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Luna-Bulbarela A, Romero-Gutiérrez MT, Tinoco-Valencia R, Ortiz E, Martínez-Romero ME, Galindo E, Serrano-Carreón L. Response of Bacillus velezensis 83 to interaction with Colletotrichum gloeosporioides resembles a Greek phalanx-style formation: A stress resistant phenotype with antibiosis capacity. Microbiol Res 2024; 280:127592. [PMID: 38199003 DOI: 10.1016/j.micres.2023.127592] [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: 10/13/2023] [Revised: 12/06/2023] [Accepted: 12/20/2023] [Indexed: 01/12/2024]
Abstract
Plant growth-promoting rhizobacteria, such as Bacillus spp., establish beneficial associations with plants and may inhibit the growth of phytopathogenic fungi. However, these bacteria are subject to multiple biotic stimuli from their competitors, causing stress and modifying their development. This work is a study of an in vitro interaction between two model microorganisms of socioeconomic relevance, using population dynamics and transcriptomic approaches. Co-cultures of Bacillus velezensis 83 with the phytopathogenic fungus Colletotrichum gloeosporioides 09 were performed to evaluate the metabolic response of the bacteria under conditions of non-nutritional limitation. The bacterial response was associated with the induction of a stress-resistant phenotype, characterized by a lower specific growth rate, but with antimicrobial production capacity. About 12% of co-cultured B. velezensis 83 coding sequences were differentially expressed, including the up-regulation of the general stress response (sigB regulon), and the down-regulation of alternative carbon sources catabolism (glucose preference). Defense strategies in B. velezensis are a determining factor in order to preserve the long-term viability of its population. Mostly, the presence of the fungus does not affect the expression of antibiosis genes, except for those corresponding to surfactin/bacillomycin D production. Indeed, the up-regulation of antibiosis genes expression is associated with bacterial growth, regardless of the presence of the fungus. This behavior in B. velezensis 83 resembles the strategy used by the classical Greek phalanx formation: by sacrificing growth rate and metabolic versatility, resources can be redistributed to defense (stress resistant phenotype) while maintaining the attack (antibiosis capacity). The presented results are the first characterization of the molecular phenotype at the transcriptome level of a biological control agent under biotic stress caused by a phytopathogen without nutrient limitation.
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Affiliation(s)
- Agustín Luna-Bulbarela
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Av. Universidad #2001, Col. Chamilpa, CP 62210 Cuernavaca, Morelos, Mexico; Agro&Biotecnia S. de R.L. de C.V., Limones 8, Amate Redondo, 62334 Cuernavaca, Morelos, Mexico
| | - María Teresa Romero-Gutiérrez
- Technological Innovation Department, Tlajomulco University Center, University of Guadalajara, 45641 Tlajomulco de Zúñiga, Jalisco, Mexico; Translational Bioengineering Department, Exact Sciences and Engineering University Center, Universidad de Guadalajara, Blvd. Marcelino García Barragán #1421, 44430 Guadalajara, Jalisco, Mexico
| | - Raunel Tinoco-Valencia
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Av. Universidad #2001, Col. Chamilpa, CP 62210 Cuernavaca, Morelos, Mexico
| | - Ernesto Ortiz
- Departamento de Medicina Molecular y Bioprocesos, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Av. Universidad #2001, Col. Chamilpa, CP 62210 Cuernavaca, Morelos, Mexico
| | - María Esperanza Martínez-Romero
- Ecología Genómica, Centro de Ciencias Genómicas, Universidad Nacional Autónoma de México, Av. Universidad s/n, Col. Chamilpa, CP 62210 Cuernavaca, Morelos, Mexico
| | - Enrique Galindo
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Av. Universidad #2001, Col. Chamilpa, CP 62210 Cuernavaca, Morelos, Mexico; Agro&Biotecnia S. de R.L. de C.V., Limones 8, Amate Redondo, 62334 Cuernavaca, Morelos, Mexico
| | - Leobardo Serrano-Carreón
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Av. Universidad #2001, Col. Chamilpa, CP 62210 Cuernavaca, Morelos, Mexico; Agro&Biotecnia S. de R.L. de C.V., Limones 8, Amate Redondo, 62334 Cuernavaca, Morelos, Mexico.
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Wang J, Ping Y, Liu W, He X, Du C. Improvement of lipopeptide production in Bacillus subtilis HNDF2-3 by overexpression of the sfp and comA genes. Prep Biochem Biotechnol 2024; 54:184-192. [PMID: 37158496 DOI: 10.1080/10826068.2023.2209890] [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] [Indexed: 05/10/2023]
Abstract
Bacillus subtilis HNDF2-3 can produce a variety of lipopeptide antibiotics with lower production. To improve its lipopeptide production, three genetically engineered strains were constructed. The results of real-time PCR showed that the highest transcriptional levels of the sfp gene in F2-3sfp, F2-3comA and F2-3sfp-comA were 29.01, 6.65 and 17.50 times of the original strain, respectively, while the highest transcriptional levels of the comA gene in F2-3comA and F2-3sfp-comA were 10.44 and 4.13 times of the original strain, respectively. The results of ELISA showed that the malonyl-CoA transacylase activity of F2-3comA was the highest, reaching 18.53 IU/L at 24 h, the data was 32.74% higher than that of the original strain. The highest total lipopeptide production of F2-3sfp, F2-3comA and F2-3sfp-comA induced by IPTG at optimal concentration were 33.51, 46.05 and 38.96% higher than that of the original strain, respectively. The results of HPLC showed that iturin A production of F2-3sfp-comA was the highest, which was 63.16% higher than that of the original strain. This study laid the foundation for further construction of genetically engineered strains with high lipopeptide production.
