Table 1 List of Xanthomonas fragariae and Xanthomonas arboricola pv. fragariae strains used in this study. The table provides geographic origin, host plant, year of isolation, CRISPR typing, genomic information such as genome length, contig number, GC content and number of CDS. The presence (+) or absence (−) of the pXf21 and pXf29 plasmids based on tBLASTn analysis of the origins of replication or based on BLASTn analysis of the complete plasmid sequences is also reported. Growth was assessed for each strain and the exponential time before stationary and generation time in hour are listed
Strain | Species | Geographic origin | Host plant | Year of isolation | (sub)group | Genome length | Contig number | GC content (%) | Sequencing technology | CDS | pXf21 | pXf29 | Exponential time before stationary (h) | Generation time (h) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
PD 885T | X. fragariae | US | Fragaria chiloensis var. ananassa | 1960 | Xf-CGr-IA | 4,247,102 | 1 chr. + 2 plasmids | 62.22 | PacBio | 4021 | + | + | 14 | 3.80 |
PD 4314 | X. fragariae | US | Fragaria chiloensis var. ananassa | 1960 | Xf-CGr-IA | 3,915,166 | 269 | 62.21 | HiSeq | 3526 | + | + | 28 | 4.52 |
PD 2659 | X. fragariae | US | Fragaria sp. | 1962 | Xf-CGr-IA | 3,906,466 | 307 | 62.22 | HiSeq | 3521 | + | + | 28 | 4.57 |
ICMP 659 | X. fragariae | US | Fragaria sp. | 1982 | Xf-CGr-IA | 4,261,751 | 430 | 62.22 | MiSeq | 4077 | + | + | 30 | 5.96 |
ICMP 661 | X. fragariae | US | Fragaria sp. | 1982 | Xf-CGr-IA | 4,237,456 | 439 | 62.25 | MiSeq | 4044 | + | + | 33 | 5.48 |
JVD-0051 | X. fragariae | BE | NA | NA | Xf-CGr-IB | 4,153,782 | 372 | 62.30 | MiSeq | 3931 | + | – | 25 | 4.37 |
Xf 61 | X. fragariae | NL | var. Figaro | 2010 | Xf-CGr-IB | 3,850,449 | 290 | 62.33 | HiSeq | 3428 | + | – | 26 | 4.57 |
PD 2905 | X. fragariae | NL | Fragaria sp. | NA | Xf-CGr-IB | 3,884,146 | 309 | 62.22 | HiSeq | 3466 | + | – | 20 | 4.29 |
LMG 25863a | X. fragariae | BE | Fragaria × ananassa Elsanta | 2011 | Xf-CGr-IC | 4,183,685 | 95 | 62.18 | HiSeq | 3920 | + | + | 28 | 4.59 |
GBBC 2087 | X. fragariae | BE | NA | NA | Xf-CGr-IC | 4,193,468 | 414 | 62.25 | MiSeq | 4024 | – | + | 20 | 4.31 |
JVD-0046 | X. fragariae | BE | NA | NA | Xf-CGr-IC | 4,189,841 | 296 | 62.24 | MiSeq | 3987 | + | + | 25 | 4.21 |
JVD-0047 | X. fragariae | BE | NA | NA | Xf-CGr-IC | 4,151,553 | 413 | 62.31 | MiSeq | 3936 | – | – | 22 | 3.68 |
GBBC 2088 | X. fragariae | BE | NA | NA | Xf-CGr-IC | 4,186,171 | 414 | 62.31 | MiSeq | 3984 | + | – | 26 | 4.62 |
CFBP 5253 | X. fragariae | FR | Fragaria sp. | 1999 | Xf-CGr-IC | 4,144,074 | 282 | 62.30 | MiSeq | 3899 | + | – | 17 | 4.07 |
CFBP 5257 | X. fragariae | FR | Fragaria sp. | 1999 | Xf-CGr-IC | 4,168,345 | 436 | 62.27 | MiSeq | 3977 | – | + | 26 | 3.98 |
CFBP 5260 | X. fragariae | FR | Fragaria sp. | 1999 | Xf-CGr-IC | 4,182,173 | 413 | 62.27 | MiSeq | 3995 | + | + | 15 | 3.95 |
ICMP 13779 | X. fragariae | IT | Fragaria × ananassa Duchesne | 1996 | Xf-CGr-IC | 4,214,022 | 416 | 62.27 | MiSeq | 4017 | + | + | 24 | 4.69 |
