251
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Kumsiri B, Pekkoh J, Pathom-aree W, Lumyong S, Pumas C. Synergistic effect of co-culture of microalga and actinomycete in diluted chicken manure digestate for lipid production. ALGAL RES 2018. [DOI: 10.1016/j.algal.2018.05.020] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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252
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Rodrigues DR, Silva AFD, Cavalcanti MIP, Escobar IEC, Fraiz ACR, Ribeiro PRDA, Ferreira Neto RA, Freitas ADSD, Fernandes-Júnior PI. Phenotypic, genetic and symbiotic characterization of Erythrina velutina rhizobia from Caatinga dry forest. Braz J Microbiol 2018; 49:503-512. [PMID: 29426665 PMCID: PMC6112057 DOI: 10.1016/j.bjm.2017.09.007] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2017] [Revised: 08/14/2017] [Accepted: 09/05/2017] [Indexed: 11/24/2022] Open
Abstract
Erythrina velutina ("mulungu") is a legume tree from Caatinga that associates with rhizobia but the diversity and symbiotic ability of "mulungu" rhizobia are poorly understood. The aim of this study was to characterize "mulungu" rhizobia from Caatinga. Bacteria were obteined from Serra Talhada and Caruaru in Caatinga under natural regeneration. The bacteria were evaluated to the amplification of nifH and nodC and to metabolic characteristics. Ten selected bacteria identified by 16S rRNA sequences. They were tested in vitro to NaCl and temperature tolerance, auxin production and calcium phosphate solubilization. The symbiotic ability were assessed in an greenhouse experiment. A total of 32 bacteria were obtained and 17 amplified both symbiotic genes. The bacteria showed a high variable metabolic profile. Bradyrhizobium (6), Rhizobium (3) and Paraburkholderia (1) were identified, differing from their geographic origin. The isolates grew up to 45°C to 0.51molL-1 of NaCl. Bacteria which produced more auxin in the medium with l-tryptophan and two Rhizobium and one Bradyrhizobium were phosphate solubilizers. All bacteria nodulated and ESA 90 (Rhizobium sp.) plus ESA 96 (Paraburkholderia sp.) were more efficient symbiotically. Diverse and efficient rhizobia inhabit the soils of Caatinga dry forests, with the bacterial differentiation by the sampling sites.
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Affiliation(s)
| | | | | | - Indra Elena Costa Escobar
- Universidade Federal do Vale do São Francisco, Petrolina, PE, Brazil; Universidade Federal de Pernambuco, Recife, PE, Brazil
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253
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Nascimento F, Vicente C, Cock P, Tavares M, Rossi M, Hasegawa K, Mota M. From plants to nematodes: Serratia grimesii BXF1 genome reveals an adaptation to the modulation of multi-species interactions. Microb Genom 2018; 4. [PMID: 29781797 PMCID: PMC6113876 DOI: 10.1099/mgen.0.000178] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Serratia grimesii BXF1 is a bacterium with the ability to modulate the development of several eukaryotic hosts. Strain BXF1 was isolated from the pinewood nematode, Bursaphelenchus xylophilus, the causative agent of pine wilt disease affecting pine forests worldwide. This bacterium potentiates Bursaphelenchus xylophilus reproduction, acts as a beneficial pine endophyte, and possesses fungal and bacterial antagonistic activities, further indicating a complex role in a wide range of trophic relationships. In this work, we describe and analyse the genome sequence of strain BXF1, and discuss several important aspects of its ecological role. Genome analysis indicates the presence of several genes related to the observed production of antagonistic traits, plant growth regulation and the modulation of nematode development. Moreover, most of the BXF1 genes are involved in environmental and genetic information processing, which is consistent with its ability to sense and colonize several niches. The results obtained in this study provide the basis to a better understanding of the role and evolution of strain BXF1 as a mediator of interactions between organisms involved in a complex disease system. These results may also bring new insights into general Serratia and Enterobacteriaceae evolution towards multitrophic interactions.
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Affiliation(s)
- Francisco Nascimento
- 2Information and Computer Sciences, James Hutton Institute, Invergowrie, Dundee DD2 5DA, UK.,1Nemalab/ICAAM - Instituto de Ciências Agrárias e Ambientais Mediterrânicas, Departamento de Biologia, Universidade de Évora, Núcleo da Mitra, Ap. 94, 7002-554 Évora, Portugal
| | - Cláudia Vicente
- 1Nemalab/ICAAM - Instituto de Ciências Agrárias e Ambientais Mediterrânicas, Departamento de Biologia, Universidade de Évora, Núcleo da Mitra, Ap. 94, 7002-554 Évora, Portugal.,3Department of Environmental Biology, College of Bioscience and Biotechnology, Chubu University, 1200 Matsumoto, Kasugai, Aichi 487-8501, Japan
| | - Peter Cock
- 2Information and Computer Sciences, James Hutton Institute, Invergowrie, Dundee DD2 5DA, UK
| | - Maria Tavares
- 4Departamento de Microbiologia, Laboratório de Bioprocessos, Universidade Federal de Santa Catarina, Florianópolis SC 88040-900, Brazil
| | - Márcio Rossi
- 4Departamento de Microbiologia, Laboratório de Bioprocessos, Universidade Federal de Santa Catarina, Florianópolis SC 88040-900, Brazil
| | - Koichi Hasegawa
- 3Department of Environmental Biology, College of Bioscience and Biotechnology, Chubu University, 1200 Matsumoto, Kasugai, Aichi 487-8501, Japan
| | - Manuel Mota
- 1Nemalab/ICAAM - Instituto de Ciências Agrárias e Ambientais Mediterrânicas, Departamento de Biologia, Universidade de Évora, Núcleo da Mitra, Ap. 94, 7002-554 Évora, Portugal.,5Departamento Ciências da Vida, EPCV Universidade Lusófona de Humanidades e Tecnologias, C. Grande 376, Lisboa, 1749-024, Portugal
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254
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Chagas FO, Pessotti RDC, Caraballo-Rodríguez AM, Pupo MT. Chemical signaling involved in plant-microbe interactions. Chem Soc Rev 2018; 47:1652-1704. [PMID: 29218336 DOI: 10.1039/c7cs00343a] [Citation(s) in RCA: 91] [Impact Index Per Article: 15.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Microorganisms are found everywhere, and they are closely associated with plants. Because the establishment of any plant-microbe association involves chemical communication, understanding crosstalk processes is fundamental to defining the type of relationship. Although several metabolites from plants and microbes have been fully characterized, their roles in the chemical interplay between these partners are not well understood in most cases, and they require further investigation. In this review, we describe different plant-microbe associations from colonization to microbial establishment processes in plants along with future prospects, including agricultural benefits.
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Affiliation(s)
- Fernanda Oliveira Chagas
- Faculdade de Ciências Farmacêuticas de Ribeirão Preto, Universidade de São Paulo (FCFRP-USP), Avenida do Café, s/n, 14040-903, Ribeirão Preto-SP, Brazil.
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255
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Rosenkranz T, Kidd P, Puschenreiter M. Effect of bacterial inoculants on phytomining of metals from waste incineration bottom ash. WASTE MANAGEMENT (NEW YORK, N.Y.) 2018; 73:351-359. [PMID: 29273541 DOI: 10.1016/j.wasman.2017.12.006] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/19/2017] [Revised: 12/05/2017] [Accepted: 12/07/2017] [Indexed: 06/07/2023]
Abstract
Waste incineration bottom ash is considered a secondary resource for valuable trace elements (TE), which is currently neglected in most European countries. Phytomining could potentially recover valuable TE from such waste materials but is still at an exploratory stage with many challenges. The use of bioaugmentation to improve plant growth and TE accumulation of metal-tolerant high biomass plants growing on waste incineration bottom ash was evaluated. Bacterial strains that were previously isolated from rhizosphere, roots and contaminated soil were selected according to their plant growth promoting characteristics and tolerance to the bottom ash substrate. Those selected bacterial strains were tested for their beneficial effects on Nicotiana tabacum and Salix smithiana with regards to phytomining. The rhizobacterial strain Rhodococcus erythropolis P30 enhanced the shoot dry weight of N. tabacum by on average 57% compared to the control plants. Several bacterial inoculants enhanced biomass production and the nutritional status of S. smithiana. Moreover, those bacterial strains previously described to enhance biomass production of N. tabacum and members of the Salicaceae on TE-contaminated soils, also enhanced biomass production of these species on bottom ash. However, bacterial inoculants could not enhance trace element accumulation in plants.
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Affiliation(s)
- Theresa Rosenkranz
- University of Natural Resources and Life Sciences, Vienna, Department of Forest and Soil Sciences, Institute of Soil Research, Konrad-Lorenz-Straße 24, 3430 Tulln, Austria.
| | - Petra Kidd
- Instituto de Investigaciones Agrobiológicas de Galicia (IIAG), Consejo Superior de Investigaciones Científicas (CSIC), Santiago de Compostela 15705, Spain
| | - Markus Puschenreiter
- University of Natural Resources and Life Sciences, Vienna, Department of Forest and Soil Sciences, Institute of Soil Research, Konrad-Lorenz-Straße 24, 3430 Tulln, Austria
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256
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Duca DR, Rose DR, Glick BR. Indole acetic acid overproduction transformants of the rhizobacterium Pseudomonas sp. UW4. Antonie Van Leeuwenhoek 2018; 111:1645-1660. [PMID: 29492769 DOI: 10.1007/s10482-018-1051-7] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2017] [Accepted: 02/16/2018] [Indexed: 10/17/2022]
Abstract
The plant growth-promoting rhizobacterium Pseudomonas sp. UW4 was transformed to increase the biosynthesis of the auxin, indole-3-acetic acid (IAA). Four native IAA biosynthesis genes from strain UW4 were individually cloned into an expression vector and introduced back into the wild-type strain. Quantitative real-time polymerase chain reaction analysis revealed that the introduced genes ami, nit, nthAB and phe were all overexpressed in these transformants. A significant increase in the production of IAA was observed for all modified strains. Canola plants inoculated with the modified strains showed enhanced root elongation under gnotobiotic conditions. The growth rate and 1-aminocyclopropane-1-carboxylate deaminase activity of transformant strains was lower compared to the wild-type. The indoleacetic acid biosynthesis pathways and the role of this phytohormone in the mechanism of plant growth stimulation by Pseudomonas sp. UW4 is discussed.
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Affiliation(s)
- Daiana R Duca
- Department of Biology, University of Waterloo, Waterloo, ON, N2L 3G1, Canada.
| | - David R Rose
- Department of Biology, University of Waterloo, Waterloo, ON, N2L 3G1, Canada
| | - Bernard R Glick
- Department of Biology, University of Waterloo, Waterloo, ON, N2L 3G1, Canada
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257
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Estenson K, Hurst GB, Standaert RF, Bible AN, Garcia D, Chourey K, Doktycz MJ, Morrell-Falvey JL. Characterization of Indole-3-acetic Acid Biosynthesis and the Effects of This Phytohormone on the Proteome of the Plant-Associated Microbe Pantoea sp. YR343. J Proteome Res 2018; 17:1361-1374. [PMID: 29464956 DOI: 10.1021/acs.jproteome.7b00708] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Indole-3-acetic acid (IAA) plays a central role in plant growth and development, and many plant-associated microbes produce IAA using tryptophan as the precursor. Using genomic analyses, we predicted that Pantoea sp. YR343, a microbe isolated from Populus deltoides, synthesizes IAA using the indole-3-pyruvate (IPA) pathway. To better understand IAA biosynthesis and the effects of IAA exposure on cell physiology, we characterized proteomes of Pantoea sp. YR343 grown in the presence of tryptophan or IAA. Exposure to IAA resulted in upregulation of proteins predicted to function in carbohydrate and amino acid transport and exopolysaccharide (EPS) biosynthesis. Metabolite profiles of wild-type cells showed the production of IPA, IAA, and tryptophol, consistent with an active IPA pathway. Finally, we constructed an Δ ipdC mutant that showed the elimination of tryptophol, consistent with a loss of IpdC activity, but was still able to produce IAA (20% of wild-type levels). Although we failed to detect intermediates from other known IAA biosynthetic pathways, this result suggests the possibility of an alternate pathway or the production of IAA by a nonenzymatic route in Pantoea sp. YR343. The Δ ipdC mutant was able to efficiently colonize poplar, suggesting that an active IPA pathway is not required for plant association.
