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Hu X, Liu X, Zhang S, Yu C. Nitrogen-cycling processes under long-term compound heavy metal(loids) pressure around a gold mine: Stimulation of nitrite reduction. J Environ Sci (China) 2025; 147:571-581. [PMID: 39003072 DOI: 10.1016/j.jes.2023.12.027] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2023] [Revised: 12/21/2023] [Accepted: 12/22/2023] [Indexed: 07/15/2024]
Abstract
Mining and tailings deposition can cause serious heavy metal(loids) pollution to the surrounding soil environment. Soil microorganisms adapt their metabolism to such conditions, driving alterations in soil function. This study aims to elucidate the response patterns of nitrogen-cycling microorganisms under long-term heavy metal(loids) exposure. The results showed that the diversity and abundance of nitrogen-cycling microorganisms showed negative feedback to heavy metal(loids) concentrations. Denitrifying microorganisms were shown to be the dominant microorganisms with over 60% of relative abundance and a complex community structure including 27 phyla. Further, the key bacterial species in the denitrification process were calculated using a random forest model, where the top three key species (Pseudomonas stutzei, Sphingobium japonicum and Leifsonia rubra) were found to play a prominent role in nitrite reduction. Functional gene analysis and qPCR revealed that nirK, which is involved in nitrite reduction, significantly accumulated in the most metal-rich soil with the increase of absolute abundance of 63.86%. The experimental results confirmed that the activity of nitrite reductase (Nir) encoded by nirK in the soil was increased at high concentrations of heavy metal(loids). Partial least squares-path model identified three potential modes of nitrite reduction processes being stimulated by heavy metal(loids), the most prominent of which contributed to enhanced nirK abundance and soil Nir activity through positive stimulation of key species. The results provide new insights and preliminary evidence on the stimulation of nitrite reduction processes by heavy metal(loids).
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Affiliation(s)
- Xuesong Hu
- School of Chemical & Environmental Engineering, China University of Mining and Technology (Beijing), Beijing 100083, China
| | - Xiaoxia Liu
- Beijing Cultivated Land Construction and Protection Center, Beijing 100020, China
| | - Shuo Zhang
- School of Chemical & Environmental Engineering, China University of Mining and Technology (Beijing), Beijing 100083, China
| | - Caihong Yu
- School of Chemical & Environmental Engineering, China University of Mining and Technology (Beijing), Beijing 100083, China.
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2
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Klick SA, Pitula JS, Collick AS, May EB, Pisani O. Bacterial diversity in agricultural drainage ditches shifts with increasing urea-N concentrations. FEMS Microbiol Ecol 2024; 100:fiae057. [PMID: 38609337 DOI: 10.1093/femsec/fiae057] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2023] [Revised: 04/11/2024] [Accepted: 04/11/2024] [Indexed: 04/14/2024] Open
Abstract
Urea-based fertilizers applied to crop fields can enter the surface waters of adjacent agricultural drainage ditches and contribute to the nitrogen (N) loading in nearby watersheds. Management practices applied in drainage ditches promote N removal by the bacterial communities, but little is known about the impacts of excess urea fertilizer from crop fields on the bacterial diversity in these ditches. In 2017, sediments from drainage ditches next to corn and soybean fields were sampled to determine if fertilizer application and high urea-N concentrations alters bacterial diversity and urease gene abundances. A mesocosm experiment was paired with a field study to determine which bacterial groups respond to high urea-N concentrations. The bacterial diversity in the ditch next to corn fields was significantly different from the other site. The bacterial orders of Rhizobiales, Bacteroidales, Acidobacteriales, Burkholderiales, and Anaerolineales were most abundant in the ditch next to corn and increased after the addition of urea-N (0.5 mg N L-1) during the mesocosm experiment. The results of our study suggests that urea-N concentrations >0.07 mg N L-1, which are higher than concentrations associated with downstream harmful algal blooms, can lead to shifts in the bacterial communities of agricultural drainage ditches.
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Affiliation(s)
- Sabrina A Klick
- USDA - ARS, Southeast Watershed Research Laboratory, 2316 Rainwater Road, Tifton, GA 31793, United States
| | - Joseph S Pitula
- University of Maryland Eastern Shore, Department of Natural Sciences, 1 Backbone Rd., Princess Anne, MD 21853, United States
| | - Amy S Collick
- Morehead State University, Department of Agricultural Sciences, 326 Reed Hall, 151 4th Street, Morehead, KY 40351, United States
| | - Eric B May
- University of Maryland Eastern Shore, Department of Natural Sciences, 1 Backbone Rd., Princess Anne, MD 21853, United States
| | - Oliva Pisani
- USDA - ARS, Southeast Watershed Research Laboratory, 2316 Rainwater Road, Tifton, GA 31793, United States
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Niu R, Zhuang Y, Lali MN, Zhao L, Xie J, Xiong H, Wang Y, He X, Shi X, Zhang Y. Root Reduction Caused Directly or Indirectly by High Application of Nitrogen Fertilizer Was the Main Cause of the Decline in Biomass and Nitrogen Accumulation in Citrus Seedlings. PLANTS (BASEL, SWITZERLAND) 2024; 13:938. [PMID: 38611468 PMCID: PMC11013181 DOI: 10.3390/plants13070938] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/04/2024] [Revised: 03/07/2024] [Accepted: 03/20/2024] [Indexed: 04/14/2024]
Abstract
Citrus is the largest fruit crop around the world, while high nitrogen (N) application in citrus orchards is widespread in many countries, which results not only in yield, quality and environmental issues but also slows down the establishment of citrus canopies in newly cultivated orchards. Thus, the objective of this study was to investigate the physiological inhibitory mechanism of excessive N application on the growth of citrus seedlings. A pot experiment with the citrus variety Orah (Orah/Citrus junos) at four N fertilization rates (0, 50, 100, and 400 mg N/kg dry soil, denoted as N0, N50, N100, and N400, respectively) was performed to evaluate the changes of root morphology, biomass, N accumulation, enzyme activities, and so on. The results showed that the N400 application significantly reduced the total biomass (from 14.24 to 6.95 g/Plant), N accumulation (from 0.65 to 0.33 g/Plant) and N use efficiency (92.69%) in citrus seedlings when compared to the N100 treatment. The partial least squares pathway model further showed that the decline of biomass and N accumulation by high N application were largely attributed to the reduction of root growth through direct and indirect effects (the goodness of fit under the model was 0.733.) rather than just soil N transformation and activity of root N uptake. These results are useful to optimize N management through a synergistic N absorption and utilization by citrus seedlings.
