ArticleGenome biology2019
Recombination of ecologically and evolutionarily significant loci maintains genetic cohesion in the Pseudomonas syringae species complex.
Article in Genome biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 70 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
70 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Meta-analysis of theMicrobial genomics · 2022Pooled it
- Comparative genomics reveals two major lineages of Bifidobacterium adolescentis in the human gut, driven by divergent adaptation in China and the United States.Journal of advanced research · 2026Article
- To Beet or Not (Just) to Beet: Ecology, Virulence and Genomic Insights Into the Leaf Spot Disease Causative Pseudomonas syringae pv. aptata.Molecular plant pathology · 2026Review
- Genome Evolution in Plant Pathogenic Bacteria.Genome biology and evolution · 2026Review
- Comparative genomics reveals high prophage diversity and horizontal gene transfer of effectors and phage defence systems in theMicrobial genomics · 2026Article
- Pathological convergence of a bacterial plant pathogen is associated with the horizontal transfer of an effector-containing mobile element.BMC genomics · 2026Article
- How flagellar glycosylation of the phytopathogenic bacteriumApplied and environmental microbiology · 2026Article
- Genomic Characterization ofPlants (Basel, Switzerland) · 2026Article
- Genomic and Effector-Based Insights Into Austropuccinia psidii-Host Interactions Informing RNAi and Resistance Development.Molecular plant pathology · 2026Review
- Genomic Surveillance of Epiphytic Pseudomonas syringae Highlights Shared Reservoirs and Cross-Habitat Threats to Cherry Orchards and Nearby Woodland Plants.Molecular plant pathology · 2026Article
- Characterization of Pseudomonas mediterranea and Pseudomonas viridiflava strains associated with tomato pith necrosis in the Al Taif region, Saudi Arabia.Scientific reports · 2026Article
- Negative Frequency-Dependent Selection Promotes Strain Structure in a Plant Pathogen.Ecology letters · 2026Article
- Characterization ofApplied and environmental microbiology · 2025Article
- Adaptation without Dominance in Pseudomonas syringae Pathovars.Microbial ecology · 2025Article
- Whole-Genome Analysis ofAntibiotics (Basel, Switzerland) · 2025Article
- Genomic correlates of tailocin sensitivity in Pseudomonas syringae.G3 (Bethesda, Md.) · 2025Article
- Woody Host-Specific Type III Effector HopBL2 Is Essential for Pseudomonas savastanoi Virulence and Associates With Plasmodesmata.Molecular plant pathology · 2025Article
- The Role of Genomic Islands in the Pathogenicity and Evolution of Plant-Pathogenic Gammaproteobacteria.Microorganisms · 2025Review
- Diverse Genetic Mechanisms Enable Pseudomonas syringae to Rapidly Overcome Effector-Triggered Immunity.Molecular plant pathology · 2025Article
- Kastor: a reference-based comparative approach for assessment and correction of gene-fragmenting errors in long-read assemblies of small genomes.BMC genomics · 2025Article
10 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundPseudomonas syringae is a highly diverse bacterial species complex capable of causing a wide range of serious diseases on numerous agronomically important crops. We examine the evolutionary relationships of 391 agricultural and environmental strains using whole-genome sequencing and evolutionary genomic analyses.
resultsWe describe the phylogenetic distribution of all 77,728 orthologous gene families in the pan-genome, reconstruct the core genome phylogeny using the 2410 core genes, hierarchically cluster the accessory genome, identify the diversity and distribution of type III secretion systems and their effectors, predict ecologically and evolutionary relevant loci, and establish the molecular evolutionary processes operating on gene families. Phylogenetic and recombination analyses reveals that the species complex is subdivided into primary and secondary phylogroups, with the former primarily comprised of agricultural isolates, including all of the well-studied P. syringae strains. In contrast, the secondary phylogroups include numerous environmental isolates. These phylogroups also have levels of genetic diversity typically found among distinct species. An analysis of rates of recombination within and between phylogroups revealed a higher rate of recombination within primary phylogroups than between primary and secondary phylogroups. We also find that "ecologically significant" virulence-associated loci and "evolutionarily significant" loci under positive selection are over-represented among loci that undergo inter-phylogroup genetic exchange.
conclusionsWhile inter-phylogroup recombination occurs relatively rarely, it is an important force maintaining the genetic cohesion of the species complex, particularly among primary phylogroup strains. This level of genetic cohesion, and the shared plant-associated niche, argues for considering the primary phylogroups as a single biological species.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.