Genome Sequence of the Plant Pathogen and Biotechnology Agent
            <i>Agrobacterium tumefaciens</i>
            C58

Goodner, Brad; Hinkle, Gregory; Gattung, Stacie; Miller, Nora R.; Blanchard, Mary; Qurollo, Barbara A.; Goldman, Barry S.; Cao, Yongwei; Askenazi, Manor; Halling, Conrad; Mullin, Lori; Houmiel, Kathryn L.; Gordon, J.; Vaudin, Mark D.; Iartchouk, Oleg; Epp, Andrew; Liu, Fang; Wollam, Clifford; Allinger, Mike; Doughty, Dahlia; Scott, Charlaine; Lappas, Courtney M.; Markelz, Brian; Flanagan, Casey M; Crowell, Chris B.; Gurson, Jordan; Lomo, Caroline; Sear, Carolyn; Strub, Graham; Cielo, Chris; Slater, Steven

doi:10.1126/science.1066803

Cited by 583 publications

(452 citation statements)

References 59 publications

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“…Moreover, 73.9% (1356 of 1834 genes) of the genes from the linear chromosome were shared with all biovar I strains but 98.2% (1702 of 1834 genes) with C58, among those 305 genes (17.9% of the total genes) were only shared with C58 ( Figure 1b). Several of the genes encoded by the circular and linear chromosome of C58 and RrF4 are relevant not only for pathogenicity but also for the plant-microbe interaction in general (Goodner et al, 2001;Heindl et al, 2014). Among those, we detected homologs that were reported to be involved in the interaction of plant growth-promoting bacteria with host plants (Supplementary Table S3).…”

Section: Resultsmentioning

confidence: 99%

“…Comparative genome analysis and phylogenetic placement of RrF4 The genome of RrF4 is organized in a circular (2.8 Mbp) and a linear chromosome (2.06 Mbp), a tumor-inducing plasmid pTiF4 (0.21 Mbp), and an accessory plasmid pAtF4 (0.54 Mbp) in the same manner as R. radiobacter C58 (formerly: A. tumefaciens C58; Agrobacterium biovar I, genomovar G8) ( Table 1; Goodner et al, 2001). This unusual genome structure, containing a linear chromosome, has been observed only for Agrobacterium biovar I strains (Slater et al, 2013).…”

Section: Resultsmentioning

confidence: 99%

“…This matrix may be formed by extracellular polysaccharides, extracellular DNA or (glyco)proteins (Flemming and Wingender, 2010). Like C58, the genome of RrF4 contains several genes for polysaccharide synthesis such as cellulose, succinoglycan, glucans and outer membrane lipopolysaccharides (Goodner et al, 2001; Supplementary Table S4), which are known to be involved in the formation of extracellular biofilm matrix of 'Agrobacterium tumefaciens' strains (Heindl et al, 2014;Matthysse, 2014).…”

Section: Rrf4 Colonizes Roots and Proliferates Independent Of Its Funmentioning

confidence: 99%

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Non-pathogenic Rhizobium radiobacter F4 deploys plant beneficial activity independent of its host Piriformospora indica

et al. 2015

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The Alphaproteobacterium Rhizobium radiobacter F4 (RrF4) was originally characterized as an endofungal bacterium in the beneficial endophytic Sebacinalean fungus Piriformospora indica. Although attempts to cure P. indica from RrF4 repeatedly failed, the bacterium can easily be grown in pure culture. Here, we report on RrF4's genome and the beneficial impact the free-living bacterium has on plants. In contrast to other endofungal bacteria, the genome size of RrF4 is not reduced. Instead, it shows a high degree of similarity to the plant pathogenic R. radiobacter (formerly: Agrobacterium tumefaciens) C58, except vibrant differences in both the tumor-inducing (pTi) and the accessor (pAt) plasmids, which can explain the loss of RrF4's pathogenicity. Similar to its fungal host, RrF4 colonizes plant roots without host preference and forms aggregates of attached cells and dense biofilms at the root surface of maturation zones. RrF4-colonized plants show increased biomass and enhanced resistance against bacterial leaf pathogens. Mutational analysis showed that, similar to P. indica, resistance mediated by RrF4 was dependent on the plant's jasmonate-based induced systemic resistance (ISR) pathway. Consistent with this, RrF4-and P. indica-induced pattern of defense gene expression were similar. In clear contrast to P. indica, but similar to plant growth-promoting rhizobacteria, RrF4 colonized not only the root outer cortex but also spread beyond the endodermis into the stele. On the basis of our findings, RrF4 is an efficient plant growth-promoting bacterium.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Rrf4 Colonizes Roots and Proliferates Independent Of Its Funmentioning