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Affiliation(s)
- Kasey Estenson
- UT-ORNL Graduate School of Genome Science and Technology , University of Tennessee , Knoxville , Tennessee 37996 , United States
| | | | - Robert F Standaert
- Department of Biochemistry & Cellular and Molecular Biology , University of Tennessee , Knoxville , Tennessee 37996 , United States.,Shull Wollan Center - a Joint Institute for Neutron Sciences , Oak Ridge , Tennessee 37831 , United States
| | - Amber N Bible
- Department of Biochemistry & Cellular and Molecular Biology , University of Tennessee , Knoxville , Tennessee 37996 , United States
| | - David Garcia
- Bredesen Center , University of Tennessee , Knoxville , Tennessee 37996 , United States
| | | | - Mitchel J Doktycz
- UT-ORNL Graduate School of Genome Science and Technology , University of Tennessee , Knoxville , Tennessee 37996 , United States.,Bredesen Center , University of Tennessee , Knoxville , Tennessee 37996 , United States
| | - Jennifer L Morrell-Falvey
- UT-ORNL Graduate School of Genome Science and Technology , University of Tennessee , Knoxville , Tennessee 37996 , United States.,Department of Biochemistry & Cellular and Molecular Biology , University of Tennessee , Knoxville , Tennessee 37996 , United States
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258
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Xu J, Kloepper JW, Huang P, McInroy JA, Hu CH. Isolation and characterization of N 2 -fixing bacteria from giant reed and switchgrass for plant growth promotion and nutrient uptake. J Basic Microbiol 2018; 58:459-471. [PMID: 29473969 DOI: 10.1002/jobm.201700535] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2017] [Revised: 01/31/2018] [Accepted: 02/03/2018] [Indexed: 12/18/2022]
Abstract
The aims of this study were to isolate and characterize N2 -fixing bacteria from giant reed and switchgrass and evaluate their plant growth promotion and nutrient uptake potential for use as biofertilizers. A total of 190 bacteria were obtained from rhizosphere soil and inside stems and roots of giant reed and switchgrass. All the isolates were confirmed to have nitrogenase activity, 96.9% produced auxin, and 85% produced siderophores. Then the top six strains, including Sphingomonas trueperi NNA-14, Sphingomonas trueperi NNA-19, Sphingomonas trueperi NNA-17, Sphingomonas trueperi NNA-20, Psychrobacillus psychrodurans NP-3, and Enterobacter oryzae NXU-38, based on nitrogenase activity, were inoculated on maize and wheat seeds in greenhouse tests to assess their potential benefits to plants. All the selected strains promoted plant growth by increasing at least one plant growth parameter or increasing the nutrient concentration of maize or wheat plants. NNA-14 outperformed others in promoting early growth and nutrient uptake by maize. Specifically, NNA-14 significantly increased root length, surface area, and fine roots of maize by 14%, 12%, and 17%, respectively, and enhanced N, Ca, S, B, Cu, and Zn in maize. NNA-19 and NXU-38 outperformed others in promoting both early growth and nutrient uptake by wheat. Specifically, NNA-19 significantly increased root dry weight and number of root tips of wheat by 25% and 96%, respectively, and enhanced Ca in wheat. NXU-38 significantly increased root length, surface area, and fine roots of wheat by 21%, 13%, and 26%, respectively, and enhanced levels of Ca and Mg in wheat. It is concluded that switchgrass and giant reed are colonized by N2 -fixing bacteria that have the potential to contribute to plant growth and nutrient uptake by agricultural crops.
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Affiliation(s)
- Jia Xu
- Department of Entomology and Plant Pathology, Auburn University, Auburn, Alabama
| | - Joseph W Kloepper
- Department of Entomology and Plant Pathology, Auburn University, Auburn, Alabama
| | - Ping Huang
- Department of Entomology and Plant Pathology, Auburn University, Auburn, Alabama
| | - John A McInroy
- Department of Entomology and Plant Pathology, Auburn University, Auburn, Alabama
| | - Chia H Hu
- Department of Entomology and Plant Pathology, Auburn University, Auburn, Alabama
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259
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Moronta-Barrios F, Gionechetti F, Pallavicini A, Marys E, Venturi V. Bacterial Microbiota of Rice Roots: 16S-Based Taxonomic Profiling of Endophytic and Rhizospheric Diversity, Endophytes Isolation and Simplified Endophytic Community. Microorganisms 2018; 6:microorganisms6010014. [PMID: 29439478 PMCID: PMC5874628 DOI: 10.3390/microorganisms6010014] [Citation(s) in RCA: 54] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2017] [Revised: 01/23/2018] [Accepted: 02/08/2018] [Indexed: 12/04/2022] Open
Abstract
Rice is currently the most important food crop in the world and we are only just beginning to study the bacterial associated microbiome. It is of importance to perform screenings of the core rice microbiota and also to develop new plant-microbe models and simplified communities for increasing our understanding about the formation and function of its microbiome. In order to begin to address this aspect, we have performed a 16S rDNA taxonomic bacterial profiling of the rhizosphere and endorhizosphere of two high-yield rice cultivars—Pionero 2010 FL and DANAC SD20A—extensively grown in Venezuela in 2014. Fifteen putative bacterial endophytes were then isolated from surface-sterilized roots and further studied in vitro and in planta. We have then performed inoculation of rice seedlings with a simplified community composed by 10 of the isolates and we have tracked them in the course of 30 days in greenhouse cultivation. The results obtained suggest that a set was able to significantly colonize together the rice endorhizospheres, indicating possible cooperation and the ability to form a stable multispecies community. This approach can be useful in the development of microbial solutions for a more sustainable rice production.
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Affiliation(s)
- Felix Moronta-Barrios
- Bacteriology Group, International Center for Genetic Engineering and Biotechnology ICGEB, 34149 Trieste, Italy.
- Laboratory of Plant Biotechnology and Virology, Center for Microbiology and Cell Biology, Venezuelan Institute of Scientific Research IVIC, Caracas 1020A, Venezuela.
| | | | | | - Edgloris Marys
- Laboratory of Plant Biotechnology and Virology, Center for Microbiology and Cell Biology, Venezuelan Institute of Scientific Research IVIC, Caracas 1020A, Venezuela.
| | - Vittorio Venturi
- Bacteriology Group, International Center for Genetic Engineering and Biotechnology ICGEB, 34149 Trieste, Italy.
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260
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Li M, Guo R, Yu F, Chen X, Zhao H, Li H, Wu J. Indole-3-Acetic Acid Biosynthesis Pathways in the Plant-Beneficial Bacterium Arthrobacter pascens ZZ21. Int J Mol Sci 2018; 19:ijms19020443. [PMID: 29389906 PMCID: PMC5855665 DOI: 10.3390/ijms19020443] [Citation(s) in RCA: 43] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2017] [Revised: 01/28/2018] [Accepted: 01/30/2018] [Indexed: 11/16/2022] Open
Abstract
Arthrobacter pascens ZZ21 is a plant-beneficial, fluoranthene-degrading bacterial strain found in the rhizosphere. The production of the phytohormone indole-3-aectic acid (IAA) by ZZ21 is thought to contribute to its ability to promote plant growth and remediate fluoranthene-contaminated soil. Using genome-wide analysis combined with metabolomic and high-performance liquid chromatography-mass spectrometry (HPLC-MS) analyses, we characterized the potential IAA biosynthesis pathways in A. pascens ZZ21. IAA production increased 4.5-fold in the presence of 200 mg·L−1 tryptophan in the culture medium. The transcript levels of prr and aldH, genes which were predicted to encode aldehyde dehydrogenases, were significantly upregulated in response to exogenous tryptophan. Additionally, metabolomic analysis identified the intermediates indole-3-acetamide (IAM), indole-3-pyruvic acid (IPyA), and the enzymatic reduction product of the latter, indole-3-lactic acid (ILA), among the metabolites of ZZ21, and subsequently also IAM, ILA, and indole-3-ethanol (TOL), which is the enzymatic reduction product of indole-3-acetaldehyde, by HPLC-MS. These results suggest that the tryptophan-dependent IAM and IPyA pathways function in ZZ21.
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Affiliation(s)
- Mengsha Li
- Soil Ecology Lab, College of Resources and Environmental Science, Nanjing Agricultural University, Nanjing 210095, China.
| | - Rui Guo
- Soil Ecology Lab, College of Resources and Environmental Science, Nanjing Agricultural University, Nanjing 210095, China.
| | - Fei Yu
- Soil Ecology Lab, College of Resources and Environmental Science, Nanjing Agricultural University, Nanjing 210095, China.
| | - Xu Chen
- Soil Ecology Lab, College of Resources and Environmental Science, Nanjing Agricultural University, Nanjing 210095, China.
| | - Haiyan Zhao
- College of Resources and Environmental Science, Nanjing Agricultural University, Nanjing 210095, China.
| | - Huixin Li
- Soil Ecology Lab, College of Resources and Environmental Science, Nanjing Agricultural University, Nanjing 210095, China.
| | - Jun Wu
- Soil Ecology Lab, College of Resources and Environmental Science, Nanjing Agricultural University, Nanjing 210095, China.
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261
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Timmusk S, Seisenbaeva G, Behers L. Titania (TiO 2) nanoparticles enhance the performance of growth-promoting rhizobacteria. Sci Rep 2018; 8:617. [PMID: 29330479 PMCID: PMC5766586 DOI: 10.1038/s41598-017-18939-x] [Citation(s) in RCA: 55] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2017] [Accepted: 12/19/2017] [Indexed: 11/24/2022] Open
Abstract
A novel use of nanotitania (TNs) as agents in the nanointerface interaction between plants and colonization of growth promoting rhizobacteria (PGPR) is presented. The effectiveness of PGPRs is related to the effectiveness of the technology used for their formulation. TNs produced by the Captigel patented SolGel approach, characterized by the transmission and scanning electron microscopy were used for formulation of the harsh environment PGPR strains. Changes in the biomass of wheat seedlings and in the density of single and double inoculants with and without TNs were monitored during two weeks of stress induced by drought salt and by the pathogen Fusarium culmorum. We show that double inoculants with TNs can attach stably to plant roots. Regression analysis indicates that there is a positive interaction between seedling biomass and TN-treated second inoculant colonization. We conclude that TN treatment provides an effectual platform for PGPR rational application via design of root microbial community. Our studies illustrate the importance of considering natural soil nanoparticles for PGPR application and thereby may explain the generally observed inconsistent behavior of PGPRs in the field. These new advancements importantly contribute towards solving food security issues in changing climates. The model systems established here provide a basis for new PGPR nanomaterials research.
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Affiliation(s)
- Salme Timmusk
- Department of Forest Mycology and Plant Pathology, Uppsala BioCenter, SLU, SE-75007, Uppsala, Sweden.
- The Bashan Institute of Science 1730 Post Oak Court, Auburn, AL, 36830, USA.
| | - Gulaim Seisenbaeva
- Department of Molecular Sciences, Uppsala BioCenter, SLU, SE-75007, Uppsala, Sweden
| | - Lawrence Behers
- Department of Forest Mycology and Plant Pathology, Uppsala BioCenter, SLU, SE-75007, Uppsala, Sweden
- The Bashan Institute of Science 1730 Post Oak Court, Auburn, AL, 36830, USA
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262
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Cox CE, Brandl MT, de Moraes MH, Gunasekera S, Teplitski M. Production of the Plant Hormone Auxin by Salmonella and Its Role in the Interactions with Plants and Animals. Front Microbiol 2018; 8:2668. [PMID: 29375530 PMCID: PMC5770404 DOI: 10.3389/fmicb.2017.02668] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2017] [Accepted: 12/21/2017] [Indexed: 11/30/2022] Open
Abstract
The ability of human enteric pathogens to colonize plants and use them as alternate hosts is now well established. Salmonella, similarly to phytobacteria, appears to be capable of producing the plant hormone auxin via an indole-3-pyruvate decarboxylase (IpdC), a key enzyme of the IPyA pathway. A deletion of the Salmonella ipdC significantly reduced auxin synthesis in laboratory culture. The Salmonella ipdC gene was expressed on root surfaces of Medicago truncatula. M. truncatula auxin-responsive GH3::GUS reporter was activated by the wild type Salmonella, and not but the ipdC mutant, implying that the bacterially produced IAA (Indole Acetic Acid) was detected by the seedlings. Seedling infections with the wild type Salmonella caused an increase in secondary root formation, which was not observed in the ipdC mutant. The wild type Salmonella cells were detected as aggregates at the sites of lateral root emergence, whereas the ipdC mutant cells were evenly distributed in the rhizosphere. However, both strains appeared to colonize seedlings well in growth pouch experiments. The ipdC mutant was also less virulent in a murine model of infection. When mice were infected by oral gavage, the ipdC mutant was as proficient as the wild type strain in colonization of the intestine, but it was defective in the ability to cross the intestinal barrier. Fewer cells of the ipdC mutant, compared with the wild type strain, were detected in Peyer's patches, spleen and in the liver. Orthologs of ipdC are found in all Salmonella genomes and are distributed among many animal pathogens and plant-associated bacteria of the Enterobacteriaceae, suggesting a broad ecological role of the IpdC-catalyzed pathway.
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Affiliation(s)
- Clayton E Cox
- Department of Soil and Water Science, University of Florida, Gainesville, FL, United States
| | - Maria T Brandl
- Produce Safety and Microbiology Research Unit, United States Department of Agriculture, Agricultural Research Service, Albany, CA, United States
| | - Marcos H de Moraes
- Department of Soil and Water Science, University of Florida, Gainesville, FL, United States
| | | | - Max Teplitski
- Department of Soil and Water Science, University of Florida, Gainesville, FL, United States.,Smithsonian Marine Station, Ft. Pierce, FL, United States
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263
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Kunkel BN, Harper CP. The roles of auxin during interactions between bacterial plant pathogens and their hosts. JOURNAL OF EXPERIMENTAL BOTANY 2018; 69:245-254. [PMID: 29272462 DOI: 10.1093/jxb/erx447] [Citation(s) in RCA: 94] [Impact Index Per Article: 15.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
Plant pathogens have evolved several strategies to manipulate the biology of their hosts to facilitate colonization, growth to high levels in plant tissue, and production of disease. One of the less well known of these strategies is the synthesis of plant hormones and hormone analogs, and there is growing evidence that modulation of host hormone signaling is important during pathogenesis. Several plant pathogens produce the auxin indole-3-acetic acid (IAA) and/or virulence factors that modulate host auxin signaling. Auxin is well known for being involved in many aspects of plant growth and development, but recent findings have revealed that elevated IAA levels or enhanced auxin signaling can also promote disease development in some plant-pathogen interactions. In addition to stimulating plant cell growth during infection by gall-forming bacteria, auxin and auxin signaling can antagonize plant defense responses. Auxin can also act as a microbial signaling molecule to impact the biology of some pathogens directly. In this review, we summarize recent progress towards elucidating the roles that auxin production, modification of host auxin signaling, and direct effects of auxin on pathogens play during pathogenesis, with emphasis on the impacts of auxin on interactions with bacterial pathogens.
