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Alloun W, Berkani M, Shavandi A, Beddiar A, Pellegrini M, Garzia M, Lakhdari D, Ganachari SV, Aminabhavi TM, Vasseghian Y, Muddapur U, Chaouche NK. Harnessing artificial intelligence-driven approach for enhanced indole-3-acetic acid from the newly isolated Streptomyces rutgersensis AW08. ENVIRONMENTAL RESEARCH 2024; 252:118933. [PMID: 38642645 DOI: 10.1016/j.envres.2024.118933] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/30/2023] [Revised: 03/28/2024] [Accepted: 04/12/2024] [Indexed: 04/22/2024]
Abstract
Indole-3-acetic acid (IAA) derived from Actinobacteria fermentations on agro-wastes constitutes a safer and low-cost alternative to synthetic IAA. This study aims to select a high IAA-producing Streptomyces-like strain isolated from Lake Oubeira sediments (El Kala, Algeria) for further investigations (i.e., 16S rRNA gene barcoding and process optimization). Subsequently, artificial intelligence-based approaches were employed to maximize IAA bioproduction on spent coffee grounds as high-value-added feedstock. The specificity was the novel application of the Limited-Memory Broyden-Fletcher-Goldfarb-Shanno Box (L-BFGS-B) optimization algorithm. The new strain AW08 was a significant producer of IAA (26.116 ± 0.61 μg/mL) and was identified as Streptomyces rutgersensis by 16S rRNA gene barcoding and phylogenetic inquiry. The empirical data involved the inoculation of AW08 in various cultural conditions according to a four-factor Box Behnken Design matrix (BBD) of Response surface methodology (RSM). The input parameters and regression equation extracted from the RSM-BBD were the basis for implementing and training the L-BFGS-B algorithm. Upon training the model, the optimal conditions suggested by the BBD and L-BFGS-B algorithm were, respectively, L-Trp (X1) = 0.58 %; 0.57 %; T° (X2) = 26.37 °C; 28.19 °C; pH (X3) = 7.75; 8.59; and carbon source (X4) = 30 %; 33.29 %, with the predicted response IAA (Y) = 152.8; 169.18 μg/mL). Our findings emphasize the potential of the multifunctional S. rutgersensis AW08, isolated and reported for the first time in Algeria, as a robust producer of IAA. Validation investigations using the bioprocess parameters provided by the L-BFGS-B and the BBD-RSM models demonstrate the effectiveness of AI-driven optimization in maximizing IAA output by 5.43-fold and 4.2-fold, respectively. This study constitutes the first paper reporting a novel interdisciplinary approach and providing insights into biotechnological advancements. These results support for the first time a reasonable approach for valorizing spent coffee grounds as feedstock for sustainable and economic IAA production from S. rutgersensis AW08.
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Affiliation(s)
- Wiem Alloun
- Laboratory of Mycology, Biotechnology and Microbial Activity, Department of Applied Biology, BP, 325 Aïn El Bey Road, Constantine 25017, Algeria; The BioMatter Lab, École Polytechnique de Bruxelles, Université Libre de Bruxelles (ULB), Avenue F.D. Roosevelt, 50-CP 165/61, 1050 Brussels, Belgium; Department of Life, Health and Environmental Sciences, University of L'Aquila, Coppito, 67100 L'Aquila, Italy
| | - Mohammed Berkani
- Biotechnology Laboratory, Higher National School of Biotechnology Taoufik KHAZNADAR, Nouveau Pôle universitaire Ali Mendjeli, BP. E66, Constantine, 25100, Algeria.
| | - Amin Shavandi
- The BioMatter Lab, École Polytechnique de Bruxelles, Université Libre de Bruxelles (ULB), Avenue F.D. Roosevelt, 50-CP 165/61, 1050 Brussels, Belgium
| | - Adlène Beddiar
- Department of Web Development and Artificial Intelligence, University of Mohammed Cherif Messaadia, Souk-Ahras, Algeria
| | - Marika Pellegrini
- Department of Life, Health and Environmental Sciences, University of L'Aquila, Coppito, 67100 L'Aquila, Italy
| | - Matteo Garzia
- Department of Life, Health and Environmental Sciences, University of L'Aquila, Coppito, 67100 L'Aquila, Italy
| | - Delloula Lakhdari
- Biotechnology Laboratory, Higher National School of Biotechnology Taoufik KHAZNADAR, Nouveau Pôle universitaire Ali Mendjeli, BP. E66, Constantine, 25100, Algeria; Research Center in Industrial Technologies CRTI, P.O. Box 64, Cheraga 16014, Algiers, Algeria
| | - Sharanabasava V Ganachari
- Center for Energy and Environment, School of Advanced Sciences, KLE Technological University, Hubballi, Karnataka, 580 031, India
| | - Tejraj M Aminabhavi
- Center for Energy and Environment, School of Advanced Sciences, KLE Technological University, Hubballi, Karnataka, 580 031, India; School of Engineering, University of Petroleum and Energy Studies (UPES) Uttarakhand, Dehradun, 248 007, India; Korea University, Seoul, South Korea.
