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bacteria:t3e:xopaq [2020/06/22 09:12] saulburdman [References] |
bacteria:t3e:xopaq [2020/07/01 10:54] rkoebnik [References] |
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Author: Jose Gadea\\ | Author: Jose Gadea\\ | ||
- | Internal reviewer: | + | Internal reviewer: |
Expert reviewer: FIXME | Expert reviewer: FIXME | ||
- | Class: | + | Class: XopAQ\\ |
- | Family: | + | Family: XopAQ\\ |
Prototype: XopAQ (//X. gardneri// (Xg); strain 101 = ATCC 19865)\\ | Prototype: XopAQ (//X. gardneri// (Xg); strain 101 = ATCC 19865)\\ | ||
GenBank ID: [[https:// | GenBank ID: [[https:// | ||
Line 14: | Line 14: | ||
=== How discovered? === | === How discovered? === | ||
- | XopAQ was discovered by sequencing the genome of the //X. gardneri// (Xg) strain 101 (Potnis //et al//., 2011). | ||
+ | XopAQ was discovered by sequencing the genome of the //X. gardneri// (Xg) strain 101 (Potnis //et al//., 2011). | ||
=== (Experimental) evidence for being a T3E === | === (Experimental) evidence for being a T3E === | ||
- | A functional screen to isolate //Ralstonia solanacearum// | ||
+ | A functional screen to isolate //Ralstonia solanacearum// | ||
=== Regulation === | === Regulation === | ||
- | XopAQ is up-regulated when //X.citri// pv. //citri// 306 and //X.citri// pv. //citri// Aw12879 (restricted to Mexican lime) are grown in XVM2 medium, known to induce hrp gene expression, as compared with nutrient broth (NB). However, no differential expression was observed in this gene among these two strains (Jalan //et al//., 2013). | ||
- | The //X. arboricola// | ||
+ | XopAQ is up-regulated when //X.citri// pv. //citri// 306 and //X.citri// pv. //citri// Aw12879 (restricted to Mexican lime) were grown in XVM2 (a medium that is known to induce expression of //hrp// genes and several effector genes in // | ||
=== Phenotypes === | === Phenotypes === | ||
+ | |||
Unknown. | Unknown. | ||
=== Localization === | === Localization === | ||
- | CSS-Palm suite reveals potential myristoylation/ | ||
+ | CSS-Palm suite reveals potential myristoylation/ | ||
=== Enzymatic function === | === Enzymatic function === | ||
+ | |||
Unknown. No known motifs are found in the Rip6 and Rip11 proteins of // | Unknown. No known motifs are found in the Rip6 and Rip11 proteins of // | ||
- | |||
=== Interaction partners === | === Interaction partners === | ||
+ | |||
Unknown. | Unknown. | ||
Line 39: | Line 40: | ||
=== In xanthomonads === | === In xanthomonads === | ||
- | Yes. Widely | + | Yes. The effector is widely |
=== In other plant pathogens/ | === In other plant pathogens/ | ||
Yes (// | Yes (// | ||
- | ====== XopAQ ====== | + | ===== References |
- | Author: Jose Gadea\\ | + | Barak JD, Vancheva T, Lefeuvre P, Jones JB, Timilsina S, Minsavage GV, Vallad GE, Koebnik R (2016). Whole-genome sequences of // |
- | Internal reviewer: FIXME \\ | + | |
- | Expert reviewer: FIXME | + | |
- | Class: | + | Dalio RJD, Magalhães DM, Rodrigues CM, Arena GD, Oliveira TS, Souza-Neto RR, Picchi SC, Martins PMM, Santos PJC, Maximo HJ, Pacheco IS, De Souza AA, Machado MA (2017). PAMPs, PRRs, effectors and R-genes associated with citrus-pathogen interactions. Ann. Bot. 119: 749-774. DOI: [[https://doi.org/10.1093/aob/mcw238|10.1093/ |
- | Family: | + | |
- | Prototype: XopAQ (//X. gardneri// (Xg); strain 101 = ATCC 19865)\\ | + | |
- | GenBank ID: [[https://www.ncbi.nlm.nih.gov/protein/|EGD19295.1]] (95 aa)\\ | + | |
- | 3D structure: Unknown | + | |
