Genome Sequences of Two Plant Growth-Promoting Fluorescent Pseudomonas Strains, R62 and R81

Mathimaran, Natarajan; Srivastava, R. P.; Wiemken, Andres; Sharma, Anil Kumar; Boller, Thomas

doi:10.1128/jb.00349-12

Cited by 23 publications

(12 citation statements)

References 15 publications

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“…The ‘ P. fluorescens ’ group was composed of four subgroups, subgroup 1 with the strains P. fluorescens Pf29Arp, Q2‐87, F113, P. brassicacearum NFM421 and Q8r1‐96 that we named the ‘ P. brassicacearum ‐like’ subgroup; subgroup 2 with the strain P. protegens Pf‐5; subgroup 3 with the strains P. fluorescens SBW25 and WH6; subgroup 4 with the strain P. fluorescens Pf01 and the recently sequenced Pseudomonas sp. R62 and P. fluorescens R124 (Mathimaran et al ., ). The subgroups 1 and 4 differed from the subclade 1 defined by Loper and colleagues () wherein the strain Pf01 belonged to the ‘ P. brassicacearum ‐like’ subgroup.…”

Section: Resultsmentioning

confidence: 97%

Genomic analysis of the biocontrol strain Pseudomonas fluorescens Pf29Arp with evidence of T3SS and T6SS gene expression on plant roots

Marchi

Boutin

Gazengel

et al. 2013

Environ Microbiol Rep

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Several bacterial strains of the Pseudomonas genus provide plant growth stimulation, plant protection against pests or bioremediation. Among these bacteria, P. fluorescens Pf29Arp reduces the severity of take-all, a disease caused by the pathogenic fungus Gaeumannomyces graminis var. tritici (Ggt) on wheat roots. In this study, we obtained a draft genome of Pf29Arp and subsequent comparative genomic analyses have revealed that this bacterial strain is closely related to strains of the 'P. brassicacearum-like' subgroup including P. brassicacearum ssp. brassicacearum NFM421 and P. fluorescens F113. Despite an overall chromosomal organization similar to these strains, a number of features including antibiotic synthesis gene clusters from secondary metabolism are not found in the Pf29Arp genome. But Pf29Arp possesses different protein secretion systems including type III (T3SS) and type VI (T6SS) secretion systems. Pf29Arp is the first Pseudomonas sp. strain described with four T6SS clusters (cluster I, II, III and IV). In addition, some protein-coding genes involved in the assembly of these secretion systems are basally expressed during Pf29Arp colonization of healthy wheat roots and display different expression patterns on necrotized roots caused by Ggt. These data suggest a role of T3SS and T6SS in the Pf29Arp adaptation to different root environments.

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Section: Resultsmentioning

confidence: 97%

Genomic analysis of the biocontrol strain Pseudomonas fluorescens Pf29Arp with evidence of T3SS and T6SS gene expression on plant roots

Marchi

Boutin

Gazengel

et al. 2013

Environ Microbiol Rep

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“…This is due to genome rearrangement, probably caused by IS3-family transposases (PSF113_1803-1804 and PSF113_4042-4043). Examination of other P. fluorescens genomes indicated that the genes invG , iagB and pseudogene related to hilA are present at the same chromosomal location in strains PAMC 25886 [66], Ag1 [67], 14–3 [68], WH6 [69], SBW25 [18], R81 [70], A506, BG33R, SS101 [20], NZ007, NZ052 and PMS117. Interestingly all these strains belong to subgroup V of the P. fluorescens group, which suggest that the SPI-1 cluster was lost before speciation of this sub-clade.…”

