Table 1. Isolates of fungal species used in this study.
| Species | Isolate | Host | Country or region of origin | Year | qCBS-qPCR-F/R/P | cCBS-cPCR-F/R | ITS PCR |
|---|---|---|---|---|---|---|---|
| Phyllosticta citricarpa | LSVM 205 | Citrus sp. | South Africa | 2009 | 30.28 ± 0.07 | + | + |
| LSVM 359 | Citrus sp. | Togo | 2010 | 19.87 ± 0.02 | + | + | |
| LSVM 494 | Citrus sp. | Togo | 2011 | 30.91 ± 0.14 | + | + | |
| LSVM 1101 | C. sinensis × P.trifoliata | South Africa | 2014 | 20.56 ± 0.03 | + | + | |
| LSVM 1102 | C. sinensis | South Africa | 2013 | 20.59 ± 0.26 | + | + | |
| LSVM 1103 | C. sinensis | South Africa | 2013 | 31.45 ± 0.38 | + | + | |
| LSVM 1116 | C. sinensis | South Africa | 2014 | 19.82 ± 0.00 | + | + | |
| LSVM 1123 | C. sinensis | Zimbabwe | 2014 | 21.06 ± 0.00 | + | + | |
| LSVM 1228 | C. sinensis | Ivory Coast | 2015 | 20.59 ± 0.07 | + | + | |
| LSVM 1243 | C. sinensis | South Africa | 2015 | 20.41 ± 0.05 | + | + | |
| LSVM 1244 | C. sinensis | Brazil | 2015 | 20.70 ± 0.18 | + | + | |
| LSVM 1266 | C. sinensis | Brazil | 2015 | 37.31 ± 0.22 | +/− | + | |
| LSVM 1268 | C. sinensis | Brazil | 2015 | 19.93 ± 0.11 | + | + | |
| LSVM 1270 | C. sinensis | Brazil | 2015 | 21.74 ± 0.15 | + | + | |
| LSVM 1276 | C. sinensis | Brazil | 2015 | 30.82 ± 0.35 | + | + | |
| CBS 141350 | C. sinensis (litter) | Malta | 2016 | 21.51 ± 0.05 | + | + | |
| CBS 141351 | C. sinensis (litter) | Portugal | 2016 | 23.44 ± 0.09 | + | + | |
| LSVM 1499 | C. limon | Tunisia | 2019 | 16.30 ± 0.08 | + | + | |
| LSVM 1500 | C. limon | Tunisia | 2019 | 20.04 ± 0.47 | + | + | |
| LSVM 1501 | C. sinensis | Tunisia | 2019 | 20.56 ± 0.10 | + | + | |
| LSVM 1502 | C. sinensis | Tunisia | 2019 | 20.28 ± 0.01 | + | + | |
| GC-115 | C. sinensis | Brazil | 2010 | 23.28 ± 0.20 | + | + | |
| GC-129 | C. limon | Argentina | 2014 | 23.15 ± 0.26 | + | + | |
| GC-130 | C. limon | Argentina | 2014 | 23.70 ± 0.00 | + | + | |
| GC-131 | C. limon | Argentina | 2014 | 23.04 ± 0.24 | + | + | |
| GC-133 | C. sinensis | Angola | 2016 | 24.31 ± 0.01 | + | + | |
| P. paracitricarpa | CBS141357 | C. lemon (litter) | Greece | 2016 | >45 | – | + |
| CBS 141359 | C. lemon (litter) | Greece | 2016 | >45 | – | + | |
| ZJUCC200937 | C. reticulata | China | 2017 | >45 | – | + | |
| GIHF 303 | C. sinensis | China | 2017 | >45 | – | + | |
| LSVM 1238* | C. pennivesiculata | Bengladesh | 2015 | >45 | – | + | |
| P. citriasiana | LSVM 1146 | C. maxima | China | 2014 | >45 | – | + |
| LSVM 204 | Citrus sp. | – | 2007 | >45 | – | + | |
| LSVM 608 | C. maxima | China | 2012 | >45 | – | + | |
| LSVM 903 | C. maxima | China | 2013 | >45 | – | + | |
| CBS 123393 | Citrus sp. | Vietnam | 2014 | >45 | – | + | |
| LSVM 1147 | C. maxima | China | 2014 | >45 | – | + | |
| LSVM 1152 | C. maxima | China | 2014 | >45 | – | + | |
| LSVM 1165 | C. maxima | China | 2014 | >45 | – | + | |
| LSVM 1174 | C. paradisi | USA | 2014 | >45 | – | + | |
| LSVM 1279 | C. maxima | China | 2015 | >45 | – | + | |
| P. capitalensis | LSVM 502 | Musa sp. | Guadeloupe | 2012 | >45 | – | + |