| | - Yasser Vasseghian
- Department of Chemistry, Soongsil University, Seoul, 06978, South Korea; University Centre for Research & Development, Department of Mechanical Engineering, Chandigarh University, Gharuan, Mohali, Punjab 140413, India; The University of Johannesburg, Department of Chemical Engineering, P.O. Box 17011, Doornfontein, 2088, South Africa.
| | - Uday Muddapur
- Department of Biotechnology, KLE Technological University, Hubballi, Karnataka, 580 031, India
| | - Noreddine Kacem Chaouche
- Laboratory of Mycology, Biotechnology and Microbial Activity, Department of Applied Biology, BP, 325 Aïn El Bey Road, Constantine 25017, Algeria
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Sharma A, Singh SK, Maurya N, Tripathi SM, Jaiswal S, Agrawal M, Sundaram S. Restoration of the soil fertility under Cr(VI) and artificial drought condition by the utilization of plant growth-promoting Bacillus spp. SSAU2. Int Microbiol 2024:10.1007/s10123-024-00528-4. [PMID: 38730211 DOI: 10.1007/s10123-024-00528-4] [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: 03/07/2024] [Revised: 04/13/2024] [Accepted: 05/06/2024] [Indexed: 05/12/2024]
Abstract
The study explores the potential of an indigenous halo-tolerant microbe identified as Bacillus spp. SSAU-2 in enhancing soil fertility and promoting plant growth for sustainable agricultural practices under the influence of multiple abiotic stresses such as Cr(VI), high salinity, and artificial drought condition. The study investigated various factors influencing IAA synthesis by SSAU-2, such as pH (5 to 11), salinity (10 to 50 g/L), tryptophan concentration (0.5 to 1%), carbon (mannitol mand lactose), and nitrogen sources (peptone and tryptone). The highest IAA concentration was observed at pH 10 (1.695 mg/ml) and pH 11 (0.782 mg/ml). IAA synthesis was optimized at a salinity level of 30 g/l, with lower and higher salinity levels resulting in decreased IAA concentrations. Notably, the presence of mannitol and lactose significantly augmented IAA synthesis, while glucose and sucrose had inhibitory effects. Furthermore, peptone and tryptone played a pivotal role in enhancing IAA synthesis, while ammonium chloride exerted an inhibitory influence. SSAU-2 showed a diverse array of capabilities, including the synthesis of gibberellins, extracellular polymeric substances, siderophores, and hydrogen cyanide along with nitrogen fixation and ammonia production. The microbe could efficiently tolerate 45% PEG-6000 concentration and effectively produce IAA in 15% PEG concentration. It could also tolerate high concentration of Cr(VI) and synthesize IAA even in 50 ppm Cr(VI). The findings of this study provide valuable insights into harnessing the potential of indigenous microorganisms to promote plant growth, enhance soil fertility, and establish sustainable agricultural practices essential for restoring the health of ecosystems.
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Affiliation(s)
- Abhijeet Sharma
- Centre of Biotechnology, University of Allahabad, Uttar Pradesh, Prayagraj, India, 211002
| | - Shailendra Kumar Singh
- Department of Biochemistry, S. S. Khanna Girls' Degree College, Uttar Pradesh, Prayagraj, India, 211002
| | - Neetu Maurya
- Centre of Biotechnology, University of Allahabad, Uttar Pradesh, Prayagraj, India, 211002
| | - Shashank Mani Tripathi
- Centre of Biotechnology, University of Allahabad, Uttar Pradesh, Prayagraj, India, 211002
| | - Saumya Jaiswal
- Centre of Biotechnology, University of Allahabad, Uttar Pradesh, Prayagraj, India, 211002
| | - Manshi Agrawal
- Centre of Biotechnology, University of Allahabad, Uttar Pradesh, Prayagraj, India, 211002
| | - Shanthy Sundaram
- Centre of Biotechnology, University of Allahabad, Uttar Pradesh, Prayagraj, India, 211002.
