ArticlePloS one2013
An improved method for TAL effectors DNA-binding sites prediction reveals functional convergence in TAL repertoires of Xanthomonas oryzae strains.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers.
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Who cites it
49 citing papers in PubMed, 100 citations in OpenAlex.
- Two domesticated species of rice shaped the population structure of Xanthomonas oryzae pv. oryzae in Africa.PLoS pathogens · 2026Article
- Activation of three targets by a TAL effector confers susceptibility to bacterial blight of cotton.Nature communications · 2025Article
- Designer TALEs enable discovery of cell death-inducer genes.Plant physiology · 2024Article
- Corneal gene therapy: Structural and mechanistic understanding.The ocular surface · 2023Article
- Genome editing of an African elite rice variety confers resistance against endemic and emergingeLife · 2023Article
- RXam2, a NLR from cassava (Manihot esculenta) contributes partially to the quantitative resistance to Xanthomonas phaseoli pv. manihotis.Plant molecular biology · 2022Article
- The RiceInternational journal of molecular sciences · 2022Article
- TAL Effectors with Avirulence Activity in African Strains of Xanthomonas oryzae pv. oryzae.Rice (New York, N.Y.) · 2022Article
- Epigenetic features improve TALE target prediction.BMC genomics · 2021Article
- Tal2c Activates the Expression ofInternational journal of molecular sciences · 2021Article
- An atypical class of non-coding small RNAs is produced in rice leaves upon bacterial infection.Scientific reports · 2021Article
- SWEET genes and TAL effectors for disease resistance in plants: Present status and future prospects.Molecular plant pathology · 2021Review
- An ERF121 transcription factor from Brassica oleracea is a target for the conserved TAL-effectors from different Xanthomonas campestris pv. campestris strains.Molecular plant pathology · 2021Article
- TAL Effector Repertoires of Strains ofMicroorganisms · 2021Article
- The genetic arms race between plant and Xanthomonas: lessons learned from TALE biology.Science China. Life sciences · 2021Review
- Article
- Resistance and susceptibility QTL identified in a rice MAGIC population by screening with a minor-effect virulence factor from Xanthomonas oryzae pv. oryzae.Plant biotechnology journal · 2021Article
- A genome-wide association study reveals the quantitative trait locus and candidate genes that regulate phosphate efficiency in a Vietnamese rice collection.Physiology and molecular biology of plants : an international journal of functional plant biology · 2020Article
- Xanthomonas diversity, virulence and plant-pathogen interactions.Nature reviews. Microbiology · 2020Review
- Broad-spectrum resistance to bacterial blight in rice using genome editing.Nature biotechnology · 2019Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Transcription Activators-Like Effectors (TALEs) belong to a family of virulence proteins from the Xanthomonas genus of bacterial plant pathogens that are translocated into the plant cell. In the nucleus, TALEs act as transcription factors inducing the expression of susceptibility genes. A code for TALE-DNA binding specificity and high-resolution three-dimensional structures of TALE-DNA complexes were recently reported. Accurate prediction of TAL Effector Binding Elements (EBEs) is essential to elucidate the biological functions of the many sequenced TALEs as well as for robust design of artificial TALE DNA-binding domains in biotechnological applications. In this work a program with improved EBE prediction performances was developed using an updated specificity matrix and a position weight correction function to account for the matching pattern observed in a validation set of TALE-DNA interactions. To gain a systems perspective on the large TALE repertoires from X. oryzae strains, this program was used to predict rice gene targets for 99 sequenced family members. Integrating predictions and available expression data in a TALE-gene network revealed multiple candidate transcriptional targets for many TALEs as well as several possible instances of functional convergence among TALEs.
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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.