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Zhu S, Zhao W, Sun S, Yang X, Mao H, Sheng L, Chen Z. Metagenomic analysis revealed N-metabolizing microbial response of Iris tectorum to Cr stress after colonization by arbuscular mycorrhizal fungi. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2024; 273:116157. [PMID: 38430578 DOI: 10.1016/j.ecoenv.2024.116157] [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: 08/10/2023] [Revised: 11/08/2023] [Accepted: 02/25/2024] [Indexed: 03/04/2024]
Abstract
Arbuscular mycorrhizal fungi (AMF) and plant growth-promoting bacteria enhance plant tolerance to abiotic stress and promote plant growth in contaminated soil. However, the interaction mechanism between rhizosphere microbial communities under chromium (Cr) stress remains unclear. This study conducted a greenhouse pot experiment and metagenomics analysis to reveal the comprehensive effects of the interaction between AMF (Rhizophagus intraradices) and nitrogen-N metabolizing plant growth promoters on the growth of Iris tectorum. The results showed that AMF significantly increased the biomass and nutrient levels of I. tectorum in contaminated soil and decreased the content of Cr in the soil. Metagenomics analysis revealed that the structure and composition of the rhizosphere microbial community involved in nitrogen metabolism changed significantly after inoculation with AMF under Cr stress. Functional genes related to soil nitrogen mineralization (gltB, gltD, gdhA, ureC, and glnA), nitrate reduction to ammonium (nirB, nrfA, and nasA), and soil nitrogen assimilation (NRT, nrtA, and nrtC) were up-regulated in the N-metabolizing microbial community. In contrast, the abundance of functional genes involved in denitrification (nirK and narI) was down-regulated. In addition, the inoculation of AMF regulates the synergies between the N-metabolic rhizosphere microbial communities and enhances the complexity and stability of the rhizosphere ecological network. This study provides a basis for improving plant tolerance to heavy metal stress by regulating the functional abundance of N-metabolizing plant growth-promoting bacteria through AMF inoculation. It helps to understand the potential mechanism of wetland plant remediation of Cr-contaminated soil.
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Affiliation(s)
- Sixi Zhu
- College of Eco-environment Engineering, Guizhou Minzu University, China; The Karst Environmental Geological Hazard Prevention of Key Laboratory of State Ethnic Affairs Commission, Guiyang 550025, China.
| | - Wei Zhao
- College of Eco-environment Engineering, Guizhou Minzu University, China; The Karst Environmental Geological Hazard Prevention of Key Laboratory of State Ethnic Affairs Commission, Guiyang 550025, China
| | - Suxia Sun
- College of Eco-environment Engineering, Guizhou Minzu University, China; The Karst Environmental Geological Hazard Prevention of Key Laboratory of State Ethnic Affairs Commission, Guiyang 550025, China
| | - Xiuqin Yang
- College of Eco-environment Engineering, Guizhou Minzu University, China; The Karst Environmental Geological Hazard Prevention of Key Laboratory of State Ethnic Affairs Commission, Guiyang 550025, China
| | - Huan Mao
- College of Eco-environment Engineering, Guizhou Minzu University, China; The Karst Environmental Geological Hazard Prevention of Key Laboratory of State Ethnic Affairs Commission, Guiyang 550025, China
| | - Luying Sheng
- College of Eco-environment Engineering, Guizhou Minzu University, China; The Karst Environmental Geological Hazard Prevention of Key Laboratory of State Ethnic Affairs Commission, Guiyang 550025, China
| | - Zhongbing Chen
- Department of Applied Ecology, Faculty of Environmental Sciences, Czech University of Life Sciences Prague, Kamýcka 129, Suchdol, Praha 16500, Czech Republic
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Cheng M, Song J, Li W, Zhao Y, Zhang G, Chen Y, Gao H. Potentilla parvifolia strongly influenced soil microbial community and environmental effect along an altitudinal gradient in central Qilian Mountains in western China. Ecol Evol 2023; 13:e10685. [PMID: 38020704 PMCID: PMC10645544 DOI: 10.1002/ece3.10685] [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: 05/03/2023] [Revised: 10/11/2023] [Accepted: 10/16/2023] [Indexed: 12/01/2023] Open
Abstract
The Qilian Mountains (QLMs) form an important ecological security barrier in western China and a priority area for biodiversity conservation. Potentilla parvifolia is a widespread species in the mid-high altitudes of the QLMs and has continuously migrated to higher altitudes in recent years. Understanding the effects of P. parvifolia on microbial community characteristics is important for exploring future changes in soil biogeochemical processes in the QLMs. This study found that P. parvifolia has profound effects on the community structure and ecological functions of soil microorganisms. The stability and complexity of the root zone microbial co-occurrence network were significantly higher than those of bare soils. There was a distinct altitudinal gradient in the effect of P. parvifolia on soil microbial community characteristics. At an elevation of 3204 m, P. parvifolia promoted the accumulation of carbon, nitrogen, and phosphorus and increased sucrase activity and soil C/N while significantly improving the community richness index of fungi (p < .05) compared with that of bacteria and the relative abundance of Ascomycota. The alpha diversity of fungi in the root zone soil of P. parvifolia was also significantly increased at 3550 m altitude. Furthermore, the community similarity distance matrix of fungi showed an evident separation at 3204 m. However, at an altitude of 3750 m, P. parvifolia mainly affected the bacterial community. Potentilla parvifolia increased the bacterial community richness. This is in agreement with the findings based on the functional prediction that P. parvifolia favors the growth and enrichment of denitrifying communities at 3550 and 3750 m. The results provide a scientific basis for predicting the evolutionary trends of the effects of P. parvifolia on soil microbial communities and functions and have important implications for ecological governance in the QLMs.
