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Pseudomonas fluorescens
Pseudomonas fluorescens
Pseudomonas fluorescens is a ubiquitous, gram-negative bacteria commonly found in soil, water, and on plant surfaces.
It is known for its versatile metabolic capabilities and ability to produce a variety of secondary metabolites.
This bacterium has garnered significant interest in the fields of bioremediation, biocontrol, and plant growth promotion.
Pseudomonas fluorescens exhibits diverse physiological and genetic traits that make it a valuable subject for research, with applications in areas such as environmental restoration, agricultural sustainability, and industrial biotechnology.
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It is known for its versatile metabolic capabilities and ability to produce a variety of secondary metabolites.
This bacterium has garnered significant interest in the fields of bioremediation, biocontrol, and plant growth promotion.
Pseudomonas fluorescens exhibits diverse physiological and genetic traits that make it a valuable subject for research, with applications in areas such as environmental restoration, agricultural sustainability, and industrial biotechnology.
Optimize your Pseudomonas fluorescens research with PubCompare.ai, the leading AI-driven platform for enhancing reproducibility and accuracy.
Locate the best protocols from literature, pre-prints, and patents using PubCompare's AI-driven comparisons.
Identify the most effective products and procedures to advance your Pseudomonas fluorescens studies with confidence.
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Most cited protocols related to «Pseudomonas fluorescens»
Alginate
Anabolism
Gene Clusters
Genes
Genome
Genome, Bacterial
Lipopolysaccharides
Pseudomonas fluorescens
Salinispora tropica
Streptomyces griseus
This experiment looked at the effects of migration upon coevolution, more precisely how migration rate introduces variation to fuel coevolution. The starting populations for the migration treatments were initially transferred without migration to allow some initial differentiation between populations. Otherwise with no initial differentiation, between population migration will not bring in new variation. Eighteen replicate populations were initiated using approximately 107 cells of isogenic Pseudomonas fluorescens SBW25 and approximately 105 isogenic particles of phage SBW25Φ 2 [19 (link)]. Note that the minimal generation times of bacteria and phages are similar: approximately 40 minutes. Cultures were grown in static 30 ml glass universals with loose plastic caps containing 6 ml of King's Media B, grown at 28°C. Every 48 hours 60 μl of culture was transferred to a fresh microcosm. Cultures were regularly frozen in 20% glycerol at -86°C for long-term storage. After six transfers, each population was used to seed six new replicate tubes, each of which was assigned to one of 6 migration treatments, resulting in a total of 108 (18 * 6) tubes. The eighteen tubes within each treatment were assigned to one of six metapopulations, each containing 3 tubes. Note that the same 3-tube combinations were used in each treatment. Migration was carried out within each metapopulation, resulting in 6 independent replicates within each treatment.
Bacteria
Bacteriophages
Cells
DNA Replication
Freezing
Glycerin
Pseudomonas fluorescens
Pseudomonas fluorescens SBW25 (Rainey and Bailey,
Antibiotics
Gentamicin
LacZ Genes
Mercury
Plasmids
Pseudomonas fluorescens
Strains
Streptomycin
We first generated typical 250 basepair long paired-end reads using the standard Illumina error model for six well-annotated bacterial genomes (Pseudomonas fluorescens, Escherichia coli, Acidovorax avenae, Micrococcus luteus, Halobacillus halophilus and Staphylococcus epidermidis) using the read simulation package ART (Huang et al., 2012 (link)). The reads for the six genomes were pooled to create a mock-metagenomic read dataset (see Supplementary Note 2). As ART includes position indices of the generated read relative to the original reference within each FASTQ header, scripts were employed to link each read to its corresponding CDS entry within the respective reference genome's GFF annotation, then record the corresponding GO terms for each entry using cross-referenced identifiers. This allowed us to definitively determine if a read was correctly mapped, generate the ontology terms for each associated gene, and populate the read graph for Jaccard similarity calculations performed in subsequent tests.
With this source information pre-established, we then mapped the combined reads using PALADIN against a reference consisting of the protein sequences corresponding to the CDS entries of the six original genomes. BWA and NovoAlign were also compared in this fashion, instead using the nucleotide sequences (standard and degenerate, respectively) corresponding to the CDS entries of the six original genomes as the reference.
With this source information pre-established, we then mapped the combined reads using PALADIN against a reference consisting of the protein sequences corresponding to the CDS entries of the six original genomes. BWA and NovoAlign were also compared in this fashion, instead using the nucleotide sequences (standard and degenerate, respectively) corresponding to the CDS entries of the six original genomes as the reference.