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Affiliation(s)
- Barbara N Kunkel
- Department of Biology, Washington University in St. Louis, St. Louis, MO, USA
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McClerklin SA, Lee SG, Harper CP, Nwumeh R, Jez JM, Kunkel BN. Indole-3-acetaldehyde dehydrogenase-dependent auxin synthesis contributes to virulence of Pseudomonas syringae strain DC3000. PLoS Pathog 2018; 14:e1006811. [PMID: 29293681 PMCID: PMC5766252 DOI: 10.1371/journal.ppat.1006811] [Citation(s) in RCA: 86] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2016] [Revised: 01/12/2018] [Accepted: 12/14/2017] [Indexed: 12/02/2022] Open
Abstract
The bacterial pathogen Pseudomonas syringae modulates plant hormone signaling to promote infection and disease development. P. syringae uses several strategies to manipulate auxin physiology in Arabidopsis thaliana to promote pathogenesis, including its synthesis of indole-3-acetic acid (IAA), the predominant form of auxin in plants, and production of virulence factors that alter auxin responses in the host; however, the role of pathogen-derived auxin in P. syringae pathogenesis is not well understood. Here we demonstrate that P. syringae strain DC3000 produces IAA via a previously uncharacterized pathway and identify a novel indole-3-acetaldehyde dehydrogenase, AldA, that functions in IAA biosynthesis by catalyzing the NAD-dependent formation of IAA from indole-3-acetaldehyde (IAAld). Biochemical analysis and solving of the 1.9 Å resolution x-ray crystal structure reveal key features of AldA for IAA synthesis, including the molecular basis of substrate specificity. Disruption of aldA and a close homolog, aldB, lead to reduced IAA production in culture and reduced virulence on A. thaliana. We use these mutants to explore the mechanism by which pathogen-derived auxin contributes to virulence and show that IAA produced by DC3000 suppresses salicylic acid-mediated defenses in A. thaliana. Thus, auxin is a DC3000 virulence factor that promotes pathogenicity by suppressing host defenses. Pathogens have evolved multiple strategies for suppressing host defenses and modulating host physiology to promote colonization and disease development. For example, the plant pathogen Pseudomonas syringae uses several strategies to the manipulate hormone signaling of its hosts, including production of virulence factors that alter hormone responses in and synthesis of plant hormones or hormone mimics. Synthesis of indole-3-acetic acid (IAA), a common form of the plant hormone auxin, by many plant pathogens has been implicated in virulence. However, the role of pathogen-derived IAA during pathogenesis by leaf spotting pathogens such as P. syringae strain DC3000 is not well understood. Here, we demonstrate that P. syringae strain DC3000 uses a previously uncharacterized biochemical pathway to synthesize IAA, catalyzed by a novel aldehyde dehydrogenase, AldA, and carry out biochemical and structural studies of the AldA protein to investigate AldA activity and substrate specificity. We also generate an aldA mutant disrupted in IAA synthesis to show that IAA is a DC3000 virulence factor that promotes pathogenesis by suppressing host defense responses.
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Affiliation(s)
- Sheri A. McClerklin
- Department of Biology, Washington University, St. Louis, Missouri, United States of America
| | - Soon Goo Lee
- Department of Biology, Washington University, St. Louis, Missouri, United States of America
| | - Christopher P. Harper
- Department of Biology, Washington University, St. Louis, Missouri, United States of America
| | - Ron Nwumeh
- Department of Biology, Washington University, St. Louis, Missouri, United States of America
| | - Joseph M. Jez
- Department of Biology, Washington University, St. Louis, Missouri, United States of America
| | - Barbara N. Kunkel
- Department of Biology, Washington University, St. Louis, Missouri, United States of America
- * E-mail:
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265
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Matilla MA, Krell T. Plant Growth Promotion and Biocontrol Mediated by Plant-Associated Bacteria. PLANT MICROBIOME: STRESS RESPONSE 2018. [DOI: 10.1007/978-981-10-5514-0_3] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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266
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The Role of the Rhizosphere and Microbes Associated with Hyperaccumulator Plants in Metal Accumulation. AGROMINING: FARMING FOR METALS 2018. [DOI: 10.1007/978-3-319-61899-9_9] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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267
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Baoune H, Ould El Hadj-Khelil A, Pucci G, Sineli P, Loucif L, Polti MA. Petroleum degradation by endophytic Streptomyces spp. isolated from plants grown in contaminated soil of southern Algeria. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2018; 147:602-609. [PMID: 28923725 DOI: 10.1016/j.ecoenv.2017.09.013] [Citation(s) in RCA: 59] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/30/2017] [Revised: 09/04/2017] [Accepted: 09/07/2017] [Indexed: 06/07/2023]
Abstract
Petroleum hydrocarbons are well known by their high toxicity and recalcitrant properties. Their increasing utilization around worldwide led to environmental contamination. Phytoremediation using plant-associated microbe is an interesting approach for petroleum degradation and actinobacteria have a great potential for that. For this purpose, our study aimed to isolate, characterize, and assess the ability of endophytic actinobacteria to degrade crude petroleum, as well as to produce plant growth promoting traits. Seventeen endophytic actinobacteria were isolated from roots of plants grown naturally in sandy contaminated soil. Among them, six isolates were selected on the basis of their tolerance to petroleum on solid minimal medium and characterized by 16S rDNA gene sequencing. All petroleum-tolerant isolates belonged to the Streptomyces genus. Determination by crude oil degradation by gas chromatorgraph-flame ionization detector revealed that five strains could use petroleum as sole carbon and energy source and the petroleum removal achieved up to 98% after 7 days of incubation. These isolates displayed an important role in the degradation of the n-alkanes (C6-C30), aromatic and polycyclic aromatic hydrocarbons. All strains showed a wide range of plant growth promoting features such as siderophores, phosphate solubilization, 1-aminocyclopropane-1-carboxylate deaminase, nitrogen fixation and indole-3-acetic acid production as well as biosurfactant production. This is the first study highlighting the petroleum degradation ability and plant growth promoting attributes of endophytic Streptomyces. The finding suggests that the endophytic actinobacteria isolated are promising candidates for improving phytoremediation efficiency of petroleum contaminated soil.
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Affiliation(s)
- Hafida Baoune
- Laboratoire de protection des écosystème en zones arides et semi-arides, FNSV, Université Kasdi Merbah Ouragla, 30000, Algeria.
| | - Aminata Ould El Hadj-Khelil
- Laboratoire de protection des écosystème en zones arides et semi-arides, FNSV, Université Kasdi Merbah Ouragla, 30000, Algeria.
| | - Graciela Pucci
- Centro de estudios e Investigación en Microbiología Aplicada (CEIMA), Universidad Nacional de la Patagonia San Juan Bosco (UNPSJB), Ruta Provincial N°1km 4, Comodoro Rivadavia, Chubut, Argentina.
| | - Pedro Sineli
- Planta Piloto de Procesos Industriales Microbiológicos (PROIMI), CONICET, Av. Belgrano y Pasaje Caseros, 4000 Tucumán, Argentina.
| | - Lotfi Loucif
- Laboratoire de biotechnologie des molécules bioactives et de la physiopathologie cellulaire (LBMBPC), Faculté des sciences de la nature et de la vie, Université de Batna 2, Batna, Algeria.
| | - Marta Alejandra Polti
- Planta Piloto de Procesos Industriales Microbiológicos (PROIMI), CONICET, Av. Belgrano y Pasaje Caseros, 4000 Tucumán, Argentina; Facultad de Ciencias Naturales e Instituto Miguel Lillo, Universidad Nacional de Tucumán (UNT), Miguel Lillo 251, 4000 Tucumán, Argentina.
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268
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Chen B, Luo S, Wu Y, Ye J, Wang Q, Xu X, Pan F, Khan KY, Feng Y, Yang X. The Effects of the Endophytic Bacterium Pseudomonas fluorescens Sasm05 and IAA on the Plant Growth and Cadmium Uptake of Sedum alfredii Hance. Front Microbiol 2017; 8:2538. [PMID: 29312228 PMCID: PMC5742199 DOI: 10.3389/fmicb.2017.02538] [Citation(s) in RCA: 59] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2017] [Accepted: 12/06/2017] [Indexed: 01/27/2023] Open
Abstract
Endophytic bacteria have received attention for their ability to promote plant growth and enhance phytoremediation, which may be attributed to their ability to produce indole-3-acetic acid (IAA). As a signal molecular, IAA plays a key role on the interaction of plant and its endomicrobes. However, the different effects that endophytic bacteria and IAA may have on plant growth and heavy metal uptake is not clear. In this study, the endophytic bacterium Pseudomonas fluorescens Sasm05 was isolated from the stem of the zinc (Zn)/cadmium (Cd) hyperaccumulator Sedum alfredii Hance. The effects of Sasm05 and exogenous IAA on plant growth, leaf chlorophyll concentration, leaf Mg2+-ATPase and Ca2+-ATPase activity, cadmium (Cd) uptake and accumulation as well as the expression of metal transporter genes were compared in a hydroponic experiment with 10 μM Cd. The results showed that after treatment with 1 μM IAA, the shoot biomass and chlorophyll concentration increased significantly, but the Cd uptake and accumulation by the plant was not obviously affected. Sasm05 inoculation dramatically increased plant biomass, Cd concentration, shoot chlorophyll concentration and enzyme activities, largely improved the relative expression of the three metal transporter families ZRT/IRT-like protein (ZIP), natural resistance associated macrophage protein (NRAMP) and heavy metal ATPase (HMA). Sasm05 stimulated the expression of the SaHMAs (SaHMA2, SaHMA3, and SaHMA4), which enhanced Cd root to shoot translocation, and upregulated SaZIP, especially SaIRT1, expression to increase Cd uptake. These results showed that although both exogenous IAA and Sasm05 inoculation can improve plant growth and photosynthesis, Sasm05 inoculation has a greater effect on Cd uptake and translocation, indicating that this endophytic bacterium might not only produce IAA to promote plant growth under Cd stress but also directly regulate the expression of putative key Cd uptake and transport genes to enhance Cd accumulation of plant.
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Affiliation(s)
- Bao Chen
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China.,Zhejiang Bestwa EnviTech Co., Ltd., Post-Doctoral Research Center, Hangzhou, China
| | - Sha Luo
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Yingjie Wu
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Jiayuan Ye
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Qiong Wang
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Xiaomeng Xu
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Fengshan Pan
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Kiran Y Khan
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Ying Feng
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Xiaoe Yang
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
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269
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Barnawal D, Bharti N, Pandey SS, Pandey A, Chanotiya CS, Kalra A. Plant growth-promoting rhizobacteria enhance wheat salt and drought stress tolerance by altering endogenous phytohormone levels and TaCTR1/TaDREB2 expression. PHYSIOLOGIA PLANTARUM 2017; 161:502-514. [PMID: 28786221 DOI: 10.1111/ppl.12614] [Citation(s) in RCA: 129] [Impact Index Per Article: 18.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/13/2017] [Revised: 07/19/2017] [Accepted: 07/27/2017] [Indexed: 05/26/2023]
Abstract
Abiotic stresses such as salt and drought represent adverse environmental conditions that significantly damage plant growth and agricultural productivity. In this study, the mechanism of the plant growth-promoting rhizo-bacteria (PGPR)-stimulated tolerance against abiotic stresses has been explored. Results suggest that PGPR strains, Arthrobacter protophormiae (SA3) and Dietzia natronolimnaea (STR1), can facilitate salt stress tolerance in wheat crop, while Bacillus subtilis (LDR2) can provide tolerance against drought stress in wheat. These PGPR strains enhance photosynthetic efficiency under salt and drought stress conditions. Moreover, all three PGPR strains increase indole-3-acetic acid (IAA) content of wheat under salt and drought stress conditions. The SA3 and LDR2 inoculations counteracted the increase of abscisic acid (ABA) and 1-aminocyclopropane-1-carboxylate (ACC) under both salt and drought stress conditions, whereas STR1 had no significant impact on the ABA and ACC content. The impact of PGPR inoculations on these physiological parameters were further confirmed by gene expression analysis as we observed enhanced levels of the TaCTR1 gene in SA3-, STR1- and LDR2-treated wheat seedlings as compared to uninoculated drought and salt stressed plants. PGPR inoculations enhanced expression of TaDREB2 gene encoding for a transcription factor, which has been shown to be important for improving the tolerance of plants to abiotic stress conditions. Our study suggest that PGPR confer abiotic stress tolerance in wheat by enhancing IAA content, reducing ABA/ACC content, modulating expression of a regulatory component (CTR1) of ethylene signaling pathway and DREB2 transcription factor.
