title: Comparative genomics of multiple strains of Pseudomonas cannabina pv. alisalensis, a potential model pathogen of both monocots and dicots.
abstract: Comparative genomics of closely related pathogens that differ in host range can provide insights into mechanisms of host-pathogen interactions and host adaptation. Furthermore, sequencing of multiple strains with the same host range reveals information concerning pathogen diversity and the molecular basis of virulence. Here we present a comparative analysis of draft genome sequences for four strains of Pseudomonas cannabina pathovar alisalensis (Pcal), which is pathogenic on a range of monocotyledonous and dicotyledonous plants. These draft genome sequences provide a foundation for understanding host range evolution across the monocot-dicot divide. Like other phytopathogenic pseudomonads, Pcal strains harboured a hrp/hrc gene cluster that codes for a type III secretion system. Phylogenetic analysis based on the hrp/hrc cluster genes/proteins, suggests localized recombination and functional divergence within the hrp/hrc cluster. Despite significant conservation of overall genetic content across Pcal genomes, comparison of type III effector repertoires reinforced previous molecular data suggesting the existence of two distinct lineages within this pathovar. Furthermore, all Pcal strains analyzed harbored two distinct genomic islands predicted to code for type VI secretion systems (T6SSs). While one of these systems was orthologous to known P. syringae T6SSs, the other more closely resembled a T6SS found within P. aeruginosa. In summary, our study provides a foundation to unravel Pcal adaptation to both monocot and dicot hosts and provides genetic insights into the mechanisms underlying pathogenicity.
authors.affiliation: Department of Plant Sciences, School of Agricultural Technology, Technological Educational Institute of Crete, Heraklion, Greece. sarrispanos@science.agrool.gr
authors.forename: Panagiotis F
authors.initials: PF
authors.lastname: Sarris
authors.forename: Emmanouil A
authors.initials: EA
authors.lastname: Trantas
authors.forename: David A
authors.initials: DA
authors.lastname: Baltrus
authors.forename: Carolee T
authors.initials: CT
authors.lastname: Bull
authors.forename: William Patrick
authors.initials: WP
authors.lastname: Wechter
authors.forename: Shuangchun
authors.initials: S
authors.lastname: Yan
authors.forename: Filippos
authors.initials: F
authors.lastname: Ververidis
authors.forename: Nalvo F
authors.initials: NF
authors.lastname: Almeida
authors.forename: Corbin D
authors.initials: CD
authors.lastname: Jones
authors.forename: Jeffery L
authors.initials: JL
authors.lastname: Dangl
authors.forename: Nickolas J
authors.initials: NJ
authors.lastname: Panopoulos
authors.forename: Boris A
authors.initials: BA
authors.lastname: Vinatzer
authors.forename: Dimitrios E
authors.initials: DE
authors.lastname: Goumas
mesh_terms: D018554:Avena / Q000382:microbiology; D001426:Bacterial Proteins / Q000145:classification / Q000235:genetics*; D031724:Bromus / Q000382:microbiology; D002874:Chromosome Mapping; D016680:Genome, Bacterial; D044404:Genomic Islands; D023281:Genomics; D058507:Host Specificity; D054884:Host-Pathogen Interactions; D018551:Solanum lycopersicum / Q000382:microbiology; D005810:Multigene Family; D010802:Phylogeny; D010935:Plant Diseases / Q000382:microbiology*; D011549:Pseudomonas / Q000145:classification / Q000235:genetics* / Q000472:pathogenicity; D011550:Pseudomonas aeruginosa / Q000235:genetics; D044224:Pseudomonas syringae / Q000235:genetics; D017422:Sequence Analysis, DNA; D013045:Species Specificity
chemical_list: D001426:Bacterial Proteins
references.citation: Plant Dis. 2009 Jan;93(1):109
references.pmid: 30764279
references.citation: Science. 2006 Jun 9;312(5779):1526-30
references.pmid: 16763151
references.citation: Genome Res. 2009 Feb;19(2):294-305
references.pmid: 19015323
references.citation: Annu Rev Phytopathol. 2010;48:347-70
references.pmid: 20455697
references.citation: Mol Biol Evol. 1987 Jul;4(4):406-25
references.pmid: 3447015
references.citation: J Bacteriol. 2004 Aug;186(15):5101-15
references.pmid: 15262947
references.citation: Evolution. 1985 Jul;39(4):783-791
references.pmid: 28561359
references.citation: Mol Plant Microbe Interact. 2011 Aug;24(8):907-17
references.pmid: 21469938
references.citation: Proc Natl Acad Sci U S A. 2005 Aug 2;102(31):11064-9
references.pmid: 16043691
references.citation: Nucleic Acids Res. 1994 Nov 11;22(22):4673-80
