOURNAL OF EXPERIMENTAL BOTANY 2022; 73:463-486. [PMID: 34727189 DOI: 10.1093/jxb/erab465] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2021] [Accepted: 10/21/2021] [Indexed: 06/13/2023]
Abstract
Volatile compounds play important roles in rhizosphere biological communications and interactions. The emission of plant and microbial volatiles is a dynamic phenomenon that is affected by several endogenous and exogenous signals. Diffusion of volatiles can be limited by their adsorption, degradation, and dissolution under specific environmental conditions. Therefore, rhizosphere volatiles need to be investigated on a micro and spatiotemporal scale. Plant and microbial volatiles can expand and specialize the rhizobacterial niche not only by improving the root system architecture such that it serves as a nutrient-rich shelter, but also by inhibiting or promoting the growth, chemotaxis, survival, and robustness of neighboring organisms. Root volatiles play an important role in engineering the belowground microbiome by shaping the microbial community structure and recruiting beneficial microbes. Microbial volatiles are appropriate candidates for improving plant growth and health during environmental challenges and climate change. However, some technical and experimental challenges limit the non-destructive monitoring of volatile emissions in the rhizosphere in real-time. In this review, we attempt to clarify the volatile-mediated intra- and inter-kingdom communications in the rhizosphere, and propose improvements in experimental design for future research.
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Affiliation(s)
- Rouhallah Sharifi
- Department of Plant Protection, College of Agriculture and Natural Resources, Razi University, Kermanshah, Iran
| | - Je-Seung Jeon
- Molecular Phytobacteriology Laboratory, Infectious Disease Research Center, KRIBB, Daejeon 34141, South Korea
| | - Choong-Min Ryu
- Molecular Phytobacteriology Laboratory, Infectious Disease Research Center, KRIBB, Daejeon 34141, South Korea
- Biosystem and Bioengineering Program, University of Science and Technology (UST), Daejeon 34141, South Korea
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Salas A, Cabrera JJ, Jiménez-Leiva A, Mesa S, Bedmar EJ, Richardson DJ, Gates AJ, Delgado MJ. Bacterial nitric oxide metabolism: Recent insights in rhizobia. Adv Microb Physiol 2021; 78:259-315. [PMID: 34147187 DOI: 10.1016/bs.ampbs.2021.05.001] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Nitric oxide (NO) is a reactive gaseous molecule that has several functions in biological systems depending on its concentration. At low concentrations, NO acts as a signaling molecule, while at high concentrations, it becomes very toxic due to its ability to react with multiple cellular targets. Soil bacteria, commonly known as rhizobia, have the capacity to establish a N2-fixing symbiosis with legumes inducing the formation of nodules in their roots. Several reports have shown NO production in the nodules where this gas acts either as a signaling molecule which regulates gene expression, or as a potent inhibitor of nitrogenase and other plant and bacteria enzymes. A better understanding of the sinks and sources of NO in rhizobia is essential to protect symbiotic nitrogen fixation from nitrosative stress. In nodules, both the plant and the microsymbiont contribute to the production of NO. From the bacterial perspective, the main source of NO reported in rhizobia is the denitrification pathway that varies significantly depending on the species. In addition to denitrification, nitrate assimilation is emerging as a new source of NO in rhizobia. To control NO accumulation in the nodules, in addition to plant haemoglobins, bacteroids also contribute to NO detoxification through the expression of a NorBC-type nitric oxide reductase as well as rhizobial haemoglobins. In the present review, updated knowledge about the NO metabolism in legume-associated endosymbiotic bacteria is summarized.
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Affiliation(s)
- Ana Salas
- Department of Soil Microbiology and Symbiotic Systems, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas, Granada, Spain
| | - Juan J Cabrera
- Department of Soil Microbiology and Symbiotic Systems, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas, Granada, Spain; School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, United Kingdom
| | - Andrea Jiménez-Leiva
- Department of Soil Microbiology and Symbiotic Systems, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas, Granada, Spain
| | - Socorro Mesa
- Department of Soil Microbiology and Symbiotic Systems, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas, Granada, Spain
| | - Eulogio J Bedmar
- Department of Soil Microbiology and Symbiotic Systems, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas, Granada, Spain
| | - David J Richardson
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, United Kingdom
| | - Andrew J Gates
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, United Kingdom
| | - María J Delgado
- Department of Soil Microbiology and Symbiotic Systems, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas, Granada, Spain.
