Salzberg_2008_BMC.Genomics_9_204

Reference

Title : Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99A - Salzberg_2008_BMC.Genomics_9_204
Author(s) : Salzberg SL , Sommer DD , Schatz MC , Phillippy AM , Rabinowicz PD , Tsuge S , Furutani A , Ochiai H , Delcher AL , Kelley D , Madupu R , Puiu D , Radune D , Shumway M , Trapnell C , Aparna G , Jha G , Pandey A , Patil PB , Ishihara H , Meyer DF , Szurek B , Verdier V , Koebnik R , Dow JM , Ryan RP , Hirata H , Tsuyumu S , Won Lee S , Seo YS , Sriariyanum M , Ronald PC , Sonti RV , Van Sluys MA , Leach JE , White FF , Bogdanove AJ
Ref : BMC Genomics , 9 :204 , 2008
Abstract :

BACKGROUND: Xanthomonas oryzae pv. oryzae causes bacterial blight of rice (Oryza sativa L.), a major disease that constrains production of this staple crop in many parts of the world. We report here on the complete genome sequence of strain PXO99A and its comparison to two previously sequenced strains, KACC10331 and MAFF311018, which are highly similar to one another. RESULTS: The PXO99A genome is a single circular chromosome of 5,240,075 bp, considerably longer than the genomes of the other strains (4,941,439 bp and 4,940,217 bp, respectively), and it contains 5083 protein-coding genes, including 87 not found in KACC10331 or MAFF311018. PXO99A contains a greater number of virulence-associated transcription activator-like effector genes and has at least ten major chromosomal rearrangements relative to KACC10331 and MAFF311018. PXO99A contains numerous copies of diverse insertion sequence elements, members of which are associated with 7 out of 10 of the major rearrangements. A rapidly-evolving CRISPR (clustered regularly interspersed short palindromic repeats) region contains evidence of dozens of phage infections unique to the PXO99A lineage. PXO99A also contains a unique, near-perfect tandem repeat of 212 kilobases close to the replication terminus. CONCLUSION: Our results provide striking evidence of genome plasticity and rapid evolution within Xanthomonas oryzae pv. oryzae. The comparisons point to sources of genomic variation and candidates for strain-specific adaptations of this pathogen that help to explain the extraordinary diversity of Xanthomonas oryzae pv. oryzae genotypes and races that have been isolated from around the world.

PubMedSearch : Salzberg_2008_BMC.Genomics_9_204
PubMedID: 18452608
Gene_locus related to this paper: xanax-GAA , xanax-PTRB , xanax-XAC0628 , xanax-XAC0736 , xanax-XAC1713 , xanca-impep , xanca-XCC1105 , xanor-acvB , xanor-bioh , xanor-metx , xanor-q5gu74 , xanor-q5gvh6 , xanor-q5gy36 , xanor-q5gy47 , xanor-q5gz98 , xanor-q5h3e8 , xanor-q5h5n1 , xanor-q5h5w8 , xanor-q5h5x9 , xanor-q5h236 , xanor-Q93M73 , xanop-a0a0k0gpc4

Related information

Gene_locus xanax-GAA    xanax-PTRB    xanax-XAC0628    xanax-XAC0736    xanax-XAC1713    xanca-impep    xanca-XCC1105    xanor-acvB    xanor-bioh    xanor-metx    xanor-q5gu74    xanor-q5gvh6    xanor-q5gy36    xanor-q5gy47    xanor-q5gz98    xanor-q5h3e8    xanor-q5h5n1    xanor-q5h5w8    xanor-q5h5x9    xanor-q5h236    xanor-Q93M73    xanop-a0a0k0gpc4
Gene_locus_frgt xanax-GAA    xanax-PTRB    xanax-XAC0628    xanax-XAC0736    xanax-XAC1713    xanca-impep    xanca-XCC1105    xanor-acvB    xanor-bioh    xanor-metx    xanor-q5gu74    xanor-q5gvh6    xanor-q5gy36    xanor-q5gy47    xanor-q5gz98    xanor-q5h3e8    xanor-q5h5n1    xanor-q5h5w8    xanor-q5h5x9    xanor-q5h236    xanor-Q93M73    xanop-a0a0k0gpc4    xanor-q5gxd1    xanor-q5h5h4

Citations formats

Salzberg SL, Sommer DD, Schatz MC, Phillippy AM, Rabinowicz PD, Tsuge S, Furutani A, Ochiai H, Delcher AL, Kelley D, Madupu R, Puiu D, Radune D, Shumway M, Trapnell C, Aparna G, Jha G, Pandey A, Patil PB, Ishihara H, Meyer DF, Szurek B, Verdier V, Koebnik R, Dow JM, Ryan RP, Hirata H, Tsuyumu S, Won Lee S, Seo YS, Sriariyanum M, Ronald PC, Sonti RV, Van Sluys MA, Leach JE, White FF, Bogdanove AJ (2008)
Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99A
BMC Genomics 9 :204

Salzberg SL, Sommer DD, Schatz MC, Phillippy AM, Rabinowicz PD, Tsuge S, Furutani A, Ochiai H, Delcher AL, Kelley D, Madupu R, Puiu D, Radune D, Shumway M, Trapnell C, Aparna G, Jha G, Pandey A, Patil PB, Ishihara H, Meyer DF, Szurek B, Verdier V, Koebnik R, Dow JM, Ryan RP, Hirata H, Tsuyumu S, Won Lee S, Seo YS, Sriariyanum M, Ronald PC, Sonti RV, Van Sluys MA, Leach JE, White FF, Bogdanove AJ (2008)
BMC Genomics 9 :204