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Affiliation(s)
- Miaomiao Cheng
- College of Life Sciences and Engineering, Hexi University, Key Laboratory of the Hexi Corridor Resources Utilization of GansuZhangyeChina
- School of Life SciencesLanzhou UniversityLanzhouChina
| | - Jinge Song
- School of StomatologyLanzhou UniversityLanzhouChina
| | - Weikun Li
- School of Life SciencesLanzhou UniversityLanzhouChina
| | - Yiming Zhao
- School of Life SciencesLanzhou UniversityLanzhouChina
| | - Gaosen Zhang
- Key Laboratory of Extreme Environmental Microbial Resources and EngineeringLanzhouChina
| | - Yong Chen
- School of Life SciencesLanzhou UniversityLanzhouChina
| | - Haining Gao
- College of Life Sciences and Engineering, Hexi University, Key Laboratory of the Hexi Corridor Resources Utilization of GansuZhangyeChina
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Li Y, Zou N, Liang X, Zhou X, Guo S, Wang Y, Qin X, Tian Y, Lin J. Effects of nitrogen input on soil bacterial community structure and soil nitrogen cycling in the rhizosphere soil of Lycium barbarum L. Front Microbiol 2023; 13:1070817. [PMID: 36704567 PMCID: PMC9871820 DOI: 10.3389/fmicb.2022.1070817] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2022] [Accepted: 12/14/2022] [Indexed: 01/11/2023] Open
Abstract
Lycium barbarum L., goji berry, is a precious traditional Chinese medicine and it is homology of medicine and food. Its growth is heavily dependent on nitrogen. The use of chemical fertilizers has significantly promoted the yield of goji berry and the development of the L. barbarum L. industry. However, crop plants are inefficient in the acquisition and utilization of applied nitrogen, it often leads to excessive application of nitrogen fertilizers by producers, which cause negatively impact to the environment ultimately. The exploration of an interaction model which deals with crops, chemical fertilizers, and rhizosphere microbes to improve nitrogen use efficiency, is, therefore, an important research objective to achieve sustainable development of agriculture greatly. In our study, we explored the effects of nitrogen input on soil microbial community structure, soil nitrogen cycling, and the contents of nutrients in L. barbarum fruits. The structure and composition of the bacterial community in the rhizosphere soil of L. barbarum were significantly different under different nitrogen supply conditions, and high nitrogen addition inhibited the diversity and stability of bacterial communities. Low nitrogen input stimulated the relative abundance of ammonia-oxidizing bacteria (AOB), such as Nitrosospira, catalyzing the first step of the ammonia oxidation process. The results of the GLMM model showed that the level of nitrogen fertilizer (urea) input, the relative abundance of AOB, the relative abundance of Bradyrhizobium, and their combinations had significant effects on the soil nitrogen cycling and contents of nutrients in L. barbarum fruits. Therefore, we believe that moderately reducing the use of urea and other nitrogen fertilizers is more conducive to improving soil nitrogen use efficiency and Goji berry fruit quality by increasing the nitrogen cycling potential of soil microorganisms.
