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Table 5 Accession numbers and SSRs for GenBank deposited sequences http://www.ncbi.nlm.nih.gov/ amplified from 16 Phytophthora species (Table 1) using primers designed on P. infestans with the first approach (Fig. 1A).

From: Use of genome sequence data in the design and testing of SSR markers for Phytophthora species

Phytophthora species SELECTED PRIMERS(a)
  I3F-4R I5F-I6R I7F-I8R I9F-I10R I11F-I12R I13F-I14R
P. alni subsp. alni SCRP2 NS++ 58°C/1.7 mM* EF216535 No SSR; 58°C/1.0 mM* NS++ 58°C/1.7 mM* EF216513 (aag)4 (agg)6 58°C/1.0 mM* NA+ EF216477 (agg)4 (aag)5 58°C/1.7 mM*
P. cambivora SCRP67 NS++ 58°C/1.7 mM* NA+ NS++ 58°C/1.7 mM* EF216516 (acg)4 (aag)5 (agg)6 58°C/1.0 mM* NS++ 58°C/1.7 mM* EF216478 (agg)5 (aag)5 58°C 1.7 mM*
P. cinnamomi SCRP115 NS++ 58°C/1.7 mM* NS++ 58°C/1.7 mM* NS++ 58°C/1.7 mM* EF216509 (aag)14 58°C/1.0 mM* EF216494 (aag)4 58°C/1.7 mM* NS++ 58°C/1.7 mM*
P. citricola SCRP130 NS++ 58°C/1.7 mM* EF216534 (agc)4; (agc)5 58°C/1.0 mM* NS++ 58°C/1.7 mM* EF216520 (aag)4 58°C/1.0 mM* EF216498 (aag)4 58°C/1.7 mM* EF216482 (agg)9 (aag)5 58°C/1.7 mM
P. europaea SCRP622 NS++ 58°C/1.7 mM* NS++ 58°C/1.0 mM* NS++ 58°C/1.7 mM* EF216512 No SSR 58°C/1.0 mM* NS++ 58°C/1.7 mM* EF216476 (agg)5 (aag)5 58°C/1.7 mM*
P. fragariae var. rubi SCRP333 NS++ 58°C/1.7 mM* NA+ NA+ EF216500 (acg)4 58°C/1.0 mM* NA+ NA+
P. ilicis SCRP377 NS++ 58°C/1.7 mM* EF216532 (agc)9 58°C/1.0 mM* NA+ EF216501 No SSR 58°C/1.0 mM* EF216495 No SSR 58°C/1.7 mM* EF216483 (aag)4 (agc)4 58°C/1.7 mM
P. infestans sc 03.26.3.3 NS++ 58°C 1.7 mM* EF216524 (agc)6 (agc)5 58°C/1.0 mM NS++ 58°C/1.7 mM* EF216499 (aag)11 58°C/1.0 mM* EF216487 (acc)8 58°C/1.7 mM* EF216474 (aag)7 (aag)4 58°C/1.7 mM
P. inundata SCRP644 NS++ 58°C/1.7 mM* NS++ 58°C/1.0 mM* NS++ 58°C/1.7 mM* EF216508 No SSR 58°C/1.0 mM* EF216497 No SSR 58°C/1.7 mM* NA+
P. lateralis SCRP390 NS++ 58°C/1.7 mM* EF216527 (agc)4 58°C/1.0 mM* NS++ 58°C/1.7 mM* EF216507 No SSR 58°C/1.0 mM* EF216493 No SSR 58°C/1.7 mM* EF216481 (agg)5 (aag)4 58°C/1.7 mM*
P. nemorosa SCRP910 NS++ 58°C/1.7 mM* EF216531 (agc)7 58°C/1.0 mM* NA+ EF216503 No SSR 58°C/1.0 mM* EF216492 (aag)4 58°C/1.7 mM* EF216486 (acg)4 (aag)4 (agc)4 58°C/1.7 mM*
P. pseudosyringae SCRP674 NS++ 58°C/1.7 mM* EF216529 (agc)7 58°C/1.0 mM* NS++ 58°C/1.7 mM* EF216502 No SSR 58°C/1.0 mM* EF216496 (aag)5 58°C/1.7 mM* EF216485 (acg)4 (aag)4 58°C/1.7 mM*
P. psychrophila SCRP630 NS++ 58°C/1.7 mM* EF216528 (agc)4 58°C/1.0 mM* NS++ 58°C/1.7 mM* NA+ EF216491 (aag)4 58°C/1.7 mM* EF216484 (aag)4 (agc)4 58°C/1.7 mM*
P. quercina SCRP541 NS++ 58°C/1.7 mM* NS++ 58°C/1.0 mM* NS++ 58°C/1.7 mM* EF216506 No SSR 58°C/1.0 mM* EF216490 (aag)5 58°C/1.7 mM* EF216480 (agg)6 (aag)4 58°C/1.7 mM*
P. ramorum SCRP911 NS++ 58°C/1.7 mM* EF216525 No SSR 58°C/1.0 mM* NS++ 58°C/1.7 mM* EF216505 No SSR 58°C/1.0 mM* EF216489 (acc)4 58°C/1.7 mM* EF216479 (aac)7 (agg)9 58°C/1.7 mM
P. sojae SCRP555 NS++ 58°C/1.7 mM* EF216526 No SSR 58°C/1.0 mM* NA+ EF216504 (agc)4 58°C/1.0 mM* EF216488 No SSR 58°C/1.7 mM* EF216475 (agg)7 (aag)5 58°C/1.7 mM*
  1. (a) = Primers listed in Table 2 and not reported in this table are those that did not produce any reliable sequence (see text).
  2. NA+ = Isolate-primer combinations that did not produce any amplification or produced complex profiles (two or more fragments).
  3. NS++ = Isolate-primer combinations for which single PCR bands were obtained but direct sequencing did not produce reliable results.
  4. °C/mM* = Selected annealing temperature (°C) and MgCl2 concentration (mM) in PCR reactions.