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Affiliation(s)
- Jiawen Wang
- Engineering Research Center of Agricultural Microbiology Technology, Ministry of Education & Heilongjiang Provincial Key Laboratory of Plant Genetic Engineering and Biological Fermentation Engineering for Cold Region & Heilongjiang Provincial Key Laboratory of Ecological Restoration and Resource Utilization for Cold Region & Key Laboratory of Microbiology, College of Heilongjiang Province & School of Life Sciences, Heilongjiang University, Harbin, China
| | - Yuan Ping
- Engineering Research Center of Agricultural Microbiology Technology, Ministry of Education & Heilongjiang Provincial Key Laboratory of Plant Genetic Engineering and Biological Fermentation Engineering for Cold Region & Heilongjiang Provincial Key Laboratory of Ecological Restoration and Resource Utilization for Cold Region & Key Laboratory of Microbiology, College of Heilongjiang Province & School of Life Sciences, Heilongjiang University, Harbin, China
| | - Wei Liu
- Engineering Research Center of Agricultural Microbiology Technology, Ministry of Education & Heilongjiang Provincial Key Laboratory of Plant Genetic Engineering and Biological Fermentation Engineering for Cold Region & Heilongjiang Provincial Key Laboratory of Ecological Restoration and Resource Utilization for Cold Region & Key Laboratory of Microbiology, College of Heilongjiang Province & School of Life Sciences, Heilongjiang University, Harbin, China
| | - Xin He
- Hebei Key Laboratory of Agroecological Safety, Hebei University of Environmental Engineering, Qinhuangdao, China
| | - Chunmei Du
- Engineering Research Center of Agricultural Microbiology Technology, Ministry of Education & Heilongjiang Provincial Key Laboratory of Plant Genetic Engineering and Biological Fermentation Engineering for Cold Region & Heilongjiang Provincial Key Laboratory of Ecological Restoration and Resource Utilization for Cold Region & Key Laboratory of Microbiology, College of Heilongjiang Province & School of Life Sciences, Heilongjiang University, Harbin, China
- Hebei Key Laboratory of Agroecological Safety, Hebei University of Environmental Engineering, Qinhuangdao, China
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de Los Santos Villalobos S, Félix Pablos CM, Valenzuela Ruiz V, Parra Cota FI. Bacillus mexicanus sp. nov., a biological control bacterium isolated from the common bean ( Phaseolus vulgaris L.) crop in Sinaloa, Mexico. Int J Syst Evol Microbiol 2023; 73. [PMID: 37916690 DOI: 10.1099/ijsem.0.006110] [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] [Indexed: 11/03/2023] Open
Abstract
Strain FSQ1T was isolated from the rhizosphere of the common bean (Phaseolus vulgaris L.) crop sampled in a commercial field located in the Gabriel Leyva Solano community, which belongs to the Guasave municipality (state of Sinaloa, Mexico). Based on its full-length 16S rRNA gene sequence, strain FSQ1T was assigned to the genus Bacillus (100 % similarity). This taxonomic affiliation was supported by its morphological and metabolic traits. Strain FSQ1T was a Gram-stain-positive bacterium with the following characteristics: rod-shaped cells, strictly aerobic, spore forming, catalase positive, reduced nitrate to nitrite, hydrolysed starch and casein, grew in the presence of lysozyme and 2 % NaCl, utilized citrate, grew at pH 6.0-8.0, produced acid from glucose, was unable to produce indoles from tryptophan, and presented biological control against Sclerotinia sclerotiorum. The whole-genome phylogenetic results showed that strain FSQ1T formed an individual clade in comparison with highly related Bacillus species. In addition, the maximum values for average nucleotide identity and from Genome-to-Genome Distance Calculator analysis were 91.57 and 44.20 %, respectively, with Bacillus spizizenii TU-B-10T. Analysis of its fatty acid content showed the ability of strain FSQ1T to produce fatty acids that are not present in closely related Bacillus species, such as C18 : 0 and C20 : 0. Thus, these results provide strong evidence that strain FSQ1T represents a novel species of the genus Bacillus, for which the name Bacillus mexicanus sp. nov. is proposed. The type strain is FSQ1T (CM-CNRG TB51T=LBPCV FSQ1T).