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Affiliation(s)
- Yuekun Li
- National Wolfberry Engineering Research Center, Wolfberry Science Research Institute, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, China,*Correspondence: Yuekun Li, ✉
| | - Nan Zou
- Shandong Provincial Key Laboratory for Biology of Vegetable Diseases and Insect Pests, College of Plant Protection, Shandong Agricultural University, Taian, China
| | - Xiaojie Liang
- National Wolfberry Engineering Research Center, Wolfberry Science Research Institute, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, China
| | - Xuan Zhou
- National Wolfberry Engineering Research Center, Wolfberry Science Research Institute, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, China
| | - Shuhan Guo
- Shandong Provincial Key Laboratory for Biology of Vegetable Diseases and Insect Pests, College of Plant Protection, Shandong Agricultural University, Taian, China
| | - Yajun Wang
- National Wolfberry Engineering Research Center, Wolfberry Science Research Institute, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, China
| | - Xiaoya Qin
- National Wolfberry Engineering Research Center, Wolfberry Science Research Institute, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, China
| | - Yehan Tian
- Shandong Provincial Key Laboratory for Biology of Vegetable Diseases and Insect Pests, College of Plant Protection, Shandong Agricultural University, Taian, China
| | - Jin Lin
- Shandong Provincial Key Laboratory for Biology of Vegetable Diseases and Insect Pests, College of Plant Protection, Shandong Agricultural University, Taian, China,Jin Lin, ✉
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Fan Q, Yang Y, Geng Y, Wu Y, Niu Z. Biochemical composition and function of subalpine shrubland and meadow soil microbiomes in the Qilian Mountains, Qinghai-Tibetan plateau, China. PeerJ 2022; 10:e13188. [PMID: 35402098 PMCID: PMC8988934 DOI: 10.7717/peerj.13188] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2021] [Accepted: 03/08/2022] [Indexed: 01/12/2023] Open
Abstract
Microorganisms participate in the soil biogeochemical cycle. Therefore, investigating variations in microbial biomass, composition, and functions can provide a reference for improving soil ecological quality due to the sensitivity of microorganisms to vegetation coverage changes. However, the differences in soil microorganisms between shrubland and meadow have not been investigated in ecologically vulnerable subalpine areas. This study aimed to investigate the biochemical composition and functions of the soil microbial community under two shrublands and a meadow at high altitudes (3,400-3,550 m). Three sites under two shrublands, Rhododendron thymifolium (RHO) and Potentilla fruticosa (POT), and one meadow dominated by Kobresia myosuroides (MEA), were selected on the southern slope of the Qilian Mountains on the northeastern edge of the Qinghai-Tibetan Plateau, China. Soil physicochemical properties, the microbial community composition expressed by the phospholipid fatty acid (PLFA) biomarker, and enzyme activities were analyzed as well as their relationships. The results showed that water holding capacity and the soil carbon, nitrogen, and potassium content in RHO and POT were higher than those in the MEA. Moreover, the soil active carbon, dissolved organic carbon, total nitrogen, and dissolved total nitrogen content in RHO were higher than those in POT. The abundance of total PLFAs, bacteria, and fungi beneath the shrublands was considerably higher than that in the MEA. The PLFA abundance in RHO was significantly higher than that in POT. The fungal-to-bacterial ratio of RHO and POT was significantly higher than that in the MEA. The activities of β-glucosidase, cellobiohydrolase, and leucine aminopeptidase were the highest in RHO among the three vegetation types, followed by POT and MEA. The redundancy analysis indicated that the biochemical composition of the soil microorganisms and enzyme activities were driven by total nitrogen, dissolved organic carbon, water holding capacity, and soil organic carbon. Therefore, shrublands, which have higher biomass, can improve soil moisture status, increase soil carbon and nitrogen content (especially active carbon and active nitrogen), and further increase the abundance of total PLFAs, bacteria, and fungi. The increase of microbial biomass indirectly enhances the activity of relevant soil enzymes. The variations in PLFA abundance and enzyme activities can be attributed to shrub species, especially evergreen shrubs, which create more favorable conditions for soil microorganisms. This study provides a theoretical basis for investigating the soil biogeochemical cycle and a scientific basis for soil management and vegetation restoration in the subalpine regions.
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Affiliation(s)
- Qiuyun Fan
- School of Forestry, Beijing Forestry University, Beijing, China
| | - Yuguo Yang
- School of Forestry, Beijing Forestry University, Beijing, China
| | - Yuqing Geng
- School of Forestry, Beijing Forestry University, Beijing, China
| | - Youlin Wu
- Huzhu Tu Autonomous County Beishan Forest Farm, Haidong, Qinghai, China
| | - Zhanen Niu
- Huzhu Tu Autonomous County Beishan Forest Farm, Haidong, Qinghai, China
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5
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Diversity of Endophytic Bacteria in Cardamine hupingshanensis and Potential of Culturable Selenium-Resistant Endophytes to Enhance Seed Germination Under Selenate Stress. Curr Microbiol 2021; 78:2091-2103. [PMID: 33772619 DOI: 10.1007/s00284-021-02444-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2020] [Accepted: 03/08/2021] [Indexed: 10/21/2022]
Abstract
The endophytic bacterial communities of Se hyperaccumulator Cardamine hupingshanensis collected from greenhouse and selenium mining area in Enshi City were investigated by Illumina sequencing technology. In addition, 14 culturable endophytic selenium-resistant strains were isolated and their selenium tolerance and plant growth promotion abilities were studied. The results showed that phylum Proteobacteria predominated in all the plants (> 70%) regardless of their habitats, with most of the OTUs related to Betaproteobacteria, Alphaproteobacteria, and Gammaproteobacteria. Roots harbored many more OTUs and showed higher alpha diversities than the leaves. Both growing environment and specific microflora selection of plants were found to have noticeable effects on endophytic bacterial community structure. The 14 culturable endophytes belonging to 11 bacterial genera were able to resist different levels of selenite and selenate, with their MIC ranges of 10-120 mM and 100-600 mM. Among them, Oceanobacillus and Terribacillus genera were firstly reported for the selenium-tolerant properties of their members. Inoculation experiment revealed that three endophytic strains (CHP07, CHP08, and CHP14) with excellent plant growth-promoting traits were beneficial for growth of Brassica chinensis seeds at germination stage under 0.19 mM selenate stress.