confidence: 99%

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Non-pathogenic Rhizobium radiobacter F4 deploys plant beneficial activity independent of its host Piriformospora indica

et al. 2015

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“…Lack of sufficient sequences from transgene insertion sites and only recent availability of the entire A. tumefaciens genome sequence 4,5 are the likely reasons why the transfer of A. tumefaciens genomic DNA has not been reported before. Another complication is that A. tumefaciens DNA is present in transformed plant tissue owing to the presence of residual bacteria soon after transformation.…”

Section: B R I E F C O M M U N I C a T I O N Smentioning

confidence: 99%

T-DNA–mediated transfer of Agrobacterium tumefaciens chromosomal DNA into plants

et al. 2008

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“…tumefaciens encodes homologues of fur, rirA, and irr, as well as a large cluster of genes that directs the synthesis of a siderophore (20,54,72). The A. tumefaciens fur homologue is reported to primarily regulate manganese uptake and plays only a minor role in response to iron levels (33,53).…”

mentioning

confidence: 99%

Antiparallel and Interlinked Control of Cellular Iron Levels by the Irr and RirA Regulators of Agrobacterium tumefaciens

Hibbing

Fuqua

2011

J Bacteriol

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The plant pathogen Agrobacterium tumefaciens encodes predicted iron-responsive regulators, Irr and RirA, that function in several other bacteria to control the response to environmental iron levels. Deletion mutations of irr and rirA, alone and in combination, were evaluated for their impact on cellular iron response. Growth was severely diminished in the ⌬irr mutant under iron-limiting conditions, but reversed to wild-type levels in an ⌬irr ⌬rirA mutant. The level of uncomplexed iron in the ⌬irr mutant was decreased, whereas the ⌬rirA mutant exhibited elevated iron levels. Sensitivity of the ⌬irr and ⌬rirA mutants to iron-activated antimicrobial compounds generally reflected their uncomplexed-iron levels. Expression of genes that encode iron uptake systems was decreased in the ⌬irr mutant, whereas that of iron utilization genes was increased. Irr function required a trihistidine repeat likely to mediate interactions with heme. Iron uptake genes were derepressed in the ⌬rirA mutant. In the ⌬irr ⌬rirA mutant, iron uptake and utilization genes were derepressed, roughly combining the phenotypes of the single mutants. Siderophore production was elevated in the rirA mutant, but most strongly regulated by an RirA-controlled sigma factor. Expression of rirA itself was regulated by Irr, RirA, and iron availability, in contrast to irr expression, which was relatively stable in the different mutants. These studies suggest that in A. tumefaciens, the Irr protein is most active under low-iron conditions, inhibiting iron utilization and activating iron acquisition, while the RirA protein is active under high-iron conditions, repressing iron uptake.

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Genome Sequence of the Plant Pathogen and Biotechnology Agent Agrobacterium tumefaciens C58

Cited by 583 publications

References 59 publications

Non-pathogenic Rhizobium radiobacter F4 deploys plant beneficial activity independent of its host Piriformospora indica

Non-pathogenic Rhizobium radiobacter F4 deploys plant beneficial activity independent of its host Piriformospora indica

T-DNA–mediated transfer of Agrobacterium tumefaciens chromosomal DNA into plants

Antiparallel and Interlinked Control of Cellular Iron Levels by the Irr and RirA Regulators of Agrobacterium tumefaciens

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