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Affiliation(s)
- Runzheng Niu
- College of Resources and Environment, Southwest University, Chongqing 400716, China; (R.N.); (Y.Z.); (M.N.L.); (L.Z.); (J.X.); (H.X.); (Y.W.); (X.H.); (X.S.)
| | - Yuan Zhuang
- College of Resources and Environment, Southwest University, Chongqing 400716, China; (R.N.); (Y.Z.); (M.N.L.); (L.Z.); (J.X.); (H.X.); (Y.W.); (X.H.); (X.S.)
| | - Mohammad Naeem Lali
- College of Resources and Environment, Southwest University, Chongqing 400716, China; (R.N.); (Y.Z.); (M.N.L.); (L.Z.); (J.X.); (H.X.); (Y.W.); (X.H.); (X.S.)
- Department of Forestry and Natural Resources, Faculty of Agriculture, Bamyan University, Bamyan 1601, Afghanistan
| | - Li Zhao
- College of Resources and Environment, Southwest University, Chongqing 400716, China; (R.N.); (Y.Z.); (M.N.L.); (L.Z.); (J.X.); (H.X.); (Y.W.); (X.H.); (X.S.)
| | - Jiawei Xie
- College of Resources and Environment, Southwest University, Chongqing 400716, China; (R.N.); (Y.Z.); (M.N.L.); (L.Z.); (J.X.); (H.X.); (Y.W.); (X.H.); (X.S.)
| | - Huaye Xiong
- College of Resources and Environment, Southwest University, Chongqing 400716, China; (R.N.); (Y.Z.); (M.N.L.); (L.Z.); (J.X.); (H.X.); (Y.W.); (X.H.); (X.S.)
| | - Yuheng Wang
- College of Resources and Environment, Southwest University, Chongqing 400716, China; (R.N.); (Y.Z.); (M.N.L.); (L.Z.); (J.X.); (H.X.); (Y.W.); (X.H.); (X.S.)
| | - Xinhua He
- College of Resources and Environment, Southwest University, Chongqing 400716, China; (R.N.); (Y.Z.); (M.N.L.); (L.Z.); (J.X.); (H.X.); (Y.W.); (X.H.); (X.S.)
| | - Xiaojun Shi
- College of Resources and Environment, Southwest University, Chongqing 400716, China; (R.N.); (Y.Z.); (M.N.L.); (L.Z.); (J.X.); (H.X.); (Y.W.); (X.H.); (X.S.)
| | - Yueqiang Zhang
- College of Resources and Environment, Southwest University, Chongqing 400716, China; (R.N.); (Y.Z.); (M.N.L.); (L.Z.); (J.X.); (H.X.); (Y.W.); (X.H.); (X.S.)
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Grond K, Buck CL, Duddleston KN. Microbial gene expression during hibernation in arctic ground squirrels: greater differences across gut sections than in response to pre-hibernation dietary protein content. Front Genet 2023; 14:1210143. [PMID: 37636260 PMCID: PMC10450147 DOI: 10.3389/fgene.2023.1210143] [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: 04/21/2023] [Accepted: 06/27/2023] [Indexed: 08/29/2023] Open
Abstract
Obligate seasonal hibernators fast for 5-9 months depending on species yet resist muscle atrophy and emerge with little lean mass loss. The role of the gut microbiome in host nitrogen metabolism during hibernation is therefore of considerable interest, and recent studies support a role for urea nitrogen salvage (UNS) in host-protein conservation. We were interested in the effect of pre-hibernation diet on UNS and the microbial provision of essential amino acids (EAAs) during hibernation; therefore, we conducted a study whereby we fed arctic ground squirrels (Urocitellus parryii) pre-hibernation diets containing 9% vs. 18% protein and compared the expression of gut bacterial urease and amino acid (AA) metabolism genes in 4 gut sections (cecum mucosa, cecum lumen, small intestine [SI] mucosa, and SI lumen) during hibernation. We found that pre-hibernation dietary protein content did not affect expression of complete bacterial AA pathway genes during hibernation; however, several individual genes within EAA pathways were differentially expressed in squirrels fed 18% pre-hibernation dietary protein. Expression of genes associated with AA pathways was highest in the SI and lowest in the cecum mucosa. Additionally, the SI was the dominant expression site of AA and urease genes and was distinct from other sections in its overall microbial functional and taxonomic composition. Urease expression in the gut microbiome of hibernating squirrels significantly differed by gut section, but not by pre-hibernation dietary protein content. We identified two individual genes that are part of the urea cycle and involved in arginine biosynthesis, which were significantly more highly expressed in the cecum lumen and SI mucosa of squirrels fed a pre-hibernation diet containing 18% protein. Six bacterial genera were responsible for 99% of urease gene expression: Cupriavidus, Burkholderia, Laribacter, Bradhyrizobium, Helicobacter, and Yersinia. Although we did not find a strong effect of pre-hibernation dietary protein content on urease or AA metabolism gene expression during hibernation, our data do suggest the potential for pre-hibernation diet to modulate gut microbiota function during hibernation, and further investigations are warranted.
