TABLE 2.

L. plantarum genes that are induced during passage through the mouse GI tract as compared to laboratory conditions

ClassORF (gene)aProduct or functionReference(s)
Nutrient acquisition and synthesis
    Sugarlp_0185a (ptsIBCA)Sucrose PTS EIIBCA27b
lp_1164 (pts14C)Cellobiose PTS, EIIC17, 27
lp_2647c (pts19A)N-Acetylglucosamine/galactosamine PTS, EIIA
lp_3473 (ram2)Alpha-l-rhamnosidase
lp_3522c (pts32BC)Sucrose PTS, EIIBC27b
lp_3526a (pbg10)6-Phospho-beta-glucosidase
lp_36182,c (pts37A)Sorbitol PTS EIIA22
lp_36593,d (rbsD)Ribose transport protein11, 31
lp_36603,d (rbsK3)Ribokinase11, 31
    Nonsugarlp_0017c (proA)Glutamate-5-semialdehyde dehydrogenase25, 47
lp_0228e (pepD1)Dipeptidase
lp_0696Cytosine/adenosine deaminase43
lp_0775 (argG)Argininosuccinate synthase7
lp_0854a,c (birA2)Biotin (acetyl-coenzyme A-carboxylase) ligase and biotin operon repressor10, 26
lp_1058 (adk)Adenylate kinase
lp_1319d (rsuA)Pseudouridylate synthase
lp_16027Geranyltranstransferase/famesyl di-P-transferase
lp_2031 (ribC2)Bifunctional protein: riboflavin kinase and FMN adenylyl- transferase34
Stresslp_1019 (clpC)ATP-dependent Clp protease24, 32
lp_30554,c (copA)Copper transporting ATPase21, 36
lp_3288cCation efflux protein
lp_33035Putative multidrug transport protein25
Extracellular
    LPQTNE containinglp_0800Cell surface protein precursor
lp_2940cCell surface protein precursor
    Otherlp_0141eExtracellular protein
lp_1403a,dCell surface protein
Regulatorslp_3176c (pkn2)Serine/threonine protein kinase
lp_3514c (bglG4)Transcription antitermination38
lp_3646a,dTranscription regulator
Otherlp_0237Integral membrane protein
lp_0299cABC transporter, ATP-binding protein
lp_0305d (gcsH1)Glycine cleavage system, H protein
lp_03931,d (thgA1)Galactoside O-acetyltransferase
lp_03941,dTransport protein
lp_0419a (plnI)Immunity protein
lp_0489 (tktI-N)Transketolase
lp_0698a,d (dnaX)DNA-directed DNA polymerase III, gamma/tau subunit27
lp_07406 (prfB-N)Peptide chain release factor 2, N-terminal fragment
lp_07416 (prfB-C)Peptide chain release factor 2, C-terminal fragment
lp_16037 (ispA)Hemolysin homologue
lp_1847 (codV)Integrase/recombinase
lp_3051 (dhaT)1,3-Propanediol dehydrogenase39
lp_3082dTransport protein
lp_3281dTransport protein
lp_3500Short-chain dehydrogenase/oxidoreductase39
lp_3505 (est2)Acetylesterase
lp_36172,c (tal3)Transaldolase
lp_3662c (adhE)Bifunctional protein: alcohol and acetaldehyde dehydrogenase40
Hypothetical
    Conservedlp_0026c, lp_0139, lp_0190d, lp_0291a,c, lp_0476, lp_0477, lp_0907d, lp_1969d, lp_2337c, lp_25079,d, lp_25089,d, lp_2713, lp_2718, lp_30574,c, lp_30584,c and lp_3312c52     (for lp_2718,      see text)
    Not conservedlp_0118a,d, lp_0292, lp_1788, lp_1872, lp_2112c, lp_2584, lp_3246c, lp_33055
  • a Genes with the same superscript number originate from one R-IVET clone. Genes denoted by a superscript “a” were identified twice during the first-round R-IVET screen. After the second-round passage and subsequent sequence analysis, some genes were identified exclusively in the erythromycin sensitive (superscript c) or resistant (superscript e) group. Genes indicated by a superscript “d” were identified in both the erythromycin-resistant and the erythromycin-sensitive groups.

  • b In the original reference, 13 in vivo-induced loci were identified in Streptococcus gordonii. However, these loci were only partially sequenced, and for six loci this was not sufficient to identify a promoter element. At present, with more detailed sequence analysis and the partially available genome sequence, these loci have been assigned a promoter element (Lin Tao, unpublished data).