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Table 6 Main features related to the specific mers identified in X. fastidiosa subspecies

From: Identification of genetic relationships and subspecies signatures in Xylella fastidiosa

A. X. fastidiosa subspecies FAS1 FAS21 SAN1 SAN21 MOR1 MUL1 PAU1  
number of mers 2905 1978 9808 5765 3094 4906 11,365  
number of unique mers 2836 1957 9431 5636 2995 4813 11,162  
total mer size (bp) 133,179 85,038 518,683 292,740 142,614 258,228 627,685  
number of mers in CDS 2172 1411 7783 4161 2341 3603 9088  
number of unique CDS 1142 811 2406 1646 1115 1119 1711  
total mer size in CDS (bp) 100,015 60,092 414,736 215,901 108,336 189,973 504,054  
number of mers in intergenic regions 733 567 2025 1604 753 1303 2277  
total mer size in intergenic regions (bp) 33,164 24,946 103,947 76,839 34,278 68,255 123,631  
B. Combination morus + other subspecies MOR-FAS1 MOR-FAS21 MOR-SAN1 MOR-SAN21 MOR-SAN-SAN21 MOR-SAN-SAN2-FAS21 MOR-MUL1 MOR-PAU1
number of mers 495 1236 352 371 237 3389 2131 71
number of unique mers 491 1222 347 358 235 3369 2072 71
total mer size (bp) 20,058 53,052 13,123 14,066 8019 136,470 98,450 2377
number of mers in CDS 331 825 258 243 116 2367 1638 58
number of unique CDS 216 430 192 178 103 806 572 41
total mer size in CDS (bp) 13,428 36,147 9816 9275 4249 96,946 76,167 2018
number of mers in intergenic regions 164 411 94 128 121 1022 493 13
total mer size in intergenic regions (bp) 6630 16,905 3307 4791 3770 39,524 22,283 359
C. Within subspecies pauca pauca I.11 pauca I.21 pauca I.31 CFBP 80721 Hib41  
number of mers 1266 2360 3885 4775 4694  
number of unique mers 1238 2323 3644 4663 4596  
total mer size (bp) 59,733 121,367 207,098 283,540 341,563  
number of mers in CDS 1003 1776 3194 3150 3338  
number of unique CDS 486 716 1147 1205 1324  
total mer size in CDS (bp) 47,655 92,528 173,936 194,240 269,888  
number of mers in intergenic regions 263 584 690 1625 1356  
total mer size in intergenic regions (bp) 12,078 28,839 33,162 89,300 71,675  
  1. 1Composition of the groups:
  2. MOR (subsp. morus): Mul-MD and Mul0034 (Reference: 2,666,577 bp). FAS (subsp. fastidiosa): ATCC 35879, DSM 10026, CFBP 7969, CFBP 7970, CFBP 8071, CFBP 8082, CFBP 8351, EB92–1, GB514, M23, Stag’s Leap and Temecula1 (Reference: 2,521,148 bp). FAS2 (subsp. fastidiosa): All the members of the group FAS (with Temecula1 as reference), plus CFBP 8073. MUL (subsp. multiplex): ATCC 35871, BB01, CFBP 8078, CFBP 8416, CFBP 8417, CFBP 8418, Dixon, Griffin-1, Sy-VA and M12 (Reference: 2,475,130 bp). SAN (subsp. sandyi): Ann-1 (Reference: 2,780,908 bp). SAN2 (subsp. sandyi-like): CFBP 8356 and CO33 (Reference: 2,416,985 bp). PAU (subsp. pauca): 32, 3124, 11,399, 6c, CFBP 8072, CoDiRO, COF0324, COF0407, CVC0251, CVC0256, Fb7, Hib4, J1a12, OLS0478, OLS0479, Pr8x, U24D and 9a5c (Reference: 2,731,750 bp). pauca I.1 (subsp. pauca): U24D, Fb7, CVC0251, CVC0256, J1a12, 11,399, 3124, 32 and 9a5c (Reference: 2,731,750 bp). pauca I.2 (subsp. pauca): 6c, COF0324 and Pr8x (Reference: 2,666,242 bp). pauca I.3 (subsp. pauca): COF0407, OLS0478, OLS0479 and CoDiRO (Reference: 2,542,932 bp). CFBP 8072 (subsp. pauca; 2,496,662 bp). Hib4 (subsp. pauca; 2,877,548 bp)