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Thammasittirong SNR, Thammasittirong A, Saechow S. Biocontrol and Growth Promotion of Rice by Pseudomonas aeruginosa SNTKU16: Beneficial Properties and Genomic Potential. J Microbiol Biotechnol 2025; 35:e2411067. [PMID: 39947704 PMCID: PMC11876016 DOI: 10.4014/jmb.2411.11067] [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: 11/27/2024] [Revised: 12/24/2024] [Accepted: 12/30/2024] [Indexed: 03/06/2025]
Abstract
Dirty panicle and sheath blight are important diseases that have the capacity to reduce rice productivity and grain quality. The bacterial strain SNTKU16 was isolated from soil in a sugarcane field and identified as Pseudomonas aeruginosa. This bacterium and its cell-free culture exhibited strong fungal antagonistic activity against a range of rice dirty panicle pathogens (Curvularia lunata, Fusarium semitectum, and Helminthosporium oryzae) and a sheath blight pathogen (Rhizoctonia solani). In addition to its role in disease control, the cell suspension and cell-free culture of this strain significantly enhanced rice seed germination and seedling growth. Furthermore, this bacterium exhibited various plant growth-promoting traits such as indole acetic acid, ammonia and siderophore productions, and phosphate solubilization. Genome analysis of SNTKU16 revealed its genetic potential for controlling plant diseases through direct antagonistic activities against pathogens, as well as indirect mechanisms, such as promoting plant growth. These capabilities suggest a multifaceted approach to disease management and plant growth promotion, making this strain an intriguing candidate for further exploration in sustainable agriculture and microbial biotechnology.
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Affiliation(s)
- Sutticha Na-Ranong Thammasittirong
- Department of Science and Bioinnovation, Faculty of Liberal Arts and Science, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom 73140, Thailand
- Microbial Biotechnology Unit, Faculty of Liberal Arts and Science, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom 73140, Thailand
| | - Anon Thammasittirong
- Department of Science and Bioinnovation, Faculty of Liberal Arts and Science, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom 73140, Thailand
- Microbial Biotechnology Unit, Faculty of Liberal Arts and Science, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom 73140, Thailand
| | - Sukanya Saechow
- Department of Science and Bioinnovation, Faculty of Liberal Arts and Science, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom 73140, Thailand
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Flores Clavo R, Suclupe-Campos DO, Castillo Rivadeneira L, Velez Chicoma RLDJ, Sánchez-Purihuamán M, Quispe Choque KG, Casado Peña FL, Binatti Ferreira M, Fantinatti Garboggini F, Carreño-Farfan C. Harnessing PGPRs from Asparagus officinalis to Increase the Growth and Yield of Zea mays L. MICROBIAL ECOLOGY 2025; 87:174. [PMID: 39836327 PMCID: PMC11750925 DOI: 10.1007/s00248-025-02490-8] [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: 10/13/2024] [Accepted: 01/04/2025] [Indexed: 01/22/2025]
Abstract
Microbial biotechnology employs techniques that rely on the natural interactions that occur in ecosystems. Bacteria, including rhizobacteria, play an important role in plant growth, providing crops with an alternative that can mitigate the negative effects of abiotic stress, such as those caused by saline environments, and increase the excessive use of chemical fertilizers. The present study examined the promoting potential of bacterial isolates obtained from the rhizospheric soil and roots of the Asparagus officinalis cultivar UF-157 F2 in Viru, la Libertad, Peru. This region has high soil salinity levels. Seventeen strains were isolated, four of which are major potential plant growth-promoting traits, and were characterized based on their morphological and molecular characteristics. These salt-tolerant bacteria were screened for phosphate solubilization, indole acetic acid, deaminase activity, and molecular characterization by 16S rDNA sequencing. Fifteen samples were from saline soils of A. officinalis plants in the northern coastal desert of San Jose, Lambayeque, Peru. The bacterial isolates were screened in a range of salt tolerances from 3 to 6%. Isolates 05, 08, 09, and 11 presented maximum salt tolerance, ammonium quantification, phosphate solubilization, and IAA production. The four isolates were identified by sequencing the amplified 16S rRNA gene and were found to be Enterobacter sp. 05 (OQ885483), Enterobacter sp. 08 (OQ885484), Pseudomonas sp. 09 (OR398704) and Klebsiella sp. 11 (OR398705). These microorganisms promoted the germination of Zea mays L. plants, increased the germination rates in the treatments with chemical fertilizers at 100% and 50%, and the PGPRs increased the height and length of the roots 40 days after planting. The beneficial effects of salt-tolerant PGPR isolates isolated from saline environments may lead to new species that can be used to overcome the detrimental effects of salt stress on plants. The biochemical response and inoculation of the three isolates prove the potential of these strains as sources of products to develop new compounds, confirming their potential as biofertilizers for saline environments.