ICMP 13780 | X. fragariae | IT | Fragaria × ananassa Duchesne | 1996 | Xf-CGr-IC | 4,177,334 | 395 | 62.28 | MiSeq | 3978 | + | + | 24 | 4.13 |
PD 3160 | X. fragariae | NL | NA | 1996 | Xf-CGr-IC | 3,915,813 | 302 | 62.15 | HiSeq | 3533 | + | + | 18 | 4,28 |
PD 4634 | X. fragariae | NL | Fragaria sp. | 2003 | Xf-CGr-IC | 3,884,561 | 277 | 62.27 | HiSeq | 3493 | + | + | 24 | 4.41 |
PD 4932 | X. fragariae | NL | Fragaria sp. | 2004 | Xf-CGr-IC | 3,837,440 | 281 | 62.29 | HiSeq | 3540 | + | + | 28 | 5.21 |
PD 5205 | X. fragariae | NL | Fragaria sp. | 2005 | Xf-CGr-IC | 4,281,456 | 1 chr. + 2 plasmids | 62.30 | PacBio | 4033 | + | + | 18 | 4.53 |
PD 5365 | X. fragariae | NL | Fragaria sp. | 2006 | Xf-CGr-IC | 3,877,123 | 298 | 62.27 | HiSeq | 3496 | + | + | 18 | 4.17 |
PD 5482 | X. fragariae | NL | Fragaria sp. | 2007 | Xf-CGr-IC | 3,888,298 | 286 | 62.27 | HiSeq | 3495 | + | + | 26 | 4.84 |
PD 6879 | X. fragariae | NL | Fragaria sp. | 2008 | Xf-CGr-IC | 3,869,542 | 296 | 62.27 | HiSeq | 3477 | + | + | 24 | 4.62 |
PD 6840 | X. fragariae | NL | Fragaria sp. | 2009 | Xf-CGr-IC | 3,870,901 | 288 | 62.28 | HiSeq | 3484 | + | + | 26 | 4.95 |
PD 6880 | X. fragariae | NL | NA | 2011 | Xf-CGr-IC | 3,868,438 | 279 | 62.28 | HiSeq | 3478 | + | + | 27 | 5.23 |
PD 6881 | X. fragariae | NL | NA | 2012 | Xf-CGr-IC | 3,883,071 | 287 | 62.27 | HiSeq | 3503 | + | + | 30 | 5.21 |
PD 6882 | X. fragariae | NL | NA | 2013 | Xf-CGr-IC | 3,884,412 | 274 | 62.28 | HiSeq | 3493 | + | + | 25 | 4.59 |
CFBP 4784 | X. fragariae | PT | Fragaria sp. Thulda. | 1995 | Xf-CGr-IC | 4,124,432 | 357 | 62.31 | MiSeq | 3904 | + | – | 24 | 4.64 |
CFBP 4785 | X. fragariae | PT | Fragaria sp. | 1998 | Xf-CGr-IC | 4,125,383 | 283 | 62.29 | MiSeq | 3868 | + | – | 18 | 4.43 |
CFBP 4786 | X. fragariae | PT | Fragaria sp. | 1998 | Xf-CGr-IC | 4,155,600 | 377 | 62.27 | MiSeq | 3924 | + | + | NA | NA |
FaP29b | X. fragariae | US | Fragaria × ananassa Portola | 2011 | Xf-CGr-IC | 4,282,602 | 1 chr. + 2 plasmids | 62.30 | PacBio | 3983 | + | + | NA | NA |
FaP21b | X. fragariae | US | Fragaria × ananassa Portola | 2011 | Xf-CGr-IC | 4,282,698 | 1 chr. + 2 plasmids | 62.30 | PacBio | 3986 | + | + | NA | NA |
ICMP 20572 | X. fragariae | US | Fragaria × ananassa Duchesne | 2014 | Xf-CGr-IC | 4,248,096 | 455 | 62.22 | MiSeq | 4119 | + | + | 27 | 5.21 |
ICMP 20573 | X. fragariae | US | Fragaria × ananassa Duchesne | 2014 | Xf-CGr-IC | 4,189,776 | 430 | 62.26 | MiSeq | 4000 | + | – | 25 | 4.85 |
ICMP 20574 | X. fragariae | US | Fragaria × ananassa Duchesne | 2014 | Xf-CGr-IC | 4,226,734 | 426 | 62.24 | MiSeq | 4068 | + | + | 23 | 4.52 |
ICMP 20575 | X. fragariae | US | Fragaria × ananassa Duchesne | 2014 | Xf-CGr-IC | 4,210,620 | 404 | 62.23 | MiSeq | 4041 | + | + | 28 | 4.40 |
CFBP 6767 | X. fragariae | AU | Fragaria × ananassa | 1975 | Xf-CGr-II | 4,129,734 | 293 | 62.31 | MiSeq | 3870 | – | – | 13 | 3.91 |
ICMP 6646 | X. fragariae | AU | Fragaria × ananassa Duchesne | 1975 | Xf-CGr-II | 4,137,939 | 370 | 62.32 | MiSeq | 3919 | + | – | 21 | 4.11 |