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Affiliation(s)
- Kirsten Grond
- Department of Biological Sciences, University of Alaska Anchorage, Anchorage, AK, United States
| | - C. Loren Buck
- Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ, United States
| | - Khrystyne N. Duddleston
- Department of Biological Sciences, University of Alaska Anchorage, Anchorage, AK, United States
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Sun R, Wang X, Alhaj Hamoud Y, Lu M, Shaghaleh H, Zhang W, Zhang C, Ma C. Dynamic variation of bacterial community assemblage and functional profiles during rice straw degradation. Front Microbiol 2023; 14:1173442. [PMID: 37125169 PMCID: PMC10140369 DOI: 10.3389/fmicb.2023.1173442] [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: 02/24/2023] [Accepted: 03/23/2023] [Indexed: 05/02/2023] Open
Abstract
Bacteria is one of the most important drivers of straw degradation. However, the changes in bacterial community assemblage and straw-decomposing profiles during straw decomposition are not well understood. Based on cultivation-dependent and independent technologies, this study revealed that the "common species" greatly contributed to the dynamic variation of bacterial community during straw decomposition. Twenty-three functional strains involved in straw decomposition were isolated, but only seven were detected in the high-throughput sequencing data. The straw decomposers, including the isolated strains and the agents determined by functional prediction, constituted only 0.024% (on average) of the total bacterial community. The ecological network showed that most of the identified decomposers were self-existent without associations with other species. These results showed that during straw composition, community assembly might be greatly determined by the majority, but straw decomposition functions might be largely determined by the minority and emphasized the importance of the rare species in community-specific functions.
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Affiliation(s)
- Ruibo Sun
- Anhui Province Key Laboratory of Farmland Ecological Conservation and Pollution Prevention, Research Centre of Phosphorus Efficient Utilization and Water Environment Protection Along the Yangtze River Economic Belt, College of Resources and Environment, Anhui Agricultural University, Hefei, China
- Key Laboratory of JiangHuai Arable Land Resources Protection and Eco-restoration, Ministry of Natural Resources, Hefei, China
| | - Xin Wang
- Anhui Province Key Laboratory of Farmland Ecological Conservation and Pollution Prevention, Research Centre of Phosphorus Efficient Utilization and Water Environment Protection Along the Yangtze River Economic Belt, College of Resources and Environment, Anhui Agricultural University, Hefei, China
- Key Laboratory of JiangHuai Arable Land Resources Protection and Eco-restoration, Ministry of Natural Resources, Hefei, China
| | | | - Mengxing Lu
- Anhui Province Key Laboratory of Farmland Ecological Conservation and Pollution Prevention, Research Centre of Phosphorus Efficient Utilization and Water Environment Protection Along the Yangtze River Economic Belt, College of Resources and Environment, Anhui Agricultural University, Hefei, China
- Key Laboratory of JiangHuai Arable Land Resources Protection and Eco-restoration, Ministry of Natural Resources, Hefei, China
| | - Hiba Shaghaleh
- College of Environment, Hohai University, Nanjing, China
| | - Wenjie Zhang
- Anhui Province Key Laboratory of Farmland Ecological Conservation and Pollution Prevention, Research Centre of Phosphorus Efficient Utilization and Water Environment Protection Along the Yangtze River Economic Belt, College of Resources and Environment, Anhui Agricultural University, Hefei, China
- Key Laboratory of JiangHuai Arable Land Resources Protection and Eco-restoration, Ministry of Natural Resources, Hefei, China
| | - Chaochun Zhang
- Anhui Province Key Laboratory of Farmland Ecological Conservation and Pollution Prevention, Research Centre of Phosphorus Efficient Utilization and Water Environment Protection Along the Yangtze River Economic Belt, College of Resources and Environment, Anhui Agricultural University, Hefei, China
- Key Laboratory of JiangHuai Arable Land Resources Protection and Eco-restoration, Ministry of Natural Resources, Hefei, China
- College of Resources and Environmental Sciences, National Academy of Agriculture Green Development, Key Laboratory of Plant-Soil Interactions, Ministry of Education, College of Resources and Environmental Sciences, China Agricultural University, Beijing, China
- *Correspondence: Chaochun Zhang, ; Chao Ma,
| | - Chao Ma
- Anhui Province Key Laboratory of Farmland Ecological Conservation and Pollution Prevention, Research Centre of Phosphorus Efficient Utilization and Water Environment Protection Along the Yangtze River Economic Belt, College of Resources and Environment, Anhui Agricultural University, Hefei, China
- Key Laboratory of JiangHuai Arable Land Resources Protection and Eco-restoration, Ministry of Natural Resources, Hefei, China
- *Correspondence: Chaochun Zhang, ; Chao Ma,
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Ren X, Cao S, Akami M, Mansour A, Yang Y, Jiang N, Wang H, Zhang G, Qi X, Xu P, Guo T, Niu C. Gut symbiotic bacteria are involved in nitrogen recycling in the tephritid fruit fly Bactrocera dorsalis. BMC Biol 2022; 20:201. [PMID: 36104720 PMCID: PMC9476588 DOI: 10.1186/s12915-022-01399-9] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2021] [Accepted: 09/02/2022] [Indexed: 11/23/2022] Open
Abstract
Background Nitrogen is considered the most limiting nutrient element for herbivorous insects. To alleviate nitrogen limitation, insects have evolved various symbiotically mediated strategies that enable them to colonize nitrogen-poor habitats or exploit nitrogen-poor diets. In frugivorous tephritid larvae developing in fruit pulp under nitrogen stress, it remains largely unknown how nitrogen is obtained and larval development is completed. Results In this study, we used metagenomics and metatranscriptomics sequencing technologies as well as in vitro verification tests to uncover the mechanism underlying the nitrogen exploitation in the larvae of Bactrocera dorsalis. Our results showed that nitrogenous waste recycling (NWR) could be successfully driven by symbiotic bacteria, including Enterobacterales, Lactobacillales, Orbales, Pseudomonadales, Flavobacteriales, and Bacteroidales. In this process, urea hydrolysis in the larval gut was mainly mediated by Morganella morganii and Klebsiella oxytoca. In addition, core bacteria mediated essential amino acid (arginine excluded) biosynthesis by ammonium assimilation and transamination. Conclusions Symbiotic bacteria contribute to nitrogen transformation in the larvae of B. dorsalis in fruit pulp. Our findings suggest that the pattern of NWR is more likely to be applied by B. dorsalis, and M. morganii, K. oxytoca, and other urease-positive strains play vital roles in hydrolysing nitrogenous waste and providing metabolizable nitrogen for B. dorsalis. Supplementary Information The online version contains supplementary material available at 10.1186/s12915-022-01399-9.