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Liu X, Tang Z, Zhang Q, Kong W. The contrasting effects of biochar and straw on N 2O emissions in the maize season in intensively farmed soil. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:29806-29819. [PMID: 33566298 DOI: 10.1007/s11356-021-12722-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2020] [Accepted: 01/26/2021] [Indexed: 06/12/2023]
Abstract
This study evaluated the combined effects of biochar and straw on N2O flux and the community compositions of nitrifiers and denitrifiers in the maize season in an intensively farmed area in northern China. The experiment consisted of four treatments: (1) CK (only chemical fertilizer application); (2) C (biochar application); (3) SR (straw application to the field); and (4) C+SR (the application of both biochar and straw). The results indicated that during the maize growing season, N2O flux decreased by 30.3% in the C treatment and increased by 13.2% and 37.0% in the SR and C+SR treatments compared with CK, respectively. NO3--N, NH4+-N, and microbial biomass carbon (MBC) were the main soil factors affecting N2O flux, and they were positively correlated with NO3--N and negatively correlated with MBC in the C treatment and positively correlated with NH4+-N in the SR and C+SR treatments. Both biochar addition and straw return shifted the community compositions of nitrifiers and denitrifiers. N2O production was mainly reduced by promoting the ammonia-oxidizing bacteria (AOB) gene abundance and inhibiting the nirK gene abundance in the C treatment but promoted by inhibiting the AOB and nosZ gene abundances in the SR and C+SR treatments. Nitrosospira (AOB) and Rhizobium (nirK) were the main contributors among the treatments. NO3--N, NH4+-N, and MBC were the main soil factors affecting the denitrifier communities. The predominant species associated with the nirK, nirS, and nosZ genes were positively correlated with NO3--N and MBC and negatively correlated with NH4+-N. These results provide valuable information on the mechanism of N2O production and reduction in biochar- and straw-amended soil under field conditions.
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Affiliation(s)
- Xingren Liu
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
| | - Zhanming Tang
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Qingwen Zhang
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Weidong Kong
- Key Laboratory of Alpine Ecology, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing, 100101, China.
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Rhizobia: highways to NO. Biochem Soc Trans 2021; 49:495-505. [PMID: 33544133 DOI: 10.1042/bst20200989] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2020] [Revised: 01/06/2021] [Accepted: 01/07/2021] [Indexed: 02/02/2023]
Abstract
The interaction between rhizobia and their legume host plants conduces to the formation of specialized root organs called nodules where rhizobia differentiate into bacteroids which fix atmospheric nitrogen to the benefit of the plant. This beneficial symbiosis is of importance in the context of sustainable agriculture as legumes do not require the addition of nitrogen fertilizer to grow. Interestingly, nitric oxide (NO) has been detected at various steps of the rhizobium-legume symbiosis where it has been shown to play multifaceted roles. Both bacterial and plant partners are involved in NO synthesis in nodules. To better understand the role of NO, and in particular the role of bacterial NO, at all steps of rhizobia-legumes interaction, the enzymatic sources of NO have to be elucidated. In this review, we discuss different enzymatic reactions by which rhizobia may potentially produce NO. We argue that there is most probably no NO synthase activity in rhizobia, and that instead the NO2- reductase nirK, which is part of the denitrification pathway, is the main bacterial source of NO. The nitrate assimilation pathway might contribute to NO production but only when denitrification is active. The different approaches to measure NO in rhizobia are also addressed.
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Wang LK, Chen X, Wei W, Xu Q, Sun J, Mannina G, Song L, Ni BJ. Biological Reduction of Nitric Oxide for Efficient Recovery of Nitrous Oxide as an Energy Source. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2021; 55:1992-2005. [PMID: 33430585 DOI: 10.1021/acs.est.0c04037] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Chemical absorption-biological reduction based on Fe(II)EDTA is a promising technology to remove nitric oxide (NO) from flue gases. However, limited effort has been made to enable direct energy recovery from NO through production of nitrous oxide (N2O) as a potential renewable energy rather than greenhouse gas. In this work, the enhanced energy recovery in the form of N2O via biological NO reduction was investigated by conducting short-term and long-term experiments at different Fe(II)EDTA-NO and organic carbon levels. The results showed both NO reductase and N2O reductase were inhibited at Fe(II)EDTA-NO concentration up to 20 mM, with the latter being inhibited more significantly, thus facilitating N2O accumulation. Furthermore, N2O accumulation was enhanced under carbon-limiting conditions because of electron competition during short-term experiments. Up to 47.5% of NO-N could be converted to gaseous N2O-N, representing efficient N2O recovery. Fe(II)EDTA-NO reduced microbial diversity and altered the community structure toward Fe(II)EDTA-NO-reducing bacteria-dominated culture during long-term experiments. The most abundant bacterial genus Pseudomonas, which was able to resist the toxicity of Fe(II)EDTA-NO, was significantly enriched, with its relative abundance increased from 1.0 to 70.3%, suggesting Pseudomonas could be the typical microbe for the energy recovery technology in NO-based denitrification.
