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MALDI-TOF Mass Spectrometry for the Diagnosis of Citrus Canker Caused by Xanthomonas citri subsp. citri. MOLECULES (BASEL, SWITZERLAND) 2022; 27:molecules27248947. [PMID: 36558076 PMCID: PMC9781495 DOI: 10.3390/molecules27248947] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/14/2022] [Revised: 12/09/2022] [Accepted: 12/12/2022] [Indexed: 12/23/2022]
Abstract
Citrus canker, caused by the bacterium Xanthomonas citri subsp. citri (Xcc), is a disease that causes serious problems to the global citrus industry. Matrix-Assisted Laser Desorption/Ionization Time-of-Flight (MALDI-TOF) Mass Spectrometry (MS) has been used in human medicine to diagnose various diseases caused by both fungi and bacteria. In agriculture, this technique has potential for the diagnosis of diseases due to the low cost of large-scale analysis and quickness. This study showed that MALDI-TOF MS combined with chemometric analysis was effective for differentiating the macromolecule profile of orange leaves with canker lesions, healthy leaves, and leaves with phytotoxicity symptoms, proving that this technique may be used for the rapid diagnosis of citrus canker.
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Catara V, Cubero J, Pothier JF, Bosis E, Bragard C, Đermić E, Holeva MC, Jacques MA, Petter F, Pruvost O, Robène I, Studholme DJ, Tavares F, Vicente JG, Koebnik R, Costa J. Trends in Molecular Diagnosis and Diversity Studies for Phytosanitary Regulated Xanthomonas. Microorganisms 2021; 9:862. [PMID: 33923763 PMCID: PMC8073235 DOI: 10.3390/microorganisms9040862] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2021] [Revised: 04/10/2021] [Accepted: 04/12/2021] [Indexed: 11/17/2022] Open
Abstract
Bacteria in the genus Xanthomonas infect a wide range of crops and wild plants, with most species responsible for plant diseases that have a global economic and environmental impact on the seed, plant, and food trade. Infections by Xanthomonas spp. cause a wide variety of non-specific symptoms, making their identification difficult. The coexistence of phylogenetically close strains, but drastically different in their phenotype, poses an added challenge to diagnosis. Data on future climate change scenarios predict an increase in the severity of epidemics and a geographical expansion of pathogens, increasing pressure on plant health services. In this context, the effectiveness of integrated disease management strategies strongly depends on the availability of rapid, sensitive, and specific diagnostic methods. The accumulation of genomic information in recent years has facilitated the identification of new DNA markers, a cornerstone for the development of more sensitive and specific methods. Nevertheless, the challenges that the taxonomic complexity of this genus represents in terms of diagnosis together with the fact that within the same bacterial species, groups of strains may interact with distinct host species demonstrate that there is still a long way to go. In this review, we describe and discuss the current molecular-based methods for the diagnosis and detection of regulated Xanthomonas, taxonomic and diversity studies in Xanthomonas and genomic approaches for molecular diagnosis.
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Affiliation(s)
- Vittoria Catara
- Department of Agriculture, Food and Environment, University of Catania, 95125 Catania, Italy
| | - Jaime Cubero
- National Institute for Agricultural and Food Research and Technology (INIA), 28002 Madrid, Spain;
| | - Joël F. Pothier
- Environmental Genomics and Systems Biology Research Group, Institute for Natural Resource Sciences, Zurich University of Applied Sciences (ZHAW), 8820 Wädenswil, Switzerland;
| | - Eran Bosis
- Department of Biotechnology Engineering, ORT Braude College of Engineering, Karmiel 2161002, Israel;
| | - Claude Bragard
- UCLouvain, Earth & Life Institute, Applied Microbiology, 1348 Louvain-la-Neuve, Belgium;
| | - Edyta Đermić
- Department of Plant Pathology, Faculty of Agriculture, University of Zagreb, 10000 Zagreb, Croatia;
| | - Maria C. Holeva
- Benaki Phytopathological Institute, Scientific Directorate of Phytopathology, Laboratory of Bacteriology, GR-14561 Kifissia, Greece;
| | - Marie-Agnès Jacques
- IRHS, INRA, AGROCAMPUS-Ouest, Univ Angers, SFR 4207 QUASAV, 49071 Beaucouzé, France;
| | - Francoise Petter
- European and Mediterranean Plant Protection Organization (EPPO/OEPP), 75011 Paris, France;
| | - Olivier Pruvost
- CIRAD, UMR PVBMT, F-97410 Saint Pierre, La Réunion, France; (O.P.); (I.R.)
