Reoviridae

Double-stranded, segmented RNA genome: 10 (Reovirus, Orbivirus), 11 (Rotavirus), or 12 (Coltivirus) segments

Sequences shown here are those of the mRNA, sense strand

Conserved terminal sequences of genomic RNAs

Orthoreovirus

e.g., reovirus 3, 2, 1, avian orthoreoviruses

Terminal sequences of reovirus serotype 3, strain Dearing [Antczak, et al., 1982]:

Segment 5' end             3' end
  L1    GCUACACGUU.....UCAACUCAUC    REO3LAM3P  M31058
  L2    ----A-U-GC.....CU--U-----    REO3L2     J03488
  L3    ----AU---C.....C-G-U-----    REOMCPL1A  M23747
  M1    ----UU--CG.....G-GCU-----    REO3M1B    M27261
  M2   G----AU-UGC.....G---A-----    REO3M2C    M19408
  M3    ----A-GUGA.....C-C-U-----    REO3M3C    M27262
  S1    ----UUG--C.....G--UU-----    REOS1C     M10262
  S2    ----UU--C-.....CAC-U-----    REOS2T4A   M25780
  S3    ----A-GUCA.....C-U-A-----    REHS3NS    X01627
  S4    ----UUUU-G.....-UC-U-----    REOS4      K02739

Terminal sequences are conserved among reovirus type 1, 2 and 3
e.g., S1 segments

  Type  5' end             3' end
   3    GCUAUUGGUC.....GCAUUUCAUC    REOS1C    M10262
   1    ------C-CG.....-UCAA-----    REOS1A    M10260
   2    ------C-CA.....--GAC-----    REOS1B    M10261

Orbivirus

e.g., bluetongue virus (BTV) 1 [Roy, et al., 1990], and at least 23 other serotypes, epizootic hemorraghic disease virus (EHDV), Broadhaven virus (BRD, [Moss, et al., 1990]), and African horse sickness virus (AHSV)

Terminal sequences of bluetongue virus, BTV serotype 10 [Roy, 1989]:

Segment 5' end            3' end
  L1    GUUAAAAUG.....UUACACUUAC    BTV10VP1   X12819
  L2    --A-U--AA.....----------    BTVL2      M11787
  L3    ------U-U.....A---------    BTVL3      K02369
  M4    -------CA.....-ACA------    BTVVP4LZIP L13726
  M5    -------A-.....--C-------    BTVVP5     D12532
  M6    -------AA.....--CA------    BTVNS1     Y00422
  S7    -------AU.....----------    BTVP7      X06463
  S8    -------AA.....----------    BTV10S8    X13374
  S9    -------AA.....-C-U------    BTV10VP6   L08669
  S10   -------A-.....AC--------    BTVNS3II   L08628

Terminal sequences are conserved among orbiviruses
e.g., segment 10 [Moss, et al., 1992; van Staden and Huisman, 1991]:

Virus   5' end            3' end
BTV-10  GUUAAAAAG.....ACACACUUAC    BTVNS3II   L08628
EHDV    ---------.....----------    EHDEHDV1A  L29023
AHSV    ---U---UU.....-ACG------    AHV3NS3    D12479
BRD     --A---CUU.....-UUAGGA---    TBOBRD10NS M83197

Rotavirus

e.g. simian rotavirus SA11, other human and animal rotaviruses.

Terminal sequences of simian SA11 rotavirus:

Segment 5' end              3' end
   1    GGCUAUUAAAG.....GAUGUG ACC    ROSIVP1   X16830
   2    -----------.....---A-- ---    ROSIVP2   X16831
   3    ----U------.....------ G--    ROSIVP3   X16387
   4    ------A---U.....------ ---    ROSA11G4  Y00336
   5    ----U--UUUU.....AC----A---    RSA115NS  X14914
   6    ----U-----C.....------ ---    ROSRV6    X00421
   7    ---AU----U-.....U----- G--    ROSA11    X00355
   8    ----U------.....U----- ---    RO1G8     J02353
   9    ----U-A----.....------ ---    REROT1    J02354
  10    --G-U-----A.....A----- ---    RO1G10    K01138
  11    ----U------.....UU---- ---    ROTNS26   M28347

Functional conservation

Comparison of 5' and 3' termini of gene 9 of these viruses with that of simian (SA11) and human (WA) rotaviruses:

Virus    5' end                                  3' end
Si SA11  GGC UUUAAAAGAGAGAAUUU.....UAGAAUUGUAUGAUGUGACC    REROT1      J02354
Hu WA    --- -----------------.....---------UC---------    RO29       K02033
Po OSU   --- -----------------.....-----C--------------    ROOSUVP7   X04613
Ch Ch2   ---A-------C---A- --C.....G-U--AG--U----------    BRRNAVP7   X56784
Rh RRV   --- --------C--------.....-----A--------------    RORVP7     M21650

Coltivirus

e.g., Colorado tick fever virus (CTFV) (Florio strain; European-American subgroup A1), Eyach (European-American subgroup A2), Coltivirus JKT-7075 (Asian subgroup B1), Coltivirus JKT-6423 and Banna (BAN; Asian subgroup B2) viruses. [See Attoui, et al., 1998 for subgroups].

Comparison of terminal sequences of various segments.
CTFV sequences:

Segment      5' end                           3' end
CTFV VP12    GACAUUUUGUCUCAGAA.....GACGGGUAAUUGCAGUC    CTU53227   U53227
CTFV VP9     ----------G---CG-.....AGG-AA-CC--------    AF000720   AF000720
CTFV VP11    C------------U-UG.....UGGAUAC--A------G    CTU72694   U72694

Asian subgroup B viruses:

Segment      5' end                           3' end
JKT-7075 VP7 GUAGAAAAUUUGUUGAG.....UGAGUUUAAAGAACGAC    AF052023   AF052023
JKT-6423 VP8 ---UUU--AA-UGAU-U.....GAUACAAUUU--C----    AF052017   AF052017
BAN VP12     ---UUA--AA-UGAU--.....-CCAA--U-GA-CU---    AF052030   AF052030

Comparison of CTFV and JKT-7075 sequences. CTFV is clearly different from the Asian subgroup B viruses:

Segment      5' end                           3' end
CTFV VP12    GACAUUUUGUCUCAGAA.....GACGGGUAAUUGCAGUC    CTU53227   U53227
JKT-7075 VP7 -UAGAAAAU-UGUU--G.....UGA-UU---AGAAC-A-    AF052023   AF052023