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Liu Y, Cong R, Liao S, Guo Q, Li X, Ren T, Lu Z, Lu J. Rapid soil rewetting promotes limited N 2O emissions and suppresses NH 3 volatilization under urea addition. ENVIRONMENTAL RESEARCH 2022; 212:113402. [PMID: 35526581 DOI: 10.1016/j.envres.2022.113402] [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: 01/04/2022] [Revised: 04/18/2022] [Accepted: 04/28/2022] [Indexed: 06/14/2023]
Abstract
The alternation of dry and wet is an important environmental factor affecting the emission of nitrous oxide from soil. However, the consistent or opposite effects on NH3 and N2O emissions caused by adding exogenous urea in this process have not been fully considered. Here, we controlled the initial (slow drying) and final (adding water) water-filled pore space (WFPS) at 70%, 60%, or 50% through microculture experiment to simulate a process of slow drying-fertilization and rapid wetting of the soil from rice harvest to dryland crop fertilization. Through measuring soil chemical properties and the abundance and composition of related microbial communities during drying process, we studied the pathways of influence of drying and rewetting on the emission of N2O and NH3 after urea application. During the progressive drying process (WFPS decreasing from 70% to 60% and 50%), soil N2O and NH3 emissions decreased by 49.77%-72.13% and 17.89%-42.19%, respectively. After rapid rewetting (WFPS increasing from 60% to 70%, 50%-60% and 70%), N2O emissions showed a slight increase, while NH3 volatilization continued to decrease. Soil NH4+-N and DOC contents both decreased during progressive drying, while the soil NO3--N content was enhanced. The drying process changed the community structure of ureC and amoA-b and reduced their abundance but had no effect on amoA-a, nirK or nirS. Correlation analysis indicated that the reductions in NH4+-N content and the abundances of ureC and amoA-b were the main factors suppressing N2O and NH3 emissions. We believe that drying process limits the related microbial activity and substrate supply during ammonia oxidation process in terms of N2O emissions, while in terms of NH3 volatilization, it reduces the related microbial activity of urea hydrolysis process and increases the ammonium adsorption to the soil.
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Affiliation(s)
- Yu Liu
- Microelement Research Center, Huazhong Agricultural University, Wuhan, 430070, China; State Environmental Protection Key Laboratory of Soil Health and Green Remediation, Ministry of Ecological Environment, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture and Rural Affairs, Wuhan, 430070, China
| | - Rihuan Cong
- Microelement Research Center, Huazhong Agricultural University, Wuhan, 430070, China; State Environmental Protection Key Laboratory of Soil Health and Green Remediation, Ministry of Ecological Environment, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture and Rural Affairs, Wuhan, 430070, China
| | - Shipeng Liao
- Microelement Research Center, Huazhong Agricultural University, Wuhan, 430070, China; State Environmental Protection Key Laboratory of Soil Health and Green Remediation, Ministry of Ecological Environment, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture and Rural Affairs, Wuhan, 430070, China
| | - Qi Guo
- Microelement Research Center, Huazhong Agricultural University, Wuhan, 430070, China; State Environmental Protection Key Laboratory of Soil Health and Green Remediation, Ministry of Ecological Environment, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture and Rural Affairs, Wuhan, 430070, China
| | - Xiaokun Li
- Microelement Research Center, Huazhong Agricultural University, Wuhan, 430070, China; State Environmental Protection Key Laboratory of Soil Health and Green Remediation, Ministry of Ecological Environment, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture and Rural Affairs, Wuhan, 430070, China
| | - Tao Ren
- Microelement Research Center, Huazhong Agricultural University, Wuhan, 430070, China; State Environmental Protection Key Laboratory of Soil Health and Green Remediation, Ministry of Ecological Environment, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture and Rural Affairs, Wuhan, 430070, China
| | - Zhifeng Lu
- Microelement Research Center, Huazhong Agricultural University, Wuhan, 430070, China; State Environmental Protection Key Laboratory of Soil Health and Green Remediation, Ministry of Ecological Environment, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture and Rural Affairs, Wuhan, 430070, China
| | - Jianwei Lu
- Microelement Research Center, Huazhong Agricultural University, Wuhan, 430070, China; State Environmental Protection Key Laboratory of Soil Health and Green Remediation, Ministry of Ecological Environment, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture and Rural Affairs, Wuhan, 430070, China.
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Wang Y, Zhang G, Huang Y, Guo M, Song J, Zhang T, Long Y, Wang B, Liu H. A Potential Biofertilizer—Siderophilic Bacteria Isolated From the Rhizosphere of Paris polyphylla var. yunnanensis. Front Microbiol 2022; 13:870413. [PMID: 35615507 PMCID: PMC9125218 DOI: 10.3389/fmicb.2022.870413] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2022] [Accepted: 03/28/2022] [Indexed: 11/13/2022] Open
Abstract
The increasing demands for crop production have become a great challenge while people also realizing the significance of reductions in synthetic chemical fertilizer use. Plant growth-promoting rhizobacteria (PGPR) are proven biofertilizers for increasing crop yields by promoting plant growth via various direct or indirect mechanisms. Siderophilic bacteria, as an important type of PGPR, can secrete siderophores to chelate unusable Fe3+ in the soil for plant growth. Siderophilic bacteria have been shown to play vital roles in preventing diseases and enhancing the growth of plants. Paris polyphylla var. yunnanensis (PPVY) is an important traditional Chinese herb. However, reports about its siderophilic bacteria are still rare. This study firstly isolated siderophilic bacteria from the rhizosphere soil of PPVY, identified by morphological and physio-biochemical characteristics as well as 16S rRNA sequence analysis. The dominant genus in the rhizobacteria of PPVY was Bacillus. Among 22 isolates, 21 isolates produced siderophores. The relative amount of siderophores ranged from 4 to 41%. Most of the isolates produced hydroxamate siderophores and some produced catechol. Four isolates belonging to Enterobacter produced the catechol type, and none of them produced carboxylate siderophores. Intriguingly, 16 strains could produce substances that have inhibitory activity against Candida albicans only in an iron-limited medium (SA medium). The effects of different concentrations of Fe3+ and three types of synthetic chemical fertilizers on AS19 growth, siderophore production, and swimming motility were first evaluated from multiple aspects. The study also found that the cell-free supernatant (CFS) with high siderophore units (SUs) of AS19 strain could significantly promote the germination of pepper and maize seeds and the development of the shoots and leaves of Gynura divaricata (Linn.). The bacterial solution of AS19 strain could significantly promote the elongation of the roots of G. divaricata (Linn.). Due to its combined traits promoting plant growth and seed germination, the AS19 has the potential to become a bioinoculant. This study will broaden the application prospects of the siderophilic bacteria-AS19 as biofertilizers for future sustainable agriculture.