| | - Isabelle Robène
- CIRAD, UMR PVBMT, F-97410 Saint Pierre, La Réunion, France; (O.P.); (I.R.)
| | | | - Fernando Tavares
- CIBIO—Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO-Laboratório Associado, Universidade do Porto, 4485-661 Vairão, Portugal; or
- FCUP-Faculdade de Ciências, Departamento de Biologia, Universidade do Porto, Rua do Campo Alegre, 4169-007 Porto, Portugal
| | | | - Ralf Koebnik
- Plant Health Institute of Montpellier (PHIM), Univ Montpellier, Cirad, INRAe, Institut Agro, IRD, 34398 Montpellier, France;
| | - Joana Costa
- Centre for Functional Ecology-Science for People & the Planet, Department of Life Sciences, University of Coimbra, 300-456 Coimbra, Portugal
- Laboratory for Phytopathology, Instituto Pedro Nunes, 3030-199 Coimbra, Portugal
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Awaludin N, Abdullah J, Salam F, Ramachandran K, Yusof NA, Wasoh H. Fluorescence-based immunoassay for the detection of Xanthomonas oryzae pv. oryzae in rice leaf. Anal Biochem 2020; 610:113876. [PMID: 32750357 DOI: 10.1016/j.ab.2020.113876] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2020] [Revised: 07/07/2020] [Accepted: 07/14/2020] [Indexed: 12/13/2022]
Abstract
The identification of rice bacterial leaf blight disease requires a simple, rapid, highly sensitive, and quantitative approach that can be applied as an early detection monitoring tool in rice health. This paper highlights the development of a turn-off fluorescence-based immunoassay for the early detection of Xanthomonas oryzae pv. oryzae (Xoo), a gram-negative bacterium that causes rice bacterial leaf blight disease. Antibodies against Xoo bacterial cells were produced as specific bio-recognition molecules and the conjugation of these antibodies with graphene quantum dots and gold nanoparticles was performed and characterized, respectively. The combination of both these bio-probes as a fluorescent donor and metal quencher led to changes in the fluorescence signal. The immunoreaction between AntiXoo-GQDs, Xoo cells, and AntiXoo-AuNPs in the immuno-aggregation complex led to the energy transfer in the turn-off fluorescence-based quenching system. The change in fluorescence intensity was proportional to the logarithm of Xoo cells in the range of 100-105 CFU mL-1. The limit of detection was achieved at 22 CFU mL-1 and the specificity test against other plant disease pathogens showed high specificity towards Xoo. The detection of Xoo in real plant samples was also performed in this study and demonstrated satisfactory results.
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Affiliation(s)
- Norhafniza Awaludin
- Institute of Advanced Technology, University of Putra Malaysia, 43400, Serdang, Selangor, Malaysia; Biotechnology & Nanotechnology Research Centre, Malaysian Agricultural Research and Development Institute, Persiaran MARDI-UPM, 43400, Serdang, Selangor, Malaysia
| | - Jaafar Abdullah
- Institute of Advanced Technology, University of Putra Malaysia, 43400, Serdang, Selangor, Malaysia; Department of Chemistry, Faculty of Science, University of Putra Malaysia, 43400, Serdang, Selangor, Malaysia.