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Affiliation(s)
- Sergio de Los Santos Villalobos
- Laboratorio de Biotecnología del Recurso Microbiano, Instituto Tecnológico de Sonora, 5 de febrero 818 Sur, C.P.85000, Col. Centro, Ciudad 9 Obregón, Sonora, México
| | - Carmen María Félix Pablos
- Laboratorio de Biotecnología del Recurso Microbiano, Instituto Tecnológico de Sonora, 5 de febrero 818 Sur, C.P.85000, Col. Centro, Ciudad 9 Obregón, Sonora, México
| | - Valeria Valenzuela Ruiz
- Laboratorio de Biotecnología del Recurso Microbiano, Instituto Tecnológico de Sonora, 5 de febrero 818 Sur, C.P.85000, Col. Centro, Ciudad 9 Obregón, Sonora, México
| | - Fannie I Parra Cota
- Campo Experimental Norman E. Borlaug, Instituto Nacional de Investigaciones Forestales, Agrícolas y Pecuarias (INIFAP), Km. 12, C. P. 85000, Cd., Obregón, Sonora, México
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Figueroa-Brambila KM, Escalante-Beltrán A, Montoya-Martínez AC, Díaz-Rodríguez AM, López-Montoya ND, Parra-Cota FI, de Los Santos-Villalobos S. Bacillus cabrialesii: Five Years of Research on a Novel Species of Biological Control and Plant Growth-Promoting Bacteria. PLANTS (BASEL, SWITZERLAND) 2023; 12:2419. [PMID: 37446980 DOI: 10.3390/plants12132419] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/30/2023] [Revised: 06/18/2023] [Accepted: 06/21/2023] [Indexed: 07/15/2023]
Abstract
Bacillus cabrialesii is a novel bacterial species isolated from wheat (Triticum turgidum L. subsp. durum) plants in the Yaqui Valley, Mexico, by our research team. Over years of research studying this strain at the cutting-edge level, it has shown different mechanisms of action. B. cabrialesii is strongly reported as a plant-growth-promoting bacterium and a biological control agent on wheat crops. Knowing this, B. cabrialesii has been brought from lab to field as part of a bacterial consortium, not to mention that there are ongoing investigations into formulating a cost-effective bioinoculant to increase the yield and/or quality of wheat. Moreover, studies of this novel species as a biocontrol agent in other crops (pepper, tomato, cucumber, and potato) are being carried out, with preliminary results that make B. cabrialesii a promising biological control agent, inhibiting the growth of phytopathogens. However, research into this bacterium has not only been reported in our country; there are many studies around the world in which promising native Bacillus strains end up being identified as B. cabrialesii, which reaffirms the fact that this bacterial species can promote plant growth and combat phytopathogens, showing great agrobiotechnological potential.
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Affiliation(s)
- Karem Ma Figueroa-Brambila
- Laboratorio de Biotecnología del Recurso Microbiano, Departamento de Ciencias Agronómicas y Veterinarias, Instituto Tecnológico de Sonora (ITSON), 5 de Febrero 818 Sur, Colonia Centro, Obregón 85000, Mexico
| | - Alina Escalante-Beltrán
- Laboratorio de Biotecnología del Recurso Microbiano, Departamento de Ciencias Agronómicas y Veterinarias, Instituto Tecnológico de Sonora (ITSON), 5 de Febrero 818 Sur, Colonia Centro, Obregón 85000, Mexico
| | - Amelia Cristina Montoya-Martínez
- Laboratorio de Biotecnología del Recurso Microbiano, Departamento de Ciencias Agronómicas y Veterinarias, Instituto Tecnológico de Sonora (ITSON), 5 de Febrero 818 Sur, Colonia Centro, Obregón 85000, Mexico
| | - Alondra María Díaz-Rodríguez
- Laboratorio de Biotecnología del Recurso Microbiano, Departamento de Ciencias Agronómicas y Veterinarias, Instituto Tecnológico de Sonora (ITSON), 5 de Febrero 818 Sur, Colonia Centro, Obregón 85000, Mexico
| | - Naomi Dayanna López-Montoya
- Laboratorio de Biotecnología del Recurso Microbiano, Departamento de Ciencias Agronómicas y Veterinarias, Instituto Tecnológico de Sonora (ITSON), 5 de Febrero 818 Sur, Colonia Centro, Obregón 85000, Mexico
| | - Fannie Isela Parra-Cota
- Campo Experimental Norman E. Borlaug, Instituto Nacional De Investigaciones Forestales, Agrícolas y Pecuarias, Norman E. Borlaug s/n, Col. Centro, Obregón 85000, Mexico
| | - Sergio de Los Santos-Villalobos
- Laboratorio de Biotecnología del Recurso Microbiano, Departamento de Ciencias Agronómicas y Veterinarias, Instituto Tecnológico de Sonora (ITSON), 5 de Febrero 818 Sur, Colonia Centro, Obregón 85000, Mexico
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Valenzuela Ruiz V, Santoyo G, Gómez Godínez LJ, Cira Chávez LA, Parra Cota FI, de los Santos Villalobos S. Complete genome sequencing of Bacillus cabrialesii TE3 T: A plant growth-promoting and biological control agent isolated from wheat ( Triticum turgidum subsp. durum) in the Yaqui Valley. CURRENT RESEARCH IN MICROBIAL SCIENCES 2023; 4:100193. [PMID: 37293250 PMCID: PMC10245096 DOI: 10.1016/j.crmicr.2023.100193] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/10/2023] Open
Abstract
Bacillus cabrialesii TE3T is a strictly aerobic and Gram-stain-positive plant growth-promoting bacterium, motile and catalase-positive. In addition, strain TE3T was also recently described as a biological control agent. Here, we present the complete circularized genome of this type strain, as well as a whole genome analysis identifying genes of agricultural interest. Thus, a hybrid assembly method was performed using short-read sequencing through the Illumina MiSeq platform, and long-read sequencing through the MinION sequencing technology by Oxford Nanopore Technology (ONT). This assembly method showed a closed circular chromosome of 4,125,766 bp and 44.2% G + C content. The strain TE3T genome annotation, based on the RAST platform, presented 4,282 Coding DNA sequences (CDS) distributed in 335 subsystems, from which 4 CDS are related to the promotion of plant growth and 28 CDS to biological control. Also, Prokka (Rapid Prokaryotic Genome Annotation) predicted a total of 119 RNAs composed of 87 tRNAs, 31 rRNA, and 1 tmRNA; and the PGAP (Prokaryotic Genome Annotation Pipeline) predicted a total of 4,212 genes (3,991 CDS). Additionally, seven putative biosynthetic gene clusters were identified by antiSMASH, such as Fengycin, Bacilysin, Subtilosin A, Bacillibactin, Bacillaene, Surfactin, and Rizocticin A, which are related to antimicrobial and antifungal properties, whose gene presence was further supported by the Prokaryotic Genome Annotation Pipeline (PGAP) annotation. Thus, the complete genome of Bacillus cabrialesii TE3T showed promising bioactivities for the use of this type strain to bioformulate bacterial inoculants for sustainable agriculture.