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Affiliation(s)
- Deepti Barnawal
- Microbial Technology Department, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP-226015, Lucknow, India
- Department of Environmental Science, Babasaheb Bhimrao Ambedkar University, A Central University, Lucknow, India
| | - Nidhi Bharti
- Microbial Technology Department, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP-226015, Lucknow, India
- Department of Botany, Savitribai Phule Pune University, Pune, India
| | - Shiv S Pandey
- Microbial Technology Department, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP-226015, Lucknow, India
| | - Alok Pandey
- Microbial Technology Department, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP-226015, Lucknow, India
| | - Chandan S Chanotiya
- Central Instrument Facility, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP-226015, Lucknow, India
| | - Alok Kalra
- Microbial Technology Department, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP-226015, Lucknow, India
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270
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Biswas JK, Mondal M, Rinklebe J, Sarkar SK, Chaudhuri P, Rai M, Shaheen SM, Song H, Rizwan M. Multi-metal resistance and plant growth promotion potential of a wastewater bacterium Pseudomonas aeruginosa and its synergistic benefits. ENVIRONMENTAL GEOCHEMISTRY AND HEALTH 2017; 39:1583-1593. [PMID: 28397062 DOI: 10.1007/s10653-017-9950-5] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/26/2016] [Accepted: 03/27/2017] [Indexed: 06/07/2023]
Abstract
Water and soil pollution by toxic heavy metals (HMs) is increasing globally because of increase in population, industrialization and urbanization. It is a burning problem for the public, scientists, academicians and politicians how to tackle the toxic contaminants which jeopardize the environment. One possible solution for pollution abatement is a bioremediation-effective and innovative technology that uses biological systems for treatment of contaminants. Many bacteria synthesize indole-3-acetic acid (IAA) which is a product of L-tryptophan metabolism and belongs to the auxin class of plant growth-promoting hormone. The present study aimed at assessing the resistance pattern of wastewater bacteria against multiple HMs and plant growth promotion activity associated with IAA. A Gram-negative bacterial strain Pseudomonas aeruginosa KUJM was isolated from Kalyani Sewage Treatment Plant. This strain showed the potential to tolerate multiple contaminations such as As(III) (50 mM), As(V) (800 mM), Cd (8 mM), Co (18 mM), Cu (7 mM), Cr (2.5 mM), Ni (3 mM) and Zn (14 mM). The capability of IAA production at different tryptophan concentration (1, 2, 5 and 10 mg mL-1) was determined, and seed germination-enhancing potential was also estimated on lentil (Lens culinaris). Such type of HM-resistant, IAA-producing and seed germination-enhancing P. aeruginosa KUJM offer great promise as inoculants to promote plant growth in the presence of toxic HMs, as well as plant inoculant systems useful for phytoremediation of polluted soils. Hence, P. aeruginosa KUJM finds significant applications in HM-contaminated poor agricultural field as well as in bioremediation of HM-contaminated wastewater system.
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Affiliation(s)
- Jayanta Kumar Biswas
- Pollution, Ecotoxicology and Ecotechnology Research Unit, Department of Ecological Studies, University of Kalyani, Kalyani, Nadia, West Bengal, 741235, India.
- International Centre for Ecological Engineering, University of Kalyani, Kalyani, West Bengal, 741235, India.
| | - Monojit Mondal
- Pollution, Ecotoxicology and Ecotechnology Research Unit, Department of Ecological Studies, University of Kalyani, Kalyani, Nadia, West Bengal, 741235, India
| | - Jörg Rinklebe
- Laboratory of Soil- and Groundwater-Management, Institute of Foundation Engineering, Water- and Waste-Management, School of Architecture and Civil Engineering, University of Wuppertal, Pauluskirchstraße 7, 42285, Wuppertal, Germany
- Department of Environment and Energy, Sejong University, 98 Gunja-dong, Gwnagjin-gu, Seoul, 143-747, South Korea
| | - Santosh Kumar Sarkar
- Department of Marine Science, University of Calcutta, 35 Ballygunge Circular Road, Calcutta 11, 700019, India
| | - Punarbasu Chaudhuri
- Department of Environmental Science, University of Calcutta, 35 Ballygunge Circular Road, Calcutta 11, 700019, India
| | - Mahendra Rai
- Department of Biotechnology, SGB Amravati University, Amravati, Maharashtra, 444602, India
| | - Sabry M Shaheen
- Laboratory of Soil- and Groundwater-Management, Institute of Foundation Engineering, Water- and Waste-Management, School of Architecture and Civil Engineering, University of Wuppertal, Pauluskirchstraße 7, 42285, Wuppertal, Germany
- Department of Soil and Water Sciences, Faculty of Agriculture, University of Kafrelsheikh, Kafr El-Sheikh, 33 516, Egypt
| | - Hocheol Song
- Department of Environment and Energy, Sejong University, 98 Gunja-dong, Gwnagjin-gu, Seoul, 143-747, South Korea
| | - Muhammad Rizwan
- Department of Environmental Sciences and Engineering, Government College University, Faisalabad, 38000, Pakistan
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271
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Walitang DI, Kim K, Madhaiyan M, Kim YK, Kang Y, Sa T. Characterizing endophytic competence and plant growth promotion of bacterial endophytes inhabiting the seed endosphere of Rice. BMC Microbiol 2017; 17:209. [PMID: 29073903 PMCID: PMC5658939 DOI: 10.1186/s12866-017-1117-0] [Citation(s) in RCA: 94] [Impact Index Per Article: 13.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2017] [Accepted: 10/18/2017] [Indexed: 12/20/2022] Open
Abstract
Background Rice (Oryza sativa L. ssp. indica) seeds as plant microbiome present both an opportunity and a challenge to colonizing bacterial community living in close association with plants. Nevertheless, the roles and activities of bacterial endophytes remain largely unexplored and insights into plant-microbe interaction are compounded by its complexity. In this study, putative functions or physiological properties associated with bacterial endophytic nature were assessed. Also, endophytic roles in plant growth and germination that may allow them to be selectively chosen by plants were also studied. Results The cultivable seed endophytes were dominated by Proteobacteria particularly class Gammaproteobacteria. Highly identical type strains were isolated from the seed endosphere regardless of the rice host’s physiological tolerance to salinity. Among the type strains, Flavobacterium sp., Microbacterium sp. and Xanthomonas sp. were isolated from the salt-sensitive and salt-tolerant cultivars. PCA-Biplot ordination also showed that specific type strains isolated from different rice cultivars have distinguishing similar characteristics. Flavobacterium sp. strains are phosphate solubilizers and indole-3-acetic acid producers with high tolerance to salinity and osmotic stress. Pseudomonas strains are characterized as high siderophore producers while Microbacterium sp. and Xanthomonas sp. strains have very high pectinase and cellulase activity. Among the physiological traits of the seed endophytes, bacterial pectinase and cellulase activity are positively correlated as well as salt and osmotic tolerance. Overall characterization shows that majority of the isolates could survive in 4–8% salt concentration as well as in 0.6 M and 1.2 M sucrose solution. The activities of catalase, pectinase and cellulase were also observed in almost all of the isolates indicating the importance of these characteristics for survival and colonization into the seed endosphere. Seed bacterial endophytes also showed promising plant growth promoting activities including hormone modulation, nitrogen fixation, siderophore production and phosphate solubilization. Conclusion Though many of the isolates possess similar PGP and endophytic physiological traits, this study shows some prominent and distinguishing traits among bacterial groups indicating key determinants for their success as endophytes in the rice seed endosphere. Rice seeds are also inhabited by bacterial endophytes that promote growth during early seedling development. Electronic supplementary material The online version of this article (10.1186/s12866-017-1117-0) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Denver I Walitang
- Department of Environmental and Biological Chemistry, College of Agriculture, Life and Environmental Sciences, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea
| | - Kiyoon Kim
- Department of Environmental and Biological Chemistry, College of Agriculture, Life and Environmental Sciences, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea
| | - Munusamy Madhaiyan
- Temasek Life Sciences Laboratory, Biomaterials and Biocatalyst, National University of Singapore, Singapore, Singapore
| | - Young Kee Kim
- Department of Environmental and Biological Chemistry, College of Agriculture, Life and Environmental Sciences, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea
| | - Yeongyeong Kang
- Department of Environmental and Biological Chemistry, College of Agriculture, Life and Environmental Sciences, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea
| | - Tongmin Sa
- Department of Environmental and Biological Chemistry, College of Agriculture, Life and Environmental Sciences, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea.
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272
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Matsuda R, Handayani ML, Sasaki H, Takechi K, Takano H, Takio S. Production of indoleacetic acid by strains of the epiphytic bacteria Neptunomonas spp. isolated from the red alga Pyropia yezoensis and the seagrass Zostera marina. Arch Microbiol 2017; 200:255-265. [DOI: 10.1007/s00203-017-1439-1] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2017] [Revised: 09/24/2017] [Accepted: 10/05/2017] [Indexed: 02/07/2023]
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273
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Mechanisms of action of plant growth promoting bacteria. World J Microbiol Biotechnol 2017; 33:197. [PMID: 28986676 PMCID: PMC5686270 DOI: 10.1007/s11274-017-2364-9] [Citation(s) in RCA: 354] [Impact Index Per Article: 50.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2017] [Accepted: 10/04/2017] [Indexed: 01/01/2023]
Abstract
The idea of eliminating the use of fertilizers which are sometimes environmentally unsafe is slowly becoming a reality because of the emergence of microorganisms that can serve the same purpose or even do better. Depletion of soil nutrients through leaching into the waterways and causing contamination are some of the negative effects of these chemical fertilizers that prompted the need for suitable alternatives. This brings us to the idea of using microbes that can be developed for use as biological fertilizers (biofertilizers). They are environmentally friendly as they are natural living organisms. They increase crop yield and production and, in addition, in developing countries, they are less expensive compared to chemical fertilizers. These biofertilizers are typically called plant growth-promoting bacteria (PGPB). In addition to PGPB, some fungi have also been demonstrated to promote plant growth. Apart from improving crop yields, some biofertilizers also control various plant pathogens. The objective of worldwide sustainable agriculture is much more likely to be achieved through the widespread use of biofertilizers rather than chemically synthesized fertilizers. However, to realize this objective it is essential that the many mechanisms employed by PGPB first be thoroughly understood thereby allowing workers to fully harness the potentials of these microbes. The present state of our knowledge regarding the fundamental mechanisms employed by PGPB is discussed herein.
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274
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Santos ARS, Etto RM, Furmam RW, Freitas DLD, Santos KFDN, Souza EMD, Pedrosa FDO, Ayub RA, Steffens MBR, Galvão CW. Labeled Azospirillum brasilense wild type and excretion-ammonium strains in association with barley roots. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2017; 118:422-426. [PMID: 28711791 DOI: 10.1016/j.plaphy.2017.07.003] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2017] [Revised: 06/20/2017] [Accepted: 07/03/2017] [Indexed: 06/07/2023]
Abstract
Soil bacteria colonization in plants is a complex process, which involves interaction between many bacterial characters and plant responses. In this work, we labeled Azospirillum brasilense FP2 (wild type) and HM053 (excretion-ammonium) strains by insertion of the reporter gene gusA-kanamycin into the dinitrogenase reductase coding gene, nifH, and evaluated bacteria colonization in barley (Hordeum vulgare). In addition, we determined inoculation effect based on growth promotion parameters. We report an uncommon endophytic behavior of A. brasilense Sp7 derivative inside the root hair cells of barley and highlight the promising use of A. brasilense HM053 as plant growth-promoting bacterium.
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Affiliation(s)
| | - Rafael Mazer Etto
- Department of Chemistry, Universidade Estadual de Ponta Grossa, Ponta Grossa, Paraná, Brazil
| | - Rafaela Wiegand Furmam
- Department of Structural and Molecular Biology and Genetics, Universidade Estadual de Ponta Grossa, Ponta Grossa, Paraná, Brazil
| | - Denis Leandro de Freitas
- Department of Structural and Molecular Biology and Genetics, Universidade Estadual de Ponta Grossa, Ponta Grossa, Paraná, Brazil
| | | | - Emanuel Maltempi de Souza
- Department of Biochemistry and Molecular Biology, Universidade Federal do Paraná, Curitiba, Paraná, Brazil
| | - Fábio de Oliveira Pedrosa
- Department of Biochemistry and Molecular Biology, Universidade Federal do Paraná, Curitiba, Paraná, Brazil
| | - Ricardo Antônio Ayub
- Department of Phytotechny and Phytosanitary, Universidade Estadual de Ponta Grossa, Ponta Grossa, Paraná, Brazil
| | | | - Carolina Weigert Galvão
- Department of Structural and Molecular Biology and Genetics, Universidade Estadual de Ponta Grossa, Ponta Grossa, Paraná, Brazil.
