Migration type (mt) groupings from Single strand conformation polymorphism (SSCP) analysis of Phytophthora spp. based on largest observed 6-FAM and HEX peaks using GeneScan polymer and an ABI 3100. Species not listed were found to be uniquea. |
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Groupb |
Phytophthora Speciesc |
Nd |
Lower 95%e CI 6-FAM |
Upper 95% CI 6-FAM |
Lower 95% CI HEX |
Upper 95% CI HEX |
A |
boehmeriae –MT 2 |
1 |
7124 |
7129 |
7397 |
7412 |
A, B |
capsici- MT 1 |
10 |
7122 |
7167 |
7390 |
7431 |
B |
capsici- MT 2 |
6 |
7134 |
7147 |
7392 |
7427 |
B |
capsici -MT 5 |
1 |
7133 |
7161 |
7333 |
7393 |
C |
citricola- MT 2 |
3 |
7278 |
7294 |
7384 |
7411 |
C, D |
citricola- MT 3 |
3 |
7230 |
7316 |
7351 |
7425 |
D |
gonapodyides- MT 1 |
3 |
7241 |
7263 |
7352 |
7418 |
D |
inflata- MT 2 |
2 |
7252 |
7255 |
7344 |
7359 |
E |
citricola- MT 4 |
1 |
7269 |
7269 |
7458 |
7458 |
E, F |
citricola- MT 1 |
5 |
7245 |
7293 |
7427 |
7477 |
F |
lateralis- MT 2 |
1 |
7273 |
7279 |
7469 |
7474 |
G |
citricola- MT 5 |
1 |
7196 |
7199 |
7259 |
7270 |
G |
drechsleri- MT 1 |
2 |
7197 |
7203 |
7259 |
7278 |
H |
colocasiae |
2 |
7328 |
7330 |
7565 |
7568 |
H, I |
citrophthora- MT 3 |
1 |
7330 |
7346 |
7559 |
7602 |
I |
meadii- MT 3 |
1 |
7340 |
7343 |
7569 |
7569 |
J |
boehmeriae -MT 1 |
1 |
7360 |
7365 |
7586 |
7598 |
J |
ilicis |
1 |
7364 |
7379 |
7571 |
7593 |
K |
brassicae |
4 |
7380 |
7400 |
7502 |
7537 |
K |
erythroseptica |
6 |
7385 |
7399 |
7504 |
7513 |
K |
cactorum -MT 2 |
1 |
7389 |
7398 |
7497 |
7511 |
L |
cryptogea -MT 1 |
12 |
7405 |
7423 |
7484 |
7512 |
L |
drechsleri -MT 5 |
1 |
7417 |
7423 |
7499 |
7502 |
L |
cambivora -MT 4 |
1 |
7413 |
7419 |
7495 |
7498 |
M |
drechsleri -MT 2 |
2 |
7393 |
7401 |
7532 |
7543 |
M |
cryptogea - MT |
10 |
7394 |
7408 |
7537 |
7541 |
M |
cryptogea -MT 7 |
1 |
7401 |
7404 |
7537 |
7543 |
N |
captiosa |
7 |
7442 |
7456 |
7500 |
7514 |
N |
primulae |
2 |
7448 |
7459 |
7500 |
7544 |
O |
megasperma -MT 1 |
6 |
7489 |
7532 |
7229 |
7252 |
O |
cactorum -MT 3 |
1 |
7499 |
7521 |
7230 |
7252 |
P |
palmivora -MT 1 |
8 |
7504 |
7515 |
7716 |
7738 |
P |
arecae |
2 |
7507 |
7515 |
7716 |
7732 |
Q |
cactorum -MT 1 |
6 |
7547 |
7583 |
7686 |
7716 |
Q |
pseudotsugae |
4 |
7550 |
7587 |
7684 |
7721 |
Q |
infestans |
1 |
7567 |
7570 |
7705 |
7705 |
R |
nicotianae -MT 1 |
14 |
7543 |
7575 |
7806 |
7843 |
R |
nicotianae -MT 2 |
4 |
7567 |
7603 |
7807 |
7860 |
S |
syringae |
14 |
7556 |
7586 |
7556 |
7586 |
S |
tropicalis -MT 2 |
1 |
7574 |
7577 |
7574 |
7577 |
T |
asparagi -MT 1 |
2 |
7572 |
7610 |
7644 |
7674 |
T |
cryptogea -MT 4 |
2 |
7581 |
7630 |
7572 |
7693 |
T |
insolita -MT 2 |
1 |
7604 |
7607 |
7648 |
7651 |
U |
melonis |
2 |
7595 |
7645 |
7697 |
7743 |
U |
drechsleri -MT 3 |
2 |
7601 |
7626 |
7696 |
7714 |
U |
cryptogea -MT 8 |
1 |
7610 |
7610 |
7707 |
7710 |
V |
alni -MT 1 |
7 |
7603 |
7653 |
7646 |
7653 |
V |
alni -MT 3 |
2 |
7610 |
7627 |
7643 |
7658 |
W |
cambivora -MT 2 |
3 |
7626 |
7657 |
7704 |
7726 |
W, X |
cambivora - MT 1 |
9 |
7642 |
7661 |
7718 |
7729 |
W, X |
cryptogea - MT 5 |
2 |
7634 |
7658 |
7691 |
7737 |
X |
multivesiculata |
8 |
7642 |
7663 |
7727 |
7756 |
Y |
cryptogea -MT 3 |
2 |
7633 |
7644 |
7244 |
7250 |
Y |
medicaginis -MT 2 |
1 |
7637 |
7646 |
7241 |
7250 |
Z |
gonapodyides -MT 2 |
2 |
7627 |
7675 |
7658 |
7690 |
Z |
fragariae |
4 |
7638 |
7689 |
7644 |
7681 |
Z |
cambivora -MT 3 |
2 |
7662 |
7667 |
7660 |
7668 |
AA |
inundata |
1 |
7680 |
7683 |
7652 |
7658 |
AA, BB, CC |
humicola |
2 |
7651 |
7706 |
7634 |
7697 |
BB |
asparagi -MT 2 |
1 |
7658 |
7658 |
7682 |
7698 |
CC |
insolita -MT 1 |
1 |
7680 |
7686 |
7660 |
7666 |
a Refer to Table 1 and the supplementary data file in the online e-Xtra for a complete list of Phytophthora species and observed migration types (MT’s) within species.
b Species with the same group letter are indistinguishable based on 95% confidence intervals (CIs) around the means for the largest 6-FAM and HEX peaks.
c Unique MT’s were assigned apriori based on obvious scanline differences, i.e., significantly different means or presence of more than one unique 6-FAM and/or HEX signal, among isolates within species.
d N = the number of samples analyzed per migration type. Each sample was amplified and subject to SSCP analysis twice.
e Approximate lower and upper 95% CIs for each species or migration type = mean scanline value of largest 6-FAM or HEX peak ± 2* std dev.