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Affiliation(s)
- Yihan Wang
- Engineering Research Center of Medical Biotechnology, School of Biology and Engineering, Guizhou Medical University, Guiyang, China
| | - Gongyou Zhang
- Engineering Research Center of Medical Biotechnology, School of Biology and Engineering, Guizhou Medical University, Guiyang, China
| | - Ya Huang
- Engineering Research Center of Medical Biotechnology, School of Biology and Engineering, Guizhou Medical University, Guiyang, China
| | - Min Guo
- Engineering Research Center of Medical Biotechnology, School of Biology and Engineering, Guizhou Medical University, Guiyang, China
| | - Juhui Song
- Engineering Research Center of Medical Biotechnology, School of Biology and Engineering, Guizhou Medical University, Guiyang, China
| | - Tingting Zhang
- Engineering Research Center of Medical Biotechnology, School of Biology and Engineering, Guizhou Medical University, Guiyang, China
- Key Laboratory of Biology and Medical Engineering, Immune Cells and Antibody Engineering Research Center of Guizhou Province, School of Biology and Engineering, Guizhou Medical University, Guiyang, China
| | - Yaohang Long
- Engineering Research Center of Medical Biotechnology, School of Biology and Engineering, Guizhou Medical University, Guiyang, China
- Key Laboratory of Biology and Medical Engineering, Immune Cells and Antibody Engineering Research Center of Guizhou Province, School of Biology and Engineering, Guizhou Medical University, Guiyang, China
| | - Bing Wang
- Engineering Research Center of Medical Biotechnology, School of Biology and Engineering, Guizhou Medical University, Guiyang, China
- Key Laboratory of Biology and Medical Engineering, Immune Cells and Antibody Engineering Research Center of Guizhou Province, School of Biology and Engineering, Guizhou Medical University, Guiyang, China
- *Correspondence: Bing Wang,
| | - Hongmei Liu
- Engineering Research Center of Medical Biotechnology, School of Biology and Engineering, Guizhou Medical University, Guiyang, China
- Key Laboratory of Biology and Medical Engineering, Immune Cells and Antibody Engineering Research Center of Guizhou Province, School of Biology and Engineering, Guizhou Medical University, Guiyang, China
- School of Basic Medicine Science, Guizhou Medical University, Guiyang, China
- Hongmei Liu,
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9
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Khan A, Jiang H, Bu J, Adnan M, Gillani SW, Hussain MA, Zhang M. Untangling the Rhizosphere Bacterial Community Composition and Response of Soil Physiochemical Properties to Different Nitrogen Applications in Sugarcane Field. Front Microbiol 2022; 13:856078. [PMID: 35369493 PMCID: PMC8964298 DOI: 10.3389/fmicb.2022.856078] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2022] [Accepted: 02/02/2022] [Indexed: 11/30/2022] Open
Abstract
Minimizing the use of chemical fertilizers and investigating an appropriate ecofriendly level of nitrogen fertilizer is the key to sustainable agriculture. Sugarcane is the main cash crop of China, especially in the Guangxi region. Information regarding the effect of different nitrogen levels on sugarcane rhizosphere microbiota is still limited. In this study, we evaluated the effect of four different levels of nitrogen fertilizers on rhizosphere bacterial composition using high throughput sequencing, along with soil physiochemical properties, sugarcane agronomic and yield performance. The four treatment combinations were CK (no fertilizers), L (Low, 100 kg ha–1), M (Medium, 150 kg ha–1), and H (High, 200 kg ha–1). The results showed that M nitrogen application significantly altered the rhizosphere bacterial community, soil properties, and sugarcane yield. The richness and evenness of the bacterial community were higher in M treatment than CK. In M treatment important bacterial phyla Acidobacteria and Proteobacteria increased by 47 and 71%, respectively; and at genus level, Acidothermus and Bradyrhizobium increased by 77.2 and 30.3%, respectively, compared to CK. Principal component analysis (PCA) and cluster analysis further confirmed the level of differences among the treatments. The PCA analysis explained 80% of the total variation among the treatments. Spearmen correlation heatmap showed that environmental factors such as pH, AP (available phosphorous), AK (available potassium), and SCAT (soil catalase) were the key factors impacting sugarcane rhizosphere microbiome composition. The H and L nitrogen application alter the bacterial community and sugarcane performance but the M nitrogen application appears to be ecofriendly, productive, and an appropriate nitrogen application rate that could be further used in the Guangxi region.