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Affiliation(s)
- Rene Flores Clavo
- Engineering Department, Pontificia Universidad Catolica del Peru, Lima, Peru.
- Department of Biotechnology, Center for Research and Innovation in Multidisciplinary Active Sciences (CIICAM), Chiclayo, Peru.
| | | | | | | | | | - Kevin Gabriel Quispe Choque
- Department of Biotechnology, Center for Research and Innovation in Multidisciplinary Active Sciences (CIICAM), Chiclayo, Peru
- Academic Department of Biology, Universidad Nacional de San Agustín, Arequipa, Peru
| | - Fanny L Casado Peña
- Instituto de Ciencias Ómicas y Biotecnología Aplicada (ICOBA), Pontificia Universidad Catolica del Peru, Lima, Peru
| | - Milena Binatti Ferreira
- Division of Microbial Resources of Chemical, Biological and Agricultural Pluridisciplinary Research Center (CPQBA), Universidade Estadual de Campinas (UNICAMP), Campinas, Brazil
| | - Fabiana Fantinatti Garboggini
- Division of Microbial Resources of Chemical, Biological and Agricultural Pluridisciplinary Research Center (CPQBA), Universidade Estadual de Campinas (UNICAMP), Campinas, Brazil
| | - Carmen Carreño-Farfan
- Department of Biotechnology, Center for Research and Innovation in Multidisciplinary Active Sciences (CIICAM), Chiclayo, Peru
- Microbiology and Parasitology Department, Universidad Nacional Pedro Ruiz Gallo, Lambayeque, Peru
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Meng J, Zan F, Liu Z, Zhang Y, Qin C, Hao L, Wang Z, Wang L, Liu D, Liang S, Li H, Li H, Ding S. Genomics Analysis Reveals the Potential Biocontrol Mechanism of Pseudomonas aeruginosa QY43 against Fusarium pseudograminearum. J Fungi (Basel) 2024; 10:298. [PMID: 38667969 PMCID: PMC11050789 DOI: 10.3390/jof10040298] [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: 03/25/2024] [Revised: 04/11/2024] [Accepted: 04/19/2024] [Indexed: 04/28/2024] Open
Abstract
Fusarium crown rot (FCR) in wheat is a prevalent soil-borne disease worldwide and poses a significant threat to the production of wheat (Triticum aestivum) in China, with F. pseudograminearum being the dominant pathogen. Currently, there is a shortage of biocontrol resources to control FCR induced by F. pseudograminearum, along with biocontrol mechanisms. In this study, we have identified 37 strains of biocontrol bacteria displaying antagonistic effects against F. pseudograminearum from over 8000 single colonies isolated from soil samples with a high incidence of FCR. Among them, QY43 exhibited remarkable efficacy in controlling FCR. Further analysis identified the isolate QY43 as Pseudomonas aeruginosa, based on its colony morphology and molecular biology. In vitro, QY43 significantly inhibited the growth, conidial germination, and the pathogenicity of F. pseudograminearum. In addition, QY43 exhibited a broad spectrum of antagonistic activities against several plant pathogens. The genomics analysis revealed that there are genes encoding potential biocontrol factors in the genome of QY43. The experimental results confirmed that QY43 secretes biocontrol factor siderophores and pyocyanin. In summary, QY43 exhibits a broad spectrum of antagonistic activities and the capacity to produce diverse biocontrol factors, thereby showing substantial potential for biocontrol applications to plant disease.