Acidovorax avenae
Amino Acid Sequence
Base Sequence
Escherichia coli
Genome
Genome, Bacterial
Halobacillus halophilus
Metagenome
Micrococcus luteus
Pseudomonas fluorescens
Staphylococcus epidermidis
The bacteria used in this study are listed in Table 1 . The Gram-positive bacteria (Bacillus subtilis WB800N, Bacillus subtilis G7, Bacillus wiedmannii SR52, Bacillus toyonensis P18, Staphylococcus aureus, Streptococcus iniae, and Micrococcus luteus) and the Gram-negative bacteria (Escherichia coli, Edwardsiella tarda, Vibrio harveyi, Vibrio anguillarum, and Pseudomonas fluorescens) have been reported previously [42 (link),43 (link),44 (link),45 (link)]. Of these bacteria, B. subtilis G7, B. wiedmannii SR52, and B. toyonensis P18 are from deep sea hydrothermal vents. In addition, three other bacteria, i.e., Pseudoalteromonas sp., Bacillus cereus MB1, and Bacillus sp. are also from deep sea environments. S. iniae was cultured in TSB medium (Hopobio, Qingdao, China) at 28 °C. E. tarda, B. subtilis G7, B. wiedmannii SR52, B. cereus MB1, Pseudoalteromonas sp., and Bacillus sp. were cultured in marine 2216E medium (Hopobio, Qingdao, China) at 28 °C. All other bacterial strains were cultured in Luria-Bertani broth (LB) medium at 37 °C (for E. coli, B. subtilis WB800N, M. luteus and S. aureus) or 28 °C (for P. fluorescens, V. anguillarum, and V. harveyi). When used for determining the antibacterial activity of rCrus1, the bacteria were cultured in Mueller-Hinton broth (MHB) medium.
Anti-Bacterial Agents
Bacillus
Bacillus cereus
Bacillus subtilis
Bacillus toyonensis
Bacillus wiedmannii
Bacteria
Culture Media
Edwardsiella tarda
Escherichia coli
Gram-Positive Bacteria
Gram Negative Bacteria
Hydrothermal Vents
Marines
Micrococcus luteus
Pseudoalteromonas
Pseudomonas fluorescens
Staphylococcus aureus
Strains
Streptococcus iniae
Vibrio anguillarum
Vibrio harveyi
Most recents protocols related to «Pseudomonas fluorescens»
Example 2
A. Seed Treatment with Isolated Microbe
In this example, an isolated microbe from Tables 1-3 will be applied as a seed coating to seeds of corn (Zea mays). Upon applying the isolated microbe as a seed coating, the corn will be planted and cultivated in the standard manner.
A control plot of corn seeds, which did not have the isolated microbe applied as a seed coating, will also be planted.
It is expected that the corn plants grown from the seeds treated with the seed coating will exhibit a quantifiably higher biomass than the control corn plants.
The biomass from the treated plants may be about 1-10% higher, 10-20% higher, 20-30% higher, 30-40% higher, 40-50% higher, 50-60% higher, 60-70% higher, 70-80% higher, 80-90% higher, or more.
The biomass from the treated plants may equate to about a 1 bushel per acre increase over the controls, or a 2 bushel per acre increase, or a 3 bushel per acre increase, or a 4 bushel per acre increase, or a 5 bushel per acre increase, or more.
In some aspects, the biomass increase is statistically significant. In other aspects, the biomass increase is not statistically significant, but is still quantifiable.
B. Seed Treatment with Microbial Consortia
In this example, a microbial consortium, comprising at least two microbes from Tables 1-3 will be applied as a seed coating to seeds of corn (Zea mays). Upon applying the microbial consortium as a seed coating, the corn will be planted and cultivated in the standard manner.
A control plot of corn seeds, which did not have the microbial consortium applied as a seed coating, will also be planted.
It is expected that the corn plants grown from the seeds treated with the seed coating will exhibit a quantifiably higher biomass than the control corn plants.
The biomass from the treated plants may be about 1-10% higher, 10-20% higher, 20-30% higher, 30-40% higher, 40-50% higher, 50-60% higher, 60-70% higher, 70-80% higher, 80-90% higher, or more.
The biomass from the treated plants may equate to about a 1 bushel per acre increase over the controls, or a 2 bushel per acre increase, or a 3 bushel per acre increase, or a 4 bushel per acre increase, or a 5 bushel per acre increase, or more.
In some aspects, the biomass increase is statistically significant. In other aspects, the biomass increase is not statistically significant, but is still quantifiable.
C. Treatment with Agricultural Composition Comprising Isolated Microbe
In this example, an isolated microbe from Tables 1-3 will be applied as an agricultural composition, administered to the corn seed at the time of sowing.