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Affiliation(s)
- Valeria Valenzuela Ruiz
- Instituto Tecnológico de Sonora (ITSON), 5 de febrero 818 Sur, C.P. 85000, Col. Centro, Cd. Obregón, Sonora, Mexico
| | - Gustavo Santoyo
- Universidad Michoacana de San Nicolás de Hidalgo (UMSNH), Av. Francisco J. Múgica s/n, Edif. B-3, Ciudad Universitaria, C. P. 58030, Morelia, Michoacán, Mexico
| | - Lorena Jacqueline Gómez Godínez
- Centro Nacional de Recursos Genéticos. Instituto Nacional de Investigación Forestales, Agrícolas y Pecuarios. Boulevard de la Biodiversidad 400, Rancho las Cruces, C.P. 47600. Tepatitlán de Morelos, Jalisco, Mexico
| | - Luis A. Cira Chávez
- Instituto Tecnológico de Sonora (ITSON), 5 de febrero 818 Sur, C.P. 85000, Col. Centro, Cd. Obregón, Sonora, Mexico
| | - Fannie I. Parra Cota
- Campo Experimental Norman E. Borlaug, Instituto Nacional de Investigaciones Forestales, Agrícolas y Pecuarias (INIFAP), Norman E. Borlaug Km. 12, C. P. 85000, Cd. Obregón, Sonora, Mexico
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de Los Santos-Villalobos S, Valenzuela-Ruiz V, Montoya-Martínez AC, Parra-Cota FI, Santoyo G, Larsen J. Bacillus cabrialesii subsp. cabrialesii subsp. nov. and Bacillus cabrialesii subsp. tritici subsp. nov., plant growth-promoting bacteria and biological control agents isolated from wheat ( Triticum turgidum subsp. durum) in the Yaqui Valley, Mexico. Int J Syst Evol Microbiol 2023; 73. [PMID: 37185134 DOI: 10.1099/ijsem.0.005779] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/17/2023] Open
Abstract
Strain TSO2T, a plant growth-promoting rhizobacteria and biological control agent, was isolated from wheat rhizosphere sampled from the Yaqui Valley in Mexico. The strain was identified using a polyphasic approach. Based on its analysis of the full-length 16S rRNA gene, strain TSO2T was assigned to the genus
Bacillus
, which was supported by morphological and metabolic traits, such as Gram-positive staining, rod shape, spore formation, strictly aerobic metabolism, catalase-positive activity, starch, and casein hydrolysis, reduction of nitrate to nitrite, growth in presence of lysozyme and 2 % NaCl, citrate utilization, growth at pH 6.0, acid production from glucose and indole production from tryptophan. Additionally, strain TSO2T possesses swarming motility, presenting a featureless mat pattern that can cover the whole petri dish. The whole-genome phylogenetic relationship analysis elucidated that strain TSO2T is closely related to
Bacillus cabrialesii
TE3T. The maximum values for average nucleotide identity (ANI) and in silico DNA–DNA hybridization from the genome-to-genome distance calculator (GGDC) were 97 and 73.4 %, respectively, related to
Bacillus cabrialesii
TE3T, where both ANI and GGDC values were barely above the species delimitation threshold, but below the subspecies limit. Also, strain TSO2T showed the ability to produce a fatty acid (C18 : 0) that is not present in closely related
Bacillus
species. These results provide evidence that strain TSO2T is a novel subspecies of the species
Bacillus cabrialesii
, for which the name
Bacillus cabrialesii
subsp. tritici subsp. nov. is proposed. The type strain of
Bacillus cabrialesii
subsp. tritici subsp. nov. is TSO2T (CM-CNRG TB52T=LBPCV TSO2T). The description of this novel subspecies automatically creates the subspecies
Bacillus cabrialesii
subsp. cabrialesii subsp. nov. for which the type strain is TE3T (CM-CNRG TB54T=CCStamb A1T).