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6
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Fan R, Ma W, Zhang H. Microbial community responses to soil parameters and their effects on petroleum degradation during bio-electrokinetic remediation. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 748:142463. [PMID: 33113694 DOI: 10.1016/j.scitotenv.2020.142463] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/17/2020] [Revised: 09/12/2020] [Accepted: 09/15/2020] [Indexed: 06/11/2023]
Abstract
This study evaluated the interactions among total petroleum hydrocarbons (TPH), soil parameters, and microbial communities during the bio-electrokinetic (BIO-EK) remediation process. The study was conducted on a petroleum-contaminated saline-alkali soil inoculated with petroleum-degrading bacteria with a high saline-alkali resistance. The results showed that the degradation of TPH was better explained by second-order kinetics, and the efficacy and sustainability of the BIO-EK were closely related to soil micro-environmental factors and microbial community structures. During a 98-d remediation process, the removal rate of TPH was highest in the first 35 d, and then decreased gradually in the later period, which was concurrent with changes in the soil physicochemical properties (conductivity, inorganic ions, pH, moisture, and temperature) and subsequent shifts in the microbial community structures. According to the redundancy analysis (RDA), TPH, soil temperature, and electric conductivity, as well as SO42-, Cl-, and K+ played a better role in explaining the changes in the microbial community at 0-21 d. However, pH and NO3- better explained the changes in the microbial community at 63-98 d. In particular, the dominant genera, Marinobacter and Bacillus, showed a positive correlation with TPH, conductivity, and SO42-, Cl-, and K+, but a negative relationship with pH and NO3. Rhodococcus was positively correlated with soil temperature. The efficacy and sustainability of the BIO-EK remediation process is likely to be improved by controlling these properties.
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Affiliation(s)
- Ruijuan Fan
- College of Biological Science & Engineering, North Minzu University, Yinchuan 750021, China; Ningxia Key Laboratory for the Development and Application of Microbial Resources in Extreme Environments, North Minzu University, Yinchuan 750021, China.
| | - Wenping Ma
- College of Biological Science & Engineering, North Minzu University, Yinchuan 750021, China
| | - Hanlei Zhang
- College of Biological Science & Engineering, North Minzu University, Yinchuan 750021, China
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7
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Muratore M, Sun Y, Prather C. Environmental Nutrients Alter Bacterial and Fungal Gut Microbiomes in the Common Meadow Katydid, Orchelimum vulgare. Front Microbiol 2020; 11:557980. [PMID: 33193141 PMCID: PMC7645228 DOI: 10.3389/fmicb.2020.557980] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2020] [Accepted: 09/30/2020] [Indexed: 11/13/2022] Open
Abstract
Insect gut microbiomes consist of bacteria, fungi, and viruses that can act as mutualists to influence the health and fitness of their hosts. While much has been done to increase understanding of the effects of environmental factors that drive insect ecology, there is less understanding of the effects of environmental factors on these gut microbial communities. For example, the effect of environmental nutrients on most insect gut microbiomes is poorly defined. To address this knowledge gap, we investigated the relationship between environmental nutrients and the gut microbial communities in a small study of katydids (n = 13) of the orthopteran species Orchelimum vulgare collected from a costal prairie system. We sampled O. vulgare from unfertilized plots, as well as from plots fertilized with added nitrogen and phosphorus or sodium separately and in combination. We found significantly higher Shannon diversity for the gut bacterial communities in O. vulgare from plots fertilized with added sodium as compared to those collected from plots without added sodium. In contrast, diversity was significantly lower in the gut fungal communities of grasshoppers collected from plots with added nitrogen and phosphorus, as well as those with added sodium, in comparison to those with no added nutrients. There was also a strong positive correlation between the gut bacterial and gut fungal community diversity within each sample. Indicator group analysis for added sodium plots included several taxa with known salt-tolerant bacterial and fungal representatives. Therefore, despite the small sample number, these results highlight the potential for the gut bacterial and fungal constituents to respond differently to changes in environmental nutrient levels. Future studies with a larger sample size will help identify mechanistic determinants driving these changes. Based on our findings and the potential contribution of gut microbes to insect fitness and function, consideration of abiotic factors like soil nutrients along with characteristic gut microbial groups is necessary for better understanding and conservation of this important insect herbivore.