| | - Faridah Salam
- Biotechnology & Nanotechnology Research Centre, Malaysian Agricultural Research and Development Institute, Persiaran MARDI-UPM, 43400, Serdang, Selangor, Malaysia
| | - Kogeethavani Ramachandran
- Paddy & Rice Research Centre, Malaysian Agricultural Research and Development Institute, MARDI Seberang Perai, Beg Berkunci No.203, Pejabat Pos Kepala Batas, 13200, Seberang Perai, Pulau Pinang, Malaysia
| | - Nor Azah Yusof
- Institute of Advanced Technology, University of Putra Malaysia, 43400, Serdang, Selangor, Malaysia; Department of Chemistry, Faculty of Science, University of Putra Malaysia, 43400, Serdang, Selangor, Malaysia
| | - Helmi Wasoh
- Department of Bioprocess Technology, Faculty of Biotechnology and Biomolecule Science, University of Putra Malaysia, 43400, Serdang, Selangor, Malaysia
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FTIR-assisted MALDI-TOF MS for the identification and typing of bacteria. Anal Chim Acta 2020; 1111:75-82. [DOI: 10.1016/j.aca.2020.03.037] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2019] [Revised: 02/29/2020] [Accepted: 03/16/2020] [Indexed: 01/08/2023]
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Novais Â, Freitas AR, Rodrigues C, Peixe L. Fourier transform infrared spectroscopy: unlocking fundamentals and prospects for bacterial strain typing. Eur J Clin Microbiol Infect Dis 2018; 38:427-448. [DOI: 10.1007/s10096-018-3431-3] [Citation(s) in RCA: 56] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2018] [Accepted: 11/11/2018] [Indexed: 01/25/2023]
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Quintelas C, Ferreira EC, Lopes JA, Sousa C. An Overview of the Evolution of Infrared Spectroscopy Applied to Bacterial Typing. Biotechnol J 2017; 13. [DOI: 10.1002/biot.201700449] [Citation(s) in RCA: 54] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2017] [Revised: 10/18/2017] [Indexed: 11/10/2022]
Affiliation(s)
- Cristina Quintelas
- Dr. C. Quintelas, Dr. E. C. Ferreira; CEB − Centro de Engenharia Biológica; Universidade do Minho; Braga Portugal
| | - Eugénio C. Ferreira
- Dr. C. Quintelas, Dr. E. C. Ferreira; CEB − Centro de Engenharia Biológica; Universidade do Minho; Braga Portugal
| | - João A. Lopes
- Dr. J. A. Lopes; Research Institute for Medicines (iMed.ULisboa); Faculdade de Farmácia; Universidade de Lisboa; Lisboa Portugal
| | - Clara Sousa
- Dr. C. Sousa; LAQV/REQUIMTE; Departamento de Ciências Químicas Faculdade de Farmácia; Universidade do Porto; Rua Jorge Viterbo Ferreira, 228 4050-313 Porto Portugal
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Dong Q, Luo J, Qiu W, Cai L, Anjum SI, Li B, Hou M, Xie G, Sun G. Inhibitory Effect of Camptothecin against Rice Bacterial Brown Stripe Pathogen Acidovorax avenae subsp. avenae RS-2. Molecules 2016; 21:molecules21080978. [PMID: 27472315 PMCID: PMC6274382 DOI: 10.3390/molecules21080978] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2016] [Revised: 07/19/2016] [Accepted: 07/25/2016] [Indexed: 12/28/2022] Open
Abstract
Camptothecin (CPT) has anticancer, antiviral, and antifungal properties. However, there is a dearth of information about antibacterial activity of CPT. Therefore, in this study, we investigated the inhibitory effect of CPT on Acidovorax avenae subsp. avenae strain RS-2, the pathogen of rice bacterial brown stripe, by measuring cell growth, DNA damage, cell membrane integrity, the expression of secretion systems, and topoisomerase-related genes, as well as the secretion of effector protein Hcp. Results indicated that CPT solutions at 0.05, 0.25, and 0.50 mg/mL inhibited the growth of strain RS-2 in vitro, while the inhibitory efficiency increased with an increase in CPT concentration, pH, and incubation time. Furthermore, CPT treatment affected bacterial growth and replication by causing membrane damage, which was evidenced by transmission electron microscopic observation and live/dead cell staining. In addition, quantitative real-time PCR analysis indicated that CPT treatment caused differential expression of eight secretion system-related genes and one topoisomerase-related gene, while the up-regulated expression of hcp could be justified by the increased secretion of Hcp based on the ELISA test. Overall, this study indicated that CPT has the potential to control the bacterial brown stripe pathogen of rice.
