Figure 1:
Figure 2:
Figure 3:
Nucleotide position and composition on 631 bp of internal transcribed spacer (ITS1, 5_8S, ITS2 rDNA), comparison among samples from this study (Table 1) and those derived from the GenBank database (Table 2) after multiple sequence alignments_ Only positions with nucleotide differences are presented_ Only one sequence result for multiple individuals from the same sample shown because of lack of intra-sample differences_ Sample sequences generated in this study are in bold_ W = (A or T), Y = (C or T)_
Nucleotide position and composition, comparison sequences obtained in this study and accessions from GenBank_ The LSU D2D3 28S rDNA sequence trimmed to 637 bp used for the analysis_ Only one sequence result for multiple individuals from the same sample shown because of lack of intra-sample differences_
| Nucleotide Position | 47 | 76 | 82 | 89 | 92 | 100-1 | 106-7 | 160 | 178 | 234 | 244 | 249 | 257 | 279 | 281 | 304 | 308 | 320 | 336 | 341 | 457 | 483 | 500 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Sample/isolate | |||||||||||||||||||||||
| CT-(GL8-MB) | A | T | G | T | T | AT | TA | G | — | A | C | A | G | A | T | T | T | C | A | T | A | T | A |
| CT-(RU) | A | T | G | T | T | AT | TA | G | — | A | C | A | G | A | T | T | T | C | A | T | A | T | A |
| CT-(Road side-MB) | A | T | G | T | T | AT | TA | G | — | A | C | A | G | A | T | T | T | C | A | T | A | T | A |
| CT-(C11F11-MB) | A | T | G | T | T | AT | TA | G | — | A | C | A | G | A | T | T | T | C | A | T | A | T | A |
| CT-(C11F19-SK) | A | T | G | T | T | AT | TA | G | — | A | C | A | G | A | T | T | T | C | A | T | A | T | A |
| CT-(B-MB) | A | T | G | T | T | AT | TA | G | — | A | C | A | G | A | T | T | T | C | A | T | A | T | A |
| CT-(C-MB) | A | T | G | T | T | AT | TA | G | — | A | C | A | G | A | T | T | T | C | A | T | A | T | A |
| CT-(84-MB) | A | T | G | T | T | AT | TA | G | — | A | C | A | G | A | T | T | T | C | A | T | A | T | A |
| PG-(33-SK) | A | T | G | T | T | AT | TA | G | — | A | C | A | G | A | T | T | T | C | A | T | A | T | A |
| PG-(58-SK) | A | T | G | T | T | AT | TA | G | — | A | C | A | G | A | T | T | T | C | A | T | A | T | A |
| PG-(81-MB) | A | T | G | T | T | AT | TA | G | — | A | C | A | G | A | T | T | T | C | A | T | A | T | A |
| PG-(84-MB) | A | T | G | T | T | AT | TA | G | — | A | C | A | G | A | T | T | T | C | A | T | A | T | A |
| D. dipsaci (a FJ707364) | A | T | G | T | T | AT | TA | G | — | A | C | A | G | A | T | T | T | C | A | T | A | T | A |
| D. gigas (HQ219217) | A | T | A | T | T | AT | TA | C | — | A | T | A | A | A | T | T | G | T | A | T | A | T | A |
| D. gigas (HQ219216) | A | T | A | T | T | AT | TA | C | — | A | T | A | A | A | T | T | G | T | A | T | A | T | A |
| D. sp (JX145345) | T | T | G | C | A | GG | TA | A | — | A | A | A | A | T | T | A | G | T | A | T | A | T | A |
| D. dipsaci (HQ219223) | G | C | A | C | A | GC | CG | T | A | G | T | G | A | G | C | C | G | T | G | A | G | C | G |
| D. dipsaci (HQ219219) | G | C | A | C | A | GC | CG | T | A | G | T | G | A | G | C | C | G | T | G | A | G | C | G |
| D. dipsaci (JF327765) | G | C | A | C | A | GC | CG | T | A | G | T | G | A | G | C | C | G | T | G | A | G | C | G |
| D. dipsaci (JF327761) | G | C | A | C | A | GC | CG | T | A | G | T | G | A | G | C | C | G | T | G | A | G | C | G |
| D. dipsaci (JF327763) | G | C | A | C | A | GC | CG | T | A | G | T | G | A | G | C | C | G | T | G | A | G | C | G |
| D. dipsaci ( JF327760) | G | C | A | C | A | GC | CG | T | A | G | T | G | A | G | C | C | G | T | G | A | G | C | G |