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Affiliation(s)
- Melani Muratore
- Department of Biology, University of Dayton, Dayton, OH, United States
| | - Yvonne Sun
- Department of Biology, University of Dayton, Dayton, OH, United States
| | - Chelse Prather
- Department of Biology, University of Dayton, Dayton, OH, United States
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8
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Zeng XY, Li SW, Leng Y, Kang XH. Structural and functional responses of bacterial and fungal communities to multiple heavy metal exposure in arid loess. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 723:138081. [PMID: 32220739 DOI: 10.1016/j.scitotenv.2020.138081] [Citation(s) in RCA: 75] [Impact Index Per Article: 18.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2019] [Revised: 03/18/2020] [Accepted: 03/19/2020] [Indexed: 05/27/2023]
Abstract
Concentration gradients of multiple heavy metals (HMs) in the arid loess region near a smelter were determined. In order to understand the response of soil microbes to multiple HM gradients, bacterial and fungal community structures and functions were analyzed using high-throughput RNA gene sequencing and the PICRUSt method. RDA/PCA analyses revealed that soil pH, HMs, and electrical conductivity (EC) jointly affected the bacterial communities in the soils. The soil microbial community structures responded differently to HMs, EC, and pH. High HMs increased the abundances of the bacterial phyla Actinobacteria, Bacteroidetes, Deinococcus-Thermus, and Chloroflexi, and the genera Blastococcus, Rubrobacter, Quadrisphaera, and Tunicatimonas, whereas they decreased the abundances of the phyla Proteobacteria and Acidobacteria and the genera Streptomyces and Nocardioides. High EC and low pH decreased the abundance of most of the dominant bacterial phyla but increased the abundances of Firmicutes, Deinococcus-Thermus, and Nitrospirae. Furthermore, high HMs and EC reduced the numbers of soil-specific bacterial and fungal groups and drove the succession of certain groups that were highly resistant to increased HMs and EC. In addition, many bacterial and fungal groups exhibited different response patterns to each HM, implying that, in multiple HM-contaminated soils, HMs jointly shaped the microbial communities. PICRUSt analysis suggested that high HMs significantly decreased the total gene abundance and most KEGG modules in the soils. High EC and low pH significantly enhanced the abundances of several two-component system-, electron transfer-, and methanogenesis-related modules. We conclude that excessive multiple HMs and EC principally repressed the microbial activity and severely drove the gradient succession of bacterial and fungal communities in the arid loess region.
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Affiliation(s)
- Xiao-Ying Zeng
- School of Chemical and Biological Engineering, School of Environmental and Municipal Engineering, Key Laboratory of Extreme Environmental Microbial Resources and Engineering in Gansu Province, Lanzhou Jiaotong University, Lanzhou 730070, China
| | - Shi-Weng Li
- School of Chemical and Biological Engineering, School of Environmental and Municipal Engineering, Key Laboratory of Extreme Environmental Microbial Resources and Engineering in Gansu Province, Lanzhou Jiaotong University, Lanzhou 730070, China.
| | - Yan Leng
- School of Chemical and Biological Engineering, School of Environmental and Municipal Engineering, Key Laboratory of Extreme Environmental Microbial Resources and Engineering in Gansu Province, Lanzhou Jiaotong University, Lanzhou 730070, China
| | - Xiao-Hu Kang
- School of Chemical and Biological Engineering, School of Environmental and Municipal Engineering, Key Laboratory of Extreme Environmental Microbial Resources and Engineering in Gansu Province, Lanzhou Jiaotong University, Lanzhou 730070, China
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9
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Taabodi M, May EB, Bryant RB, Saporito LS, Skeen OK, Hashem FM, Allen AL. Aeromonas hydrophila, Bacillus thuringiensis, Escherichia coli and Pseudomonas aeruginosa utilization of Ammonium-N, Nitrate-N and Urea-N in culture. Heliyon 2020; 6:e03711. [PMID: 32322713 PMCID: PMC7163070 DOI: 10.1016/j.heliyon.2020.e03711] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2020] [Revised: 02/10/2020] [Accepted: 03/26/2020] [Indexed: 11/27/2022] Open
Abstract
Agricultural drainage ditches represent a major source of nutrient pollution. Shifts in nitrogen source and use of animal manures have changed the bacterial composition both in species of bacteria and their abundance in agricultural ditches. This change affects how nitrogen is being cycled and potentially the final forms of available nutrients. In particular, animal manures often have bacteria such as Escherichia coli present, increasing the abundance of a bacterial species in ditches. Research has shown that the effect of different nitrogen sources is to change bacterial community composition (class, family). How this influences the role of an individual bacterial species is poorly understood. Thus, our question was how individual species would respond to different sources of nitrogen. We used Aeromonas hydrophila, Bacillus thuringiensis, Escherichia coli and Pseudomonas aeruginosa that are common in agricultural ditches and exposed them to different concentrations of nitrogen in cultures of 1 × 100 and 1 × 10−1 dilutions from a stock solution of bacteria. Nitrogen sources were ammonium chloride, sodium nitrate and urea. The results showed A. hydrophila and E. coli have strong similarities particularly with nitrate-N and urea-N utilization and the response was often correlated with the amount of nutrient added. P. aeruginosa while similar did not show any strong correlation with amount of nutrient added. B. thuringiensis was different from the other three bacteria in utilization or production. Research has provided insight into the role of some bacteria in nitrogen cycling and may be valuable in the future to developing management strategies to reduce nutrients.