For example, it is anticipated that a farmer will apply the agricultural composition to the corn seeds simultaneously upon planting the seeds into the field. This can be accomplished, for example, by applying the agricultural composition to a hopper/bulk tank on a standard 16 row planter, which contains the corn seeds and which is configured to plant the same into rows. Alternatively, the agricultural composition can be contained in a separate bulk tank on the planter and sprayed into the rows upon planting the corn seed.
A control plot of corn seeds, which are not administered the agricultural composition, will also be planted.
It is expected that the corn plants grown from the seeds treated with the agricultural composition will exhibit a quantifiably higher biomass than the control corn plants.
The biomass from the treated plants may be about 1-10% higher, 10-20% higher, 20-30% higher, 30-40% higher, 40-50% higher, 50-60% higher, 60-70% higher, 70-80% higher, 80-90% higher, or more.
The biomass from the treated plants may equate to about a 1 bushel per acre increase over the controls, or a 2 bushel per acre increase, or a 3 bushel per acre increase, or a 4 bushel per acre increase, or a 5 bushel per acre increase, or more.
In some aspects, the biomass increase is statistically significant. In other aspects, the biomass increase is not statistically significant, but is still quantifiable.
D. Treatment with Agricultural Composition Comprising Microbial Consortia
In this example, a microbial consortium, comprising at least two microbes from Tables 1-3 will be applied as an agricultural composition, administered to the corn seed at the time of sowing.
For example, it is anticipated that a farmer will apply the agricultural composition to the corn seeds simultaneously upon planting the seeds into the field. This can be accomplished, for example, by applying the agricultural composition to a hopper/bulk tank on a standard 16 row planter, which contains the corn seeds and which is configured to plant the same into rows. Alternatively, the agricultural composition can be contained in a separate bulk tank on the planter and sprayed into the rows upon planting the corn seed.
A control plot of corn seeds, which are not administered the agricultural composition, will also be planted.
It is expected that the corn plants grown from the seeds treated with the agricultural composition will exhibit a quantifiably higher biomass than the control corn plants.
The biomass from the treated plants may be about 1-10% higher, 10-20% higher, 20-30% higher, 30-40% higher, 40-50% higher, 50-60% higher, 60-70% higher, 70-80% higher, 80-90% higher, or more.
The biomass from the treated plants may equate to about a 1 bushel per acre increase over the controls, or a 2 bushel per acre increase, or a 3 bushel per acre increase, or a 4 bushel per acre increase, or a 5 bushel per acre increase, or more.
In some aspects, the biomass increase is statistically significant. In other aspects, the biomass increase is not statistically significant, but is still quantifiable.
A. Seed Treatment with Isolated Microbe
In this example, an isolated microbe from Tables 1-3 will be applied as a seed coating to seeds of corn (Zea mays). Upon applying the isolated microbe as a seed coating, the corn will be planted and cultivated in the standard manner.
A control plot of corn seeds, which did not have the isolated microbe applied as a seed coating, will also be planted.
It is expected that the corn plants grown from the seeds treated with the seed coating will exhibit a quantifiable and superior ability to tolerate drought conditions and/or exhibit superior water use efficiency, as compared to the control corn plants.
The drought tolerance and/or water use efficiency can be based on any number of standard tests from the art, e.g leaf water retention, turgor loss point, rate of photosynthesis, leaf color and other phenotypic indications of drought stress, yield performance, and various root morphological and growth patterns.
B. Seed Treatment with Microbial Consortia
In this example, a microbial consortium, comprising at least two microbes from Tables 1-3 will be applied as a seed coating to seeds of corn (Zea mays). Upon applying the microbial consortium as a seed coating, the corn will be planted and cultivated in the standard manner.
A control plot of corn seeds, which did not have the microbial consortium applied as a seed coating, will also be planted.
It is expected that the corn plants grown from the seeds treated with the seed coating will exhibit a quantifiable and superior ability to tolerate drought conditions and/or exhibit superior water use efficiency, as compared to the control corn plants.
The drought tolerance and/or water use efficiency can be based on any number of standard tests from the art, e.g leaf water retention, turgor loss point, rate of photosynthesis, leaf color and other phenotypic indications of drought stress, yield performance, and various root morphological and growth patterns.
C. Treatment with Agricultural Composition Comprising Isolated Microbe
In this example, an isolated microbe from Tables 1-3 will be applied as an agricultural composition, administered to the corn seed at the time of sowing.