ICMP 6648 | X. fragariae | AU | Fragaria × ananassa Duchesne | 1975 | Xf-CGr-II | 4,153,233 | 396 | 62.31 | MiSeq | 3950 | + | – | 22 | 4.37 |
ICMP 5813 | X. fragariae | BR | Fragaria × ananassa Duchesne | 1977 | Xf-CGr-II | 4,147,663 | 395 | 62.30 | MiSeq | 3928 | + | – | 17 | 3.87 |
NCPPB 3743 | X. fragariae | BR | Fragaria hybrid cv. Campinas | 1990 | Xf-CGr-II | 4,121,221 | 257 | 62.30 | MiSeq | 3861 | + | – | 19 | 3.87 |
F1–80 | X. fragariae | CH | Fragaria cv. Polka | 1993 | Xf-CGr-II | 4,107,680 | 264 | 62.31 | MiSeq | 3829 | – | – | 22 | 3.61 |
F1–81 | X. fragariae | CH | Fragaria sp. | 1993 | Xf-CGr-II | 4,180,022 | 415 | 62.33 | MiSeq | 3959 | + | – | 23 | 4.05 |
F2–02 | X. fragariae | CH | Fragaria sp. | 1994 | Xf-CGr-II | 4,122,612 | 273 | 62.31 | MiSeq | 3875 | + | – | 27 | 4.70 |
CFBP 2510 | X. fragariae | ES | Fragaria sp. | 1982 | Xf-CGr-II | 4,136,197 | 280 | 62.29 | MiSeq | 3886 | + | – | 18 | 3.91 |
PD 3145 | X. fragariae | ES | Fragaria sp. | 1997 | Xf-CGr-II | 3,838,331 | 315 | 62.32 | HiSeq | 3431 | + | – | 16 | 4.14 |
NBC 2815 | X. fragariae | ES | Fragaria sp. | 1997 | Xf-CGr-II | 4,268,155 | 1 chr. + 1 plasmid | 62.31 | PacBio | 3939 | + | – | 18 | 5.10 |
CFBP 1558 | X. fragariae | FR | Fragaria sp. | 1974 | Xf-CGr-II | 4,155,692 | 284 | 62.30 | MiSeq | 3909 | + | – | 18 | 3.80 |
PD 2662 | X. fragariae | GR | Fragaria sp. | 1979 | Xf-CGr-II | 3,825,417 | 276 | 62.31 | HiSeq | 3446 | + | – | 18 | 4.00 |
NCPPB 2473 | X. fragariae | IT | Fragaria vesca | 1972 | Xf-CGr-II | 4,169,971 | 319 | 62.30 | MiSeq | 3947 | + | – | 14 | 3.84 |
ICMP 6269 | X. fragariae | NZ | Fragaria × ananassa Duchesne | 1971 | Xf-CGr-II | 4,171,021 | 426 | 62.34 | MiSeq | 3954 | + | – | 17 | 4.61 |
ICMP 6277 | X. fragariae | NZ | Fragaria × ananassa Duchesne | 1972 | Xf-CGr-II | 4,178,618 | 426 | 62.33 | MiSeq | 3966 | + | – | 17 | 4.48 |
ICMP 6278 | X. fragariae | NZ | Fragaria × ananassa Duchesne | 1972 | Xf-CGr-II | 4,170,405 | 416 | 62.33 | MiSeq | 3984 | – | – | 19 | 4.14 |
PD 2660 | X. fragariae | NZ | Fragaria ananassa var. tioga | 1972 | Xf-CGr-II | 3,857,327 | 283 | 62.33 | HiSeq | 3453 | + | – | 20 | 4.21 |
ICMP 4019 | X. fragariae | NZ | Fragaria × ananassa Duchesne | 1974 | Xf-CGr-II | 4,160,354 | 405 | 62.31 | MiSeq | 3946 | + | – | 20 | 3.96 |
NCPPB 1822 | X. fragariae | US | Fragaria chiloensis var. ananassa | 1966 | Xf-CGr-II | 4,138,917 | 268 | 62.30 | MiSeq | 3877 | – | – | 24 | 3.92 |
LMG 19146 | X. arboricola pv. fragariae | FR | NA | 1986 | NA | 4,884,039 | 39 | 65.88 | MiSeq | 4020 | NR | NR | 8 | 1.56 |
CFBP 6773 | X. arboricola pv. fragariae | NA | NA | NA | NA | 4,692,498 | 39 | 65.95 | MiSeq | 3852 | NR | NR | NA | NA |
LMG 19145PT | X. arboricola pv. fragariae | IT | Fragaria × ananassa | 1993 | NA | 4,906,785 | 39 | 65.88 | MiSeq | 4019 | NR | NR | 8 | 1.56 |
LMG 19144 | X. arboricola pv. fragariae | IT | Fragaria × ananassa | 1993 | NA | 4,842,182 | 58 | 65.94 | MiSeq | 3954 | NR | NR | 7.4 | 1.50 |
CFBP 6762 | X. arboricola pv. fragariae | IT | Fragaria × ananassa | 1993 | NA | 4,889,284 | 38 | 65.75 | MiSeq | 4044 | NR | NR | NA | NA |