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Sarkar R, Mukherjee S, Pradhan B, Chatterjee G, Goswami R, Ali MN, Ray SS. Molecular characterization of vermicompost-derived IAA-releasing bacterial isolates and assessment of their impact on the root improvement of banana during primary hardening. World J Microbiol Biotechnol 2023; 39:351. [PMID: 37864056 DOI: 10.1007/s11274-023-03809-8] [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: 05/31/2023] [Accepted: 10/13/2023] [Indexed: 10/22/2023]
Abstract
The hardening step of micropropagation is crucial to make the in vitro raised plants mature and further enhancing their survivability in the external environment. Auxin regulates various root physiological parameters in plant systems. Therefore, the present study aimed to assess the impact of three vermicompost-derived IAA-releasing microbial strains, designated S1, S2, and S3, as biofertilizers on in vitro raised banana plantlets during primary hardening. The High-Performance Thin-Layer Chromatography (HPTLC) analysis of these strains revealed a higher IAA content for S1 and S2 than that of S3 after 144 h of incubation. In total, seven different treatments were applied to banana plantlets, and significant variations were observed in all plant growth parameters for all treatments except autoclaved cocopeat (100%) mixed with autoclaved vermicompost (100%) at a 1:1 ratio. Among these treatments, the application of S3 biofertilizer: autoclaved cocopeat (1:1), followed by S2 biofertlizer: autoclaved cocopeat (1:1), was found to be better than other treatments for root numbers per plant, root length per plant, root volume, and chlorophyll content. These findings have confirmed the beneficial effects of microbial strains on plant systems and propose a link between root improvement and bacterial auxin. Further, these strains were identified at the molecular level as Bacillus sp. As per our knowledge, this is the first report of Bacillus strains isolated from vermicompost and applied as biofertilizer along with cocopeat for the primary hardening of banana. This unique approach may be adopted to improve the quality of plants during hardening, which increases their survival under abiotic stresses.
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Affiliation(s)
- Rajdeep Sarkar
- Division of Agricultural Biotechnology, School of Agriculture and Rural Development, Ramakrishna Mission Vivekananda Educational and Research Institute, Ramakrishna Mission Ashrama, Narendrapur, Kolkata, India
| | - Shibasis Mukherjee
- Division of Agricultural Biotechnology, School of Agriculture and Rural Development, Ramakrishna Mission Vivekananda Educational and Research Institute, Ramakrishna Mission Ashrama, Narendrapur, Kolkata, India
| | - Bhubaneswar Pradhan
- Division of Agricultural Biotechnology, School of Agriculture and Rural Development, Ramakrishna Mission Vivekananda Educational and Research Institute, Ramakrishna Mission Ashrama, Narendrapur, Kolkata, India
| | - Gautam Chatterjee
- Division of Agricultural Biotechnology, School of Agriculture and Rural Development, Ramakrishna Mission Vivekananda Educational and Research Institute, Ramakrishna Mission Ashrama, Narendrapur, Kolkata, India
| | - Rupak Goswami
- Division of Rural Development, School of Agriculture and Rural Development, Ramakrishna Mission Vivekananda Educational and Research Institute, Ramakrishna Mission Ashrama, Narendrapur, Kolkata, India
| | - Md Nasim Ali
- Department of Agricultural Biotechnology, Faculty of Agriculture, Bidhan Chandra Krishi Viswavidyalaya, Mohanpur, India
| | - Syandan Sinha Ray
- Division of Agricultural Biotechnology, School of Agriculture and Rural Development, Ramakrishna Mission Vivekananda Educational and Research Institute, Ramakrishna Mission Ashrama, Narendrapur, Kolkata, India.
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Khianngam S, Meetum P, Chiangmai PN, Tanasupawat S. Identification and Optimisation of Indole-3-Acetic Acid Production of Endophytic Bacteria and Their Effects on Plant Growth. Trop Life Sci Res 2023; 34:219-239. [PMID: 37065794 PMCID: PMC10093774 DOI: 10.21315/tlsr2023.34.1.12] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2022] [Accepted: 08/24/2022] [Indexed: 04/18/2023] Open
Abstract
Indole-3-acetic acid (IAA) is one of the most physiologically active auxins produced by rhizobacteria and is potentially applied for agriculture. Two endophytic bacteria, VR2 and MG9, isolated from the root of Chrysopogon zizanioides (L.) collected at Cha-Am, and the leaf of Bruguiera cylindrica (L.) Blume collected from a mangrove forest at Ban Laem, Phetchaburi Province, Thailand, were taxonomic characterised based on their phenotypic characteristics and 16S rRNA gene analysis. Strain VR2 was closely related to Enterobacter hormaechei CIP 103441T (99.6% similarity), while strain MG9 was closely related to Bacillus aryabhattai B8W22T (99.9% similarity). Consequently, they were identified as Enterobacter hormaechei and Bacillus aryabhattai, respectively. The IAA production of VR2 and MG9 strains are determined and applied to rice seeds for their root and shoot germination. Strains VR2 and MG9 greatly produced a yield of IAA, 246.00 and 195.55 μg/mL in 1,000 μg/mL of L-tryptophan at pH 6 for 48 h. They showed no significant differences in IAA to root and shoot development. However, the bacterial IAA exhibited potential nearby synthetic IAA, which had a significant effect compared to the control. IAA produced from these two strains might preferably trim down the use of synthetic IAA and could contribute to sustainable agriculture.
