Skip to main content

Advertisement

Table 1 Intron insertion loci identified in archaeal 16S rRNA genes

From: The distribution, diversity, and importance of 16S rRNA gene introns in the order Thermoproteales

Representative Taxa Locusa #CDSb,c #HP2 #PRUb,c Interrupted “universal” primer(s)
Pyrobaculum, Caldivirga 374 5 (5,0) 10 - Kb366F
Pyrobaculum, Thermoproteus, Staphylothermus, Desulfurococcalesd 548 2 (0,2) 13 - -none-
Caldiarchaeum 722 - - 2 -none-
Pyrobaculum, Thermoproteus, Vulcanisaeta, Thermoprotealesd, Caldivirga, Caldiarchaeum 781 14 (2,4) - 28 Ab779F
Desulfurococcales 803 - - 3 Ab789F, Arc806R
Pyrobaculum, Caldivirga, Desulfurococcales 901 - 8 - Ab909R
Pyrobaculum, Caldivirga, Aeropyrum, Caldiarchaeum 908 4 (1,3) - 6 Ab909R, Ab906F, 926wF, U926R, Ab927R
Pyrobaculum, Thermoproteus, Caldivirga, Vulcanisaeta, Caldiarchaeum, Desulfuroccocales 919 6 (2,3) - 27 (1,0) Ab906F, 926wF, U926R, Ab927R, A934R
Caldiarchaeum 978 - 9 - -none-
Pyrobaculum, Thermoproteus, Desulfurococcales 1093 15 (4,11) 7 9 (2,1) -none-
Pyrobaculum, Thermoproteus, Desulfurococcales 1205 2 (0,2) 17 - -none-
Pyrobaculum, Thermoproteus 1213 18 (4,14) - 2 -none-
Pyrobaculum, Thermoproteus, Vulcanisaeta 1391 15 (7,2) - 5 UA1406R, N1406R, U1406R
  1. aIntron insertion location in 16S rRNA gene (E. coli numbering, nucleotide position directly before insertion), b CDS Homing endonuclease Coding Sequence, HP small (<50 nt) RNA hairpin-forming introns, PRU Partial, Remnant, or Uncharacterized introns, cNumbers in parenthesis refer to the number of LAGLI-DADG motifs (1 or 2, respectively), dSpecifies an uncharacterized phyla within the Desulfurococcales and Thermoproteales, respectively