For example, it is anticipated that a farmer will apply the agricultural composition to the corn seeds simultaneously upon planting the seeds into the field. This can be accomplished, for example, by applying the agricultural composition to a hopper/bulk tank on a standard 16 row planter, which contains the corn seeds and which is configured to plant the same into rows. Alternatively, the agricultural composition can be contained in a separate bulk tank on the planter and sprayed into the rows upon planting the corn seed.
A control plot of corn seeds, which are not administered the agricultural composition, will also be planted.
It is expected that the corn plants grown from the seeds treated with the with the agricultural composition will exhibit a quantifiable and superior ability to tolerate drought conditions and/or exhibit superior water use efficiency, as compared to the control corn plants.
The drought tolerance and/or water use efficiency can be based on any number of standard tests from the art, e.g leaf water retention, turgor loss point, rate of photosynthesis, leaf color and other phenotypic indications of drought stress, yield performance, and various root morphological and growth patterns.
D. Treatment with Agricultural Composition Comprising Microbial Consortia
In this example, a microbial consortium, comprising at least two microbes from Tables 1-3 will be applied as an agricultural composition, administered to the corn seed at the time of sowing.
For example, it is anticipated that a farmer will apply the agricultural composition to the corn seeds simultaneously upon planting the seeds into the field. This can be accomplished, for example, by applying the agricultural composition to a hopper/bulk tank on a standard 16 row planter, which contains the corn seeds and which is configured to plant the same into rows. Alternatively, the agricultural composition can be contained in a separate bulk tank on the planter and sprayed into the rows upon planting the corn seed.
A control plot of corn seeds, which are not administered the agricultural composition, will also be planted.
It is expected that the corn plants grown from the seeds treated with the with the agricultural composition will exhibit a quantifiable and superior ability to tolerate drought conditions and/or exhibit superior water use efficiency, as compared to the control corn plants.
The drought tolerance and/or water use efficiency can be based on any number of standard tests from the art, e.g leaf water retention, turgor loss point, rate of photosynthesis, leaf color and other phenotypic indications of drought stress, yield performance, and various root morphological and growth patterns.
A. Seed Treatment with Isolated Microbe
In this example, an isolated microbe from Tables 1-3 will be applied as a seed coating to seeds of corn (Zea mays). Upon applying the isolated microbe as a seed coating, the corn will be planted and cultivated in the standard manner.
A control plot of corn seeds, which did not have the isolated microbe applied as a seed coating, will also be planted.
It is expected that the corn plants grown from the seeds treated with the seed coating will exhibit a quantifiable and superior ability to utilize nitrogen, as compared to the control corn plants.
The nitrogen use efficiency can be quantified by recording a measurable change in any of the main nitrogen metabolic pool sizes in the assimilation pathways (e.g., a measurable change in one or more of the following: nitrate, nitrite, ammonia, glutamic acid, aspartic acid, glutamine, asparagine, lysine, leucine, threonine, methionine, glycine, tryptophan, tyrosine, total protein content of a plant part, total nitrogen content of a plant part, and/or chlorophyll content), or where the treated plant is shown to provide the same or elevated biomass or harvestable yield at lower nitrogen fertilization levels compared to the control plant, or where the treated plant is shown to provide elevated biomass or harvestable yields at the same nitrogen fertilization levels compared to a control plant.
B. Seed Treatment with Microbial Consortia
In this example, a microbial consortium, comprising at least two microbes from Tables 1-3 will be applied as a seed coating to seeds of corn (Zea mays). Upon applying the microbial consortium as a seed coating, the corn will be planted and cultivated in the standard manner.
A control plot of corn seeds, which did not have the microbial consortium applied as a seed coating, will also be planted.
It is expected that the corn plants grown from the seeds treated with the seed coating will exhibit a quantifiable and superior ability to utilize nitrogen, as compared to the control corn plants.
The nitrogen use efficiency can be quantified by recording a measurable change in any of the main nitrogen metabolic pool sizes in the assimilation pathways (e.g., a measurable change in one or more of the following: nitrate, nitrite, ammonia, glutamic acid, aspartic acid, glutamine, asparagine, lysine, leucine, threonine, methionine, glycine, tryptophan, tyrosine, total protein content of a plant part, total nitrogen content of a plant part, and/or chlorophyll content), or where the treated plant is shown to provide the same or elevated biomass or harvestable yield at lower nitrogen fertilization levels compared to the control plant, or where the treated plant is shown to provide elevated biomass or harvestable yields at the same nitrogen fertilization levels compared to a control plant.
C. Treatment with Agricultural Composition Comprising Isolated Microbe
In this example, an isolated microbe from Tables 1-3 will be applied as an agricultural composition, administered to the corn seed at the time of sowing.