| LSVM 607 | C. maxima | China | 2012 | >45 | – | + | |
| LSVM 1089 | C. latifolia | Brazil | 2014 | >45 | – | + | |
| LSVM 1104 | C. sinensis × C. trifoliata | Brazil | 2014 | >45 | – | + | |
| LSVM 1117 | C. latifolia | Guadeloupe | 2014 | >45 | – | + | |
| LSVM 1119 | C. paradisi | Mayotte | 2014 | >45 | – | + | |
| LSVM 1124 | C. paradisi | Mayotte | 2014 | >45 | – | + | |
| LSVM 1163 | C. grandis | China | 2014 | >45 | – | + | |
| LSVM 1166 | C. grandis | China | 2014 | >45 | – | + | |
| LSVM 1226 | Rollinia pulchrinervia | French Guyana | 2015 | >45 | – | + | |
| LSVM 1245 | C. sinensis | Brazil | 2015 | >45 | – | + | |
| P. citrichinaensis | CBS 129764 | C. maxima | China | 2015 | >45 | + | |
| P. citribraziliensis | CBS 100098 | Citrus sp. | Brazil | 2014 | >45 | – | + |
| P. paracapitalensis | CBS 141353 | C. floridana | Italy | 2016 | >45 | – | + |
| Phyllosticta sp. | LSVM 1173 | C. latifolia | Mexico | 2014 | >45 | – | + |
| Colletotrichum gloeosporioides | LSVM 935 | C. sinensis | Guadeloupe | 2013 | >45 | – | + |
| Fusarium oxysporum | LSVM 902 | C. sinensis | Guadeloupe | 2013 | >45 | – | + |
| Rhizoctonia solani | LSVM 392 | Platanus sp. | Corse | 2011 | >45 | – | + |
| Passalora loranthi | LSVM 1133 | C. sinensis | Brazil | 2014 | >45 | – | + |
| Elsinoe fawcettii | DUDA IMK TEM 3 | Citrus (Temple fruit) | Florida | 2001 | >45 | – | + |
| Elsinoe fawcettii | CBS233.64 | C. aurentium | Panama | – | >45 | – | +/− |
| Elsinoe fawcettii | USA Russel 15 | C. temple | Florida | 1991 | >45 | – | + |
| Elsinoe fawcettii | CC-3 | Citrus volkamer | Florida | 1990 | >45 | – | + |
| Elsinoe fawcettii | PK MURL3 | Citrus murcott | Florida | 2014 | >45 | – | + |
| Elsinoe fawcettii | DUDA IMK TEM 2 | Citrus sp. | – | – | >45 | – | – |
| Elsinoe australis | CBS22964 | C. aurantifolia | Brazil | – | >45 | – | + |
| Elsinoe australis | SOS 53525 | Sweet orange | Florida | 2016 | >45 | – | + |
| Elsinoe citricola | CBS 141876 | C. limonia | Brazil | 2010 | >45 | – | – |
| Alternaria alternata | LSVM 1108 | C. latifolia | Brazil | 2012 | >45 | – | NT |
| Pseudocercospora angolensis | C-ethiop-3 | C. aurantiifolia | Ethiopia | 2016 | >45 | – | + |
| Diaporthe sp. | LSVM 1109 | C. latifolia | Brazil | 2012 | >45 | – | + |
| Fusarium proliferatum | LSVM 1168 | C. sinensis | Argentina | 2014 | >45 | – | + |
| Neofusicoccum parvum | LSVM 884 | C. sinensis | Guadeloupe | 2013 | >45 | – | + |
| Periconia sp. | LSVM 1139 | C. sinensis | Argentina | 2014 | >45 | – | + |
| Penicillium italicum | Penicillium 1 | Citrus sp. | x | >45 | – | + | |
| Ramichloridium cerophilum | LSVM 1176 | C. grandis | China | 2014 | >45 | – | + |
Notes:
DNA template concentrations were all adjusted to 1 ng/µL for PCR testing. NT, not tested.
*
Strain LSVM1238 was initially identified as P. citricarpa by sequencing EF1 and ITS according to Guarnaccia et al. (2017), but displays a microsatellite multilocus genotype pattern typical of P. paracitricarpa. It also clusters with P. paracitricarpa strains in the 51-gene phylogeny.