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Affiliation(s)
- Abdullah Khan
- Guangxi Key Laboratory of Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning, China
| | - Hongtao Jiang
- Guangxi Key Laboratory of Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning, China
| | - Junyao Bu
- Guangxi Key Laboratory of Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning, China
| | - Muhammad Adnan
- Guangxi Key Laboratory of Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning, China
| | - Syeda Wajeeha Gillani
- Guangxi Key Laboratory of Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning, China
| | | | - Muqing Zhang
- Guangxi Key Laboratory of Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning, China
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10
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Hernández-Guzmán M, Pérez-Hernández V, Navarro-Noya YE, Luna-Guido ML, Verhulst N, Govaerts B, Dendooven L. Application of ammonium to a N limited arable soil enriches a succession of bacteria typically found in the rhizosphere. Sci Rep 2022; 12:4110. [PMID: 35260645 PMCID: PMC8904580 DOI: 10.1038/s41598-022-07623-4] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2021] [Accepted: 02/01/2022] [Indexed: 12/30/2022] Open
Abstract
Crop residue management and tillage are known to affect the soil bacterial community, but when and which bacterial groups are enriched by application of ammonium in soil under different agricultural practices from a semi-arid ecosystem is still poorly understood. Soil was sampled from a long-term agronomic experiment with conventional tilled beds and crop residue retention (CT treatment), permanent beds with crop residue burned (PBB treatment) or retained (PBC) left unfertilized or fertilized with 300 kg urea-N ha−1 and cultivated with wheat (Triticum durum L.)/maize (Zea mays L.) rotation. Soil samples, fertilized or unfertilized, were amended or not (control) with a solution of (NH4)2SO4 (300 kg N ha−1) and were incubated aerobically at 25 ± 2 °C for 56 days, while CO2 emission, mineral N and the bacterial community were monitored. Application of NH4+ significantly increased the C mineralization independent of tillage-residue management or N fertilizer. Oxidation of NH4+ and NO2− was faster in the fertilized soil than in the unfertilized soil. The relative abundance of Nitrosovibrio, the sole ammonium oxidizer detected, was higher in the fertilized than in the unfertilized soil; and similarly, that of Nitrospira, the sole nitrite oxidizer. Application of NH4+ enriched Pseudomonas, Flavisolibacter, Enterobacter and Pseudoxanthomonas in the first week and Rheinheimera, Acinetobacter and Achromobacter between day 7 and 28. The application of ammonium to a soil cultivated with wheat and maize enriched a sequence of bacterial genera characterized as rhizospheric and/or endophytic independent of the application of urea, retention or burning of the crop residue, or tillage.
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Affiliation(s)
- Mario Hernández-Guzmán
- Laboratory of Soil Ecology, CINVESTAV, Av. Instituto Politécnico Nacional 2508, Col. San Pedro Zacatenco, Alcaldía Gustavo A Madero, Mexico City, Mexico
| | - Valentín Pérez-Hernández
- Laboratory of Soil Ecology, CINVESTAV, Av. Instituto Politécnico Nacional 2508, Col. San Pedro Zacatenco, Alcaldía Gustavo A Madero, Mexico City, Mexico.,Department of Chemistry and Biochemistry, Instituto Tecnológico de Tuxtla-Gutiérrez, Tuxtla Gutiérrez, Mexico
| | - Yendi E Navarro-Noya
- Centro de Investigación en Ciencias Biológicas, Universidad Autónoma de Tlaxcala, Tlaxcala, México
| | - Marco L Luna-Guido
- Laboratory of Soil Ecology, CINVESTAV, Av. Instituto Politécnico Nacional 2508, Col. San Pedro Zacatenco, Alcaldía Gustavo A Madero, Mexico City, Mexico
| | - Nele Verhulst
- International Maize and Wheat Improvement Center (CIMMYT), El Batán, Texcoco, Mexico
| | - Bram Govaerts
- International Maize and Wheat Improvement Center (CIMMYT), El Batán, Texcoco, Mexico.,Cornell University, Ithaca, USA
| | - Luc Dendooven
- Laboratory of Soil Ecology, CINVESTAV, Av. Instituto Politécnico Nacional 2508, Col. San Pedro Zacatenco, Alcaldía Gustavo A Madero, Mexico City, Mexico.
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11
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Barbato RA, Jones RM, Musty MA, Slone SM. Reading the ground: Understanding the response of bioelectric microbes to anthropogenic compounds in soil based terrestrial microbial fuel cells. PLoS One 2021; 16:e0260528. [PMID: 34937056 PMCID: PMC8694411 DOI: 10.1371/journal.pone.0260528] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2021] [Accepted: 11/11/2021] [Indexed: 11/19/2022] Open
Abstract
Electrogenic bacteria produce power in soil based terrestrial microbial fuel cells (tMFCs) by growing on electrodes and transferring electrons released from the breakdown of substrates. The direction and magnitude of voltage production is hypothesized to be dependent on the available substrates. A sensor technology was developed for compounds indicative of anthropological activity by exposing tMFCs to gasoline, petroleum, 2,4-dinitrotoluene, fertilizer, and urea. A machine learning classifier was trained to identify compounds based on the voltage patterns. After 5 to 10 days, the mean voltage stabilized (+/- 0.5 mV). After the entire incubation, voltage ranged from -59.1 mV to 631.8 mV, with the tMFCs containing urea and gasoline producing the highest (624 mV) and lowest (-9 mV) average voltage, respectively. The machine learning algorithm effectively discerned between gasoline, urea, and fertilizer with greater than 94% accuracy, demonstrating that this technology could be successfully operated as an environmental sensor for change detection.
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Affiliation(s)
- Robyn A. Barbato
- US Army Engineer Research and Development Center Cold Regions Research and Engineering Laboratory, Hanover, NH, United States of America
- * E-mail:
| | - Robert M. Jones
- US Army Engineer Research and Development Center Cold Regions Research and Engineering Laboratory, Hanover, NH, United States of America
| | - Michael A. Musty
- US Army Engineer Research and Development Center Cold Regions Research and Engineering Laboratory, Hanover, NH, United States of America
| | - Scott M. Slone
- US Army Engineer Research and Development Center Cold Regions Research and Engineering Laboratory, Hanover, NH, United States of America
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12
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Hu X, Liu X, Qiao L, Zhang S, Su K, Qiu Z, Li X, Zhao Q, Yu C. Study on the spatial distribution of ureolytic microorganisms in farmland soil around tailings with different heavy metal pollution. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 775:144946. [PMID: 33618300 DOI: 10.1016/j.scitotenv.2021.144946] [Citation(s) in RCA: 34] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/16/2020] [Revised: 01/02/2021] [Accepted: 01/03/2021] [Indexed: 06/12/2023]
Abstract
Ureolytic microorganisms, a kind of microorganism which can secrete urease and decompose urea, have great potential in remediation of soil heavy metals based on microbial induced carbonate precipitation. However, the horizontal and vertical distribution of ureolytic microbial community in heavy metals contaminated soils is poorly understood. In this study, urease genes in agricultural soils surrounding tailings were first investigated using metagenomic in two dimensions: heavy metal pollution (Low-L, Middle-M, High-H) and soil depth (0-20 cm, 20-40 cm, 40-60 cm, 60-80 cm, 80-100 cm). Results showed that the effect of heavy metal concentration on ureolytic microorganisms was indeed significant, while the changes of ureolytic microorganisms with increasing soil depth varied in the vertical direction at the same level of heavy metal contamination. H site had the highest diversity of ureolytic microorganisms except for the topsoil. And at the same heavy metal contamination level, the ureolytic microbial diversity was lower in deeper soils. Proteobacteria, Actinobacteria and Thaumarchaeota (Archaea) were the dominant phyla of ureolytic microorganisms in all three sites, accounting for more than 80% of the total. However, the respond to the heavy metal concentrations of three phyla were different, which were increasing, decreasing and essentially unchanged, respectively. Besides, other environmental factors such as SOM and pH had different effects on ureolytic microorganisms, with Proteobacteria being positively correlated and Actinobacteria being the opposite. Another phenomenon was that Actinobacteria and Verrucomicrobia were biomarkers of group L, which could significantly explain the difference with the other two sites. These results provided valuable information for further research on the response mechanism and remediation of heavy metal pollution by ureolytic microbial system.