For example, it is anticipated that a farmer will apply the agricultural composition to the corn seeds simultaneously upon planting the seeds into the field. This can be accomplished, for example, by applying the agricultural composition to a hopper/bulk tank on a standard 16 row planter, which contains the corn seeds and which is configured to plant the same into rows. Alternatively, the agricultural composition can be contained in a separate bulk tank on the planter and sprayed into the rows upon planting the corn seed.
A control plot of corn seeds, which are not administered the agricultural composition, will also be planted.
It is expected that the corn plants grown from the seeds treated with the agricultural composition will exhibit a quantifiable and superior ability to utilize nitrogen, as compared to the control corn plants.
The nitrogen use efficiency can be quantified by recording a measurable change in any of the main nitrogen metabolic pool sizes in the assimilation pathways (e.g., a measurable change in one or more of the following: nitrate, nitrite, ammonia, glutamic acid, aspartic acid, glutamine, asparagine, lysine, leucine, threonine, methionine, glycine, tryptophan, tyrosine, total protein content of a plant part, total nitrogen content of a plant part, and/or chlorophyll content), or where the treated plant is shown to provide the same or elevated biomass or harvestable yield at lower nitrogen fertilization levels compared to the control plant, or where the treated plant is shown to provide elevated biomass or harvestable yields at the same nitrogen fertilization levels compared to a control plant.
D. Treatment with Agricultural Composition Comprising Microbial Consortia
In this example, a microbial consortium, comprising at least two microbes from Tables 1-3 will be applied as an agricultural composition, administered to the corn seed at the time of sowing.
For example, it is anticipated that a farmer will apply the agricultural composition to the corn seeds simultaneously upon planting the seeds into the field. This can be accomplished, for example, by applying the agricultural composition to a hopper/bulk tank on a standard 16 row planter, which contains the corn seeds and which is configured to plant the same into rows. Alternatively, the agricultural composition can be contained in a separate bulk tank on the planter and sprayed into the rows upon planting the corn seed.
A control plot of corn seeds, which are not administered the agricultural composition, will also be planted.
It is expected that the corn plants grown from the seeds treated with the agricultural composition will exhibit a quantifiable and superior ability to utilize nitrogen, as compared to the control corn plants.
The nitrogen use efficiency can be quantified by recording a measurable change in any of the main nitrogen metabolic pool sizes in the assimilation pathways (e.g., a measurable change in one or more of the following: nitrate, nitrite, ammonia, glutamic acid, aspartic acid, glutamine, asparagine, lysine, leucine, threonine, methionine, glycine, tryptophan, tyrosine, total protein content of a plant part, total nitrogen content of a plant part, and/or chlorophyll content), or where the treated plant is shown to provide the same or elevated biomass or harvestable yield at lower nitrogen fertilization levels compared to the control plant, or where the treated plant is shown to provide elevated biomass or harvestable yields at the same nitrogen fertilization levels compared to a control plant.
The inoculants were prepared from isolates grown as spread plates on R2A incubated at 25° C. for 48 to 72 hours. Colonies were harvested by blending with sterile distilled water (SDW) which was then transferred into sterile containers. Serial dilutions of the harvested cells were plated and incubated at 25° C. for 24 hours to estimate the number of colony forming units (CFU) in each suspension. Dilutions were prepared using individual isolates or blends of isolates (consortia) to deliver 1×105 cfu/microbe/seed and seeds inoculated by either imbibition in the liquid suspension or by overtreatment with 5% vegetable gum and oil.
Seeds corresponding to the plants of table 15 were planted within 24 to 48 hours of treatment in agricultural soil, potting media or inert growing media. Plants were grown in small pots (28 mL to 200 mL) in either a controlled environment or in a greenhouse. Chamber photoperiod was set to 16 hours for all experiments on all species. Air temperature was typically maintained between 22-24° C.
Unless otherwise stated, all plants were watered with tap water 2 to 3 times weekly. Growth conditions were varied according to the trait of interest and included manipulation of applied fertilizer, watering regime and salt stress as follows:
-
- Low N—seeds planted in soil potting media or inert growing media with no applied N fertilizer
- Moderate N—seeds planted in soil or growing media supplemented with commercial N fertilizer to equivalent of 135 kg/ha applied N
- Insol P—seeds planted in potting media or inert growth substrate and watered with quarter strength Pikovskaya's liquid medium containing tri-calcium phosphate as the only form phosphate fertilizer.
- Cold Stress—seeds planted in soil, potting media or inert growing media and incubated at 10° C. for one week before being transferred to the plant growth room.
- Salt stress—seeds planted in soil, potting media or inert growing media and watered with a solution containing between 100 to 200 mg/L NaCl.