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Affiliation(s)
- Sergio de Los Santos-Villalobos
- Departamento de Ciencias Agronómicas y Veterinarias, Laboratorio de Biotecnología del Recurso Microbiano, Instituto Tecnológico de Sonora (ITSON), 5 de febrero 818 Sur, C.P. 85000, Col. Centro, Cd. Obregón, Sonora, Mexico
| | - Valeria Valenzuela-Ruiz
- Departamento de Ciencias Agronómicas y Veterinarias, Laboratorio de Biotecnología del Recurso Microbiano, Instituto Tecnológico de Sonora (ITSON), 5 de febrero 818 Sur, C.P. 85000, Col. Centro, Cd. Obregón, Sonora, Mexico
| | - Amelia C Montoya-Martínez
- Departamento de Ciencias Agronómicas y Veterinarias, Laboratorio de Biotecnología del Recurso Microbiano, Instituto Tecnológico de Sonora (ITSON), 5 de febrero 818 Sur, C.P. 85000, Col. Centro, Cd. Obregón, Sonora, Mexico
| | - Fannie I Parra-Cota
- Campo Experimental Norman E. Borlaug, Instituto Nacional de Investigaciones Forestales, Agrícolas y Pecuarias (INIFAP), Norman E. Borlaug Km. 12, C. P. 85000, Cd. Obregón, Sonora, Mexico
| | - Gustavo Santoyo
- Instituto de Investigaciones Químico Biológicas, Universidad Michoacana de San Nicolás de Hidalgo (UMSNH), Av. Francisco J. Múgica s/n, Edif. B-3, Ciudad Universitaria, C. P. 58030, Morelia, Michoacán, México
| | - John Larsen
- Laboratorio Nacional de Innovación Ecotecnologica para la Sustentabilidad, Instituto de Investigaciones en Ecosistemas y Sustentabilidad, Universidad Nacional Autónoma México (UNAM), Antigua Carretera a Pátzcuaro 8701, Col. San José de La Huerta, C.P. 58190, Morelia, Michoacán, México
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Miao S, Liang J, Xu Y, Yu G, Shao M. Bacillaene, sharp objects consist in the arsenal of antibiotics produced by Bacillus. J Cell Physiol 2023. [PMID: 36790954 DOI: 10.1002/jcp.30974] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Revised: 01/05/2023] [Accepted: 01/31/2023] [Indexed: 02/16/2023]
Abstract
Bacillus species act as plant growth-promoting rhizobacteria (PGPR) that can produce a large number of bioactive metabolites. Bacillaene, a linear polyketide/nonribosomal peptide produced by Bacillus strains, is synthesized by the trans-acyltransferase polyketide synthetase. The complexity of the chemical structure, particularity of biosynthesis, potent bioactivity, and the important role of competition make Bacillus an ideal antibiotic weapon to resist other microbes and maintain the optimal rhizosphere environment. This review provides an updated view of the structural features, biological activity, biosynthetic regulators of biosynthetic pathways, and the important competitive role of bacillaene during Bacillus survival.
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Affiliation(s)
- Shuang Miao
- Key Laboratory of Green Prevention and Control on Fruits and Vegetables in South China, Ministry of Agriculture and Rural Affairs, Zhongkai University of Agriculture and Engineering, Guangzhou, China
- Innovative Institute for Plant Health, Zhongkai University of Agriculture and Engineering, Guangzhou, P.R. China
- College of Agriculture and Biology, Zhongkai University of Agriculture and Engineering, Guangzhou, P.R. China
| | - Jianhao Liang
- Key Laboratory of Green Prevention and Control on Fruits and Vegetables in South China, Ministry of Agriculture and Rural Affairs, Zhongkai University of Agriculture and Engineering, Guangzhou, China
- Innovative Institute for Plant Health, Zhongkai University of Agriculture and Engineering, Guangzhou, P.R. China
- College of Agriculture and Biology, Zhongkai University of Agriculture and Engineering, Guangzhou, P.R. China
| | - Yuan Xu
- College of Pharmaceutical Engineering, XinYang College Of Agriculture And Forestry, Xinyang, P.R. China
| | - Guohui Yu
- Key Laboratory of Green Prevention and Control on Fruits and Vegetables in South China, Ministry of Agriculture and Rural Affairs, Zhongkai University of Agriculture and Engineering, Guangzhou, China
- Innovative Institute for Plant Health, Zhongkai University of Agriculture and Engineering, Guangzhou, P.R. China
- College of Agriculture and Biology, Zhongkai University of Agriculture and Engineering, Guangzhou, P.R. China
| | - Mingwei Shao
- Key Laboratory of Green Prevention and Control on Fruits and Vegetables in South China, Ministry of Agriculture and Rural Affairs, Zhongkai University of Agriculture and Engineering, Guangzhou, China
- Innovative Institute for Plant Health, Zhongkai University of Agriculture and Engineering, Guangzhou, P.R. China
- College of Agriculture and Biology, Zhongkai University of Agriculture and Engineering, Guangzhou, P.R. China
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Kang K, Niu Z, Zhang W, Wei S, Lv Y, Hu Y. Antagonistic Strain Bacillus halotolerans Jk-25 Mediates the Biocontrol of Wheat Common Root Rot Caused by Bipolaris sorokiniana. PLANTS (BASEL, SWITZERLAND) 2023; 12:828. [PMID: 36840176 PMCID: PMC9965128 DOI: 10.3390/plants12040828] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/12/2023] [Revised: 02/03/2023] [Accepted: 02/04/2023] [Indexed: 06/18/2023]
Abstract
Common root rot caused by Bipolaris sorokiniana infestation in wheat is one of the main reasons for yield reduction in wheat crops worldwide. The bacterium strain JK-25 used in the current investigation was isolated from wheat rhizosphere soil and was later identified as Bacillus halotolerans based on its morphological, physiological, biochemical, and molecular properties. The strain showed significant antagonism to B. sorokiniana, Fusarium oxysporum, Fusarium graminearum, and Rhizoctonia zeae. Inhibition of B. sorokiniana mycelial dry weight and spore germination rate by JK-25 fermentation supernatant reached 60% and 88%, respectively. The crude extract of JK-25 was found, by Matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF-MS), to contain the surfactin that exerted an inhibitory effect on B. sorokiniana. The disruption of mycelial cell membranes was observed under laser scanning confocal microscope (LSCM) after treatment of B. sorokiniana mycelium with the crude extract. The antioxidant enzyme activity of B. sorokiniana was significantly reduced and the oxidation product malondialdehyde (MDA) content increased after treatment with the crude extract. The incidence of root rot was significantly reduced in pot experiments with the addition of JK-25 culture fermentation supernatant, which had a significant biological control effect of 72.06%. Its ability to produce siderophores may help to promote wheat growth and the production of proteases and pectinases may also be part of the strain's role in suppressing pathogens. These results demonstrate the excellent antagonistic effect of JK-25 against B. sorokiniana and suggest that this strain has great potential as a resource for biological control of wheat root rot strains.
