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Elarabi NI, Abdelhadi AA, Nassrallah AA, Mohamed MSM, Abdelhaleem HAR. Biodegradation of isoproturon by Escherichia coli expressing a Pseudomonas putida catechol 1,2-dioxygenase gene. AMB Express 2023; 13:101. [PMID: 37751014 PMCID: PMC10522561 DOI: 10.1186/s13568-023-01609-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2023] [Accepted: 09/15/2023] [Indexed: 09/27/2023] Open
Abstract
The phenylurea herbicides are persistent in soil and water, necessitating the creation of methods for removing them from the environment. This study aimed to examine the soil microbial diversity, searching for local bacterial isolates able to efficiently degrade the phenylurea herbicide isoproturon, 3-(4-isopropylphenyl)-1, 1-dimethylurea (IPU). The best isolates able to effectively degrade IPU were selected, characterized, and identified as Pseudomonas putida and Acinetobacter johnsonii. The catechol 1, 2-dioxygenase enzyme's catA gene was amplified, cloned, and expressed in E. coli M15. The Expressed E. coli showed high degradation efficiency (44.80%) as analyzed by HPLC after 15 days of inoculation in comparison to P. putida (21.60%). The expression of the catA gene in P. putida and expressed E. coli was measured using quantitative polymerase chain reaction (qPCR). The results displayed a significant increase in the mRNA levels of the catA gene by increasing the incubation time with IPU. Hydrophilic interaction chromatography (HILIC) mass spectrometry analysis revealed that three intermediate metabolites, 1-(4-isopropylphenyl)-3-methylurea (MDIPU), 4-Isopropylaniline (4-IA) and 1-(4-isopropylphenyl) urea (DDIPU) were generated by both P. putida and expressed E. coli. In addition, IPU-induced catA activity was detected in both P. putida and expressed E. coli. The supernatant of both P. putida and expressed E. coli had a significant influence on weed growth. The study clearly exhibited that P. putida and expressed E. coli were capable of metabolizing IPU influentially and thus could be utilized for bioremediation and biodegradation technology development.
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Affiliation(s)
- Nagwa I Elarabi
- Department of Genetics, Faculty of Agriculture, Cairo University, Giza, 12613, Egypt
| | - Abdelhadi A Abdelhadi
- Department of Genetics, Faculty of Agriculture, Cairo University, Giza, 12613, Egypt.
| | - Amr A Nassrallah
- Department of Biochemistry, Faculty of Agriculture, Cairo University, Giza, 12613, Egypt
- Basic Applied Science institute, Egypt-Japan University of Science and Technology (E-JUST), P.O. Box 179, New Borg El- Arab City, 21934, Alexandria, Egypt
| | - Mahmoud S M Mohamed
- Botany and Microbiology Department, Faculty of Science, Cairo University, Giza, 12613, Egypt
| | - Heba A R Abdelhaleem
- College of Biotechnology, Misr University for Science and Technology (MUST), 6(th) October City, Egypt
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Du B, Xuan H, Geng L, Li W, Zhang J, Xiang W, Liu R, Shu C. Microflora for improving the Auricularia auricula spent mushroom substrate for Protaetia brevitarsis production. iScience 2022; 25:105307. [PMID: 36300006 PMCID: PMC9589201 DOI: 10.1016/j.isci.2022.105307] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2022] [Revised: 09/01/2022] [Accepted: 09/30/2022] [Indexed: 11/16/2022] Open
Abstract
Mushroom cultivation is a sustainable agricultural waste utilization method, but the lack of high-value utilization of the produced spent mushroom substrate (SMS) has hindered the development of mushroom cultivation-based circular agricultural systems. Conversion and utilization of SMS via Protaetia brevitarsis larvae (PBL) have proven to be a high-value AASMS utilization strategy. However, Auricularia auricula SMS (AASMS), which contains woodchips, is less palatable and digestible for PBL. To solve this problem, in this investigation, we screened out microflora (MF) for AASMS fermentation by comparing the fermentation performance as well as the effect on PBL feed intake, weight gain, and AASMS phytotoxic compound removal efficiency. In addition, by bacterial community analysis, the genera Luteimonas, Moheibacter, and Pseudoxanthomonas were predicted to be functional bacteria for AASMS fermentation and contribute to palatability and digestibility improvement. Larvae frass microflora can ferment Auricularia auricula spent mushroom substrate The fermentation can improve feed intake, weight gain, and phytotoxic removal efficiency The genera Luteimonas, Moheibacter, and Pseudoxanthomonas were functional bacteria
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Affiliation(s)
- Baohai Du
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P. R. China,Northeast Agricultural University, HarBin 150030, P. R. China
| | - Huina Xuan
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P. R. China,State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Key Laboratory of Biopesticide and Chemical Biology of Ministry of Education & Ministerial and Provincial Joint Innovation Centre for Safety Production of Cross-Strait Crops & Biopesticide Research Center, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, P. R. China
| | - Lili Geng
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P. R. China
| | - Weihang Li
- Northeast Agricultural University, HarBin 150030, P. R. China
| | - Jie Zhang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P. R. China
| | - Wensheng Xiang
- Northeast Agricultural University, HarBin 150030, P. R. China