Section: Resultsmentioning

confidence: 99%

Genome sequence reveals that Pseudomonas fluorescens F113 possesses a large and diverse array of systems for rhizosphere function and host interaction

et al. 2013

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BackgroundPseudomonas fluorescens F113 is a plant growth-promoting rhizobacterium (PGPR) isolated from the sugar-beet rhizosphere. This bacterium has been extensively studied as a model strain for genetic regulation of secondary metabolite production in P. fluorescens, as a candidate biocontrol agent against phytopathogens, and as a heterologous host for expression of genes with biotechnological application. The F113 genome sequence and annotation has been recently reported.ResultsComparative analysis of 50 genome sequences of strains belonging to the P. fluorescens group has revealed the existence of five distinct subgroups. F113 belongs to subgroup I, which is mostly composed of strains classified as P. brassicacearum. The core genome of these five strains is highly conserved and represents approximately 76% of the protein-coding genes in any given genome. Despite this strong conservation, F113 also contains a large number of unique protein-coding genes that encode traits potentially involved in the rhizocompetence of this strain. These features include protein coding genes required for denitrification, diterpenoids catabolism, motility and chemotaxis, protein secretion and production of antimicrobial compounds and insect toxins.ConclusionsThe genome of P. fluorescens F113 is composed of numerous protein-coding genes, not usually found together in previously sequenced genomes, which are potentially decisive during the colonisation of the rhizosphere and/or interaction with other soil organisms. This includes genes encoding proteins involved in the production of a second flagellar apparatus, the use of abietic acid as a growth substrate, the complete denitrification pathway, the possible production of a macrolide antibiotic and the assembly of multiple protein secretion systems.

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“…(DSMZ-5969, Leibniz Institute DSMZ-German Collection of Microorganism and Cell Cultures, Germany). In addition, two PGPR (Plant Growth Promoting Rhizobacteria) strains (Pseudomonas fluorescens strains R62 and R81) were used [30]. PGPRs are known to have beneficial effects on plant growth, especially in the development of fine root growth [31].…”

Section: Bioinoculantsmentioning

confidence: 99%

Deep-rooted pigeon pea promotes the water relations and survival of shallow-rooted finger millet during drought—Despite strong competitive interactions at ambient water availability

et al. 2020

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Bioirrigation has been defined as the transfer of hydraulically lifted water by a deep-rooted plant to a neighbouring shallow-rooted plant which cannot access deep soil moisture. In this study, we tested if facilitative effects of bioirrigation or the competition for water dominate the interaction of two intercropped plants-deep-rooted pigeon pea (PP) and shallow-rooted finger millet (FM) before and during a drought. Additionally, we tested how the presence of a common mycorrhizal network (CMN) affects the balance between facilitative (i.e. bioirrigation) and competitive interactions between two intercropping species. Our results show that PP can indeed promote the water relations of FM during a drought event. Specifically, stomatal conductance in FM controls dropped to low values of 27.1 to 33.6 mmol m-2 s-1 , while FM in intercropping treatments were able to maintain its stomatal conductance at 60 mmol m-2 s-1. In addition, the presence of PP reduced the drought-induced foliar damage and mortality of FM. The observed facilitative effects of PP on FM were partially enhanced by the presence of a CMN. In contrast to the facilitative effects under drought, PP exerted strong competitive effects on FM before the onset of drought. This hindered growth and biomass production of FM when intercropped with PP, an effect that was even enhanced in the presence of a CMN. The results from our study thus indicate that in intercropping, deep-rooted plants may act as "bioirrigators" for shallow-rooted crops and that a CMN can promote these facilitative effects. However, the interspecific competition between the intercropped plants under conditions of abundant moisture supply can be strong and are enhanced by the presence of a CMN. In more general terms, our study shows that the extent by which the antagonistic effects of facilitation and competition are expressed in an intercropping system strongly depends on the availability of resources, which in the case of the present study was water and the presence of biotic interactions (i.e. the presence of a CMN).

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Genome Sequences of Two Plant Growth-Promoting Fluorescent Pseudomonas Strains, R62 and R81

Cited by 23 publications

References 15 publications

Genomic analysis of the biocontrol strain Pseudomonas fluorescens Pf29Arp with evidence of T3SS and T6SS gene expression on plant roots

Genomic analysis of the biocontrol strain Pseudomonas fluorescens Pf29Arp with evidence of T3SS and T6SS gene expression on plant roots

Genome sequence reveals that Pseudomonas fluorescens F113 possesses a large and diverse array of systems for rhizosphere function and host interaction

Deep-rooted pigeon pea promotes the water relations and survival of shallow-rooted finger millet during drought—Despite strong competitive interactions at ambient water availability

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