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Affiliation(s)
- Li-Kun Wang
- State Key Laboratory of Pollution Control and Resources Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, PR China
- Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, PR China
| | - Xueming Chen
- College of Environment and Resources, Fuzhou University, Fujian 350116, PR China
| | - Wei Wei
- State Key Laboratory of Pollution Control and Resources Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, PR China
| | - Qiuxiang Xu
- State Key Laboratory of Pollution Control and Resources Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, PR China
- Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, PR China
| | - Jing Sun
- State Key Laboratory of Pollution Control and Resources Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, PR China
- Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, PR China
| | - Giorgio Mannina
- State Key Laboratory of Pollution Control and Resources Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, PR China
- Engineering Department, Palermo University, Viale delle Scienze, ed. 8, 90128 Palermo, Italy
| | - Lan Song
- School of Environmental Science and Engineering, Southern University of Science and Technology, Shenzhen 518055, PR China
| | - Bing-Jie Ni
- State Key Laboratory of Pollution Control and Resources Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, PR China
- Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, PR China
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Rose SL, Antonyuk SV, Sasaki D, Yamashita K, Hirata K, Ueno G, Ago H, Eady RR, Tosha T, Yamamoto M, Hasnain SS. An unprecedented insight into the catalytic mechanism of copper nitrite reductase from atomic-resolution and damage-free structures. SCIENCE ADVANCES 2021; 7:eabd8523. [PMID: 33523860 PMCID: PMC7775769 DOI: 10.1126/sciadv.abd8523] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2020] [Accepted: 10/27/2020] [Indexed: 05/31/2023]
Abstract
Copper-containing nitrite reductases (CuNiRs), encoded by nirK gene, are found in all kingdoms of life with only 5% of CuNiR denitrifiers having two or more copies of nirK Recently, we have identified two copies of nirK genes in several α-proteobacteria of the order Rhizobiales including Bradyrhizobium sp. ORS 375, encoding a four-domain heme-CuNiR and the usual two-domain CuNiR (Br 2DNiR). Compared with two of the best-studied two-domain CuNiRs represented by the blue (AxNiR) and green (AcNiR) subclasses, Br 2DNiR, a blue CuNiR, shows a substantially lower catalytic efficiency despite a sequence identity of ~70%. Advanced synchrotron radiation and x-ray free-electron laser are used to obtain the most accurate (atomic resolution with unrestrained SHELX refinement) and damage-free (free from radiation-induced chemistry) structures, in as-isolated, substrate-bound, and product-bound states. This combination has shed light on the protonation states of essential catalytic residues, additional reaction intermediates, and how catalytic efficiency is modulated.
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Affiliation(s)
- Samuel L Rose
- Molecular Biophysics Group, Life Sciences Building and Institute of Systems, Molecular and Integrative Biology, Faculty of Health and Life Sciences, University of Liverpool, Liverpool L69 7ZB, UK
| | - Svetlana V Antonyuk
- Molecular Biophysics Group, Life Sciences Building and Institute of Systems, Molecular and Integrative Biology, Faculty of Health and Life Sciences, University of Liverpool, Liverpool L69 7ZB, UK
| | - Daisuke Sasaki
- Molecular Biophysics Group, Life Sciences Building and Institute of Systems, Molecular and Integrative Biology, Faculty of Health and Life Sciences, University of Liverpool, Liverpool L69 7ZB, UK
| | - Keitaro Yamashita
- Department of Biological Sciences, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan
| | - Kunio Hirata
- RIKEN SPring-8 Center, 1-1-1 Kouto, Sayo, Hyogo 679-5148, Japan
| | - Go Ueno
- RIKEN SPring-8 Center, 1-1-1 Kouto, Sayo, Hyogo 679-5148, Japan
| | - Hideo Ago
- RIKEN SPring-8 Center, 1-1-1 Kouto, Sayo, Hyogo 679-5148, Japan
| | - Robert R Eady
- Molecular Biophysics Group, Life Sciences Building and Institute of Systems, Molecular and Integrative Biology, Faculty of Health and Life Sciences, University of Liverpool, Liverpool L69 7ZB, UK
| | - Takehiko Tosha
- RIKEN SPring-8 Center, 1-1-1 Kouto, Sayo, Hyogo 679-5148, Japan
| | - Masaki Yamamoto
- RIKEN SPring-8 Center, 1-1-1 Kouto, Sayo, Hyogo 679-5148, Japan.