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275
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Cruz-González X, Laza-Pérez N, Mateos PF, Rivas R. Analysis and effect of the use of biofertilizers on Trifolium rubens L., a preferential attention species in Castile and Leon, Spain, with the aim of increasing the plants conservation status. AIMS Microbiol 2017; 3:733-746. [PMID: 31294185 PMCID: PMC6604960 DOI: 10.3934/microbiol.2017.4.733] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2017] [Accepted: 08/14/2017] [Indexed: 11/18/2022] Open
Abstract
Trifolium rubens L. is a leguminous plant "Preferential Attention", according to the Catalog of Protected Flora of Castile and Leon (Spain). In this study we aimed to analyze the potential of three bacterial strains of the genus Rhizobium to improve the growth and development of this plant. All three strains produced 3-indoleacetic acid (IAA), but the strain ATCC 14480 produced the most. In addition, all strains produced biofilms and cellulases, although in different quantities. The synthesis of these products has been described as being related to the processes of the adherence of bacteria to the plant root surface and their entrance into the plant, respectively. In addition, in vitro assays and assays conducted under controlled and sterile conditions were performed, showing that the three strains were capable of nodulating T. rubens L. and effectively fixed nitrogen for the plant. These results were corroborated by morphological and histological analysis of nodules. Finally, greenhouse assays determined the effects of the strains under more competitive conditions, and it was concluded that inoculated plants presented greater lengths and weights, both aerial and radicular, and also chlorophyll and nitrogen content compared to the uninoculated controls.
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Affiliation(s)
- Xavier Cruz-González
- Department of Microbiology and Genetics, University of Salamanca, Salamanca, Castile & Leon, Spain.,Spanish-Portuguese Institute for Agricultural Research (CIALE), Salamanca, Castile & Leon, Spain
| | - Nereha Laza-Pérez
- Department of Microbiology and Genetics, University of Salamanca, Salamanca, Castile & Leon, Spain
| | - Pedro F Mateos
- Department of Microbiology and Genetics, University of Salamanca, Salamanca, Castile & Leon, Spain.,Spanish-Portuguese Institute for Agricultural Research (CIALE), Salamanca, Castile & Leon, Spain.,Associated I + D Unit, USAL-CSIC (IRNASA), Salamanca, Castile & Leon, Spain
| | - Raúl Rivas
- Department of Microbiology and Genetics, University of Salamanca, Salamanca, Castile & Leon, Spain.,Spanish-Portuguese Institute for Agricultural Research (CIALE), Salamanca, Castile & Leon, Spain.,Associated I + D Unit, USAL-CSIC (IRNASA), Salamanca, Castile & Leon, Spain
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276
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Valdameri G, Alberton D, Moure VR, Kokot TB, Kukolj C, Brusamarello-Santos LCC, Monteiro RA, Pedrosa FDO, de Souza EM. Herbaspirillum rubrisubalbicans, a mild pathogen impairs growth of rice by augmenting ethylene levels. PLANT MOLECULAR BIOLOGY 2017; 94:625-640. [PMID: 28674938 DOI: 10.1007/s11103-017-0629-1] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2016] [Accepted: 06/23/2017] [Indexed: 06/07/2023]
Abstract
Herbaspirillum rubrisubalbicans decreases growth of rice. Inoculation of rice with H. rubrisubalbicans increased the ACCO mRNA levels and ethylene production. The H. rubrisubalbicans rice interactions were further characterized by proteomic approach. Herbaspirillum rubrisubalbicans is a well-known growth-promoting rhizobacteria that can also act as a mild phyto-pathogen. During colonisation of rice, RT-qPCR analyses showed that H. rubrisubalbicans up-regulates the methionine recycling pathway as well as phyto-siderophore synthesis genes. mRNA levels of ACC oxidase and ethylene levels also increased in rice roots but inoculation with H. rubrisubalbicans impaired growth of the rice plant. A proteomic approach was used to identify proteins specifically modulated by H. rubrisubalbicans in rice and amongst the differentially expressed proteins a V-ATPase and a 14-3-3 protein were down-regulated. Several proteins of H. rubrisubalbicans were identified, including the type VI secretion system effector Hcp1, suggesting that protein secretion play a role colonisation in rice. Finally, the alkyl hydroperoxide reductase, a primary scavenger of endogenous hydrogen peroxide was also identified. Monitoring the levels of reactive oxygen species in the epiphytic bacteria by flow cytometry revealed that H. rubrisubalbicans is subjected to oxidative stress, suggesting that the alkyl hydroperoxide reductase is an important regulator of redox homeostasis in plant-bacteria interactions.
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Affiliation(s)
- Glaucio Valdameri
- Department of Biochemistry and Molecular Biology, Centro Politécnico, Setor de Ciências Biológicas, Jardim das Américas, Federal University of Parana, Curitiba, 19046, PR, Brazil
- Department of Clinical Analysis, Federal University of Parana, Curitiba, PR, Brazil
| | - Dayane Alberton
- Department of Biochemistry and Molecular Biology, Centro Politécnico, Setor de Ciências Biológicas, Jardim das Américas, Federal University of Parana, Curitiba, 19046, PR, Brazil
- Department of Clinical Analysis, Federal University of Parana, Curitiba, PR, Brazil
| | - Vivian Rotuno Moure
- Department of Biochemistry and Molecular Biology, Centro Politécnico, Setor de Ciências Biológicas, Jardim das Américas, Federal University of Parana, Curitiba, 19046, PR, Brazil
| | - Thiago Borba Kokot
- Department of Biochemistry and Molecular Biology, Centro Politécnico, Setor de Ciências Biológicas, Jardim das Américas, Federal University of Parana, Curitiba, 19046, PR, Brazil
| | - Caroline Kukolj
- Department of Biochemistry and Molecular Biology, Centro Politécnico, Setor de Ciências Biológicas, Jardim das Américas, Federal University of Parana, Curitiba, 19046, PR, Brazil
| | - Liziane Cristina Campos Brusamarello-Santos
- Department of Biochemistry and Molecular Biology, Centro Politécnico, Setor de Ciências Biológicas, Jardim das Américas, Federal University of Parana, Curitiba, 19046, PR, Brazil
| | - Rose Adele Monteiro
- Department of Biochemistry and Molecular Biology, Centro Politécnico, Setor de Ciências Biológicas, Jardim das Américas, Federal University of Parana, Curitiba, 19046, PR, Brazil
| | - Fabio de Oliveira Pedrosa
- Department of Biochemistry and Molecular Biology, Centro Politécnico, Setor de Ciências Biológicas, Jardim das Américas, Federal University of Parana, Curitiba, 19046, PR, Brazil
| | - Emanuel Maltempi de Souza
- Department of Biochemistry and Molecular Biology, Centro Politécnico, Setor de Ciências Biológicas, Jardim das Américas, Federal University of Parana, Curitiba, 19046, PR, Brazil.
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277
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Battini F, Grønlund M, Agnolucci M, Giovannetti M, Jakobsen I. Facilitation of phosphorus uptake in maize plants by mycorrhizosphere bacteria. Sci Rep 2017; 7:4686. [PMID: 28680077 PMCID: PMC5498536 DOI: 10.1038/s41598-017-04959-0] [Citation(s) in RCA: 75] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2017] [Accepted: 05/17/2017] [Indexed: 11/23/2022] Open
Abstract
A major challenge for agriculture is to provide sufficient plant nutrients such as phosphorus (P) to meet the global food demand. The sufficiency of P is a concern because of it's essential role in plant growth, the finite availability of P-rock for fertilizer production and the poor plant availability of soil P. This study investigated whether biofertilizers and bioenhancers, such as arbuscular mycorrhizal fungi (AMF) and their associated bacteria could enhance growth and P uptake in maize. Plants were grown with or without mycorrhizas in compartmented pots with radioactive P tracers and were inoculated with each of 10 selected bacteria isolated from AMF spores. Root colonization by AMF produced large plant growth responses, while seven bacterial strains further facilitated root growth and P uptake by promoting the development of AMF extraradical mycelium. Among the tested strains, Streptomyces sp. W94 produced the largest increases in uptake and translocation of 33P, while Streptomyces sp. W77 highly enhanced hyphal length specific uptake of 33P. The positive relationship between AMF-mediated P absorption and shoot P content was significantly influenced by the bacteria inoculants and such results emphasize the potential importance of managing both AMF and their microbiota for improving P acquisition by crops.
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Affiliation(s)
- Fabio Battini
- Department of Agriculture, Food and Environment, University of Pisa, Pisa, 56124, Italy.
| | - Mette Grønlund
- Department of Chemical and Biochemical Engineering, Technical University of Denmark, Lyngby, DK-2800, Kgs., Denmark
- Department of Plant and Environmental Sciences, Faculty of Science, University of Copenhagen, 1871 Frederiksberg C, Copenhagen, Denmark
| | - Monica Agnolucci
- Department of Agriculture, Food and Environment, University of Pisa, Pisa, 56124, Italy
| | - Manuela Giovannetti
- Department of Agriculture, Food and Environment, University of Pisa, Pisa, 56124, Italy
| | - Iver Jakobsen
- Department of Chemical and Biochemical Engineering, Technical University of Denmark, Lyngby, DK-2800, Kgs., Denmark
- Department of Plant and Environmental Sciences, Faculty of Science, University of Copenhagen, 1871 Frederiksberg C, Copenhagen, Denmark
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278
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Abstract
Phytoremediation is a promising technology that uses plants and their associated microbes to clean up contaminants from the environment. In recent years, phytoremediation assisted by plant growth-promoting bacteria (PGPB) has been highly touted for cleaning up toxic metals from soil. PGPB include rhizospheric bacteria, endophytic bacteria and the bacteria that facilitate phytoremediation by other means. This review provides information about the traits and mechanisms possessed by PGPB that improve plant metal tolerance and growth, and illustrate mechanisms responsible for plant metal accumulation/translocation in plants. Several recent examples of phytoremediation of metals facilitated by PGPB are reviewed. Although many encouraging results have been reported in the past years, there have also been numerous challenges encountered in phytoremediation in the field. To implement PGPB-assisted phytoremediation of metals in the natural environment, there is also a need to critically assess the ecological effects of PGPB, especially for those nonnative bacteria.
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Affiliation(s)
- Zhaoyu Kong
- School of Life Science, Key Laboratory of Poyang Lake Environment and Resource Utilization, Ministry of Education, Nanchang University, Nanchang, China.
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279
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Ozdal M, Ozdal OG, Sezen A, Algur OF, Kurbanoglu EB. Continuous production of indole-3-acetic acid by immobilized cells of Arthrobacter agilis. 3 Biotech 2017; 7:23. [PMID: 28401461 PMCID: PMC5388657 DOI: 10.1007/s13205-017-0605-0] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2016] [Accepted: 01/07/2017] [Indexed: 11/29/2022] Open
Abstract
Indole acetic acid (IAA) is a plant growth-promoting hormone used in agriculture; therefore, its continuous production is of paramount importance. IAA-producing eight bacteria were isolated from the rhizosphere of Verbascum vulcanicum. Among them, Arthrobacter agilis A17 gave maximum IAA production (75 mg/L) and this strain was used to immobilization studies. The A. agilis A17 cells were immobilized in calcium alginate for the production of IAA. Optimization of process parameters for IAA production was carried out to enhance IAA production using immobilized cells. The maximal production of IAA was 520 mg/L under the following optimal conditions: 1% mannitol, 30 °C, pH 8.0, and 24 h incubation. It was determined that the immobilized cells could be reused (13 times) for the production of IAA.
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Affiliation(s)
- Murat Ozdal
- Department of Biology, Faculty of Science, Ataturk University, 25240, Erzurum, Turkey.
| | - Ozlem Gur Ozdal
- Department of Biology, Faculty of Science, Ataturk University, 25240, Erzurum, Turkey
| | - Alev Sezen
- Department of Biology, Faculty of Science, Ataturk University, 25240, Erzurum, Turkey
| | - Omer Faruk Algur
- Department of Biology, Faculty of Science, Ataturk University, 25240, Erzurum, Turkey
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280
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Chen X, Liu X, Zhang X, Cao L, Hu X. Phytoremediation effect of Scirpus triqueter inoculated plant-growth-promoting bacteria (PGPB) on different fractions of pyrene and Ni in co-contaminated soils. JOURNAL OF HAZARDOUS MATERIALS 2017; 325:319-326. [PMID: 27951500 DOI: 10.1016/j.jhazmat.2016.12.009] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2016] [Revised: 11/07/2016] [Accepted: 12/03/2016] [Indexed: 05/27/2023]
Abstract
At present, few reveal the mechanism of inoculation plants with PGPB to remediate PAH-metal co-contaminated soil by analyzing the chemical speciations of contaminants. This study investigated the influence of inoculation plants with PGPB on different fractions of pyrene and Ni in rhizospheric and non-rhizospheric soil. The results demonstrated that the addition of PGPB brought the extensive increase of FDA activities in pyrene-Ni co-contaminated soil. PGPB increased the resistance of plants in nickel and pyrene-Ni contaminated soil, but decreased the plant biomass in single pyrene contaminated soil. The addition of PGPB efficiently decreased bioaccessible fractions of pyrene and increased the bioavailability of Ni in both rhizospheric and non-rhizospheric soil. Although inoculation plants with PGPB significantly increased the accumulation of Ni in single Ni and pyrene-Ni co-contaminated soil, the poor bioavailability of Ni in rhizospheric soil still restricted the phytoremediation of the heavy metal. The presence of pyrene hindered the inoculated plant from accumulating Ni to some extent. On the contrary, the presence of Ni significantly promoted the degradation of pyrene in both rhizospheric and non-rhizospheric soil after inoculation plants with PGPB.