List of the samples, gene sequence length (bp), and sequence accessions provided to Genbank in this study_
| ITS rDNA | D2D3 28S rRNA | SSU 18S rDNA | Hsp90 | |||||
|---|---|---|---|---|---|---|---|---|
| Sample | Length (bp) | Accessions | Length (bp) | Accessions | Length (bp) | Accessions | Length (bp) | Accessions |
| PG-(33-AB) | (615) | MG386845 | (562), (568), (569) | MG551892, MG551897, MG551898 | (811), (812) | MG383943, MG383943 | 920 | MG674309 |
| PG-(44-SK) | ND | (570) | MG693783 | ND | ND | |||
| PG-(58-AB) | (619), (672), (730), (142), (705d) | MG386846, MG386861, MG386871, MG386827, MG386867 | (561) | MG551891 | (822), (814) | MG383953, MG383945 | (905) | MG676342 |
| PG-(76-SK) | (675) | MG386862 | ND | (807) | MG383941 | ND | ||
| PG-(81-MB) | (635) | MG386853 | (564) | MG551894 | ND | (921) | MG674310 | |
| PG-(84-MB) | (629) | MG386850 | (566) | MG551895 | (813) | MG383944 | ND | |
| CT-(81-MB) | (631) | MG386852 | ND | ND | ND | |||
| aCT-(84-MB) | (645) | MG386855 | (558) | MG551888 | (818), (821) | MG383949, MG383952 | (917), (913) | MG674307, MG676342 |
| CT-(B-MB) | (630) | MG386851 | (557) | MG551887 | (806) | ND | ||
| CT-(C-MB) | (743), (745), (726) | MG386876, MG386877, MG386869 | (567) | MG551896 | (815) | MG383946 | ND | |
| CT-(Road side1-MB) | (646),(647),(648) | MG386856, MG386857, MG386858 | (556) | MG551886 | (819), (820) | MG383950, MG383951 | ND | |
| CT-(Road side2-MB) | (733) | MG386874 | (574) | MG551900 | (817) | MG383948 | ND | |
| CT-(C11F7-SK) | (725), (732), (746), (731) | MG386868, MG386873, MG386878, MG386872 | ND | (816) | MG383947 | ND | ||
| CT-(C11F11-MB) | (145) | MG386828 | (560) | MG551890 | ND | (918) | MG674308 | |
| CT-(C11F17-MB) | (146) | MG386829 | ND | ND | ND | |||
| CT-(C11F18-SK) | ND | ND | 809 | (914) | MG676343 | |||
| CT-(C11F19-SK) | (729), (620), (751) | MG386870, MG386847, MG386879 | (563) | MG551893 | ND | (907) | MG674306 | |
| CT-(GL1-MB) | (13) | MG386825 | (٭580) | MG551899 | ND | ND | ||
| CT-(GL 2-MB) | (128) | MG386826 | ND | ND | ND | |||
| CT-(GL3-MB) | (601) | MG386831 | ND | ND | ND | |||
| CT-(GL4-MB) | (603), (604) | MG386832, MG386833 | ND | ND | ND | |||
| CT-(GL5-MB) | (605) | MG386834 | (594) | MG551909 | (803) | MG383938 | ND | |
| CT-(GL6-MB) | (606) | MG386835 | (555) | MG551885 | (804) | MG383939 | (901) | KJ817197 |
| CT-(GL7-MB) | (607) | MG386836 | (595) | MG551910 | (805) | MG383940 | (902) | MG655239 |
| CT-(GL8-MB) | (608) | MG386837 | (584) | MG551904 | ND | (903) | MG662121 | |
| CT-(GL9-MB) | (609) | MG386838 | (582) | MG551902 | ND | ND | ||
| CT-(GL10-MB) | (610) | MG386839 | (593) | MG551908 | ND | (904) | MG662122 | |
| CT-(GL11-MB) | (611) | MG386840 | ND | ND | ND | |||
| CT-(GL12-MB) | (612), (613) | MG386841, MG386842 | (581) | MG551901 | ND | ND | ||
| CT-(GL13-MB) | (614) | MG386843 | (583) | MG551903 | ND | ND | ||
| CT-(GL14-MB) | (621) | MG386848 | ND | ND | ND | |||
| CT-(GL15-MB) | (622) | MG386849 | ND | ND | ND | |||
| CT-(GL16-MB) | (644) | MG386854 | ND | ND | ND | |||
| CT-(GL17-MB) | (665) | MG386860 | ND | ND | ND | |||
| CT-(GL18-MB) | (676) | MG386863 | ND | ND | ND | |||
| CT-(GL19-MB) | (687) | MG386864 | (590) | MG551905 | ND | ND | ||
| CT-(GL20-MB) | (688) | MG386865 | (591) | MG551906 | ND | ND | ||
| CT-(GL21-MB) | (689) | MG386866 | (592) | MG551907 | ND | ND | ||
| CT-(GL22-MB) | (148) | MG386830 | ND | ND | ND | |||
| CT-(GL23-MB) | (650) | MG386859 | ND | ND | ND | |||