- | ===== Biological function ===== | + | Escalon A, Javegny S, Vernière C, Noël LD, Vital K, Poussier S, Hajri A, Boureau T, Pruvost O, Arlat M, Gagnevin L (2013). Variations in type III effector repertoires, |
- | === How discovered? === | + | Ferreira MASV, Bonneau S, Briand M, Cesbron S, Portier P, Darrasse A, Gama MAS, Barbosa MAG, Mariano RLR, Souza EB, Jacques MA (2009). // |
- | XopAQ was discovered by sequencing the genome of the //X. gardneri// (Xg) strain 101 (Potnis | + | Garita-Cambronero J (2016). Genómica comparativa de cepas de //Xanthomonas arborícola// asociadas a //Prunus ssp//. Caracterización de los procesos de infección de la mancha bacteriana de frutales de hueso y almendro. Doctoral Thesis, Universidad Politécnica de Madrid, Spain. PDF: [[http:// |
- | === (Experimental) evidence for being a T3E === | + | |
- | A functional screen to isolate | + | Garita-Cambronero J, Palacio-Bielsa |
- | === Regulation === | + | |
- | XopAQ is up-regulated when //X.citri// pv. //citri// 306 and //X.citri// pv. //citri// Aw12879 (restricted to Mexican lime) are grown in XVM2 medium, known to induce hrp gene expression, as compared with nutrient broth (NB). However, no differential expression was observed in this gene among these two strains | + | Garita-Cambronero J, Palacio-Bielsa A, López MM, Cubero J (2016). Comparative genomic and phenotypic characterization of pathogenic and non-pathogenic |
- | === Phenotypes === | + | |
- | Unknown. | + | Garita-Cambronero J, Sena-Vélez M, Ferragud E, Sabuquillo P, Redondo C, Cubero J (2019). // |
- | === Localization === | + | Jalan N, Kumar D, Andrade MO, Yu F, Jones JB, Graham JH, White FF, Setubal JC, Wang N (2013). Comparative genomic and transcriptome analyses of pathotypes of // |
- | CSS-Palm suite reveals potential myristoylation/ | + | Jibrin MO, Potnis N, Timilsina S, Minsavage GV, Vallad GE, Roberts PD, Jones JB, Goss EM (2018). Genomic inference of recombination-mediated evolution in //Xanthomonas euvesicatoria// and //X. perforans//. Appl. Environ. Microbiol. 84: e00136-18. DOI: [[https:// |
- | === Enzymatic function === | + | |
- | Unknown. No known motifs are found in the Rip6 and Rip11 proteins | + | Mukaihara T, Tamura N, Iwabuchi M (2010). Genome-wide identification of a large repertoire |
- | === Interaction partners === | + | |
- | Unknown. | + | Potnis N, Krasileva K, Chow V, Almeida NF, Patil PB, Ryan RP, Sharlach M, Behlau F, Dow JM, Momol M, White FF, Preston JF, Vinatzer BA, Koebnik R, Setubal JC, Norman DJ, Staskawicz BJ, Jones JB (2011). Comparative genomics reveals diversity among xanthomonads infecting tomato and pepper. BMC Genomics 12: 146. DOI: [[https:// |
- | ===== Conservation ===== | + | Schwartz AR, Potnis N, Timilsina S, Wilson M, Patané J, Martins J Jr, Minsavage GV, Dahlbeck D, Akhunova A, Almeida N, Vallad GE, Barak JD, White FF, Miller SA, Ritchie D, Goss E, Bart RS, Setubal JC, Jones JB, Staskawicz BJ (2015). Phylogenomics of // |
- | === In xanthomonads === | + | Vancheva T, Lefeuvre P, Bogatzevska N, Moncheva P, Koebnik R (2015). Draf genome sequences of two // |
- | + | ||
- | Yes. Widely present in the most agressive citrus canker-causing //X.citri// A strains but also in the AW strain (narrow host range) (Escalon //et al//., 2013; Garita-Cambronero //et al//., 2019), and also in the milder //X. fuscans// B strain, but not in the //X. fuscans// C strain | + | |
- | === In other plant pathogens/ | + | |
- | + | ||
- | Yes (// | + | |