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Affiliation(s)
- Jiaxing Meng
- College of Plant Protection, Henan Agricultural University, Zhengzhou 450046, China; (J.M.); (F.Z.); (Z.L.); (Y.Z.); (C.Q.); (L.H.); (Z.W.); (L.W.); (H.L.)
| | - Feifei Zan
- College of Plant Protection, Henan Agricultural University, Zhengzhou 450046, China; (J.M.); (F.Z.); (Z.L.); (Y.Z.); (C.Q.); (L.H.); (Z.W.); (L.W.); (H.L.)
| | - Zheran Liu
- College of Plant Protection, Henan Agricultural University, Zhengzhou 450046, China; (J.M.); (F.Z.); (Z.L.); (Y.Z.); (C.Q.); (L.H.); (Z.W.); (L.W.); (H.L.)
| | - Yuan Zhang
- College of Plant Protection, Henan Agricultural University, Zhengzhou 450046, China; (J.M.); (F.Z.); (Z.L.); (Y.Z.); (C.Q.); (L.H.); (Z.W.); (L.W.); (H.L.)
| | - Cancan Qin
- College of Plant Protection, Henan Agricultural University, Zhengzhou 450046, China; (J.M.); (F.Z.); (Z.L.); (Y.Z.); (C.Q.); (L.H.); (Z.W.); (L.W.); (H.L.)
| | - Lingjun Hao
- College of Plant Protection, Henan Agricultural University, Zhengzhou 450046, China; (J.M.); (F.Z.); (Z.L.); (Y.Z.); (C.Q.); (L.H.); (Z.W.); (L.W.); (H.L.)
| | - Zhifang Wang
- College of Plant Protection, Henan Agricultural University, Zhengzhou 450046, China; (J.M.); (F.Z.); (Z.L.); (Y.Z.); (C.Q.); (L.H.); (Z.W.); (L.W.); (H.L.)
| | - Limin Wang
- College of Plant Protection, Henan Agricultural University, Zhengzhou 450046, China; (J.M.); (F.Z.); (Z.L.); (Y.Z.); (C.Q.); (L.H.); (Z.W.); (L.W.); (H.L.)
| | - Dongmei Liu
- Institute of Quality Standards and Testing Technology for Agro-Products, Henan Academy of Agricultural Sciences, Zhengzhou 450002, China;
| | - Shen Liang
- Horticulture Research Institute, Henan Academy of Agricultural Sciences, Zhengzhou 450002, China;
| | - Honglian Li
- College of Plant Protection, Henan Agricultural University, Zhengzhou 450046, China; (J.M.); (F.Z.); (Z.L.); (Y.Z.); (C.Q.); (L.H.); (Z.W.); (L.W.); (H.L.)
- National Key Laboratory of Wheat and Maize Crop Science, Zhengzhou 450046, China
| | - Haiyang Li
- College of Plant Protection, Henan Agricultural University, Zhengzhou 450046, China; (J.M.); (F.Z.); (Z.L.); (Y.Z.); (C.Q.); (L.H.); (Z.W.); (L.W.); (H.L.)
| | - Shengli Ding
- College of Plant Protection, Henan Agricultural University, Zhengzhou 450046, China; (J.M.); (F.Z.); (Z.L.); (Y.Z.); (C.Q.); (L.H.); (Z.W.); (L.W.); (H.L.)
- National Key Laboratory of Wheat and Maize Crop Science, Zhengzhou 450046, China
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Shi L, Zhu X, Qian T, Du J, Du Y, Ye J. Mechanism of Salt Tolerance and Plant Growth Promotion in Priestia megaterium ZS-3 Revealed by Cellular Metabolism and Whole-Genome Studies. Int J Mol Sci 2023; 24:15751. [PMID: 37958734 PMCID: PMC10647267 DOI: 10.3390/ijms242115751] [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: 08/27/2023] [Revised: 10/20/2023] [Accepted: 10/26/2023] [Indexed: 11/15/2023] Open
Abstract
Approximately one-third of agricultural land worldwide is affected by salinity, which limits the productivity and sustainability of crop ecosystems. Plant-growth-promoting rhizobacteria (PGPR) are a potential solution to this problem, as PGPR increases crop yield through improving soil fertility and stress resistance. Previous studies have shown that Priestia megaterium ZS-3(ZS-3) can effectively help plants tolerate salinity stress. However, how ZS-3 regulates its metabolic adaptations in saline environments remains unclear. In this study, we monitored the metabolic rearrangement of compatibilisers in ZS-3 and combined the findings with genomic data to reveal how ZS-3 survives in stressful environments, induces plant growth, and tolerates stress. The results showed that ZS-3 tolerated salinity levels up to 9%. In addition, glutamate and trehalose help ZS-3 adapt to osmotic stress under low NaCl stress, whereas proline, K+, and extracellular polysaccharides regulate the osmotic responses of ZS-3 exposed to high salt stress. Potting experiments showed that applying the ZS-3 strain in saline and neutral soils could effectively increase the activities of soil acid phosphatase, urease, and invertase in both soils, thus improving soil fertility and promoting plant growth. In addition, strain ZS-3-GFP colonised the rhizosphere and leaves of Cinnamomum camphora well, as confirmed by confocal microscopy and resistance plate count analysis. Genomic studies and in vitro experiments have shown that ZS-3 exhibits a variety of beneficial traits, including plant-promoting, antagonistic, and other related traits (such as resistance to saline and heavy metal stress/tolerance, amino acid synthesis and transport, volatile compound synthesis, micronutrient utilisation, and phytohormone biosynthesis/regulatory potential). The results support that ZS-3 can induce plant tolerance to abiotic stresses. These data provide important clues to further reveal the interactions between plants and microbiomes, as well as the mechanisms by which micro-organisms control plant health.