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Luan P, Yi Y, Huang Y, Cui L, Hou Z, Zhu L, Ren X, Jia S, Liu Y. Biocontrol potential and action mechanism of Bacillus amyloliquefaciens DB2 on Bipolaris sorokiniana. Front Microbiol 2023; 14:1149363. [PMID: 37125175 PMCID: PMC10135310 DOI: 10.3389/fmicb.2023.1149363] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2023] [Accepted: 03/16/2023] [Indexed: 05/02/2023] Open
Abstract
Introduction Bipolaris sorokiniana is the popular pathogenic fungi fungus which lead to common root rot and leaf spot on wheat. Generally, chemical fungicides are used to control diseases. However, the environmental pollution resulting from fungicides should not be ignored. It is important to study the mode of antagonistic action between biocontrol microbes and plant pathogens to design efficient biocontrol strategies. Results An antagonistic bacterium DB2 was isolated and identified as Bacillus amyloliquefaciens. The inhibition rate of cell-free culture filtrate (CF, 20%, v/v) of DB2 against B. sorokiniana reached 92.67%. Light microscopy and scanning electron microscopy (SEM) showed that the CF significantly altered the mycelial morphology of B. sorokiniana and disrupted cellular integrity. Fluorescence microscopy showed that culture filtrate destroyed mycelial cell membrane integrity, decreased the mitochondrial transmembrane potential, induced reactive oxygen species (ROS) accumulation, and nuclear damage which caused cell death in B. sorokiniana. Moreover, the strain exhibited considerable production of protease and amylase, and showed a significant siderophore and indole-3-acetic acid (IAA) production. In the detached leaves and potted plants control assay, B. amyloliquefacien DB2 had remarkable inhibition activity against B. sorokiniana and the pot control efficacy was 75.22%. Furthermore, DB2 suspension had a significant promotion for wheat seedlings growth. Conclusion B. amyloliquefaciens DB2 can be taken as a potential biocontrol agent to inhibit B. sorokiniana on wheat and promote wheat growth.
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Affiliation(s)
- Pengyu Luan
- School of Biological Engineering, Henan University of Technology, Zhengzhou, China
- Key Laboratory of Functional Molecules for Biomedical Research, Zhengzhou, China
| | - Yanjie Yi
- School of Biological Engineering, Henan University of Technology, Zhengzhou, China
- Key Laboratory of Functional Molecules for Biomedical Research, Zhengzhou, China
- *Correspondence: Yanjie Yi,
| | - Yifan Huang
- School of Biological Engineering, Henan University of Technology, Zhengzhou, China
- Key Laboratory of Functional Molecules for Biomedical Research, Zhengzhou, China
| | - Liuqing Cui
- School of Biological Engineering, Henan University of Technology, Zhengzhou, China
- Key Laboratory of Functional Molecules for Biomedical Research, Zhengzhou, China
| | - Zhipeng Hou
- School of Biological Engineering, Henan University of Technology, Zhengzhou, China
- Key Laboratory of Functional Molecules for Biomedical Research, Zhengzhou, China
| | - Lijuan Zhu
- School of Biological Engineering, Henan University of Technology, Zhengzhou, China
- Key Laboratory of Functional Molecules for Biomedical Research, Zhengzhou, China
| | - Xiujuan Ren
- School of Biological Engineering, Henan University of Technology, Zhengzhou, China
- Key Laboratory of Functional Molecules for Biomedical Research, Zhengzhou, China
| | - Shao Jia
- School of Biological Engineering, Henan University of Technology, Zhengzhou, China
- Key Laboratory of Functional Molecules for Biomedical Research, Zhengzhou, China
| | - Yang Liu
- School of Biological Engineering, Henan University of Technology, Zhengzhou, China
- Key Laboratory of Functional Molecules for Biomedical Research, Zhengzhou, China
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Metabolomic Analysis of Phytochemical Compounds from Agricultural Residues of Eggplant (Solanum melongena L.). Molecules 2022; 27:molecules27207013. [PMID: 36296609 PMCID: PMC9608517 DOI: 10.3390/molecules27207013] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2022] [Revised: 10/02/2022] [Accepted: 10/02/2022] [Indexed: 11/24/2022] Open
Abstract
The eggplant is a fruit rich in natural products and produced worldwide. However, its cultivation generates a large amount of scarcely used agricultural residues with poor chemical characterization. This study aimed to identify and quantify the metabolome and determine the composition of select phytochemicals and the overall antioxidant capacity of various anatomical parts of the plant. The plant’s root, leaf, stem, and fruit were analyzed by quantitative mass spectrometry-based untargeted metabolomics and chemoinformatics, and phytochemicals were quantified by spectrophotometric analysis. Moreover, we determined the total antioxidant capacity of the distinct plant parts to infer a possible biological effect of the plant’s metabolites. Various secondary metabolites were identified as terpenes, phenolic compounds, alkaloids, and saponins, distributed throughout the plant. The leaf and fruit presented the highest concentration of phenolic compounds, flavonoids, anthocyanins, and alkaloids, accompanied by the highest antioxidant capacity. Although the stem and root showed the lowest abundance of secondary metabolites, they provided around 20% of such compounds compared with the leaf and fruit. Overall, our study improved the understanding of the eggplant metabolome and concluded that the plant is rich in secondary metabolites, some with antioxidant properties, and shows potential nutraceutical and biopharmaceutical applications.