Untreated (no applied microbe) controls were prepared for each experiment. Plants were randomized on trays throughout the growth environment. Between 10 and 30 replicate plants were prepared for each treatment in each experiment. Phenotypes were measured during early vegetative growth, typically before the V3 developmental stage and between 3 and 6 weeks after sowing. Foliage was cut and weighed. Roots were washed, blotted dry and weighed. Results indicate performance of treatments against the untreated control.
The data presented in table 15 describes the efficacy with which a microbial species or strain can change a phenotype of interest relative to a control run in the same experiment. Phenotypes measured were shoot fresh weight and root fresh weight for plants growing either in the absence of presence of a stress (assay). For each microbe species, an overall efficacy score indicates the percentage of times a strain of that species increased a both shoot and root fresh weight in independent evaluations. For each species, the specifics of each independent assay is given, providing a strain ID (strain) and the crop species the assay was performed on (crop). For each independent assay the percentage increase in shoot and root fresh weight over the controls is given.
Ammonia
Asparagine
Aspartic Acid
Biological Assay
Bosea thiooxidans
Calcium Phosphates
Capsicum
Cells
Chlorophyll
Cold Shock Stress
Cold Temperature
Crop, Avian
Dietary Fiber
DNA Replication
Droughts
Drought Tolerance
Embryophyta
Environment, Controlled
Farmers
Fertilization
Glutamic Acid
Glutamine
Glycine
Growth Disorders
Herbaspirillum
Herbaspirillum huttiense
Leucine
Lolium
Lycopersicon esculentum
Lysine
Maize
Massilia niastensis
Methionine
Microbial Consortia
Nitrates
Nitrites
Nitrogen
Novosphingobium rosa
Paenibacillus
Paenibacillus amylolyticus
Pantoea agglomerans
Pantoea vagans
Phenotype
Phosphates
Photosynthesis
Plant Development
Plant Embryos
Plant Leaves
Plant Proteins
Plant Roots
Plants
Polaromonas ginsengisoli
Pseudoduganella violaceinigra
Pseudomonas
Pseudomonas fluorescens
Rahnella
Rahnella aquatilis
Retention (Psychology)
Rhodococcus erythropolis
Rosa
Salt Stress
Sodium Chloride
Sodium Chloride, Dietary
Stenotrophomonas chelatiphaga
Stenotrophomonas maltophilia
Stenotrophomonas rhizophila
Stenotrophomonas terrae
Sterility, Reproductive
Strains
Technique, Dilution
Threonine
Triticum aestivum
Tryptophan
Tyrosine
Vegetables
Zea mays
Denitrifier strains were isolated from patches in the presence/absence of AMF at the second harvest in pot expt 2 to examine the enriched denitrifier community in the hyphosphere. Fresh soil was vortexed and suspended in ddH2O. Then, 105-fold dilutions of the soil suspension were spread on bromothymol blue (BTB) agar plates to isolate the denitrifiers [31 (link)]. Each sample was prepared in triplicate. The plates were incubated at 30 °C for 1–3 days. Separate blue colonies were isolated and purified by repeated streaking on BTB plates. The total bacterial DNA of each isolate was extracted from 1 mL culture suspension with a genomic DNA extraction kit (Tiangen Biotech, Beijing, China). The bacterial primers 27F/1492R were used for 16S rDNA amplification, and sequencing was performed by Tsingke Biotech, Beijing, China. The PCR thermal conditions are shown in Table S2 . Following dereplication with a cut off value of 99% sequence similarity, the sequences were aligned with reference sequences in the National Center for Biotechnology Information (NCBI) GenBank database. A phylogenetic tree was then constructed by the neighbor-joining method [32 (link)] with bootstrap analysis of 1000 replicates using MEGA version 5 [33 (link)].
The bacterial primers nosZ1527F/nosZ1773R were used for nosZ gene amplification to examine whether the Pseudomonas isolates possessed the nosZ gene (Table S2 ). The target band was detected, sequenced and then identified using a BLAST search in GenBank in NCBI. Three Pseudomonas fluorescens isolates (JL1, JL2, and JL3) possessing the nosZ gene were screened. The draft genomes of the three strains were sequenced. Details are shown in the Supplementary Information .