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Affiliation(s)
- Lina Shi
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing 210037, China; (L.S.); (X.Z.); (T.Q.); (J.D.); (Y.D.)
- Jiangsu Key Laboratory for Prevention and Management of Invasive Species, Nanjing Forestry University, Nanjing 210037, China
| | - Xiaoxia Zhu
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing 210037, China; (L.S.); (X.Z.); (T.Q.); (J.D.); (Y.D.)
- Jiangsu Key Laboratory for Prevention and Management of Invasive Species, Nanjing Forestry University, Nanjing 210037, China
| | - Ting Qian
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing 210037, China; (L.S.); (X.Z.); (T.Q.); (J.D.); (Y.D.)
- Jiangsu Key Laboratory for Prevention and Management of Invasive Species, Nanjing Forestry University, Nanjing 210037, China
| | - Jiazhou Du
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing 210037, China; (L.S.); (X.Z.); (T.Q.); (J.D.); (Y.D.)
- Jiangsu Key Laboratory for Prevention and Management of Invasive Species, Nanjing Forestry University, Nanjing 210037, China
| | - Yuanyuan Du
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing 210037, China; (L.S.); (X.Z.); (T.Q.); (J.D.); (Y.D.)
- Jiangsu Key Laboratory for Prevention and Management of Invasive Species, Nanjing Forestry University, Nanjing 210037, China
| | - Jianren Ye
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing 210037, China; (L.S.); (X.Z.); (T.Q.); (J.D.); (Y.D.)
- Jiangsu Key Laboratory for Prevention and Management of Invasive Species, Nanjing Forestry University, Nanjing 210037, China
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Genome insights into the plant growth-promoting bacterium Saccharibacillus brassicae ATSA2 T. AMB Express 2023; 13:9. [PMID: 36680648 PMCID: PMC9867790 DOI: 10.1186/s13568-023-01514-1] [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: 07/21/2022] [Accepted: 01/09/2023] [Indexed: 01/22/2023] Open
Abstract
Endophytes can facilitate the improvement of plant growth and health in agriculturally important crops, yet their genomes and secondary metabolites remain largely unexplored. We previously isolated Saccharibacillus brassicae strain ATSA2T from surface-sterilized seeds of kimchi cabbage and represented a novel species of the genus Saccharibacillus. In this study, we evaluated the plant growth-promoting (PGP) effect of strain ATSA2T in kimchi cabbage, bok choy, and pepper plants grown in soils. We found a significant effect on the shoot and root biomass, and chlorophyll contents following strain ATSA2T treatment. Strain ATSA2T displayed PGP traits such as indole acetic acid (IAA, 62.9 μg/mL) and siderophore production, and phosphate solubilization activity. Furthermore, genome analysis of this strain suggested the presence of gene clusters involved in iron acquisition (fhuABD, afuABC, fbpABC, and fepCDG) and phosphate solubilization (pstABCHS, phoABHLU, and phnCDEP) and other phytohormone biosynthesis genes, including indole-3-acetic acid (trpABCDEFG), in the genome. Interestingly, the secondary metabolites cerecidin, carotenoid, siderophore (staphylobactin), and bacillaene underlying plant growth promotion were found in the whole genome via antiSMASH analysis. Overall, physiological testing and genome analysis data provide comprehensive insights into plant growth-promoting mechanisms, suggesting the relevance of strain ATSA2T in agricultural biotechnology.
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