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Affiliation(s)
- Qiaolin Dong
- College of Plant Science & Technology, Huazhong Agricultural University, Wuhan 430070, China.
| | - Ju Luo
- State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, China.
| | - Wen Qiu
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou 310029, China.
| | - Li Cai
- College of Plant Science & Technology, Huazhong Agricultural University, Wuhan 430070, China.
| | - Syed Ishtiaq Anjum
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou 310029, China.
- Department of Zoology Kohat University of Science and Technology Kohat, Khyber Pakhtunkhwa 26000, Pakistan.
| | - Bin Li
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou 310029, China.
| | - Mingsheng Hou
- College of Plant Science & Technology, Huazhong Agricultural University, Wuhan 430070, China.
| | - Guanlin Xie
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou 310029, China.
| | - Guochang Sun
- State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China.
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Wan J, Liu X, Wu C, Wu Y. Nutrient capture and recycling by periphyton attached to modified agrowaste carriers. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2016; 23:8035-8043. [PMID: 26780044 DOI: 10.1007/s11356-015-5988-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2015] [Accepted: 12/14/2015] [Indexed: 06/05/2023]
Abstract
The reuse of periphytic biofilm from traditional wastewater treatment (i.e., active sludge process) is inefficient to recycle nutrients due to low accumulation of nutrients. Then, in this study, peanut shell (PS), rice husk (RH), decomposed peanut shell (DPS), acidified rice husks (ARH), and a commonly used carrier-ceramsite (C, as the control)-were used to support the growth of periphyton. Results showed that DPS and ARH supported significantly higher periphyton biomass and metabolic versatility than PS and RH, respectively, due to the increased presence of positive groups. The total nitrogen (TN) and total phosphorus (TP) captured by periphyton were enhanced by 600-657 and 833-3255 % for DPS, and 461-1808 and 21-308 % for ARH, respectively. The removal of nutrients from simulated eutrophic surface waters using periphyton attached to DPS was improved by 24-47 % for TP, 12-048 % for TN, and 15-78 % for nitrate compared to the control. The results indicate that the periphyton attached to modified agrowaste was capable of efficiently entrapping and storing N and P from eutrophic water. This study also implies that the mixture of periphyton and the modified agrowaste carriers are promising raw materials of biofertilizer.
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Affiliation(s)
- Juanjuan Wan
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Sciences, Chinese Academy of Sciences, 71 East Beijing Road, Nanjing, 210008, China
- School of Civil Engineering, East China Jiaotong University, 808 Shuang Gang East Road, Nanchang, 330013, Jiangxi, China
| | - Xuemei Liu
- School of Civil Engineering, East China Jiaotong University, 808 Shuang Gang East Road, Nanchang, 330013, Jiangxi, China
| | - Chenxi Wu
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrology, Chinese Academy of Sciences, Wuhan, 430072, China
| | - Yonghong Wu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Sciences, Chinese Academy of Sciences, 71 East Beijing Road, Nanjing, 210008, China.
