Table 1

Conserved modification sitesa
BLASTb Arabidopsis thaliana Homo sapiens Saccharomyces cerevisiae
rRNA At Hs Sc snoRNA Rfam acc Rfam clan Target sitec snoRNA Rfam acc Rfam clan Target sitec snoRNA Rfam acc Rfam clan Target sitec
LSU X X X AtU15 RF00067 CL00045 Am2271 U15a RF00067 CL00045 Am3764 SnR13 RF01223 CL00045 Am2279
LSU X X AtU15 RF00067 CL00045 Gm2278 SnR75 RF01185 CL00045 Gm2286
LSU X X X AtU18 RF01159 CL00047 Am660 U18 RF00093 CL00047 Am1313 U18 RF00093 CL00047 Am647
LSU X X X AtU24 RF00069 Am1451 U76 N/A Am2350 U24 RF00069 Am1447
LSU X X X AtU24 RF00069 Cm1439 U24 RF00069 Cm2338 U24 RF00069 Cm1435
LSU AtU29 RF00070 CL00051 Am2936 U29 RF00070 CL00051 Am4493 SnR71 RF00479 CL00051 Am2943
LSU X X AtU30 RF01283 CL00052 Am2311 U30 RF00088 CL00052 Am3804
LSU X AtU31 ~RF00089 Gm2610 U31 RF00089 CL00053 Gm4166 SnR67 RF01177 CL00053 Gm2616
LSU X X X AtU34 ~RF00147 Um1882 U34 RF00147 CL00055 Um2824 SnR62 RF01205 CL00055 Um1886
LSU X X X AtU35 RF00328 CL00056 Cm2949 U35 RF00211 CL00056 Cm4506 SnR73 RF01207 CL00056 Cm2956
LSU X X X AtU36a RF01302 CL00051 Am2210 U36 RF00049 CL00051 Am3703 SnR47 RF01203 CL00051 Am2218
LSU X X AtU37 ~RF00440 Am2204 U37 RF00440 Am3697
LSU X X AtU38 RF00135 CL00051 Am1140 U38a RF00212 CL00051 Am1858 SnR61 RF00476 CL00051 Am1131
LSU X X AtU49 RF00337 CL00062 Cm1510 U49 RF00277 CL00062 Cm2409
LSU X AtU49 RF00337 CL00062 Cm2869 U49 RF00277 CL00062 Cm4426
LSU X X X AtU51 Am814 U51/U32a RF00133 CL00054 Am1511 SnR39/59 RF01197 CL00054 Am805
LSU X AtU53,AtsnoR37 Cm2355 U53 RF00325 CL00063 Am3848
LSU X X AtU55 RF00358 CL00057 Cm1850 U55 / U39 RF00157 CL00057 Cm2791
LSU X X X AtU80 RF00309 CL00070 Am824 U80/U77 RF00591 CL00070 Am1521 SnR60 RF00309 CL00070 Am815
LSU X X X AtU80 RF00309 CL00070 Um915 U80 N/A Gm1612 SnR60 RF00309 CL00070 Gm906
LSU X X AtsnoR1 ~RF00471 Gm2781 SnR48 RF00471 CL00066 Gm2788
LSU X X AtsnoR10 RF00353 Um2641 Nd RF00151 CL00064 Um4197
LSU X X AtsnoR15 RF00358 CL00057 Cm1850 U55 / U39 RF00157 CL00057 Cm2791
LSU X X AtsnoR33 ~RF00189 Am1861 Nd RF00189 Am2802
LSU X X AtsnoR34 RF00133 CL00054 Gm2907 HB-210 RF00574 Gm4464
LSU X X X AtsnoR35 RF01281 CL00053 Gm2610 U31 RF00089 CL00053 Gm4166 SnR67 RF01177 CL00053 Gm2616
LSU X X X AtsnoR37 RF00333 CL00063 Um2411 U52 RF00276 CL00063 Um3904 SnR78 RF01176 CL00063 Um2414
LSU X X X AtsnoR38Y RF00213 Gm2805 snR38A RF00213 Gm4362 SnR38 RF00213 Gm2812
LSU X X X AtsnoR39BY ~RF00055 Gm812 snR38b RF01299 CL00072 Gm1509 SnR39B RF01299 CL00072 Gm803