The bacterial primers nosZ1527F/nosZ1773R were used for nosZ gene amplification to examine whether the Pseudomonas isolates possessed the nosZ gene (Table S
Agar
Bacteria
Bromthymol Blue
DNA, Bacterial
DNA, Ribosomal
Gene Amplification
Genes
Genome
Oligonucleotide Primers
Pseudomonas
Pseudomonas fluorescens
Strains
Technique, Dilution
The growth of all strains at various NaCl concentrations (5,10, 12 and 15% w/v), and different temperatures (20, 45, 50 °C) was examined on ISP2 agar plates, while the pH range for growth (pH 5.0–13.0, at intervals of 1 pH unit) was assessed in ISP2 broth prepared using the buffer system as described by Fang et al. [21 (link)] The strains were incubated for 72 h, and the upper limit of tolerance of the strains was recorded. The experiments were performed in triplicate for each group. The actinobacteria were inoculated onto the enzyme activity screening medium by Spot vaccination and incubated at 37 °C for 1–7 days. The activities of protease and cellulase were quantified by measuring the transparent zone around the colonies. Amylase activity was screened using 1% iodine solution to observe the discoloration of the culture medium around the colonies. The isolates were examined for their ability to inhibit the growth of wild type strains of Candida albicans, Staphylococcus aureus, Escherichia coli, Pseudomonas fluorescens and Alternaria alternata using the agar diffusion assay [22 (link)]. The purified strains were cultured in liquid medium at 37 °C for 3–5 days, and then 100 μL of sterile filtrate of the strains was added into wells of the indicated plates. The inhibition zones were observed after incubation at 37 °C for 3–5 days.
The strains were seeded into liquid GAUZE’s medium and incubated at 30 °C for 7 days. The fermentation broth was centrifuged and filtered through a 0.22 μm pore-size membrane. The filtrate was stored at −20 °C. Chromobacterium violaceum strain CV026 was added into LB liquid medium at a 1% inoculation ratio. After 16 h, 1 mL of CV026 filtrate and 20 μL C6-HSL were mixed with 25 mL of LB medium. A 9 mm well was punched, filled with 100 μL of sterile filtrate, and incubated at 30 °C for 24 h to observe the inhibition zone.
The strains were seeded into liquid GAUZE’s medium and incubated at 30 °C for 7 days. The fermentation broth was centrifuged and filtered through a 0.22 μm pore-size membrane. The filtrate was stored at −20 °C. Chromobacterium violaceum strain CV026 was added into LB liquid medium at a 1% inoculation ratio. After 16 h, 1 mL of CV026 filtrate and 20 μL C6-HSL were mixed with 25 mL of LB medium. A 9 mm well was punched, filled with 100 μL of sterile filtrate, and incubated at 30 °C for 24 h to observe the inhibition zone.
Actinomycetes
Agar
Alternaria alternata
Amylase
Biological Assay
Buffers
Candida albicans
Cardiac Arrest
Cellulase
Chromobacterium violaceum
Diffusion
Endopeptidases
enzyme activity
Escherichia coli
Fermentation
Immune Tolerance
Iodine
Pseudomonas fluorescens
Psychological Inhibition
Sodium Chloride
Staphylococcus aureus
Sterility, Reproductive
Strains
Tissue, Membrane
Vaccination
Rhizobacterial strains, i.e., Pseudomonas fluorescens (NAIMCC-B-00340) and Azotobacter chroococcum Beijerinck 1901 (MCC 2351), were characterized for salinity tolerance. The ability of both strains to tolerate 100 mM salt concentration was evaluated by growing (streaking) both strains on a nutrient agar (NA) plate amended with 0 mM, 50 mM and 100 mM salt concentration. For this purpose, nutrient agar containing the desired amount of NaCl was autoclaved and poured into plates. After solidifying the plates, both strains were streaked on plates to check their growth under salt conditions.
Agar
Azotobacter chroococcum
Growth Disorders
Nutrients
Pseudomonas fluorescens
Salt Tolerance
Sodium Chloride
Strains
Plant-growth-promoting rhizobacteria (PGPR); Pseudomonas fluorescens (NAIMCC-B-00340) and Azotobacter chroococcum Beijerinck 1901 (accession No. MCC 2351) were obtained from the National Bureau of Agriculturally Important Microorganisms (NBAIM) Mau, and National Centre for Cell Science (NCCS), Pune, respectively. The selection of these strains was based on their growth-promoting properties. A nutrient broth was used for making an overnight culture of these strains.
Azotobacter chroococcum
Cells
Nutrients
Plant Development
Pseudomonas fluorescens
Rhizobium
Strains
Top products related to «Pseudomonas fluorescens»
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Pseudomonas fluorescens is a Gram-negative, rod-shaped bacterium. It is an aerobic, non-spore-forming, and motile species. Pseudomonas fluorescens is commonly found in soil, water, and on plant surfaces.
