Molecular Keys to Broad Host Range in<i>Sinorhizobium fredii</i>NGR234, USDA257, and HH103

Krysciak, Dagmar; Orbegoso, Mariita Rodriguez; Schmeisser, Christel; Streit, Wolfgang R.

doi:10.1002/9781119053095.ch32

Cited by 4 publications

(4 citation statements)

References 87 publications

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“…The T2SS secretion system is used to translocate a wide range of proteins from the periplasm across the outer membrane [ 40 ]. Although T2SS genes are not found in other 10.1601/nm.1335 strains or in the 10.1601/nm.1331 strains GR64 and 10.1601/strainfinder?urlappend=%3Fid%3DUSDA+257, they are present in the genomes of the 10.1601/nm.1331 strains HH103 and 10.1601/strainfinder?urlappend=%3Fid%3DNGR+234, in a similar gene arrangement to that observed in 10.1601/nm.1335 Mlalz-1 [ 41 , 42 ] (Fig. 3b ).…”

Section: Insights From the Genome Sequencesupporting

confidence: 51%

High-quality draft genome sequence of Ensifer meliloti Mlalz-1, a microsymbiont of Medicago laciniata (L.) miller collected in Lanzarote, Canary Islands, Spain

Osman

Berkum

León-Barrios

et al. 2017

Stand in Genomic Sci

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10.1601/nm.1335 Mlalz-1 (INSDC = ATZD00000000) is an aerobic, motile, Gram-negative, non-spore-forming rod that was isolated from an effective nitrogen-fixing nodule of Medicago laciniata (L.) Miller from a soil sample collected near the town of Guatiza on the island of Lanzarote, the Canary Islands, Spain. This strain nodulates and forms an effective symbiosis with the highly specific host M. laciniata. This rhizobial genome was sequenced as part of the DOE Joint Genome Institute 2010 Genomic Encyclopedia for Bacteria and Archaea-Root Nodule Bacteria (GEBA-RNB) sequencing project. Here the features of 10.1601/nm.1335 Mlalz-1 are described, together with high-quality permanent draft genome sequence information and annotation. The 6,664,116 bp high-quality draft genome is arranged in 99 scaffolds of 100 contigs, containing 6314 protein-coding genes and 74 RNA-only encoding genes. Strain Mlalz-1 is closely related to 10.1601/nm.1335 10.1601/strainfinder?urlappend=%3Fid%3DIAM+12611 T, 10.1601/nm.1334 A 321T and 10.1601/nm.17831 10.1601/strainfinder?urlappend=%3Fid%3DORS+1407 T, based on 16S rRNA gene sequences. gANI values of ≥98.1% support the classification of strain Mlalz-1 as 10.1601/nm.1335. Nodulation of M. laciniata requires a specific nodC allele, and the nodC gene of strain Mlalz-1 shares ≥98% sequence identity with nodC of M. laciniata-nodulating 10.1601/nm.1328 strains, but ≤93% with nodC of 10.1601/nm.1328 strains that nodulate other Medicago species. Strain Mlalz-1 is unique among sequenced 10.1601/nm.1335 strains in possessing genes encoding components of a T2SS and in having two versions of the adaptive acid tolerance response lpiA-acvB operon. In 10.1601/nm.1334 strain 10.1601/strainfinder?urlappend=%3Fid%3DWSM+419, lpiA is essential for enhancing survival in lethal acid conditions. The second copy of the lpiA-acvB operon of strain Mlalz-1 has highest sequence identity (> 96%) with that of 10.1601/nm.1334 strains, which suggests genetic recombination between strain Mlalz-1 and 10.1601/nm.1334 and the horizontal gene transfer of lpiA-acvB.Electronic supplementary materialThe online version of this article (10.1186/s40793-017-0270-2) contains supplementary material, which is available to authorized users.

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Section: Insights From the Genome Sequencesupporting

confidence: 51%

High-quality draft genome sequence of Ensifer meliloti Mlalz-1, a microsymbiont of Medicago laciniata (L.) miller collected in Lanzarote, Canary Islands, Spain

Osman

Berkum

León-Barrios

et al. 2017

Stand in Genomic Sci

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“…The result of these various vulnerabilities is the persistence of rhizobium strains that are highly promiscuous despite conferring low benefits. Sinorhizobium fredii NGR 234, for example, can infect 112 different legume genera and is often an ineffective symbiont (Krysciak et al, 2015 ). Lastly, gibberellin production by rhizobia in already formed nodules can result in a reduction of subsequent nodulation, potentially overriding the host's own ability to regulate nodule numbers, and reducing the number of potential competitors for rhizobia (Tatsukami et al, 2016 ).…”