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Affiliation(s)
- Maryam Taabodi
- University of Maryland Eastern Shore; Princess Anne, Maryland, USA
| | - Eric B May
- University of Maryland Eastern Shore; Princess Anne, Maryland, USA
| | - Ray B Bryant
- USDA- Agricultural Research Service, University Park, Pennsylvania, USA
| | - Louis S Saporito
- USDA- Agricultural Research Service, University Park, Pennsylvania, USA
| | - Olivia K Skeen
- University of Maryland Eastern Shore; Princess Anne, Maryland, USA
| | - Fawzy M Hashem
- University of Maryland Eastern Shore; Princess Anne, Maryland, USA
| | - Arthur L Allen
- University of Maryland Eastern Shore; Princess Anne, Maryland, USA
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10
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Mao W, Zhao X, Zhang T, Sun Z, Li Y, Smith MD. Divergent interactive impacts on productivity and functional diversity from fluctuated snowfall and continuous nitrogen pollution within Inner Mongolian. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 704:135443. [PMID: 31836213 DOI: 10.1016/j.scitotenv.2019.135443] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/23/2019] [Revised: 11/04/2019] [Accepted: 11/07/2019] [Indexed: 06/10/2023]
Abstract
Nitrogen pollution effects on plant communities are well documented, however, most field researches on nitrogen pollution have failed to account for extraneous environmental factors and the interaction among changes in multiple stressors. In this study, we show the effect of eutrophication via nitrogen deposition and altered snowfall on the productivity and traits space of an Inner Mongolian grassland where is recovered from abandoned farmland for 13 years. This multi-year factorial experiment allowed us to test the independent and interactive effects of nitrogen and snow deposition within this ecosystem. We simulated nitrogen pollution (added nitrogen) and extremely snowfall (added snow) to each plot for three years. After the third year, only nitrogen was added for the next two years to keep a continuous N-pollution condition. We measured changes in aboveground net primary production (ANPP), occupied functional traits space (OFS), and the centroid range of OFS (spatial traits variability, STV) at community level. Our results showed that the interaction between continuous nitrogen pollution and fluctuated snow have different effects on ANPP and functional diversity (indicated by OFS and STV). In nitrogen and nitrogen combined with snow treatment, its ANPP increased, while its OFS increased in 2010 but decreased in 2012 and 2014. Increases in snow did not affect ANPP and OFS, but significantly impacted spatial traits variability. Snow addition corresponded with decreasing the spatial traits variability in 2010, followed by increasing in 2012 and 2014. The results indicate N-Pollution on grassland ecosystem cannot be interpreted only by ANPP, especially when N-pollution interacted with changes of other extremely stressors such as snowfall.
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Affiliation(s)
- Wei Mao
- College of Ecology and Environment, Hainan University, Haikou 570228, China; Northwest Institute of Eco-Environment and Resource, Chinese Academy of Sciences, Lanzhou 730000, China; Department of Biology and Graduate Degree Program in Ecology, Colorado State University, Fort Collins, CO 80523, USA
| | - Xueyong Zhao
- Northwest Institute of Eco-Environment and Resource, Chinese Academy of Sciences, Lanzhou 730000, China
| | - Tonghui Zhang
- Northwest Institute of Eco-Environment and Resource, Chinese Academy of Sciences, Lanzhou 730000, China
| | - Zhibin Sun
- College of Environment and Resource Sciences, Zhejiang A&F University, Lin'an, Zhejiang 311300, China.
| | - Yulin Li
- Northwest Institute of Eco-Environment and Resource, Chinese Academy of Sciences, Lanzhou 730000, China
| | - Melinda D Smith
- Department of Biology and Graduate Degree Program in Ecology, Colorado State University, Fort Collins, CO 80523, USA
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11
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Kępczyńska E, Karczyński P. Medicago truncatula root developmental changes by growth-promoting microbes isolated from Fabaceae, growing on organic farms, involve cell cycle changes and WOX5 gene expression. PLANTA 2019; 251:25. [PMID: 31784832 DOI: 10.1007/s00425-019-03300-5] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2019] [Accepted: 10/11/2019] [Indexed: 06/10/2023]
Abstract
Both root nodules and the rhizosphere of Fabaceae plants grown on organic farms are a rich source of bacteria, mainly from the families Enterobacteriaceae and Pseudomonadaceae. The enhanced root system growth in M. truncatula after inoculation with selected bacteria includes an increase of nuclei in the cell cycle S phase and a reduction in phase G2 as well as an enhanced expression of the WOX5 gene. Synthetic fertilizers and pesticides are commonly used to improve plant quality and health. However, it is necessary to look for other efficient and also environmentally safe methods. One such method involves the use of bacteria known as plant growth-promoting bacteria (PGPB). Seventy-two bacterial isolates from the rhizospheric soil and root nodule samples of legumes, including bean, alfalfa, lupine and barrel medic, grown on an organic farm in Western Pomerania (Poland) were screened for their growth-promoting capacities and 38 selected isolates were identified based on 16S rRNA gene sequencing. The analysis showed the isolates to represent 17 strains assigned to 6 families: Enterobacteriaceae, Pseudomonadaceae, Xanthomonadaceae, Rhizobiaceae, Bacillaceae and Alcaligenaceae. Pot experiments showed that 13 strains, capable of producing indole compounds from tryptophan in vitro, could significantly enhance the root and shoot weight of 10-week-old Medicago truncatula seedlings. Compared to non-inoculated seedlings, the root system of inoculated ones was more branched; in addition, the root length, surface area and, especially, the root volume were higher. The 24-h root inoculation with the three selected strains increased the nuclei population in the G1 and S phases, decreased it in the G2 phase and enhanced the WUSCHEL-related Homeobox5 (WOX5) gene expression in root tips and lateral zones. The "arrest" of nuclei in the S phase and the enhancement of the WOX5 gene expression were observed to gradually disappear once the bacterial suspension was rinsed off the seedling roots and the roots were transferred to water for further growth. This study shows that the nodules and rhizosphere of legumes grown on organic farms are a rich source of different PGPB species and provides new data on the ability of these bacteria to interfere with cell cycle and gene expression during the root development.