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Li B, Ge M, Zhang Y, Wang L, Ibrahim M, Wang Y, Sun G, Chen G. New insights into virulence mechanisms of rice pathogen Acidovorax avenae subsp. avenae strain RS-1 following exposure to ß-lactam antibiotics. Sci Rep 2016; 6:22241. [PMID: 26915352 PMCID: PMC4768089 DOI: 10.1038/srep22241] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2015] [Accepted: 02/10/2016] [Indexed: 12/24/2022] Open
Abstract
Recent research has shown that pathogen virulence can be altered by exposure to antibiotics, even when the growth rate is unaffected. Investigating this phenomenon provides new insights into understanding the virulence mechanisms of bacterial pathogens. This study investigates the phenotypic and transcriptomic responses of the rice pathogenic bacterium Acidovorax avenae subsp. avenae (Aaa) strain RS-1 to ß-lactam antibiotics especially Ampicillin (Amp). Our results indicate that exposure to Amp does not influence bacterial growth and biofilm formation, but alters the virulence, colonization capacity, composition of extracellular polymeric substances and secretion of Type VI secretion system (T6SS) effector Hcp. This attenuation in virulence is linked to unique or differential expression of known virulence-associated genes based on genome-wide transcriptomic analysis. The reliability of expression data generated by RNA-Seq was verified with quantitative real-time PCR of 21 selected T6SS genes, where significant down-regulation in expression of hcp gene, corresponding to the reduction in secretion of Hcp, was observed under exposure to Amp. Hcp is highlighted as a potential target for Amp, with similar changes observed in virulence-associated phenotypes between exposure to Amp and mutation of hcp gene. In addition, Hcp secretion is reduced in knockout mutants of 4 differentially expressed T6SS genes.
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Affiliation(s)
- Bin Li
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, 310058, Hangzhou, China
| | - Mengyu Ge
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, 310058, Hangzhou, China
| | - Yang Zhang
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, 310058, Hangzhou, China
| | - Li Wang
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, 310058, Hangzhou, China
| | - Muhammad Ibrahim
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, 310058, Hangzhou, China.,Department of Biosciences, COMSATS Institute of Information technology Sahiwal Campus, Sahiwal, Pakistan
| | - Yanli Wang
- State Key Laboratory Breeding Base for Zhejiang Sustainable Plant Pest and Disease Control, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Guochang Sun
- State Key Laboratory Breeding Base for Zhejiang Sustainable Plant Pest and Disease Control, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Gongyou Chen
- School of Agriculture and Biology, Shanghai Jiaotong University, Shanghai 200240, China
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Wan J, Liu X, Kerr PG, Wu C, Wu Y. Comparison of the properties of periphyton attached to modified agro-waste carriers. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2016; 23:3718-3726. [PMID: 26498807 DOI: 10.1007/s11356-015-5541-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/03/2015] [Accepted: 10/05/2015] [Indexed: 06/05/2023]
Abstract
Periphyton is a valuable, environmentally benign resource widely used in environmental remediation. A protocol for reusing agro-wastes to improve the metabolic activity and versatility of periphyton was tested in this study. Peanut shell (PS), decomposed peanut shell (DPS), acidified peanut shell (APS), rice husks (RHs), acidified rice husks (ARHs), and a commonly used synthetic carrier, ceramsite (C), were used to support periphyton attachment and growth. The results show that the modified carriers have more hydrophilic groups, higher periphyton biomass, and autotrophic indices than the unmodified carriers. As a consequence, they promote the metabolic versatility of periphyton microbial communities. Thus, the periphyton attached to modified agro-wastes (DPS, APS, and ARH) grew in a stable and sustainable manner. This study suggests that modified PS and RH are effective and environmentally benign carriers that enhance periphyton activity and functionality. Development of periphytic carriers using agro-wastes is also a sustainable method of reusing these materials.
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Affiliation(s)
- Juanjuan Wan
- School of Civil Engineering, East China Jiaotong University, 808, Shuang Gang East Road, Nanchang, 330013, Jiangxi, China
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Sciences, Chinese Academy of Sciences, 71 East Beijing Road, Nanjing, 210008, Jiangsu, People's Republic of China
| | - Xuemei Liu
- School of Civil Engineering, East China Jiaotong University, 808, Shuang Gang East Road, Nanchang, 330013, Jiangxi, China.
| | - Philip G Kerr
- School of Biomedical Sciences, Charles Sturt University, Wagga Wagga, NSW, 2678, Australia
| | - Chenxi Wu
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrology, Chinese Academy of Sciences, Wuhan, 430072, China
| | - Yonghong Wu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Sciences, Chinese Academy of Sciences, 71 East Beijing Road, Nanjing, 210008, Jiangsu, People's Republic of China.
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