references.pmid: 7984417
references.citation: Plant Dis. 2006 May;90(5):683
references.pmid: 30781159
references.citation: Proc Natl Acad Sci U S A. 2004 Jul 27;101(30):11030-5
references.pmid: 15258291
references.citation: PLoS One. 2009 Jun 09;4(6):e5831
references.pmid: 19513110
references.citation: PLoS One. 2011 Jan 27;6(1):e16451
references.pmid: 21304594
references.citation: Mol Biol Evol. 2000 Apr;17(4):540-52
references.pmid: 10742046
references.citation: Curr Opin Microbiol. 2009 Feb;12(1):53-60
references.pmid: 19168384
references.citation: Plant Dis. 2004 Dec;88(12):1384
references.pmid: 30795210
references.citation: Syst Appl Microbiol. 2010 Apr;33(3):105-15
references.pmid: 20227217
references.citation: BMC Microbiol. 2012 Aug 09;12:172
references.pmid: 22876890
references.citation: Proc Natl Acad Sci U S A. 2003 Sep 2;100(18):10181-6
references.pmid: 12928499
references.citation: PLoS Pathog. 2011 Jul;7(7):e1002132
references.pmid: 21799664
references.citation: Mol Plant Microbe Interact. 2009 Jan;22(1):52-62
references.pmid: 19061402
references.citation: Cell. 2006 Aug 11;126(3):453-65
references.pmid: 16901780
references.citation: Plant Dis. 2010 Nov;94(11):1375
references.pmid: 30743633
references.citation: Mol Plant Microbe Interact. 2008 Nov;21(11):1408-20
references.pmid: 18842091
references.citation: Mol Biol Evol. 2011 Oct;28(10):2731-9
references.pmid: 21546353
references.citation: Genome Res. 2008 May;18(5):821-9
references.pmid: 18349386
references.citation: Plant Dis. 2002 Sep;86(9):992-998
references.pmid: 30818561
references.citation: Plant Physiol. 2002 Jun;129(2):551-64
references.pmid: 12068100
references.citation: Plant Dis. 2006 Dec;90(12):1551
references.pmid: 30780979
references.citation: Mol Plant Pathol. 2010 Nov;11(6):795-804
references.pmid: 21091602
references.citation: Plant Dis. 2007 Jan;91(1):112
references.pmid: 30781086
references.citation: Appl Environ Microbiol. 2005 Sep;71(9):5182-91
references.pmid: 16151103
references.citation: Genes (Basel). 2011 Nov 25;2(4):957-79
references.pmid: 24710300
references.citation: Infect Genet Evol. 2011 Aug;11(6):1352-60
references.pmid: 21600307
references.citation: PLoS One. 2010 Apr 19;5(4):e10224
references.pmid: 20419105
references.citation: Plant Dis. 2011 Aug;95(8):1027
references.pmid: 30732087
references.citation: Genome Res. 2003 Sep;13(9):2178-89
references.pmid: 12952885
references.citation: Mol Biol Evol. 2006 Dec;23(12):2342-54
references.pmid: 16950758
references.citation: Environ Microbiol. 2010 Jun;12(6):1604-20
references.pmid: 20370821
references.citation: Microbiology (Reading). 2011 Jun;157(Pt 6):1726-1739
references.pmid: 21474537
references.citation: Cell Host Microbe. 2010 Jan 21;7(1):25-37
references.pmid: 20114026
references.citation: Physiology (Bethesda). 2005 Oct;20:326-39
references.pmid: 16174872
references.citation: Appl Environ Microbiol. 2004 Apr;70(4):1999-2012
references.pmid: 15066790
references.citation: J Bacteriol. 2005 Dec;187(24):8450-61
references.pmid: 16321949
references.citation: J Bacteriol. 2012 Jul;194(14):3733-4
references.pmid: 22740663
references.citation: PLoS Genet. 2012 Sep;8(9):e1002983
references.pmid: 23028376
references.citation: Int J Syst Bacteriol. 1999 Apr;49 Pt 2:469-78
references.pmid: 10319466
references.citation: Genome Res. 2004 Jul;14(7):1394-403
references.pmid: 15231754
references.citation: Plant Dis. 2012 Jun;96(6):904
references.pmid: 30727393
references.citation: Phytopathology. 2011 Jul;101(7):847-58
references.pmid: 21323469
references.citation: PLoS Pathog. 2011 Aug;7(8):e1002130
references.pmid: 21901088
references.citation: Plant Dis. 2011 Jan;95(1):71
references.pmid: 30743684
references.citation: Bioinformatics. 2006 Nov 1;22(21):2688-90
references.pmid: 16928733
references.citation: J Bacteriol. 2000 Jun;182(12):3498-507
references.pmid: 10852883
references.citation: BMC Genomics. 2009 Aug 24;10:395
references.pmid: 19703286
references.citation: Science. 2002 Mar 1;295(5560):1722-6
references.pmid: 11872842
references.citation: Nucleic Acids Res. 1997 Sep 1;25(17):3389-402
references.pmid: 9254694
references.citation: J Bacteriol. 2012 Sep;194(18):4810-22
references.pmid: 22753062
references.citation: Nucleic Acids Res. 2004 Mar 19;32(5):1792-7
references.pmid: 15034147
references.citation: J Bacteriol. 2005 Sep;187(18):6488-98
references.pmid: 16159782
references.citation: Microbiology (Reading). 2009 Oct;155(Pt 10):3187-3199
references.pmid: 19643761