LSU X X AtsnoR44 RF00357 CL00069 Am2316 U79 RF00152 CL00069 Am3809
LSU X X X AtsnoR44 RF00357 CL00069 Cm2327 U74 RF00284 CL00069 Cm3820 SnR64 RF00509 CL00069 Cm2235
LSU X X X AtsnoR58Y ~RF01199 Cm674 U104 RF00289 CL00077 Cm1327 SnR58 RF01199 CL00077 Cm661
LSU X X AtsnoR68Y RF01287 CL00079 Am2631 SnR68 RF01235 CL00079 Am2637
LSU X X AtsnoR69Y RF01198 CL00051 Cm2938 SnR69 RF00475 CL00051 Cm2945
LSU X X AtsnoR72Y Am883 SnR72 N/A Am874
LSU X X Um4468 snR52 Um2921
SSU X X X AtU14 Cm416 U14 RF00016 Cm462 U14 RF00016 Cm414
SSU X X AtU16 RF00358 CL00057 Am438 HBII-429 RF00609 CL00073 Am484
SSU X X X AtU27 ~RF00086 Am28 U27 RF00086 Am27 SnR74 RF00086 Am28
SSU X X X AtU36 Am621 U36a RF00049 CL00051 Am668 SnR47 RF01203 CL00051 Am619
SSU X X X AtU43 RF00221 CL00059 Cm1641 U43 RF00221 CL00059 Cm1705 SnR70 RF01238 CL00059 Cm1638
SSU X X AtU54 RF00206 CL00008 Gm597 U54 RF00206 CL00008 Gm644
SSU X X AtU56 Cm471 U56 RF00275 Cm517
SSU X X AtU61 RF01170 CL00067 Um1381 U61 RF00270 CL00067 Um1442
SSU X X AtsnoR14 RF01280 CL00076 Um1232 HBII-55 RF00610 CL00076 Um1288
SSU X X AtsnoR15 RF00358 CL00057 Am438 HBII-429 RF00609 CL00073 Am484
SSU X X AtsnoR17 RF01289 Am466 U45a Am512
SSU X X AtsnoR18 Am162 U44 RF00279 Am166
SSU X X X AtsnoR19 RF00054 CL00049 Gm1431 U25 RF00054 CL00049 Gm1490 SnR56 RF01188 CL00049 Gm1427
SSU X X X AtsnoR21 Gm1272 U32 RF00133 CL00054 Gm1328 SnR40 RF01201 CL00054 Gm1269
SSU X X X AtsnoR23 RF00350 Am1754 Nd Am1850 Nd Am1779
SSU X X AtsnoR30 RF00046 CL00073 Gm390 HBII-429 RF00609 CL00073 Gm436
SSU X X AtsnoR32 RF00330 Am1327 snR53 RF00338 CL00080 Am1383
SSU X X X AtsnoR34 RF00133 CL00054 Um1270 U33 RF00133 CL00054 Um1326 SnR55 RF00472 CL00054 Um1267
SSU X X X AtsnoR41Y ~RF00153 Am543 U62a RF00153 CL00068 Am590 SnR41 RF01218 CL00068 Am541
SSU X X X AtsnoR53Y RF01279 CL00080 Am799 HBII-429 RF00609 CL00073 SnR53 RF00338 CL00080 Am796
SSU X X AtsnoR58 Gm391 SNORD100 RF00609 Gm436
SSU X X X AtsnoR59 ~RF00273 Am975 U59 RF00273 CL00065 Am1031 SnR54 RF00473 CL00065 Am975
SSU X X X AtsnoR77Y Um580 HBII-135 RF00571 CL00057 Um627 SnR77 RF01181 CL00057 Um578
SSU X X X U33 Um1270 U33 RF00133 CL00054 Um1326 SnR55 RF00472 CL00054

aFamilies/clans traceable to LECA based on distribution and parsimony (bold).

bBlast-mapped hits (X) show agreements with analysis presented in Figures  4 and 5.

cTarget site data derived from '3D ribosomal RNA modification database' [37].

Hoeppner and Poole

Hoeppner and Poole BMC Evolutionary Biology 2012 12:183   doi:10.1186/1471-2148-12-183

Open Data