| CT-(RU) | (127), (692), (691) | MG384317, MG384319 MG384318 | (559) | MG551889 | (825), (824) | MG383955, MG383954 | (931) | |
| G-( Guelph -ON) | (659), (660), (732d), (147), (143), (144) | MG384718, MG384719, MG384731 MG384717 | ND | (802) | MG434349 | (916), (915) | MG711914,MG676344, | |
| G-(C58-ON) | (669), (710d), (711d) | MG384725, MG384729, MG384730 | ND | (801) | MG434348 | (930) | MG711917 | |
| G-(PQ-GLG) | (694), (695), (696),(661), (662) | MG384726, MG384727, MG384728, MG384720, MG384721 | ND | ND | (928) | MG711916 | ||
| G-(PQ-D77) | (663), (664), (668) | MG384722, MG384723, MG384724 | ND | ND | (926) | MG711915 | ||
| Total | 74 | 27 | 22 | 18 |
Accession codes for sequences of the four genes in this study and plant host of Ditylenchus species retrieved from GenBank_
| Species | Host plant | ITS rDNA | LSU D2D3 28S rRNA | SSU 18S rDNA | Hsp90 |
|---|---|---|---|---|---|
| D. weischeri | Cirsium arvense, | AF396322 | — | — | HM778133.1, HM778133.3, HM778134 |
| D. dipsaci | Allium sativum | AY574298, JX123258, HQ219249 | aJX123259, aJX123259, aFJ707362, JF327761, HQ219225 | HQ219249 | — |
| D. dipsaci | Allium cepa | AY574289, AY574290 | HQ219226, HQ219223) | HQ219210 | HM778138, HM778140 |
| D. dipsaci | Vicia faba | AF396323, AY574286, AY574284, HQ219246, HQ219248, HQ219244, HQ219244 | — | — | HQ219229 |
| D. dipsaci | Trifolium pratense | AF396319, AY574300 | — | — | — |
| D. dipsaci | Medicago sativa | AY574297, AF396320 | — | — | — |
| D. dipsaci | Pisum sativum | HQ219247 | FJ707364 | HQ219247 | — |
| D. dipsaci | Fragaria sp | AF396321, HQ219241 | HQ219219 | — | HQ219230, HM778139, HM778137 |
| D. dipsaci | Beta vulgaris | AY574299 | — | — | — |
| D. dipsaci | Plantago lanceolata | AY574301 | — | — | — |
| D.dipsaci | Tulipa gesneriana | — | JF327765 | — | — |
| D. dipsaci | Digitalis lutea | AY574292 | — | — | — |
| D. dipsaci | Avena sativa | AY574293 | — | — | — |
| D. dipsaci | Veronica gentianoides | AY574295 | — | — | — |
| D. dipsaci | Lysimachia vulgaris | AY574296 | — | — | |
| D. dipsaci | Host? | aJN376069 | — | — | — |
| D. dipsaci | Zea mays | AY574294 | — | — | — |
| D. dipsaci | Phlox drummondi | AY574291 | — | — | — |
| D. dipsaci | Beta vulgaris | HQ219243 | — | — | — |
| D. dipsaci | Un known | — | — | AY593908, EU669931, AY284636 | — |
| D.dipsaci | Narcissus sp | — | aFJ707361 | — | — |
| D.dipsaci | Cichorium sp | — | ٭FJ707360 | — | — |
| D.dipsaci | Lucerne sp | — | FJ707363, | — | — |
| D. gigas | Vicia faba | HQ219232, HQ219235, HQ219236, HQ219231, HQ219240, HQ219234, HQ219237, HQ219238, HQ219239 | HQ219216, HQ219217 | HQ219211 | HQ219227, HQ219228 |
| D. gigas | Unknown | aJN376074 | — | — | — |
| Ditylenchus . sp B | Vicia faba | AY574285 | — | — | — |
| Ditylenchus . sp | Arachis sp | — | JX145345 | — | — |
| Ditylenchus . sp | Pilosella officinarum | AY574302, AY574305, AY574304 | — | — | — |
| Ditylenchus . sp | Crepis praemorsa | AY574303 | — | — | — |
| Ditylenchus . sp | Leontodon autumnalis | AY574306 | — | — | — |
| Ditylenchus. sp | Plantago maritima | AY574287, AY574288 | — | — | HM778135, HM778136 |
| Ditylenchus . sp | Turfgrass | — | — | — | AY603512 |
| D. destructor | Solanum tuberosum | HQ235675, HQ235694, HQ235692, GQ469492, HQ235682, JN376068 JN66693 | HQ235698, EU400642, EU400625, DQ328727, FJ707365 | — | — |
| D. destructor | Ipomoea batatas | JX145343, AY987007 | EU400638, EU400634, EU400628, EU400626, EU400622, EU400629, EU400629 (China) | — | — |
| D. myceliophagous | Agaricus sp | DQ151458, AM232236 | — | — | — |
| D. halictus | Halictus sexcinctus | AY589364 |