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Table 2 Distribution and GlnR-mediated regulation of genes related to central nitrogen metabolism within the order Lactobacillales

From: Comparative genome analysis of central nitrogen metabolism and its control by GlnR in the class Bacilli

NCBI PROJECT NAME \ GENES codY tnrA glnR glnA gdh bdh glutamin- ase (HA) glutamin- ase (LA) gltAB gltA BC gltS amtB glnK glnQHMP glnP H Q glnT, alsT, yrbD, yflA gltP, dctA, gltT, yhcL, nqt
B) order Lactobacillales                  
Enterococcus faecalis V583 1   1 1 1        1   1 1   3
Lactobacillus acidophilus NCFM     1         1   2    
L. helveticus DPC 4571     1         1   2    1
L. crispatus ST1     1     1       2    
L. gasseri ATCC 33323     1    1        2    1
L. johnsonii FI9785     1    1        2    1
L. bulgaricus ATCC 11842     1         1   3    
L. fermentum IFO 3956     1         1    1   1
L. reuteri JCM 1112     1    1 1     1   1 1   1
L. brevis ATCC 367    1 1         1   1    1
L. plantarum WCFS1    1 1 1        1   1 1   1
L. salivarius UCC118    1 1 1        1   1 2(1) e   1
L. casei BL23    1 2(1) 1,0     1    1   1 1 b   
L. rhamnosus GG    1 2(1) 1     1    2(1)   1 1 b   
L. sakei 23 K    1 1            1   2
Pc. pentosaceus ATCC 25745    1 1            1   1
Leuconostoc citreum KM20    1 1         1   1 1 b   
Ln. mesenteroides ATCC 8293    1 1      1    1   2 1 b   
Oenococcus oeni PSU-1    1 1         1   1 1 d   
Lactococcus lactis Il1403 1a   1 1      1    1 1   1 c   
Streptococcus mutans UA159 1   1 1 1     1    1 1 1 1 c 1  
S. equi 1   1 1 1           1 c 1  
S. uberis 0140 J 1   1 1 1          1 1 c 1  
S. gordonii str. Challis substr. CH1 1   1 1 1           1 c   1
S. thermophilus CNRZ1066 1   1 1 1        1 1 1 1 c 1  
S. sanguinis SK36 1   1 1 1          1 1 c 1  
S. pneumoniae R6 1   1 1 1          1 1 c 1  
S. mitis B6 1   1 1 1        1 1 1 1 c 1  
S. agalactiae NEM316 1   1 1 1        1   1 1 c 1  
S. pyogenes M1 GAS 1   1 1            1 c 1  
S. suis BM407 1   1 1 1          1 1 c 1  
  1. The table summarizes the data retrieved for all species and strains which can be found in Additional file 1. The number of orthologs/homologs in every genome is indicated. For Gene content and how GlnR-mediated regulation is indicated see the legend of Table 1. Every species is represented by one strain only. Species abbreviations: L., Lactobacillus; Ln., Leuconostoc; Pc., Pediococcus; S., Streptococcus.
  2. a) L. lactis has a codY paralog named codZ[41].
  3. b) There is a second glnPH gene located next to the glnPH,Q operon.
  4. c) The glnPH gene encodes two H domains.
  5. d) In O. oeni the gene glnPH is in one operon with a gene encoding an asparaginase, whereas a glnQ homolog is missing.
  6. e) In L. salivarius a second glnPH gene is not part of an operon and is located elsewhere on the genome with respect to the glnPHQ operon.