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Affiliation(s)
- Ewa Kępczyńska
- Department of Plant Biotechnology, Faculty of Biology, University of Szczecin, Wąska 13, 71-413, Szczecin, Poland.
| | - Piotr Karczyński
- Department of Plant Biotechnology, Faculty of Biology, University of Szczecin, Wąska 13, 71-413, Szczecin, Poland
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Li Y, Wu Z, Dong X, Wang D, Qiu H, Jia Z, Sun Q. Glucose-induced changes in the bacterial communities of mine tailings at different acidification stages. Can J Microbiol 2018; 65:201-213. [PMID: 30452287 DOI: 10.1139/cjm-2017-0782] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Ecological restoration technologies applied to tailings can influence the associated bacterial communities. However, it is unknown if the shifts in these bacterial communities are caused by increased organic carbon. Glucose-induced respiration and high-throughput sequencing were used to assess the microbial activity and bacterial communities, respectively. Glucose addition increased the microbial activity, and glucose + ammonium nitrate addition resulted in slightly higher CO2 emission than did glucose addition alone, suggesting that carbon and nitrogen limited microbial community growth. In neutral pH tailings, the bacterial taxa that increased by glucose addition were assigned to the phyla Proteobacteria, Acidobacteria, Actinobacteria, Bacteroidetes, Firmicutes, and Planctomycetes. However, the bacterial taxa that increased by glucose addition in acidic tailings only belonged to the phylum Actinobacteria (maximum increase of 43.78%). In addition, the abundances of the total nitrogen-fixing genera and of the genus Arthrobacter (representing approximately 97.89% of the total nitrogen-fixing genera) increased by glucose addition in acidic tailings (maximum increase of 46.98%). In contrast, the relative abundances of the total iron- and (or) sulfur-oxidizing bacteria decreased (maximum decrease of 10.41%) in response to the addition of glucose. These findings indicate that the addition of organic carbon is beneficial to the development of bacterial communities in mine tailings.
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Affiliation(s)
- Yang Li
- a School of Resources and Environmental Engineering, Anhui University, Hefei, Anhui Province, P.R. China.,b State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, Jiangsu Province, P.R. China
| | - Zhaojun Wu
- a School of Resources and Environmental Engineering, Anhui University, Hefei, Anhui Province, P.R. China
| | - Xingchen Dong
- c College of Resources and Environmental Sciences, Gansu Agricultural University, Lanzhou, Gansu Province, P.R. China
| | - Dongmei Wang
- b State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, Jiangsu Province, P.R. China
| | - Huizhen Qiu
- c College of Resources and Environmental Sciences, Gansu Agricultural University, Lanzhou, Gansu Province, P.R. China
| | - Zhongjun Jia
- b State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, Jiangsu Province, P.R. China
| | - Qingye Sun
- a School of Resources and Environmental Engineering, Anhui University, Hefei, Anhui Province, P.R. China
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Yuan X, Si Y, Lin W, Yang J, Wang Z, Zhang Q, Qian W, Chen Y, Yang Y. Effects of short-term warming and nitrogen addition on the quantity and quality of dissolved organic matter in a subtropical Cunninghamia lanceolata plantation. PLoS One 2018; 13:e0191403. [PMID: 29360853 PMCID: PMC5779672 DOI: 10.1371/journal.pone.0191403] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2017] [Accepted: 01/04/2018] [Indexed: 11/19/2022] Open
Abstract
Increasing temperature and nitrogen (N) deposition are two large-scale changes projected to occur over the coming decades. The effects of these changes on dissolved organic matter (DOM) are largely unknown. This study aimed to assess the effects of warming and N addition on the quantity and quality of DOM from a subtropical Cunninghamia lanceolata plantation. Between 2014 and 2016, soil solutions were collected from 0–15, 15–30, and 30–60 cm depths by using a negative pressure sampling method. The quantity and quality of DOM were measured under six different treatments. The spectra showed that the DOM of the forest soil solution mainly consisted of aromatic protein-like components, microbial degradation products, and negligible amounts of humic-like substances. Warming, N addition, and warming + N addition significantly inhibited the concentration of dissolved organic carbon (DOC) in the surface (0–15 cm) soil solution. Our results suggested that warming reduced the amount of DOM originating from microbes. The decrease in protein and carboxylic acid contents was mostly attributed to the reduction of DOC following N addition. The warming + N addition treatment showed an interactive effect rather than an additive effect. Thus, short-term warming and warming + N addition decreased the quantity of DOM and facilitated the migration of nutrients to deeper soils. Further, N addition increased the complexity of the DOM structure. Hence, the loss of soil nutrients and the rational application of N need to be considered in order to prevent the accumulation of N compounds in soil.