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Affiliation(s)
- Xuesong Hu
- School of Chemical & Environmental Engineering, China University of Mining and Technology (Beijing), 100083 Beijing, China
| | - Xiaoxia Liu
- Beijing Station of Agro-Environmental Monitoring, Test and Supervision Center of Agro-Environmental Quality, MOA, 100032 Beijing, China
| | - Longkai Qiao
- School of Chemical & Environmental Engineering, China University of Mining and Technology (Beijing), 100083 Beijing, China
| | - Shuo Zhang
- School of Chemical & Environmental Engineering, China University of Mining and Technology (Beijing), 100083 Beijing, China
| | - Kaiwen Su
- School of Chemical & Environmental Engineering, China University of Mining and Technology (Beijing), 100083 Beijing, China
| | - Ziliang Qiu
- School of Chemical & Environmental Engineering, China University of Mining and Technology (Beijing), 100083 Beijing, China
| | - Xianhong Li
- School of Chemical & Environmental Engineering, China University of Mining and Technology (Beijing), 100083 Beijing, China
| | - Qiancheng Zhao
- School of Chemical & Environmental Engineering, China University of Mining and Technology (Beijing), 100083 Beijing, China
| | - Caihong Yu
- School of Chemical & Environmental Engineering, China University of Mining and Technology (Beijing), 100083 Beijing, China.
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13
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Arid Ecosystem Vegetation Canopy-Gap Dichotomy: Influence on Soil Microbial Composition and Nutrient Cycling Functional Potential. Appl Environ Microbiol 2021; 87:AEM.02780-20. [PMID: 33310716 PMCID: PMC8090872 DOI: 10.1128/aem.02780-20] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023] Open
Abstract
Increasing temperatures and drought in desert ecosystems are predicted to cause decreased vegetation density combined with barren ground expansion. It remains unclear how nutrient availability, microbial diversity, and the associated functional capacity vary between vegetated-canopy and gap soils. The specific aim of this study was to characterize canopy vs gap microsite effect on soil microbial diversity, the capacity of gap soils to serve as a canopy-soil microbial reservoir, nitrogen (N)-mineralization genetic potential (ureC gene abundance) and urease enzyme activity, and microbial-nutrient pool associations in four arid-hyperarid geolocations of the western Sonoran Desert, Arizona (USA). Microsite combined with geolocation explained 57% and 45.8% of the observed variation in bacterial/archaeal and fungal community composition, respectively. A core microbiome of amplicon sequence variants was shared between the canopy and gap soil communities; however, canopy-soils included abundant taxa that were not present in associated gap communities, thereby suggesting that these taxa cannot be sourced from the associated gap soils. Linear mixed-effects models showed that canopy-soils have significantly higher microbial richness, nutrient content, and organic N-mineralization genetic and functional capacity. Furthermore, ureC gene abundance was detected in all samples suggesting that ureC is a relevant indicator of N-mineralization in deserts. Additionally, novel phylogenetic associations were observed for ureC with the majority belonging to Actinobacteria and uncharacterized bacteria. Thus, key N-mineralization functional capacity is associated with a dominant desert phylum. Overall, these results suggest that lower microbial diversity and functional capacity in gap soils may impact ecosystem sustainability as aridity drives open-space expansion in deserts.
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14
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Wang L, Xiong X, Luo X, Chen W, Wen S, Wang B, Chen C, Huang Q. Aggregational differentiation of ureolytic microbes in an Ultisol under long-term organic and chemical fertilizations. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 716:137103. [PMID: 32045764 DOI: 10.1016/j.scitotenv.2020.137103] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/30/2019] [Revised: 01/26/2020] [Accepted: 02/02/2020] [Indexed: 06/10/2023]
Abstract
Ureolytic microorganisms play a crucial role in soil nitrogen transformation. Soil aggregates and associated microbes are reported to modify the impact of agricultural management on soil nutrient cycling. However, the responses of ureolytic microbial communities in various soil aggregates to long-term fertilization regimes are still unclear in acid soils. In this study, we characterized the ureolytic microflora as well as urease activity in three soil aggregate fractions (2-0.25, 0.25-0.053, <0.053 mm) from an Ultisol with 26-year fertilization experiment. The results showed that long-term chemical fertilization (NPK) significantly decreased the abundance, richness and activity of ureolytic microbial community across soil aggregates (P < .05) due to strong soil acidification. While manure application (M and MNPK) could mitigate these negative impacts and markedly (P < .05) improved the abundance, α-diversity and activity of soil ureolytic microflora. Long-term fertilization regimes also drove the differentiation of ureolytic microbial compositions in soil aggregates (Adonis, F = 17.4, P = .001, R2 = 33.6%), and manure application appeared to be the most important driver. This variation partly contributed to the aberrance of soil urease activity (structure equation model, path coefficient: 0.45, P = .008). No significant differences were found for ureolytic microbial community among soil aggregates, which was in accordance with the distribution patterns of soil nutrients, indicating the dominant role of resources availability in determining ureolytic microbiota in micro-environment. The ureolytic microbial community among different soil aggregates responded uniformly to long-term fertilizations. Our study revealed that manure application was a sustainable fertilization regime to alleviate the loss of soil ureolytic microbial diversity and activity in acid soils.
