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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