| | - Rongmei Liu
- Northeast Agricultural University, HarBin 150030, P. R. China,Corresponding author
| | - Changlong Shu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P. R. China,Corresponding author
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Sarkar D, Rakshit A. Safeguarding the fragile rice–wheat ecosystem of the Indo-Gangetic Plains through bio-priming and bioaugmentation interventions. FEMS Microbiol Ecol 2020; 96:5956486. [DOI: 10.1093/femsec/fiaa221] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2020] [Accepted: 11/03/2020] [Indexed: 02/06/2023] Open
Abstract
ABSTRACT
Managing agrochemicals for crop production always remains a classic challenge for us to maintain the doctrine of sustainability. Intensively cultivated rice–wheat production system without using the organics (organic amendments, manures, biofertilizers) has a tremendous impact on soil characteristics (physical, chemical, and biological), environmental quality (water, air), input use efficiency, ecosystem biodiversity, and nutritional security. Consequently, crop productivity is found to be either decreasing or stagnating. Rice–wheat cropping system is the major agroecosystem in India feeding millions of people, which is widely practiced in the Indo-Gangetic Plains (IGP). Microorganisms as key players in the soil system can restore the degraded ecosystems using a variety of mechanisms. Here, we propose how delivery systems (i.e., the introduction of microbes in seed, soil, and crop through bio-priming and/or bioaugmentation) can help us in eradicating food scarcity and maintaining sustainability without compromising the ecosystem services. Both bio-priming and bioaugmentation are efficient techniques to utilize bio-agents judiciously for successful crop production by enhancing phytohormones, nutrition status, and stress tolerance levels in plants (including mitigating of abiotic stresses and biocontrol of pests/pathogens). However, there are some differences in application methods, and the latter one also includes the aspects of bioremediation or soil detoxification. Overall, we have highlighted different perspectives on applying biological solutions in the IGP to sustain the dominant (rice–wheat) cropping sequence.
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Affiliation(s)
- Deepranjan Sarkar
- Department of Soil Science and Agricultural Chemistry, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi 221005, Uttar Pradesh, India
| | - Amitava Rakshit
- Department of Soil Science and Agricultural Chemistry, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi 221005, Uttar Pradesh, India
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Du P, Wu X, Xu J, Dong F, Liu X, Zheng Y. Effects of trifluralin on the soil microbial community and functional groups involved in nitrogen cycling. JOURNAL OF HAZARDOUS MATERIALS 2018; 353:204-213. [PMID: 29674095 DOI: 10.1016/j.jhazmat.2018.04.012] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/02/2017] [Revised: 03/13/2018] [Accepted: 04/04/2018] [Indexed: 06/08/2023]
Abstract
Large amounts of trifluralin are applied each year for weed control; however, its effects on soil microbial communities and functions are unknown. Two agricultural soils, one silty loam and one silty clay were spiked with TFL (0, 0.84, 8.4, and 84 mg kg-1) and studied the effects using a laboratory microcosm approach. The half-lives were 44.19-61.83 d in all cases. Bacterial abundance increased 1.12-5.56 times by TFL, but the diversity decreased. From the next-generation sequencing results, TFL altered the bacterial community structure, which initially diverged from the control community structure, then recovered, and then diverged again. Linear discriminant analysis effect size indicated that Sphingomonas and Xanthomonadaceae were the predominant species on day 7 and 15 in TFL treatments. N2-fixing bacteria were initially increased, then decreased, and then recovered, and it was positively correlated with NH4+-N content. Compared with the control, ammonia-oxidizing bacteria were decreased by 25.51-92.63%, ammonia-oxidizing archaea were decreased by 17.12-85.21% (except day 7), and the NO3--N concentration was also inhibited. In contrast to bacteria, fungal abundance was inhibited without any observable effects on fungal diversity or community structure. These results suggest that TFL impacts soil bacterial community and alters functional microorganisms involved in soil N processing.
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Affiliation(s)
- Pengqiang Du
- College of Chemistry, Central China Normal University, No. 152 Luoyu Road, Wuhan, 430079, China; State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, No. 2 Yuanmingyuan West Road, Beijing, 100193, China
| | - Xiaohu Wu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, No. 2 Yuanmingyuan West Road, Beijing, 100193, China
| | - Jun Xu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, No. 2 Yuanmingyuan West Road, Beijing, 100193, China
| | - Fengshou Dong
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, No. 2 Yuanmingyuan West Road, Beijing, 100193, China.
| | - Xingang Liu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, No. 2 Yuanmingyuan West Road, Beijing, 100193, China.
| | - Yongquan Zheng
- College of Chemistry, Central China Normal University, No. 152 Luoyu Road, Wuhan, 430079, China; State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, No. 2 Yuanmingyuan West Road, Beijing, 100193, China.
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