Comparative Genomics, Siderophore Production, and Iron Scavenging Potential of Root Zone Soil Bacteria Isolated from ‘Concord’ Grape Vineyards

Lewis, Ricky W.; Islam, Anjuman A.; Opdahl, Lee J.; Davenport, Joan R.; Sullivan, Tarah S.

doi:10.1007/s00248-019-01324-8

Cited by 14 publications

(8 citation statements)

References 66 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…We found that 71 % of the isolates belonging to the Pseudomonas genus were substantially active in siderophores production (Table 2, Table S3). As in our results, the wellsuited for iron scavenging pseudomonads were the main siderophore-producing rhizobacteria from Concord grape vineyards, suggesting a potential role in iron turnover in vineyard systems (Lewis et al, 2019). Other important siderophoreproducing genera were Pantoea (67 %), Bacillus (50 %) and, particularly, Serratia genus (45 %) (Table 2, Table S3).…”

Section: Analysis Of Phenotypic Traits Related To Pgp Activitiessupporting

confidence: 69%

Screening of epiphytic rhizosphere-associated bacteria in Argentinian Malbec and Cabernet-Sauvignon vineyards for potential use as biological fertilisers and pathogen-control agents

et al. 2021

View full text Add to dashboard Cite

The rhizosphere-associated microbiome has diverse functions that support plant growth and health, varying among plant species, vegetation growth stages and environmental habitats. This microbiome includes a group of bacteria denominated plant growth-promoting rhizobacteria (PGPR) which can colonize plant roots. Certain PGPR isolates improve the ability of plants to adapt to a stressful environment. In this study, we collected and characterised the rhizosphere-associated bacteria, or epiphytic rhizobacteria, from Malbec and Cabernet-Sauvignon vineyards from the main wine-producing provinces of Argentina to analyse their potential use as biologic fertilisers and/or as pathogen-control agents. A total of 170 bacterial isolates were obtained, distributed into eleven different genera and classified into three phyla, Proteobacteria, Actinobacteria and Firmicutes. The in vitro analysis for plant-growth-promoting (PGP) activities demonstrated that a significant number of bacterial isolates had one or more of these traits. The Pseudomonas was the genus with the highest number of isolates and PGP activities, followed by the Arthrobacter, Serratia, Bacillus andPantoea. We observed that bacterial isolates identified as Bacillus exhibited a remarkable production of hydrolytic enzymes related to biocontrol activities. Biocontrol trials from the Bacillus collection revealed that at least five isolates were able to inhibit the fungal growth of Botrytis cinerea and Alternaria alternata. The results obtained suggest the biological potential of each isolate and the relevance of proceeding to greenhouse and field assays to obtain long-term environmentally compatible bio-products for vineyard management.

show abstract

Section: Analysis Of Phenotypic Traits Related To Pgp Activitiessupporting

confidence: 69%

Screening of epiphytic rhizosphere-associated bacteria in Argentinian Malbec and Cabernet-Sauvignon vineyards for potential use as biological fertilisers and pathogen-control agents

et al. 2021

View full text Add to dashboard Cite

show abstract

“…For instance, in iron-deficient soil, plants like red clover recruit certain types of rhizosphere bacteria with greater capacity for siderophore synthesis. Bacterial siderophore production is commonly associated with increased iron acquisition in plants in calcareous soil where most of the iron is in an unavailable state [ 6 ]. Over the past few years, bio-control of plant pathogens are significantly increased due to the adverse effect of chemical control on soil fertility and ecology [ 7 ].…”

Section: Introductionmentioning

confidence: 99%

Genome Mining and Comparative Genome Analysis Revealed Niche-Specific Genome Expansion in Antibacterial Bacillus pumilus Strain SF-4