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Chávez-Luzanía RA, Montoya-Martínez AC, Parra-Cota FI, de Los Santos-Villalobos S. Pangenomes-identified singletons for designing specific primers to identify bacterial strains in a plant growth-promoting consortium. Mol Biol Rep 2022; 49:10489-10498. [PMID: 36125674 DOI: 10.1007/s11033-022-07927-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Accepted: 09/06/2022] [Indexed: 10/14/2022]
Abstract
BACKGROUND The use of plant growth-promoting microorganisms represents a sustainable way to increase agricultural yields and plant health. Thus, the identification and tracking of these microorganisms are determinants for validating their positive effects on crops. Pangenomes allow the identification of singletons that can be used to design specific primers for the detection of the studied strains. OBJECTIVE This study aimed to establish a strategy based on the use of whole-genome sequencing and pangenomes for designing and validating primer sets for detecting Bacillus cabrialesii TE3T, Priestia megaterium TRQ8, and Bacillus paralicheniformis TRQ65, a promising beneficial bacterial consortium for wheat. METHODS AND RESULTS The identification of singletons of TE3T, TRQ8, and TRQ65 was performed by pangenomes using the Kbase platform and subsequently analyzed using BLAST®. The identified DNA regions were used for primer design in AlleleID version 7. Primers were validated by multiplex PCR using pure template DNA from each studied strain, combinations of two or three DNA from these strains, and DNA from agricultural soil samples enriched (and not) with the bacterial consortium. Here, we report the first design of primers capable of detecting and identifying the beneficial strains TE3T, TRQ8, and TRQ65. CONCLUSIONS The use of pangenomes allowed the distinction of unique sequences that enables the design of primers for specific identification of the studied bacterial strains. This strategy can be widely used for the design of primer sets to detect other strains of interest for combating biopiracy, and commercial protection of biological products, among other applications.
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Affiliation(s)
| | | | - Fannie Isela Parra-Cota
- Campo Experimental Norman E. Borlaug, Instituto Nacional de Investigaciones forestales, Agrícolas y Pecuarias, Norman E. Borlaug Km. 12, C.P. 85000, Ciudad Obregón, SON, México
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Draft Genome Sequence of Priestia sp. Strain TSO9, a Plant Growth-Promoting Bacterium Associated with Wheat (Triticum turgidum subsp. durum) in the Yaqui Valley, Mexico. PLANTS 2022; 11:plants11172231. [PMID: 36079613 PMCID: PMC9460074 DOI: 10.3390/plants11172231] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/12/2022] [Revised: 08/11/2022] [Accepted: 08/26/2022] [Indexed: 11/16/2022]
Abstract
Strain TSO9 was isolated from a commercial field of wheat (Triticum turgidum L. subsp. durum) located in the Yaqui, Valley, Mexico. Here, the genome of this strain was sequenced, obtaining a total of 5,248,515 bp; 38.0% G + C content; 1,186,514 bp N50; and 2 L50. Based on the 16S rRNA gene sequencing, strain TSO9 was affiliated with the genus Priestia. The genome annotation of Priestia sp. TSO9 contains a total of 147 RNAs, 128 tRNAs, 1 tmRNA, and 5512 coding DNA sequences (CDS) distributed into 332 subsystems, where CDS associated with agricultural purposes were identified, such as (i) virulence, disease, and defense (57 CDS) (i.e., resistance to antibiotics and toxic compounds (34 CDS), invasion and intracellular resistance (12 CDS), and bacteriocins and ribosomally synthesized antibacterial peptides (10 CDS)), (ii) iron acquisition and metabolism (36 CDS), and (iii) secondary metabolism (4 CDS), i.e., auxin biosynthesis. In addition, subsystems related to the viability of an active ingredient for agricultural bioproducts were identified, such as (i) stress response (65 CDS). These genomic traits are correlated with the metabolic background of this strain, and its positive effects on wheat growth regulation reported in this work. Thus, further investigations of Priestia sp. TSO9 are necessary to complement findings regarding its application in agroecosystems to increase wheat yield sustainably.
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Orozco-Mosqueda MDC, Fadiji AE, Babalola OO, Glick BR, Santoyo G. Rhizobiome engineering: Unveiling complex rhizosphere interactions to enhance plant growth and health. Microbiol Res 2022; 263:127137. [PMID: 35905581 DOI: 10.1016/j.micres.2022.127137] [Citation(s) in RCA: 21] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2022] [Revised: 06/17/2022] [Accepted: 07/13/2022] [Indexed: 12/13/2022]
Abstract
Crop plants are affected by a series of inhibitory environmental and biotic factors that decrease their growth and production. To counteract these adverse effects, plants work together with the microorganisms that inhabit their rhizosphere, which is part of the soil influenced by root exudates. The rhizosphere is a microecosystem where a series of complex interactions takes place between the resident microorganisms (rhizobiome) and plant roots. Therefore, this study analyzes the dynamics of plant-rhizobiome communication, the role of exudates (diffusible and volatile) as a factor in stimulating a diverse rhizobiome, and the differences between rhizobiomes of domesticated crops and wild plants. The study also analyzes different strategies to decipher the rhizobiome through both classical cultivation techniques and the so-called "omics" sciences. In addition, the rhizosphere engineering concept and the two general strategies to manipulate the rhizobiome, i.e., top down and bottom up engineering have been revisited. In addition, recent studies on the effects on the indigenous rhizobiome of inoculating plants with foreign strains, the impact on the endobiome, and the collateral effects on plant crops are discussed. Finally, understanding of the complex rhizosphere interactions and the biological repercussions of rhizobiome engineering as essential steps for improving plant growth and health is proposed, including under adverse conditions.
