ArticleBMC genomics2013
MITEs in the promoters of effector genes allow prediction of novel virulence genes in Fusarium oxysporum.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 118 papers.
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
118 citing papers in PubMed, 237 citations in OpenAlex.
- Pathogenicity and Virulence ofVirulence · 2026Review
- Transcriptomic Differences Between TwoJournal of fungi (Basel, Switzerland) · 2026Article
- Article
- The Effector SIX8 Contributes to Virulence of Fusarium oxysporum f. sp. lactucae Race 4 on Lettuce.Molecular plant pathology · 2026Article
- Solanaceous vegetables andHorticulture research · 2026Article
- Genome reshaping by Helitron transposons in Fusarium oxysporum TR4 affects secondary metabolism but not virulence.Nature communications · 2026Article
- Assembling telomere-to-telomere genomes of Fusarium oxysporum f. sp. lactucae provides a roadmap for studying genome and phenotype evolution.BMC genomics · 2026Article
- Differential Pathogenicity and Secreted in Xylem Gene Patterns in Fusarium spp. Causing Onion Basal Rot.The plant pathology journal · 2026Article
- The Multifaceted Menace ofBiology · 2026Review
- High-quality assembly of the Chinese white truffle genome and recalibrated divergence time estimate provide insight into the evolutionary dynamics of Tuberaceae.Genome research · 2025Article
- Host-specific adaptation inmBio · 2025Article
- Transposons and accessory genes drive adaptation in a clonally evolving fungal pathogen.Nature communications · 2025Article
- "Secreted in Xylem" Genes (SIX Genes): Relationship to the Aggressiveness ofPlants (Basel, Switzerland) · 2025Article
- Virulence ofbioRxiv : the preprint server for biology · 2025Article
- Genomic Differences Between TwoJournal of fungi (Basel, Switzerland) · 2025Article
- FoCup, a secreted protein, is essential for virulence ofFrontiers in microbiology · 2025Article
- Mechanism of Action ofPlants (Basel, Switzerland) · 2024Article
- Horizontal transfers between fungal Fusarium species contributed to successive outbreaks of coffee wilt disease.PLoS biology · 2024Article
- Characterization, Genome Sequencing, and Development of a Rapid PCR Identification Primer forPlants (Basel, Switzerland) · 2024Article
- Comparative genome analysis and the genome-shaping role of long terminal repeat retrotransposons in the evolutionary divergence of fungal pathogens Blastomyces dermatitidis and Blastomyces gilchristii.G3 (Bethesda, Md.) · 2024Article
58 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
9 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe plant-pathogenic fungus Fusarium oxysporum f.sp.lycopersici (Fol) has accessory, lineage-specific (LS) chromosomes that can be transferred horizontally between strains. A single LS chromosome in the Fol4287 reference strain harbors all known Fol effector genes. Transfer of this pathogenicity chromosome confers virulence to a previously non-pathogenic recipient strain. We hypothesize that expression and evolution of effector genes is influenced by their genomic context.
resultsTo gain a better understanding of the genomic context of the effector genes, we manually curated the annotated genes on the pathogenicity chromosome and identified and classified transposable elements. Both retro- and DNA transposons are present with no particular overrepresented class. Retrotransposons appear evenly distributed over the chromosome, while DNA transposons tend to concentrate in large chromosomal subregions. In general, genes on the pathogenicity chromosome are dispersed within the repeat landscape. Effector genes are present within subregions enriched for DNA transposons. A miniature Impala (mimp) is always present in their promoters. Although promoter deletion studies of two effector gene loci did not reveal a direct function of the mimp for gene expression, we were able to use proximity to a mimp as a criterion to identify new effector gene candidates. Through xylem sap proteomics we confirmed that several of these candidates encode proteins secreted during plant infection.
conclusionsEffector genes in Fol reside in characteristic subregions on a pathogenicity chromosome. Their genomic context allowed us to develop a method for the successful identification of novel effector genes. Since our approach is not based on effector gene similarity, but on unique genomic features, it can easily be extended to identify effector genes in Fo strains with different host specificities.
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.