Iqbal

Vollmers

Janjua

2021

Genes

View full text Add to dashboard Cite

The present study reports the isolation of antibacterial exhibiting Bacillus pumilus (B. pumilus) SF-4 from soil field. The genome of this strain SF-4 was sequenced and analyzed to acquire in-depth genomic level insight related to functional diversity, evolutionary history, and biosynthetic potential. The genome of the strain SF-4 harbor 12 Biosynthetic Gene Clusters (BGCs) including four Non-ribosomal peptide synthetases (NRPSs), two terpenes, and one each of Type III polyketide synthases (PKSs), hybrid (NRPS/PKS), lipopeptide, β-lactone, and bacteriocin clusters. Plant growth-promoting genes associated with de-nitrification, iron acquisition, phosphate solubilization, and nitrogen metabolism were also observed in the genome. Furthermore, all the available complete genomes of B. pumilus strains were used to highlight species boundaries and diverse niche adaptation strategies. Phylogenetic analyses revealed local diversification and indicate that strain SF-4 is a sister group to SAFR-032 and 150a. Pan-genome analyses of 12 targeted strains showed regions of genome plasticity which regulate function of these strains and proposed direct strain adaptations to specific habitats. The unique genome pool carries genes mostly associated with “biosynthesis of secondary metabolites, transport, and catabolism” (Q), “replication, recombination and repair” (L), and “unknown function” (S) clusters of orthologous groups (COG) categories. Moreover, a total of 952 unique genes and 168 exclusively absent genes were prioritized across the 12 genomes. While newly sequenced B. pumilus SF-4 genome consists of 520 accessory, 59 unique, and seven exclusively absent genes. The current study demonstrates genomic differences among 12 B. pumilus strains and offers comprehensive knowledge of the respective genome architecture which may assist in the agronomic application of this strain in future.

show abstract

“…Moreover, isolates LpA6, LpB5b, LpB12a, and LpB16d, which showed siderophore production, are closely related to Pseudomonas spp. (Pseudomonas koreensis and Pseudomonas fluorescens) that are commonly reported to show this trait [77,[79][80][81]. Similarly, phosphate solubilization was shown by the pseudomonad isolate LpB16d that is related to P. koreensis, which has also been shown previously to solubilize phosphate [82][83][84].…”

Section: Pgp Traitsmentioning

confidence: 77%

Diversity, Phylogeny and Plant Growth Promotion Traits of Nodule Associated Bacteria Isolated from Lotus parviflorus

et al. 2020

View full text Add to dashboard Cite

Lotus spp. are widely used as a forage to improve pastures, and inoculation with elite rhizobial strains is a common practice in many countries. However, only a few Lotus species have been studied in the context of plant-rhizobia interactions. In this study, forty highly diverse bacterial strains were isolated from root nodules of wild Lotus parviflorus plants growing in two field locations in Portugal. However, only 10% of these isolates could nodulate one or more legume hosts tested, whereas 90% were thought to be opportunistic nodule associated bacteria. Phylogenetic studies place the nodulating isolates within the Bradyrhizobium genus, which is closely related to B. canariense and other Bradyrhizobium sp. strains isolated from genistoid legumes and Ornithopus spp. Symbiotic nodC and nifH gene phylogenies were fully consistent with the taxonomic assignment and host range. The non-nodulating bacteria isolated were alpha- (Rhizobium/Agrobacterium), beta- (Massilia) and gamma-proteobacteria (Pseudomonas, Lysobacter, Luteibacter, Stenotrophomonas and Rahnella), as well as some bacteroidetes from genera Sphingobacterium and Mucilaginibacter. Some of these nodule-associated bacteria expressed plant growth promotion (PGP) traits, such as production of lytic enzymes, antagonistic activity against phytopathogens, phosphate solubilization, or siderophore production. This argues for a potential beneficial role of these L. parviflorus nodule-associated bacteria.

show abstract

Comparative Genomics, Siderophore Production, and Iron Scavenging Potential of Root Zone Soil Bacteria Isolated from ‘Concord’ Grape Vineyards

Cited by 14 publications

References 66 publications

Screening of epiphytic rhizosphere-associated bacteria in Argentinian Malbec and Cabernet-Sauvignon vineyards for potential use as biological fertilisers and pathogen-control agents

Screening of epiphytic rhizosphere-associated bacteria in Argentinian Malbec and Cabernet-Sauvignon vineyards for potential use as biological fertilisers and pathogen-control agents

Genome Mining and Comparative Genome Analysis Revealed Niche-Specific Genome Expansion in Antibacterial Bacillus pumilus Strain SF-4

Diversity, Phylogeny and Plant Growth Promotion Traits of Nodule Associated Bacteria Isolated from Lotus parviflorus

Contact Info

Product

Resources

About