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Affiliation(s)
- Xiao Chen
- Laboratory of environmental remediation, College of environmental and chemical engineering, Shanghai University, Shanghai 200444, China
| | - Xiaoyan Liu
- Laboratory of environmental remediation, College of environmental and chemical engineering, Shanghai University, Shanghai 200444, China.
| | - Xinying Zhang
- Laboratory of environmental remediation, College of environmental and chemical engineering, Shanghai University, Shanghai 200444, China
| | - Liya Cao
- Laboratory of environmental remediation, College of environmental and chemical engineering, Shanghai University, Shanghai 200444, China
| | - Xiaoxin Hu
- Laboratory of environmental remediation, College of environmental and chemical engineering, Shanghai University, Shanghai 200444, China
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281
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Xin K, Li M, Chen C, Yang X, Li Q, Cheng J, Zhang L, Shen X. Paenibacillus qinlingensis sp. nov., an indole-3-acetic acid-producing bacterium isolated from roots of Sinopodophyllum hexandrum (Royle) Ying. Int J Syst Evol Microbiol 2017; 67:589-595. [DOI: 10.1099/ijsem.0.001666] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Kaiyun Xin
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A and F University, Yangling, Shaanxi 712100, PR China
| | - Muhang Li
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A and F University, Yangling, Shaanxi 712100, PR China
| | - Chaoqiong Chen
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A and F University, Yangling, Shaanxi 712100, PR China
| | - Xu Yang
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A and F University, Yangling, Shaanxi 712100, PR China
| | - Qiqi Li
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A and F University, Yangling, Shaanxi 712100, PR China
| | - Juanli Cheng
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A and F University, Yangling, Shaanxi 712100, PR China
- Life Sciences Department, Yuncheng University, Yuncheng 044000, PR China
| | - Lei Zhang
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A and F University, Yangling, Shaanxi 712100, PR China
| | - Xihui Shen
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A and F University, Yangling, Shaanxi 712100, PR China
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282
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Khan AR, Park GS, Asaf S, Hong SJ, Jung BK, Shin JH. Complete genome analysis of Serratia marcescens RSC-14: A plant growth-promoting bacterium that alleviates cadmium stress in host plants. PLoS One 2017; 12:e0171534. [PMID: 28187139 PMCID: PMC5302809 DOI: 10.1371/journal.pone.0171534] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2016] [Accepted: 01/22/2017] [Indexed: 11/28/2022] Open
Abstract
Serratia marcescens RSC-14 is a Gram-negative bacterium that was previously isolated from the surface-sterilized roots of the Cd-hyperaccumulator Solanum nigrum. The strain stimulates plant growth and alleviates Cd stress in host plants. To investigate the genetic basis for these traits, the complete genome of RSC-14 was obtained by single-molecule real-time sequencing. The genome of S. marcescens RSC-14 comprised a 5.12-Mbp-long circular chromosome containing 4,593 predicted protein-coding genes, 22 rRNA genes, 88 tRNA genes, and 41 pseudogenes. It contained genes with potential functions in plant growth promotion, including genes involved in indole-3-acetic acid (IAA) biosynthesis, acetoin synthesis, and phosphate solubilization. Moreover, annotation using NCBI and Rapid Annotation using Subsystem Technology identified several genes that encode antioxidant enzymes as well as genes involved in antioxidant production, supporting the observed resistance towards heavy metals, such as Cd. The presence of IAA pathway-related genes and oxidative stress-responsive enzyme genes may explain the plant growth-promoting potential and Cd tolerance, respectively. This is the first report of a complete genome sequence of Cd-tolerant S. marcescens and its plant growth promotion pathway. The whole-genome analysis of this strain clarified the genetic basis underlying its phenotypic and biochemical characteristics, underpinning the beneficial interactions between RSC-14 and plants.
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Affiliation(s)
- Abdur Rahim Khan
- School of Applied Biosciences, College of Agriculture and Life Sciences, Kyungpook National University, Daegu, Republic of Korea
- Department of Plant and Microbial Biology, University of California, Berkeley, CA, United States of America
| | - Gun-Seok Park
- School of Applied Biosciences, College of Agriculture and Life Sciences, Kyungpook National University, Daegu, Republic of Korea
| | - Sajjad Asaf
- School of Applied Biosciences, College of Agriculture and Life Sciences, Kyungpook National University, Daegu, Republic of Korea
| | - Sung-Jun Hong
- School of Applied Biosciences, College of Agriculture and Life Sciences, Kyungpook National University, Daegu, Republic of Korea
| | - Byung Kwon Jung
- School of Applied Biosciences, College of Agriculture and Life Sciences, Kyungpook National University, Daegu, Republic of Korea
| | - Jae-Ho Shin
- School of Applied Biosciences, College of Agriculture and Life Sciences, Kyungpook National University, Daegu, Republic of Korea
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283
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Leonard S, Hommais F, Nasser W, Reverchon S. Plant-phytopathogen interactions: bacterial responses to environmental and plant stimuli. Environ Microbiol 2017; 19:1689-1716. [DOI: 10.1111/1462-2920.13611] [Citation(s) in RCA: 50] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2016] [Revised: 11/09/2016] [Accepted: 11/16/2016] [Indexed: 01/06/2023]
Affiliation(s)
- Simon Leonard
- University of Lyon, Université Claude Bernard Lyon 1; INSA-Lyon, CNRS, UMR5240, Microbiologie, Adaptation, Pathogénie, 10 rue Raphaël Dubois Villeurbanne F-69622 France
| | - Florence Hommais
- University of Lyon, Université Claude Bernard Lyon 1; INSA-Lyon, CNRS, UMR5240, Microbiologie, Adaptation, Pathogénie, 10 rue Raphaël Dubois Villeurbanne F-69622 France
| | - William Nasser
- University of Lyon, Université Claude Bernard Lyon 1; INSA-Lyon, CNRS, UMR5240, Microbiologie, Adaptation, Pathogénie, 10 rue Raphaël Dubois Villeurbanne F-69622 France
| | - Sylvie Reverchon
- University of Lyon, Université Claude Bernard Lyon 1; INSA-Lyon, CNRS, UMR5240, Microbiologie, Adaptation, Pathogénie, 10 rue Raphaël Dubois Villeurbanne F-69622 France
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284
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Nieto-Jacobo MF, Steyaert JM, Salazar-Badillo FB, Nguyen DV, Rostás M, Braithwaite M, De Souza JT, Jimenez-Bremont JF, Ohkura M, Stewart A, Mendoza-Mendoza A. Environmental Growth Conditions of Trichoderma spp. Affects Indole Acetic Acid Derivatives, Volatile Organic Compounds, and Plant Growth Promotion. FRONTIERS IN PLANT SCIENCE 2017; 8:102. [PMID: 28232840 PMCID: PMC5299017 DOI: 10.3389/fpls.2017.00102] [Citation(s) in RCA: 95] [Impact Index Per Article: 13.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/28/2016] [Accepted: 01/18/2017] [Indexed: 05/04/2023]
Abstract
Trichoderma species are soil-borne filamentous fungi widely utilized for their many plant health benefits, such as conferring improved growth, disease resistance and abiotic stress tolerance to their hosts. Many Trichoderma species are able to produce the auxin phytohormone indole-3-acetic acid (IAA), and its production has been suggested to promote root growth. Here we show that the production of IAA is strain dependent and diverse external stimuli are associated with its production. In in vitro assays, Arabidopsis primary root length was negatively affected by the interaction with some Trichoderma strains. In soil experiments, a continuum effect on plant growth was shown and this was also strain dependent. In plate assays, some strains of Trichoderma spp. inhibited the expression of the auxin reporter gene DR5 in Arabidopsis primary roots but not secondary roots. When Trichoderma spp. and A. thaliana were physically separated, enhancement of both shoot and root biomass, increased root production and chlorophyll content were observed, which strongly suggested that volatile production by the fungus influenced the parameters analyzed. Trichoderma strains T. virens Gv29.8, T. atroviride IMI206040, T. sp. "atroviride B" LU132, and T. asperellum LU1370 were demonstrated to promote plant growth through volatile production. However, contrasting differences were observed with LU1370 which had a negative effect on plant growth in soil but a positive effect in plate assays. Altogether our results suggest that the mechanisms and molecules involved in plant growth promotion by Trichoderma spp. are multivariable and are affected by the environmental conditions.
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Affiliation(s)
| | | | - Fatima B. Salazar-Badillo
- Bio-Protection Research Centre, Lincoln UniversityLincoln, New Zealand
- Institute for Scientific and Technological Research of San Luis PotosiSan Luis Potosí, Mexico
| | - Dianne Vi Nguyen
- Bio-Protection Research Centre, Lincoln UniversityLincoln, New Zealand
| | - Michael Rostás
- Bio-Protection Research Centre, Lincoln UniversityLincoln, New Zealand
| | - Mark Braithwaite
- Bio-Protection Research Centre, Lincoln UniversityLincoln, New Zealand
| | - Jorge T. De Souza
- Bio-Protection Research Centre, Lincoln UniversityLincoln, New Zealand
- Department of Phytopathology, Federal University of LavrasLavras, Brazil
| | - Juan F. Jimenez-Bremont
- Institute for Scientific and Technological Research of San Luis PotosiSan Luis Potosí, Mexico
| | - Mana Ohkura
- School of Plant Sciences, University of ArizonaTucson, AZ, USA
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285
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Bogner CW, Kamdem RST, Sichtermann G, Matthäus C, Hölscher D, Popp J, Proksch P, Grundler FMW, Schouten A. Bioactive secondary metabolites with multiple activities from a fungal endophyte. Microb Biotechnol 2016; 10:175-188. [PMID: 27990770 PMCID: PMC5270730 DOI: 10.1111/1751-7915.12467] [Citation(s) in RCA: 68] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2016] [Revised: 10/31/2016] [Accepted: 11/03/2016] [Indexed: 01/20/2023] Open
Abstract
In order to replace particularly biohazardous nematocides, there is a strong drive to finding natural product‐based alternatives with the aim of containing nematode pests in agriculture. The metabolites produced by the fungal endophyte Fusarium oxysporum 162 when cultivated on rice media were isolated and their structures elucidated. Eleven compounds were obtained, of which six were isolated from a Fusarium spp. for the first time. The three most potent nematode‐antagonistic compounds, 4‐hydroxybenzoic acid, indole‐3‐acetic acid (IAA) and gibepyrone D had LC50 values of 104, 117 and 134 μg ml−1, respectively, after 72 h. IAA is a well‐known phytohormone that plays a role in triggering plant resistance, thus suggesting a dual activity, either directly, by killing or compromising nematodes, or indirectly, by inducing defence mechanisms against pathogens (nematodes) in plants. Such compounds may serve as important leads in the development of novel, environmental friendly, nematocides.
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Affiliation(s)
- Catherine W Bogner
- Institute of Crop Science and Resource Conservation (INRES), Department of Molecular Phytomedicine, University of Bonn, Karlrobert-Kreiten Str. 13, 53115, Bonn, Germany
| | - Ramsay S T Kamdem
- Institute of Pharmaceutical Biology and Biotechnology, Heinrich-Heine-University Düsseldorf, Universitäts Str. 1. Building. 26.23, 40225, Düsseldorf, Germany
| | - Gisela Sichtermann
- Institute of Crop Science and Resource Conservation (INRES), Department of Molecular Phytomedicine, University of Bonn, Karlrobert-Kreiten Str. 13, 53115, Bonn, Germany
| | - Christian Matthäus
- Institute of Photonic Technology, Workgroup Spectroscopy/Imaging, Albert-Einstein-Str. 9, 07745, Jena, Germany.,Institute of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University, Helmholtzweg 4, 07743, Jena, Germany
| | - Dirk Hölscher
- Research Group Biosynthesis/NMR, Max Planck Institute for Chemical Ecology, Hans-Knöll-Str. 8, 07745, Jena, Germany
| | - Jürgen Popp
- Institute of Photonic Technology, Workgroup Spectroscopy/Imaging, Albert-Einstein-Str. 9, 07745, Jena, Germany.,Institute of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University, Helmholtzweg 4, 07743, Jena, Germany
| | - Peter Proksch
- Institute of Pharmaceutical Biology and Biotechnology, Heinrich-Heine-University Düsseldorf, Universitäts Str. 1. Building. 26.23, 40225, Düsseldorf, Germany
| | - Florian M W Grundler
- Institute of Crop Science and Resource Conservation (INRES), Department of Molecular Phytomedicine, University of Bonn, Karlrobert-Kreiten Str. 13, 53115, Bonn, Germany
| | - Alexander Schouten
- Institute of Crop Science and Resource Conservation (INRES), Department of Molecular Phytomedicine, University of Bonn, Karlrobert-Kreiten Str. 13, 53115, Bonn, Germany
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286
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Heydarian Z, Yu M, Gruber M, Glick BR, Zhou R, Hegedus DD. Inoculation of Soil with Plant Growth Promoting Bacteria Producing 1-Aminocyclopropane-1-Carboxylate Deaminase or Expression of the Corresponding acdS Gene in Transgenic Plants Increases Salinity Tolerance in Camelina sativa. Front Microbiol 2016; 7:1966. [PMID: 28018305 PMCID: PMC5159422 DOI: 10.3389/fmicb.2016.01966] [Citation(s) in RCA: 53] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2016] [Accepted: 11/24/2016] [Indexed: 01/07/2023] Open
Abstract
Camelina sativa (camelina) is an oilseed crop touted for use on marginal lands; however, it is no more tolerant of soil salinity than traditional crops, such as canola. Plant growth-promoting bacteria (PGPB) that produce 1-aminocyclopropane-1-carboxylate deaminase (ACC deaminase) facilitate plant growth in the presence of abiotic stresses by reducing stress ethylene. Rhizospheric and endophytic PGPB and the corresponding acdS- mutants of the latter were examined for their ability to enhance tolerance to salt in camelina. Stimulation of growth and tolerance to salt was correlated with ACC deaminase production. Inoculation of soil with wild-type PGPB led to increased shoot length in the absence of salt, and increased seed production by approximately 30–50% under moderately saline conditions. The effect of ACC deaminase was further examined in transgenic camelina expressing a bacterial gene encoding ACC deaminase (acdS) under the regulation of the CaMV 35S promoter or the root-specific rolD promoter. Lines expressing acdS, in particular those using the rolD promoter, showed less decline in root length and weight, increased seed production, better seed quality and higher levels of seed oil production under salt stress. This study clearly demonstrates the potential benefit of using either PGPB that produce ACC deaminase or transgenic plants expressing the acdS gene under the control of a root-specific promoter to facilitate plant growth, seed production and seed quality on land that is not normally suitable for the majority of crops due to high salt content.