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DMSO is a versatile organic solvent commonly used in laboratory settings. It has a high boiling point, low viscosity, and the ability to dissolve a wide range of polar and non-polar compounds. DMSO's core function is as a solvent, allowing for the effective dissolution and handling of various chemical substances during research and experimentation.
The Catalog No. 3D7426 is a laboratory equipment item. It is designed for general scientific and research purposes. The core function of this product is to provide a specific capability or feature required in a laboratory setting. However, a detailed description while maintaining an unbiased and factual approach is not available.
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Tryptic soy broth is a general-purpose microbiological culture medium used for the cultivation and growth of a wide range of bacteria. It provides the necessary nutrients, including peptones, glucose, and salts, to support the growth of a variety of bacterial species.
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Bacillus subtilis is a Gram-positive, rod-shaped bacterium commonly found in soil and the gastrointestinal tract of humans and animals. It is a widely used laboratory strain for research and industrial applications.
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Ferrichrome is a laboratory product manufactured by Merck Group. It is a siderophore, a type of molecule that binds to and transports iron. Ferrichrome facilitates the uptake and utilization of iron by living organisms.
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Bovine serum albumin (BSA) is a common laboratory reagent derived from bovine blood plasma. It is a protein that serves as a stabilizer and blocking agent in various biochemical and immunological applications. BSA is widely used to maintain the activity and solubility of enzymes, proteins, and other biomolecules in experimental settings.
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Tryptic soy broth is a general-purpose, nutrient-rich culture medium used for the growth and maintenance of a wide variety of microorganisms, including bacteria, fungi, and yeasts. It provides a balanced source of amino acids, carbohydrates, and other essential nutrients to support microbial growth and proliferation.
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Staphylococcus epidermidis is a type of bacteria commonly found on the human skin and mucous membranes. It is a Gram-positive, coagulase-negative, and non-spore-forming coccus. Staphylococcus epidermidis is a prevalent microorganism and is often used in research and laboratory settings for various applications.
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Escherichia coli is a bacterium that is commonly used in laboratory settings. It serves as a model organism for microbiology and molecular biology research. Escherichia coli can be cultivated and studied to understand fundamental cellular processes and mechanisms.
More about "Pseudomonas fluorescens"
Pseudomonas fluorescens is a ubiquitous, gram-negative bacterium commonly found in soil, water, and on plant surfaces.
This versatile microorganism is known for its diverse metabolic capabilities and production of a variety of secondary metabolites.
P. fluorescens has garnered significant interest in the fields of bioremediation, biocontrol, and plant growth promotion due to its unique physiological and genetic traits.
Researchers can optimize their work with Pseudomonas fluorescens by utilizing the PubCompare.ai platform, a leading AI-driven solution for enhancing reproducibility and accuracy.
PubCompare allows users to locate the best protocols from literature, preprints, and patents using AI-driven comparisons, enabling them to identify the most effective products and procedures to advance their Pseudomonas fluorescens studies with confidence.
In addition to its environmental and agricultural applications, Pseudomonas fluorescens has also been studied in the context of other microorganisms, such as Bacillus subtilis, Staphylococcus epidermidis, and Escherichia coli.
Researchers may also explore the use of DMSO (Catalog No. 3D7426) and Tryptic soy broth as culture media, as well as the role of compounds like Ferrichrome and Bovine serum albumin in Pseudomonas fluorescens research.
By leveraging the insights and capabilities of PubCompare.ai, scientists can discover the true power of this versatile bacterium and drive innovation in their Pseudomnas fluorescens studies.
This versatile microorganism is known for its diverse metabolic capabilities and production of a variety of secondary metabolites.
P. fluorescens has garnered significant interest in the fields of bioremediation, biocontrol, and plant growth promotion due to its unique physiological and genetic traits.
Researchers can optimize their work with Pseudomonas fluorescens by utilizing the PubCompare.ai platform, a leading AI-driven solution for enhancing reproducibility and accuracy.
PubCompare allows users to locate the best protocols from literature, preprints, and patents using AI-driven comparisons, enabling them to identify the most effective products and procedures to advance their Pseudomonas fluorescens studies with confidence.
In addition to its environmental and agricultural applications, Pseudomonas fluorescens has also been studied in the context of other microorganisms, such as Bacillus subtilis, Staphylococcus epidermidis, and Escherichia coli.
Researchers may also explore the use of DMSO (Catalog No. 3D7426) and Tryptic soy broth as culture media, as well as the role of compounds like Ferrichrome and Bovine serum albumin in Pseudomonas fluorescens research.
By leveraging the insights and capabilities of PubCompare.ai, scientists can discover the true power of this versatile bacterium and drive innovation in their Pseudomnas fluorescens studies.