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Affiliation(s)
| | - Ayomide Emmanuel Fadiji
- Food Security and Safety Focus Area, Faculty of Natural and Agricultural Sciences, North-West University, Private Bag X2046, Mmabatho 2735, South Africa
| | - Olubukola Oluranti Babalola
- Food Security and Safety Focus Area, Faculty of Natural and Agricultural Sciences, North-West University, Private Bag X2046, Mmabatho 2735, South Africa
| | - Bernard R Glick
- Department of Biology, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
| | - Gustavo Santoyo
- Instituto de Investigaciones Químico-Biológicas, Universidad Michoacana de San Nicolás de Hidalgo, Morelia, Mich 58030, Mexico.
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Carmen María FP, I PCF, Gustavo S, Ma del Carmen OM, Sergio DLSV. Draft genome sequence of Bacillus sp. strain FSQ1, a biological control agent against white mold in common bean (Phaseolus vulgaris L.). CURRENT RESEARCH IN MICROBIAL SCIENCES 2022; 3:100138. [PMID: 35909597 PMCID: PMC9325907 DOI: 10.1016/j.crmicr.2022.100138] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2022] [Revised: 05/05/2022] [Accepted: 05/06/2022] [Indexed: 11/30/2022] Open
Abstract
Bacillus sp. FSQ1 was isolated from the rhizosphere of the common bean (Phaseolus vulgaris L.). Bacillus sp. FSQ1 can inhibit the growth of Sclerotinia sclerotiorum. The draft genome of strain Bacillus sp. FSQ1 consists of 3598,499 bp; 925,913 bp N50; 2 L50; 33 contigs; 97 RNAs and 3908 predicted CDS. The GC content in the draft genome of Bacillus sp. FSQ1 is 43.0%. Based on genome mining, potential metabolites involved in the biocontrol activity of strain Bacillus sp. FSQ1 are rhizocticin A and bacillibactin.
Bacillus sp. strain FSQ1 was isolated from the common bean (Phaseolus vulgaris L.). The genome of this strain presented 3,598,499 bp; 43.0% G + C content; 925,913 bp N50; 2 L50; 33 contigs; 97 RNAs and 3,908 predicted coding DNA sequences (CDS) distributed in 315 subsystems. Based on genome mining, the biological control activity of strains FSQ1 could be associated with the biosynthesis of rhizocticin A and bacillibactin. Thus, this strain is a promising active ingredient for the formulation of biopesticides.
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Antimicrobial Bacillus: Metabolites and Their Mode of Action. Antibiotics (Basel) 2022; 11:antibiotics11010088. [PMID: 35052965 PMCID: PMC8772736 DOI: 10.3390/antibiotics11010088] [Citation(s) in RCA: 25] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2021] [Revised: 01/07/2022] [Accepted: 01/08/2022] [Indexed: 12/12/2022] Open
Abstract
The agricultural industry utilizes antibiotic growth promoters to promote livestock growth and health. However, the World Health Organization has raised concerns over the ongoing spread of antibiotic resistance transmission in the populace, leading to its subsequent ban in several countries, especially in the European Union. These restrictions have translated into an increase in pathogenic outbreaks in the agricultural industry, highlighting the need for an economically viable, non-toxic, and renewable alternative to antibiotics in livestock. Probiotics inhibit pathogen growth, promote a beneficial microbiota, regulate the immune response of its host, enhance feed conversion to nutrients, and form biofilms that block further infection. Commonly used lactic acid bacteria probiotics are vulnerable to the harsh conditions of the upper gastrointestinal system, leading to novel research using spore-forming bacteria from the genus Bacillus. However, the exact mechanisms behind Bacillus probiotics remain unexplored. This review tackles this issue, by reporting antimicrobial compounds produced from Bacillus strains, their proposed mechanisms of action, and any gaps in the mechanism studies of these compounds. Lastly, this paper explores omics approaches to clarify the mechanisms behind Bacillus probiotics.
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COLMENA: A Culture Collection of Native Microorganisms for Harnessing the Agro-Biotechnological Potential in Soils and Contributing to Food Security. DIVERSITY 2021. [DOI: 10.3390/d13080337] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
COLMENA is a microbial culture collection dedicated to the characterization, classification, preservation, and transferal of native microorganisms isolated from various agro-systems and other ecosystems in Mexico. This collection aims to protect microbial diversity, reducing soil degradation, but also exploiting its agro-biotechnological potential. So far, COLMENA has isolated and cryopreserved soil microorganisms from different crops in two major agricultural regions in Mexico, the Yaqui Valley, Sonora, and the Fuerte Valley, Sinaloa. COLMENA has specialized in the identification and characterization of microbial strains with metabolic capacities related to the promotion of plant growth and the biocontrol of phytopathogens. Thus, COLMENA has identified several promising plant growth-promoting microbial (PGPM) strains due to their metabolic and genetic potentials and their beneficial effects in vivo and field trials. These findings demonstrate the biotechnological potential of these strains for their future use in profitable agricultural alternatives focused on enhancing global food security. To share the knowledge and results of the COLMENA team’s scientific research, a virtual platform was created, where the database of the studied and preserved microorganisms is available to professionals, researchers, agricultural workers, and anyone who is interested.
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