ArticleBMC genomics2016
Comparative genomics and prediction of conditionally dispensable sequences in legume-infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectors.
Article in BMC genomics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 66 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
66 citing papers in PubMed, 166 citations in OpenAlex.
- Involvement ofJournal of fungi (Basel, Switzerland) · 2026Article
- The Effector SIX8 Contributes to Virulence of Fusarium oxysporum f. sp. lactucae Race 4 on Lettuce.Molecular plant pathology · 2026Article
- Breeding for next-generation biotic stress-tolerant pigeonpea for sustainable food legume production.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Review
- Interspecies hybridization as a route of accessory chromosome origin in fungal pathogens.mBio · 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
- Chromosome-level genome assemblies for the latent pine pathogen, Diplodia sapinea, reveal two accessory chromosomes with distinct genomic features and evolutionary dynamics.G3 (Bethesda, Md.) · 2025Article
- Genetic and molecular approaches for Fusarium wilt resistance in garden pea: advances and future outlook.Plant molecular biology · 2025Review
- "Secreted in Xylem" Genes (SIX Genes): Relationship to the Aggressiveness ofPlants (Basel, Switzerland) · 2025Article
- From Natural Hosts to Agricultural Threats: The Evolutionary Journey of Phytopathogenic Fungi.Journal of fungi (Basel, Switzerland) · 2025Review
- The secreted protein FonCHRD is essential for vegetative growth, asexual reproduction, and pathogenicity in watermelon Fusarium wilt fungus.Crop health · 2024Article
- Adaptation of Fusarium Head Blight Pathogens to Changes in Agricultural Practices and Human Migration.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Identification and molecular detection of the pathogen ofFrontiers in microbiology · 2024Article
- Pangenomics of flax fungal parasiteFrontiers in plant science · 2024Article
- Accessory genes in tropical race 4 contributed to the recent resurgence of the devastating disease of Fusarium wilt of banana.Research square · 2023Article
- Breeding and Genomic Approaches towards Development of Fusarium Wilt Resistance in Chickpea.Life (Basel, Switzerland) · 2023Review
- Conservation and Expansion of Transcriptional Factor Repertoire in theJournal of fungi (Basel, Switzerland) · 2023Article
- Diagnosis of Fusarium oxysporum f. sp. ciceris causing Fusarium wilt of chickpea using loop-mediated isothermal amplification (LAMP) and conventional end-point PCR.Scientific reports · 2023Article
- Conservation and Expansion of Transcriptional Factor Repertoire in thebioRxiv : the preprint server for biology · 2023Article
- The Genome ofInternational journal of molecular sciences · 2023Article
6 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
21 authors at 7 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundSoil-borne fungi of the Fusarium oxysporum species complex cause devastating wilt disease on many crops including legumes that supply human dietary protein needs across many parts of the globe. We present and compare draft genome assemblies for three legume-infecting formae speciales (ff. spp.): F. oxysporum f. sp. ciceris (Foc-38-1) and f. sp. pisi (Fop-37622), significant pathogens of chickpea and pea respectively, the world's second and third most important grain legumes, and lastly f. sp. medicaginis (Fom-5190a) for which we developed a model legume pathosystem utilising Medicago truncatula.
resultsFocusing on the identification of pathogenicity gene content, we leveraged the reference genomes of Fusarium pathogens F. oxysporum f. sp. lycopersici (tomato-infecting) and F. solani (pea-infecting) and their well-characterised core and dispensable chromosomes to predict genomic organisation in the newly sequenced legume-infecting isolates. Dispensable chromosomes are not essential for growth and in Fusarium species are known to be enriched in host-specificity and pathogenicity-associated genes. Comparative genomics of the publicly available Fusarium species revealed differential patterns of sequence conservation across F. oxysporum formae speciales, with legume-pathogenic formae speciales not exhibiting greater sequence conservation between them relative to non-legume-infecting formae speciales, possibly indicating the lack of a common ancestral source for legume pathogenicity. Combining predicted dispensable gene content with in planta expression in the model legume-infecting isolate, we identified small conserved regions and candidate effectors, four of which shared greatest similarity to proteins from another legume-infecting ff. spp.
conclusionsWe demonstrate that distinction of core and potential dispensable genomic regions of novel F. oxysporum genomes is an effective tool to facilitate effector discovery and the identification of gene content possibly linked to host specificity. While the legume-infecting isolates didn't share large genomic regions of pathogenicity-related content, smaller regions and candidate effector proteins were highly conserved, suggesting that they may play specific roles in inducing disease on legume hosts.
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.