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Affiliation(s)
- Zohreh Heydarian
- Agriculture and Agri-Food Canada, SaskatoonSK, Canada; Department of Biotechnology, School of Agriculture, Shiraz UniversityShiraz, Iran
| | - Min Yu
- Agriculture and Agri-Food Canada, Saskatoon SK, Canada
| | | | - Bernard R Glick
- Department of Biology, University of Waterloo, Waterloo ON, Canada
| | - Rong Zhou
- Agriculture and Agri-Food Canada, Saskatoon SK, Canada
| | - Dwayne D Hegedus
- Agriculture and Agri-Food Canada, SaskatoonSK, Canada; Department of Food and Bioproduct Sciences, University of Saskatchewan, SaskatoonSK, Canada
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287
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Biochemical and Genetic Bases of Indole-3-Acetic Acid (Auxin Phytohormone) Degradation by the Plant-Growth-Promoting Rhizobacterium Paraburkholderia phytofirmans PsJN. Appl Environ Microbiol 2016; 83:AEM.01991-16. [PMID: 27795307 DOI: 10.1128/aem.01991-16] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2016] [Accepted: 10/14/2016] [Indexed: 12/16/2022] Open
Abstract
Several bacteria use the plant hormone indole-3-acetic acid (IAA) as a sole carbon and energy source. A cluster of genes (named iac) encoding IAA degradation has been reported in Pseudomonas putida 1290, but the functions of these genes are not completely understood. The plant-growth-promoting rhizobacterium Paraburkholderia phytofirmans PsJN harbors iac gene homologues in its genome, but with a different gene organization and context than those of P. putida 1290. The iac gene functions enable P. phytofirmans to use IAA as a sole carbon and energy source. Employing a heterologous expression system approach, P. phytofirmans iac genes with previously undescribed functions were associated with specific biochemical steps. In addition, two uncharacterized genes, previously unreported in P. putida and found to be related to major facilitator and tautomerase superfamilies, are involved in removal of an IAA metabolite called dioxindole-3-acetate. Similar to the case in strain 1290, IAA degradation proceeds through catechol as intermediate, which is subsequently degraded by ortho-ring cleavage. A putative two-component regulatory system and a LysR-type regulator, which apparently respond to IAA and dioxindole-3-acetate, respectively, are involved in iac gene regulation in P. phytofirmans These results provide new insights about unknown gene functions and complex regulatory mechanisms in IAA bacterial catabolism. IMPORTANCE This study describes indole-3-acetic acid (auxin phytohormone) degradation in the well-known betaproteobacterium P. phytofirmans PsJN and comprises a complete description of genes, some of them with previously unreported functions, and the general basis of their gene regulation. This work contributes to the understanding of how beneficial bacteria interact with plants, helping them to grow and/or to resist environmental stresses, through a complex set of molecular signals, in this case through degradation of a highly relevant plant hormone.
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288
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Streletskii RA, Kachalkin AV, Glushakova AM, Demin VV, Chernov IY. Quantitative determination of indole-3-acetic acid in yeasts using high performance liquid chromatography—tandem mass spectrometry. Microbiology (Reading) 2016. [DOI: 10.1134/s0026261716060187] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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289
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Grady EN, MacDonald J, Liu L, Richman A, Yuan ZC. Current knowledge and perspectives of Paenibacillus: a review. Microb Cell Fact 2016; 15:203. [PMID: 27905924 PMCID: PMC5134293 DOI: 10.1186/s12934-016-0603-7] [Citation(s) in RCA: 433] [Impact Index Per Article: 54.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2016] [Accepted: 11/24/2016] [Indexed: 12/11/2022] Open
Abstract
Isolated from a wide range of sources, the genus Paenibacillus comprises bacterial species relevant to humans, animals, plants, and the environment. Many Paenibacillus species can promote crop growth directly via biological nitrogen fixation, phosphate solubilization, production of the phytohormone indole-3-acetic acid (IAA), and release of siderophores that enable iron acquisition. They can also offer protection against insect herbivores and phytopathogens, including bacteria, fungi, nematodes, and viruses. This is accomplished by the production of a variety of antimicrobials and insecticides, and by triggering a hypersensitive defensive response of the plant, known as induced systemic resistance (ISR). Paenibacillus-derived antimicrobials also have applications in medicine, including polymyxins and fusaricidins, which are nonribosomal lipopeptides first isolated from strains of Paenibacillus polymyxa. Other useful molecules include exo-polysaccharides (EPS) and enzymes such as amylases, cellulases, hemicellulases, lipases, pectinases, oxygenases, dehydrogenases, lignin-modifying enzymes, and mutanases, which may have applications for detergents, food and feed, textiles, paper, biofuel, and healthcare. On the negative side, Paenibacillus larvae is the causative agent of American Foulbrood, a lethal disease of honeybees, while a variety of species are opportunistic infectors of humans, and others cause spoilage of pasteurized dairy products. This broad review summarizes the major positive and negative impacts of Paenibacillus: its realised and prospective contributions to agriculture, medicine, process manufacturing, and bioremediation, as well as its impacts due to pathogenicity and food spoilage. This review also includes detailed information in Additional files 1, 2, 3 for major known Paenibacillus species with their locations of isolation, genome sequencing projects, patents, and industrially significant compounds and enzymes. Paenibacillus will, over time, play increasingly important roles in sustainable agriculture and industrial biotechnology.
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Affiliation(s)
- Elliot Nicholas Grady
- London Research and Development Centre, Agriculture & Agri-Food Canada, 1391 Sandford Street, London, ON N5V 4T3 Canada
| | - Jacqueline MacDonald
- Department of Microbiology & Immunology, Schulich School of Medicine & Dentistry, University of Western Ontario, Dental Science Building Rm. 3014, London, ON N6A 5C1 Canada
| | - Linda Liu
- London Research and Development Centre, Agriculture & Agri-Food Canada, 1391 Sandford Street, London, ON N5V 4T3 Canada
| | - Alex Richman
- London Research and Development Centre, Agriculture & Agri-Food Canada, 1391 Sandford Street, London, ON N5V 4T3 Canada
| | - Ze-Chun Yuan
- London Research and Development Centre, Agriculture & Agri-Food Canada, 1391 Sandford Street, London, ON N5V 4T3 Canada
- Department of Microbiology & Immunology, Schulich School of Medicine & Dentistry, University of Western Ontario, Dental Science Building Rm. 3014, London, ON N6A 5C1 Canada
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290
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Kunova A, Bonaldi M, Saracchi M, Pizzatti C, Chen X, Cortesi P. Selection of Streptomyces against soil borne fungal pathogens by a standardized dual culture assay and evaluation of their effects on seed germination and plant growth. BMC Microbiol 2016; 16:272. [PMID: 27829359 PMCID: PMC5103511 DOI: 10.1186/s12866-016-0886-1] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2016] [Accepted: 11/03/2016] [Indexed: 01/27/2023] Open
Abstract
Background In the search for new natural resources for crop protection, streptomycetes are gaining interest in agriculture as plant growth promoting bacteria and/or biological control agents. Because of their peculiar life cycle, in which the production of secondary metabolites is synchronized with the development of aerial hyphae and sporulation, the commonly used methods to screen for bacterial antagonists need to be adapted. Results The dual culture assay was standardized in terms of inoculation timing of Streptomyces antagonist and pathogen, and growth rate of different fungal pathogens. In case of fast-growing fungi, inoculation of the antagonist 2 or 3 days prior to the pathogen resulted in significantly stronger inhibition of mycelium growth. One hundred and thirty Streptomyces strains were evaluated against six destructive soil borne pathogens. The activity of strains varied from broad-spectrum to highly specific inhibition of individual pathogens. All strains inhibited at least one tested pathogen. Three strains, which combined the largest broad-spectrum with the highest inhibition activity, were selected for further characterization with four vegetable species. All of them were able to colonize seed surface of all tested vegetable crops. They mostly improved radicle and hypocotyl growth in vitro, although no statistically significant enhancement of biomass weight was observed in vivo. Occasionally, transient negative effects on germination and plant growth were observed. Conclusions The adapted dual culture assay allowed us to compare the inhibition of individual Streptomyces strains against six fungal soil borne pathogens. The best selected strains were able to colonize the four vegetable crops and have a potential to be developed into biocontrol products. Although they occasionally negatively influenced plant growth, these effects did not persist during the further development. Additional in vivo studies are needed to confirm their potential as biological control or plant growth promoting agents. Electronic supplementary material The online version of this article (doi:10.1186/s12866-016-0886-1) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Andrea Kunova
- Department of Food, Environmental and Nutritional Sciences (DeFENS), Università degli Studi di Milano, via Giovanni Celoria, 2, 20133, Milan, Italy.
| | - Maria Bonaldi
- Department of Food, Environmental and Nutritional Sciences (DeFENS), Università degli Studi di Milano, via Giovanni Celoria, 2, 20133, Milan, Italy
| | - Marco Saracchi
- Department of Food, Environmental and Nutritional Sciences (DeFENS), Università degli Studi di Milano, via Giovanni Celoria, 2, 20133, Milan, Italy
| | - Cristina Pizzatti
- Department of Food, Environmental and Nutritional Sciences (DeFENS), Università degli Studi di Milano, via Giovanni Celoria, 2, 20133, Milan, Italy
| | - Xiaoyulong Chen
- Department of Food, Environmental and Nutritional Sciences (DeFENS), Università degli Studi di Milano, via Giovanni Celoria, 2, 20133, Milan, Italy
| | - Paolo Cortesi
- Department of Food, Environmental and Nutritional Sciences (DeFENS), Università degli Studi di Milano, via Giovanni Celoria, 2, 20133, Milan, Italy
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291
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Ouyang L, Pei H, Xu Z. Low nitrogen stress stimulating the indole-3-acetic acid biosynthesis of Serratia sp. ZM is vital for the survival of the bacterium and its plant growth-promoting characteristic. Arch Microbiol 2016; 199:425-432. [PMID: 27803972 DOI: 10.1007/s00203-016-1312-7] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2016] [Revised: 10/18/2016] [Accepted: 10/21/2016] [Indexed: 10/20/2022]
Abstract
Serratia sp. ZM is a plant growth-promoting (PGP) bacterial strain isolated from the rhizospheric soil of Populus euphratica in northwestern China. In this study, low nitrogen supply significantly stimulated the production of indole-3-acetic acid (IAA) in Serratia sp.ZM. The inoculation of the bacterium to wheat seedlings improved plant growth compared with the uninoculated group, and the stimulating effect was more prominent under low nitrogen stress. Inactivation of the predicted key gene in the IAA biosynthesis pathway impaired IAA production and significantly hampered mutant growth in poor medium. Furthermore, the IAA-deficient mutant lost the PGP effect under either normal or low nitrogen conditions in plant experiments. This study revealed the significant impact of environmental nitrogen levels on IAA production in the PGP strain and the vital effect of IAA on resistance physiology of both the bacterium and host plant. The characteristics of Serratia sp. ZM also indicated its application potential as a biofertilizer for plants, especially those suffering from poor nitrogen soil.
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Affiliation(s)
- Liming Ouyang
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai, China.
| | - Haiyan Pei
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai, China
| | - Zhaohui Xu
- Department of Biological Sciences, Bowling Green State University, Bowling Green, USA
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292
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Kang SM, Asaf S, Kim SJ, Yun BW, Lee IJ. Complete genome sequence of plant growth-promoting bacterium Leifsonia xyli SE134, a possible gibberellin and auxin producer. J Biotechnol 2016; 239:34-38. [PMID: 27725207 DOI: 10.1016/j.jbiotec.2016.10.004] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2016] [Revised: 10/03/2016] [Accepted: 10/06/2016] [Indexed: 12/01/2022]
Abstract
Leifsonia xyli SE134 is a potential plant growth-promoting bacterium isolated from a soil in Daegu, Republic of Korea, which produces large amounts of gibberellin (GA) and indole acetic acid (IAA). In this study, we sequenced the complete genome of L. xyli SE134 by the Pacific Biosciences RSII (PacBio) Single Molecule Real Time (SMRT) sequencing technology. The genome of L. xyli SE134 contains a single chromosome that is 3,596,761bp in length, with 70.2% G+C content. The genome contains 3466 protein-coding genes (CDSs) and 51 rRNA- and 46 tRNA-coding genes. By genomic analysis, we identified genes that are potentially involved in plant growth promotion such as genes participating in indole-3-acetic acid (IAA) biosynthesis, siderophore, and trehalose production. L. xyli SE134 also harbours genes for central carbohydrate metabolism, indicating that it can utilise the root exudates with other organic materials as an energy source. Furthermore, the SE134 genome is equipped with various kinds of genes for adaptation to plant surfaces, e.g. defence against desiccation, nutrient deficiencies, and oxidative stress, and a large proportion of genes related to secretion mechanisms and signalling. The genetic information provided here may help to expand this bacterium's biotechnological potential and to further improve its plant growth-promoting characteristics.