Section: Direct Manipulationmentioning

confidence: 99%

Evolution of manipulative microbial behaviors in the rhizosphere

Klein

Stewart

Porter

et al. 2022

Evolutionary Applications

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The rhizosphere has been called "one of the most complex ecosystems on earth" because it is a hotspot for interactions among millions of microbial cells. Many of these are microbes are also participating in a dynamic interplay with host plant tissues, signaling pathways, and metabolites. Historically, breeders have employed a plant-centric perspective when trying to harness the potential of microbiome-derived benefits to improve productivity and resilience of economically important plants. This is potentially problematic because: (i) the evolution of the microbes themselves is often ignored, and (ii) it assumes that the fitness of interacting plants and microbes is strictly aligned. In contrast, a microbe-centric perspective recognizes that putatively beneficial microbes are still under selection to increase their own fitness, even if there are costs to the host. This can lead to the evolution of sophisticated, potentially subtle, ways for microbes to manipulate the phenotype of their hosts, as well as other microbes in the rhizosphere. We illustrate this idea with a review of cases where rhizosphere microbes have been demonstrated to directly manipulate host root growth, architecture and exudation, host nutrient uptake systems, and host immunity and defense. We also discuss indirect effects, whereby fitness outcomes for the plant are a consequence of ecological interactions between rhizosphere microbes. If these consequences are positive for the plant, they can potentially be misconstrued as traits that have evolved to promote host growth, even if they are a result of selection for unrelated functions. The ubiquity of both direct microbial manipulation of hosts and context-dependent, variable indirect effects leads us to argue that an evolutionary perspective on rhizosphere microbial ecology will become increasingly important as we continue to engineer microbial communities for crop production.

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“…The symbiotic process is often very specific and most rhizobia establish symbiosis with a small number of legume hosts. However, some rhizobia have evolved mechanisms that allow them to nodulate a larger variety of legume plants [9,10]. Sinorhizobium (=Ensifer) fredii is a rhizobial species that has an extremely broad host range (more than 100 genera of legumes are nodulated) that includes plants forming determinate and indeterminate nodules, such as Glycine max (soybean) and Glycyrrhiza uralensis, respectively [11].…”

Section: Introductionmentioning

confidence: 99%

Deciphering the Symbiotic Significance of Quorum Sensing Systems of Sinorhizobium fredii HH103

et al. 2020

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Quorum sensing (QS) is a bacterial cell-to-cell signaling mechanism that collectively regulates and synchronizes behaviors by means of small diffusible chemical molecules. In rhizobia, QS systems usually relies on the synthesis and detection of N-acyl-homoserine lactones (AHLs). In the model bacterium Sinorhizobium meliloti functions regulated by the QS systems TraI-TraR and SinI-SinR(-ExpR) include plasmid transfer, production of surface polysaccharides, motility, growth rate and nodulation. These systems are also present in other bacteria of the Sinorhizobium genus, with variations at the species and strain level. In Sinorhizobium fredii NGR234 phenotypes regulated by QS are plasmid transfer, growth rate, sedimentation, motility, biofilm formation, EPS production and copy number of the symbiotic plasmid (pSym). The analysis of the S. fredii HH103 genomes reveal also the presence of both QS systems. In this manuscript we characterized the QS systems of S. fredii HH103, determining that both TraI and SinI AHL-synthases proteins are responsible of the production of short- and long-chain AHLs, respectively, at very low and not physiological concentrations. Interestingly, the main HH103 luxR-type genes, expR and traR, are split into two ORFs, suggesting that in S. fredii HH103 the corresponding carboxy-terminal proteins, which contain the DNA-binding motives, may control target genes in an AHL-independent manner. The presence of a split traR gene is common in other S. fredii strains.

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Molecular Keys to Broad Host Range inSinorhizobium frediiNGR234, USDA257, and HH103

Cited by 4 publications

References 87 publications

High-quality draft genome sequence of Ensifer meliloti Mlalz-1, a microsymbiont of Medicago laciniata (L.) miller collected in Lanzarote, Canary Islands, Spain

High-quality draft genome sequence of Ensifer meliloti Mlalz-1, a microsymbiont of Medicago laciniata (L.) miller collected in Lanzarote, Canary Islands, Spain

Evolution of manipulative microbial behaviors in the rhizosphere

Deciphering the Symbiotic Significance of Quorum Sensing Systems of Sinorhizobium fredii HH103

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