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Affiliation(s)
- Saowapar Khianngam
- Faculty of Animal Sciences and Agricultural Technology, Silpakorn University, Phetchaburi Information Technology Campus, Phetchaburi 76120, Thailand
| | - Pimjai Meetum
- Faculty of Animal Sciences and Agricultural Technology, Silpakorn University, Phetchaburi Information Technology Campus, Phetchaburi 76120, Thailand
| | - Pantipa Na Chiangmai
- Faculty of Animal Sciences and Agricultural Technology, Silpakorn University, Phetchaburi Information Technology Campus, Phetchaburi 76120, Thailand
| | - Somboon Tanasupawat
- Department of Biochemistry and Microbiology, Faculty of Pharmaceutical Sciences, Chulalongkorn University, Bangkok 10330, Thailand
- Corresponding author:
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New Bacillus subtilis Strains Isolated from Prosopis glandulosa Rhizosphere for Suppressing Fusarium Spp. and Enhancing Growth of Gossypium hirsutum L. BIOLOGY 2022; 12:biology12010073. [PMID: 36671765 PMCID: PMC9855134 DOI: 10.3390/biology12010073] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/08/2022] [Revised: 12/27/2022] [Accepted: 12/29/2022] [Indexed: 01/04/2023]
Abstract
Rhizobacteria from desert plants can alleviate biotic stress and suppress plant diseases, and consequently can enhance plant growth. Therefore, the current study was performed to isolate and identify Prosopis glandulosa-associating rhizobacteria based on their antagonistic activity against Fusarium species and plant growth-promoting properties. Three bacterial isolates were identified as Bacillus subtilis: LDA-1, LDA-2, and LDA-3. The molecular analysis suggests the biosynthesis of the bacteriocins subtilisin and subtilosin, as well as the lipopeptide iturin, by these strains. In addition, the antagonistic study by dual-culture assay showed a high efficacy of all B. subtilis strains against phytopathogenic fungi (Fusarium nygamai, F. equisseti, F. solani, F. solani ICADL1, and F. oxysporum ICADL2) with inhibition percentages ranging from 43.3 to 83.5% in comparison to the control. Moreover, atomic force microscopy (AFM) analysis showed significant differences in the cell wall topography of the F. solani ICADL1 among the treated mycelia and untreated control. As a result, these three B. subtilis strains were used as bioinoculants for cotton seedlings infected by F. solani ICADL1 in pot trials, and the results revealed that the bacterial inoculations as an individual or combined with F. solani ICADL1 significantly improved cotton root and stem length, lateral roots, indole acetic acid (IAA), and gibberellic acid (GA3) contents, as well as increased antioxidants, flavonoids, and phenols in comparison to those obtained from healthy and infected control plants. In conclusion, the three bacterial strains of B. subtilis (i.e., LDA-1, LDA-2, and LDA-3) are considered promising tools as biocontrol agents for F. solani and cotton growth promoters, and consequently can be used as bio-ertilizer in sustainable agriculture systems.
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Dobrzyński J, Jakubowska Z, Dybek B. Potential of Bacillus pumilus to directly promote plant growth. Front Microbiol 2022; 13:1069053. [PMID: 36620067 PMCID: PMC9810630 DOI: 10.3389/fmicb.2022.1069053] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2022] [Accepted: 11/30/2022] [Indexed: 12/24/2022] Open
Abstract
Plant Growth-Promoting Bacteria (PGPB) are a promising alternative to conventional fertilization. One of the most interesting PGPB strains, among the spore-forming bacteria of the phylum Firmicutes, is Bacillus pumilus. It is a bacterial species that inhabits a wide range of environments and shows resistance to abiotic stresses. So far, several PGPB strains of B. pumilus have been described, including B. pumilus LZP02, B. pumilus JPVS11, B. pumilus TUAT-1, B. pumilus TRS-3, and B. pumilus EU927414. These strains have been shown to produce a wide range of phytohormones and other plant growth-promoting substances. Therefore, they can affect various plant properties, including biometric traits, substance content (amino acids, proteins, fatty acids), and oxidative enzymes. Importantly, based on a study with B. pumilus WP8, it can be concluded that this bacterial species stimulates plant growth when the native microbiota of the inoculated soil is altered. However, there is still a lack of research with deeper insights into the structure of the native microbial community (after B. pumilus application), which would provide a better understanding of the functioning of this bacterial species in the soil and thus increase its effectiveness in promoting plant growth.
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