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Affiliation(s)
- Sang-Mo Kang
- School of Applied Biosciences, Kyungpook National University, Daegu, Republic of Korea
| | - Sajjad Asaf
- School of Applied Biosciences, Kyungpook National University, Daegu, Republic of Korea
| | - Sang-Jun Kim
- Department of Natural Sciences, Naval Academy, Changwon 51704, Republic of Korea
| | - Byung-Wook Yun
- School of Applied Biosciences, Kyungpook National University, Daegu, Republic of Korea
| | - In-Jung Lee
- School of Applied Biosciences, Kyungpook National University, Daegu, Republic of Korea.
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293
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Müller CA, Obermeier MM, Berg G. Bioprospecting plant-associated microbiomes. J Biotechnol 2016; 235:171-80. [DOI: 10.1016/j.jbiotec.2016.03.033] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2015] [Revised: 03/17/2016] [Accepted: 03/21/2016] [Indexed: 10/22/2022]
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294
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Liu YY, Chen HW, Chou JY. Variation in Indole-3-Acetic Acid Production by Wild Saccharomyces cerevisiae and S. paradoxus Strains from Diverse Ecological Sources and Its Effect on Growth. PLoS One 2016; 11:e0160524. [PMID: 27483373 PMCID: PMC4970732 DOI: 10.1371/journal.pone.0160524] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2016] [Accepted: 07/19/2016] [Indexed: 12/16/2022] Open
Abstract
Phytohormone indole-3-acetic acid (IAA) is the most common naturally occurring and most thoroughly studied plant growth regulator. Microbial synthesis of IAA has long been known. Microbial IAA biosynthesis has been proposed as possibly occurring through multiple pathways, as has been proven in plants. However, the biosynthetic pathways of IAA and the ecological roles of IAA in yeast have not been widely studied. In this study, we investigated the variation in IAA production and its effect on the growth of Saccharomyces cerevisiae and its closest relative Saccharomyces paradoxus yeasts from diverse ecological sources. We found that almost all Saccharomyces yeasts produced IAA when cultured in medium supplemented with the primary precursor of IAA, L-tryptophan (L-Trp). However, when cultured in medium without L-Trp, IAA production was only detected in three strains. Furthermore, exogenous added IAA exerted stimulatory and inhibitory effects on yeast growth. Interestingly, a negative correlation was observed between the amount of IAA production in the yeast cultures and the IAA inhibition ratio of their growth.
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Affiliation(s)
- Yen-Yu Liu
- Department of Biology, National Changhua University of Education, Changhua 500, Taiwan, R.O.C
| | - Hung-Wei Chen
- Department of Biology, National Changhua University of Education, Changhua 500, Taiwan, R.O.C
| | - Jui-Yu Chou
- Department of Biology, National Changhua University of Education, Changhua 500, Taiwan, R.O.C
- * E-mail:
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295
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Yu J, Guan X, Liu C, Xiang W, Yu Z, Liu X, Wang G. Lysinibacillus endophyticus sp. nov., an indole-3-acetic acid producing endophytic bacterium isolated from corn root (Zea mays cv. Xinken-5). Antonie van Leeuwenhoek 2016; 109:1337-44. [PMID: 27401830 DOI: 10.1007/s10482-016-0732-3] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/18/2016] [Accepted: 07/04/2016] [Indexed: 11/26/2022]
Abstract
A Gram-positive, aerobic, motile, rod-shaped bacterium, designated strain C9(T), was isolated from surface sterilised corn roots (Zea mays cv. Xinken-5) and found to be able to produce indole-3-acetic acid. A polyphasic taxonomic study was carried out to determine the status of strain C9(T). The major cellular fatty acids were found to contain iso-C15:0, anteiso-C15:0 and anteiso-C17:0, and the only menaquinone was identified as MK-7. The polar lipid profile was found to contain diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, two unidentified phospholipids and an unidentified lipid. The cell wall peptidoglycan was found to be of the A4α L-Lys-D-Asp type and the whole cell sugar was found to be glucose. Phylogenetic analysis based on the 16S rRNA gene sequence showed that strain C9(T) belongs to the genus Lysinibacillus and is closely related to Lysinibacillus chungkukjangi NBRC 108948(T) (98.1 % similarity) and Lysinibacillus sinduriensis DSM 27595(T) (98.0 %). However, the low levels of DNA-DNA relatedness and some differential phenotypic characteristics allowed the strain to be distinguished from its close relatives. Therefore, it is concluded that strain C9(T) represents a novel species of the genus Lysinibacillus, for which the name Lysinibacillus endophyticus sp. nov. is proposed. The type strain is C9(T) (=DSM 100506(T) = CGMCC 1.15291(T)).
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Affiliation(s)
- Jiang Yu
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China
- College of Agronomy, Northeast Agricultural University, 150030, Harbin, China
| | - Xuejiao Guan
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, 150030, Harbin, China
| | - Chongxi Liu
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, 150030, Harbin, China
| | - Wensheng Xiang
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, 150030, Harbin, China
| | - Zhenhua Yu
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China
| | - Xiaobing Liu
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China
| | - Guanghua Wang
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China.
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296
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Kutschera U, Niklas KJ. The evolution of the plant genome-to-morphology auxin circuit. Theory Biosci 2016; 135:175-86. [PMID: 27333773 DOI: 10.1007/s12064-016-0231-0] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2016] [Accepted: 06/06/2016] [Indexed: 11/25/2022]
Abstract
In his Generelle Morphologie der Organismen (1866), 150 years ago, Ernst Haeckel (1834-1919) combined developmental patterns in animals with the concept of organismic evolution, and 50 years ago, a new era of plant research started when focus shifted from crop species (sunflower, maize etc.) to thale cress (Arabidopsis thaliana) as a model organism. In this contribution, we outline the general principles of developmental evolutionary biology sensu Haeckel and describe the evolutionary genome-to-morphology-plant hormone auxin (IAA, indole-3-acetic acid)-circuit with reference to other phytohormones and a focus on land plants (embryophytes) plus associated epiphytic microbes. Our primary conclusion is that a system-wide approach is required to truly understand the ontogeny of any organism, because development proceeds according to signal pathways that integrate and respond to external as well as internal stimuli. We also discuss IAA-regulated embryology in A. thaliana and epigenetic phenomena in the gametophyte development, and outline how these processes are connected to the seminal work of Ernst Haeckel.
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Affiliation(s)
- Ulrich Kutschera
- Institute of Biology, University of Kassel, 34109, Kassel, Germany.
| | - Karl J Niklas
- Plant Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USA
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297
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Reverchon S, Muskhelisvili G, Nasser W. Virulence Program of a Bacterial Plant Pathogen: The Dickeya Model. PROGRESS IN MOLECULAR BIOLOGY AND TRANSLATIONAL SCIENCE 2016; 142:51-92. [PMID: 27571692 DOI: 10.1016/bs.pmbts.2016.05.005] [Citation(s) in RCA: 44] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
The pectinolytic Dickeya spp. are Gram-negative bacteria causing severe disease in a wide range of plant species. Although the Dickeya genus was initially restricted to tropical and subtropical areas, two Dickeya species (D. dianthicola and D. solani) emerged recently in potato cultures in Europe. Soft-rot, the visible symptoms, is caused by plant cell wall degrading enzymes, mainly pectate lyases (Pels) that cleave the pectin polymer. However, an efficient colonization of the host requires many additional elements including early factors (eg, flagella, lipopolysaccharide, and exopolysaccharide) that allow adhesion of the bacteria and intermediate factors involved in adaptation to new growth conditions encountered in the host (eg, oxidative stress, iron starvation, and toxic compounds). To facilitate this adaptation, Dickeya have developed complex regulatory networks ensuring appropriate expression of virulence genes. This review presents recent advances in our understanding of the signals and genetic circuits impacting the expression of virulence determinants. Special attention is paid to integrated control of virulence functions by variations in the superhelical density of chromosomal DNA, and the global and specific regulators, making the regulation of Dickeya virulence an especially attractive model for those interested in relationships between the chromosomal dynamics and gene regulatory networks.
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Affiliation(s)
- S Reverchon
- Department of Biology, University of Lyon, INSA-Lyon, Villeurbanne, Lyon, France.
| | - G Muskhelisvili
- Department of Biology, University of Lyon, INSA-Lyon, Villeurbanne, Lyon, France
| | - W Nasser
- Department of Biology, University of Lyon, INSA-Lyon, Villeurbanne, Lyon, France
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298
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Schühle K, Nies J, Heider J. An indoleacetate-CoA ligase and a phenylsuccinyl-CoA transferase involved in anaerobic metabolism of auxin. Environ Microbiol 2016; 18:3120-32. [DOI: 10.1111/1462-2920.13347] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2016] [Accepted: 04/15/2016] [Indexed: 12/22/2022]
Affiliation(s)
- Karola Schühle
- Laboratory for Microbiology; Philipps-Universität Marburg; Karl-von-Frisch-Straße 8 35043 Marburg Germany
| | - Jonas Nies
- Laboratory for Microbiology; Philipps-Universität Marburg; Karl-von-Frisch-Straße 8 35043 Marburg Germany
| | - Johann Heider
- Laboratory for Microbiology; Philipps-Universität Marburg; Karl-von-Frisch-Straße 8 35043 Marburg Germany
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299
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Indole acetic acid and ACC deaminase from endophytic bacteria improves the growth of Solanum lycopersicum. ELECTRON J BIOTECHN 2016. [DOI: 10.1016/j.ejbt.2016.02.001] [Citation(s) in RCA: 144] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
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300
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Jiang X, Zghidi-Abouzid O, Oger-Desfeux C, Hommais F, Greliche N, Muskhelishvili G, Nasser W, Reverchon S. Global transcriptional response of Dickeya dadantii to environmental stimuli relevant to the plant infection. Environ Microbiol 2016; 18:3651-3672. [PMID: 26940633 DOI: 10.1111/1462-2920.13267] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2015] [Accepted: 02/14/2016] [Indexed: 11/28/2022]
Abstract
Dickeya species are soft rot disease-causing bacterial plant pathogens and an emerging agricultural threat in Europe. Environmental modulation of gene expression is critical for Dickeya dadantii pathogenesis. While the bacterium uses various environmental cues to distinguish between its habitats, an intricate transcriptional control system coordinating the expression of virulence genes ensures efficient infection. Understanding of this behaviour requires a detailed knowledge of expression patterns under a wide range of environmental conditions, which is currently lacking. To obtain a comprehensive picture of this adaptive response, we devised a strategy to examine the D. dadantii transcriptome in a series of 32 infection-relevant conditions encountered in the hosts. We propose a temporal map of the bacterial response to various stress conditions and show that D. dadantii elicits complex genetic behaviour combining common stress-response genes with distinct sets of genes specifically induced under each particular stress. Comparison of our dataset with an in planta expression profile reveals the combined impact of stress factors and enables us to predict the major stress confronting D. dadantii at a particular stage of infection. We provide a comprehensive catalog of D. dadantii genomic responses to environmentally relevant stimuli, thus facilitating future studies of this important plant pathogen.
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Affiliation(s)
- Xuejiao Jiang
- Univ Lyon, Université Lyon 1, INSA-Lyon, CNRS, UMR5240, Microbiologie, Adaptation, Pathogénie, Département Biologie, F-69622, Villeurbanne, France
| | - Ouafa Zghidi-Abouzid
- Univ Lyon, Université Lyon 1, INSA-Lyon, CNRS, UMR5240, Microbiologie, Adaptation, Pathogénie, Département Biologie, F-69622, Villeurbanne, France
| | - Christine Oger-Desfeux
- Univ Lyon, Université Lyon 1, Pôle Rhône-Alpes de Bioinformatique, Département Biologie, F-69622, Villeurbanne, France
| | - Florence Hommais
- Univ Lyon, Université Lyon 1, INSA-Lyon, CNRS, UMR5240, Microbiologie, Adaptation, Pathogénie, Département Biologie, F-69622, Villeurbanne, France
| | - Nicolas Greliche
- Univ Lyon, Université Lyon 1, INSA-Lyon, CNRS, UMR5240, Microbiologie, Adaptation, Pathogénie, Département Biologie, F-69622, Villeurbanne, France
| | - Georgi Muskhelishvili
- Univ Lyon, Université Lyon 1, INSA-Lyon, CNRS, UMR5240, Microbiologie, Adaptation, Pathogénie, Département Biologie, F-69622, Villeurbanne, France
| | - William Nasser
- Univ Lyon, Université Lyon 1, INSA-Lyon, CNRS, UMR5240, Microbiologie, Adaptation, Pathogénie, Département Biologie, F-69622, Villeurbanne, France
| | - Sylvie Reverchon
- Univ Lyon, Université Lyon 1, INSA-Lyon, CNRS, UMR5240, Microbiologie, Adaptation, Pathogénie, Département Biologie, F-69622, Villeurbanne, France
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