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Affiliation(s)
- Xiaochun Yuan
- Key Laboratory for Subtropical Mountain Ecology, School of Geographical Science, Fujian Normal University, Fuzhou, China
| | - Youtao Si
- Key Laboratory for Subtropical Mountain Ecology, School of Geographical Science, Fujian Normal University, Fuzhou, China
- Institute of Geography Science, Fujian Normal University, Fuzhou, China
| | - Weisheng Lin
- Key Laboratory for Subtropical Mountain Ecology, School of Geographical Science, Fujian Normal University, Fuzhou, China
- Institute of Geography Science, Fujian Normal University, Fuzhou, China
| | - Jingqing Yang
- Key Laboratory for Subtropical Mountain Ecology, School of Geographical Science, Fujian Normal University, Fuzhou, China
| | - Zheng Wang
- Key Laboratory for Subtropical Mountain Ecology, School of Geographical Science, Fujian Normal University, Fuzhou, China
| | - Qiufang Zhang
- Key Laboratory for Subtropical Mountain Ecology, School of Geographical Science, Fujian Normal University, Fuzhou, China
| | - Wei Qian
- Key Laboratory for Subtropical Mountain Ecology, School of Geographical Science, Fujian Normal University, Fuzhou, China
- Institute of Geography Science, Fujian Normal University, Fuzhou, China
| | - Yuehmin Chen
- Key Laboratory for Subtropical Mountain Ecology, School of Geographical Science, Fujian Normal University, Fuzhou, China
- Institute of Geography Science, Fujian Normal University, Fuzhou, China
- * E-mail: (YC); (YY)
| | - Yusheng Yang
- Key Laboratory for Subtropical Mountain Ecology, School of Geographical Science, Fujian Normal University, Fuzhou, China
- Institute of Geography Science, Fujian Normal University, Fuzhou, China
- * E-mail: (YC); (YY)
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Zhou X, Tian L, Zhang J, Ma L, Li X, Tian C. Rhizospheric fungi and their link with the nitrogen-fixing Frankia harbored in host plant Hippophae rhamnoides L. J Basic Microbiol 2017; 57:1055-1064. [PMID: 28902963 DOI: 10.1002/jobm.201700312] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2017] [Revised: 07/18/2017] [Accepted: 08/17/2017] [Indexed: 11/11/2022]
Abstract
Sea buckthorn (Hippophae rhamnoides L.) is a pioneer plant used for land reclamation and an appropriate material for studying the interactions of symbiotic microorganisms because of its nitrogen-fixing root nodules and mycorrhiza. We used high-throughput sequencing to reveal the diversities and community structures of rhizospheric fungi and their link with nitrogen-fixing Frankia harbored in sea buckthorn collected along an altitude gradient from the Qinghai Tibet Plateau to interior areas. We found that the fungal diversities and compositions varied between different sites. Ascomycota, Basidiomycota, and Zygomycota were the dominant phyla. The distribution of sea buckthorn rhizospheric fungi was driven by both environmental factors and the geographic distance. Among all examined soil characteristics, altitude, AP, and pH were found to have significant (p < 0.05) effect on the rhizospheric fungal community. The rhizospheric fungal communities became more distinct as the distance increased. Moreover, co-inertia analysis identified significant co-structures between Frankia and AMF communities in the rhizosphere of sea buckthorn. We conclude that at the large scale, there are certain linkages between nitrogen-fixing bacteria and the AMF expressed in the distributional pattern.
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Affiliation(s)
- Xue Zhou
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun, Jilin, China
| | - Lei Tian
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun, Jilin, China.,University of the Chinese Academy of Sciences, Beijing, China
| | - Jianfeng Zhang
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun, Jilin, China.,School of Life Sciences, Jilin Agricultural University, Changchun, Jilin, China
| | - Lina Ma
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun, Jilin, China
| | - Xiujun Li
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun, Jilin, China
| | - Chunjie Tian
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun, Jilin, China
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