| | - S Samar Hasnain
- Molecular Biophysics Group, Life Sciences Building and Institute of Systems, Molecular and Integrative Biology, Faculty of Health and Life Sciences, University of Liverpool, Liverpool L69 7ZB, UK.
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Methane, arsenic, selenium and the origins of the DMSO reductase family. Sci Rep 2020; 10:10946. [PMID: 32616801 PMCID: PMC7331816 DOI: 10.1038/s41598-020-67892-9] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2020] [Accepted: 06/16/2020] [Indexed: 11/16/2022] Open
Abstract
Mononuclear molybdoenzymes of the dimethyl sulfoxide reductase (DMSOR) family catalyze a number of reactions essential to the carbon, nitrogen, sulfur, arsenic, and selenium biogeochemical cycles. These enzymes are also ancient, with many lineages likely predating the divergence of the last universal common ancestor into the Bacteria and Archaea domains. We have constructed rooted phylogenies for over 1,550 representatives of the DMSOR family using maximum likelihood methods to investigate the evolution of the arsenic biogeochemical cycle. The phylogenetic analysis provides compelling evidence that formylmethanofuran dehydrogenase B subunits, which catalyze the reduction of CO2 to formate during hydrogenotrophic methanogenesis, constitutes the most ancient lineage. Our analysis also provides robust support for selenocysteine as the ancestral ligand for the Mo/W atom. Finally, we demonstrate that anaerobic arsenite oxidase and respiratory arsenate reductase catalytic subunits represent a more ancient lineage of DMSORs compared to aerobic arsenite oxidase catalytic subunits, which evolved from the assimilatory nitrate reductase lineage. This provides substantial support for an active arsenic biogeochemical cycle on the anoxic Archean Earth. Our work emphasizes that the use of chalcophilic elements as substrates as well as the Mo/W ligand in DMSORs has indelibly shaped the diversification of these enzymes through deep time.
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Zhu B, Chen S, Zhao C, Zhong W, Zeng R, Yang S. Effects of Marichromatium gracile YL28 on the nitrogen management in the aquaculture pond water. BIORESOURCE TECHNOLOGY 2019; 292:121917. [PMID: 31408778 DOI: 10.1016/j.biortech.2019.121917] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/07/2019] [Revised: 07/22/2019] [Accepted: 07/25/2019] [Indexed: 06/10/2023]
Abstract
Nitrogen pollution in aquaculture needs the efficient and cost-effective in-situ technology. This study aims to apply Marichromatium gracile YL28 to in-situ bioremediation and test its ability to maintain the nitrogen balance in aquaculture. In laboratory aquaculture system, approximately 99.96% of nitrite (1 mg/L) was removed within 7 d through denitrification coupled with assimilatory nitrate reduction. Ammonium (3.5 mg/L) of 95.6% was directly assimilated by YL28 within 7 d. Moreover, in zero exchange water from shrimp (Penaeus vannamei) aquaculture field trials (20 days), YL28 significantly reduced the ammonium accumulation (0.6 mg/L) and 99.3% of nitrite (1.25 mg/L). Toxicological studies with the Institute of Cancer Research (ICR) mice and Oryzias melastigma indicated that M. gracile YL28 can be safely applied in aquatic ecosystems. All results demonstrate that strain YL28 has high promise for future applications of removing inorganic nitrogen and maintaining the nitrogen balance from in-situ aquaculture.
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Affiliation(s)
- Bitong Zhu
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen 361021, China
| | - Shicheng Chen
- Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI 48863, USA
| | - Chungui Zhao
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen 361021, China
| | - Weihua Zhong
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen 361021, China
| | - Runying Zeng
- State Key Laboratory Breeding Base of Marine Genetic Resource, Third Institute of Oceanography, Ministry of Natural Resources, Xiamen, Fujian 361005, China
| | - Suping Yang
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen 361021, China.
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