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Affiliation(s)
- Li Wang
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China; China-Australia Research Laboratory on Environmental Biogeochemistry, Huazhong Agricultural University, China
| | - Xiang Xiong
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China; China-Australia Research Laboratory on Environmental Biogeochemistry, Huazhong Agricultural University, China
| | - Xuesong Luo
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Wenli Chen
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China; China-Australia Research Laboratory on Environmental Biogeochemistry, Huazhong Agricultural University, China
| | - Shilin Wen
- Qiyang Red Soil Experimental Station, Chinese Academy of Agricultural Sciences, Qiyang 421001, China
| | - Boren Wang
- Qiyang Red Soil Experimental Station, Chinese Academy of Agricultural Sciences, Qiyang 421001, China
| | - Chengrong Chen
- China-Australia Research Laboratory on Environmental Biogeochemistry, Huazhong Agricultural University, China; School of Environment and Sciences, Griffith University, Brisbane, Qld 4111, Australia
| | - Qiaoyun Huang
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China; China-Australia Research Laboratory on Environmental Biogeochemistry, Huazhong Agricultural University, China.
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15
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Ding Y, Jin Y, He K, Yi Z, Tan L, Liu L, Tang M, Du A, Fang Y, Zhao H. Low Nitrogen Fertilization Alter Rhizosphere Microorganism Community and Improve Sweetpotato Yield in a Nitrogen-Deficient Rocky Soil. Front Microbiol 2020; 11:678. [PMID: 32351491 PMCID: PMC7174733 DOI: 10.3389/fmicb.2020.00678] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2019] [Accepted: 03/24/2020] [Indexed: 12/22/2022] Open
Abstract
Sweetpotato can be cultivated in the reclaimed rocky soil in Sichuan Basin, China, which benefits from the release of mineral nutrients in the rocky soil by microorganisms. Shortage of nitrogen (N) in the rocky soil limits sweetpotato yield, which can be compensated through N fertilization. Whereas high N fertilization inhibits biological N fixation and induces unintended environmental consequences. However, the effect of low N fertilization on microorganism community and sweetpotato yield in the N-deficient rocky soil is still unclear. We added a low level of 1.5 g urea/m2 to a rocky soil cultivated with sweetpotato, and measured rocky soil physiological and biochemical properties, rhizosphere microbial diversity, sweetpotato physiological properties and transcriptome. When cultivating sweetpotato in the rocky soil, low N fertilization (1.5 g urea/m2) not only improved total N (TN) and available N (AN) in the rocky soil, but also increased available phosphorus (AP), available potassium (AK), and nitrogenase and urease activity. Interestingly, although low N fertilization could reduce bacterial diversity through affecting sweetpotato root exudates and rocky soil properties, the relative abundance of P and K-solubilizing bacteria, N-fixing and urease-producing bacteria increased under low N fertilization, and the relative abundance of plant pathogens decreased. Furthermore, low N fertilization increased the phytohormones, such as zeatin riboside, abscisic acid, and methyl jasmonate contents in sweetpotato root. Those increases were consistent with our transcriptome findings: the inhibition of the lignin synthesis, the promotion of the starch synthesis, and the upregulated expression of Expansin, thus resulting in promoting the formation of tuberous roots and further increasing the sweetpotato yield by half, up to 3.3 kg/m2. This study indicated that low N fertilization in the N-deficient rocky soil improved this soil quality through affecting microorganism community, and further increased sweetpotato yield under regulation of phytohormones pathway.
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Affiliation(s)
- Yanqiang Ding
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China.,Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Yanling Jin
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Kaize He
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Zhuolin Yi
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Li Tan
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Lisha Liu
- Sweetpotato Institute, Nanchong Academy of Agricultural Sciences, Nanchong, China
| | - Mingshuang Tang
- Sweetpotato Institute, Nanchong Academy of Agricultural Sciences, Nanchong, China
| | - Anping Du
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Yang Fang
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Hai Zhao
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
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16
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Wang L, Luo X, Xiong X, Chen W, Hao X, Huang Q. Soil Aggregate Stratification of Ureolytic Microbiota Affects Urease Activity in an Inceptisol. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2019; 67:11584-11590. [PMID: 31566380 DOI: 10.1021/acs.jafc.9b04244] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Ureolytic microbes play a pivotal role in the maintenance of soil fertility. Soil aggregates are supposed to provide heterogeneous habitats for microorganisms, which may result in distinct metabolic functions. However, limited information is available regarding the distribution patterns, driving factors, and activity of ureolytic microbiota at the aggregate scale. In this study, we characterized the ureolytic microbiota and urease activity of three soil aggregate fractions from an Inceptisol subjected to 5 years of different fertilization regimes. Correlations between soil chemical characteristics and ureolytic microbial communities were analyzed. The results showed that the total abundance as well as the relative abundance of copiotrophic ureolytic microbes generally increased with the increasing soil aggregate size. This trend was in line with the nutrient distribution patterns, including labile carbon, NH4+, total carbon, nitrogen, and phosphorus. Soil urease activity also increased significantly with the increasing soil aggregate size and was positively correlated with copiotrophic ureolyric microbes, such as Betaproteobacteria, Alphaproteobacteria, and Gammaproteobacteria. Thus, we speculated that larger size soil aggregates with greater availability of labile carbon support more copiotrophic ureolyric microbes with a high growth rate, leading to a high density of total ureolytic microbes and higher urease activity. Smaller aggregates with less available carbon were associated with more oligotrophs, higher abundances of total ureolytic microbes, and higher urease activity. Our results suggest that larger soil aggregates and associated ureolyric microbes play a more important role in nutrient cycling for crop growth in this Inceptisol ecosystem.
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