To facilitate the differential identification of the genus Streptomyces, the 16S rRNA genes of 17 actinomycetes were sequenced and screened for the existence of streptomycete-specific signatures. The 16S rDNA of the Streptomyces strains and Amycolatopsis orientalis subsp. lurida exhibited 95-100% similarity, while that of the 16S rDNA of Actinoplanes utahensis showed only 88% similarity to the streptomycete 16S rDNAs. Potential genus-specific sequences were found in regions located around nucleotide positions 120, 800 and 1100. Several sets of primers derived from these characteristic regions were investigated as to their specificity in PCR-mediated amplifications. Most sets allowed selective amplification of the streptomycete rDNA sequences studied. RFLPs in the 16S rDNA permitted all strains to be distinguished.
AshC.,
FarrowJ.A.E.,
WallbanksS.,
CollinsM.D.1991; Phylogenetic heterogeneity of the genus Bacillus revealed by comparative analysis of small subunit ribosomal RNA sequences.. Lett Appl Microbiol 13:202–206
CarbonP.,
EhresmannC.,
EhresmannB.,
EbelJ.P.1979; The complete nucleotide sequence of the ribosomal 16S RNA from Escherichia coli: experimental details and cistron heterogeneities.. Eur J Biochem 100:399–410
ClarkeD.D.,
RitchieD.A.,
WilliamsS.T.1993; Ribosomal DNA restriction fragment analysis of some closely related Streptomyces species.. Syst Appl Microbiol 16:256–260
CundliffeE.1990; Recognition sites for antibiotics within rRNA.. In The Ribosome, Structure, Function, and Evolution pp. 479–490HillW.E.,
DahlbergA.,
GarrettR.A.,
MooreP.B.,
SchlessingerD.,
WarnerJ.R.
Edited by Washington, DC:: American Society for Microbiology.;
DellaportaS.,
WoodJ.,
HicksJ.1985; Maize DNA miniprep.. In Molecular Biology of Plants-a Laboratory Course Manual pp. 36–37 Cold Spring Harbor, NY:: Cold Spring Harbor Laboratory.;
DistlerJ.,
KlierK.,
PiendlW.,
BöckA.,
KreszeG.,
PiepersbergW.1985; Streptomycin biosynthesis in Streptomyces griseus. I. Characterization of streptomycin-idiotrophic mutants.. FEMS Microbiol Lett 30:145–150
EdwardsU.,
RogallT.,
BöckerH.,
EmdeM.,
BöttgerE.1989; Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal DNA.. Nucleic Acids Res 17:7843–7853
HolbenW.,
JanssonJ.,
ChelmB.,
TiedjeJ.1988; DNA probe method for the detection of specific microorganisms in the soil bacterial community.. Appl Environ Microbiol 54:703–711
HutsonR.A.,
ThompsonD.E.,
CollinsM.D.1993; Genetic interrelationships of saccharolytic Clostridium botulinum types B, E and F and related clostridia as revealed by small-subunit rRNA gene sequences.. FEMS Microbiol Lett 108:103–110
JensenM.,
WebsterJ.,
StrausN.1993; Rapid identification of bacteria on the basis of polymerase chain reaction-amplified ribosomal DNA spacer polymorphisms.. Appl Environ Microbiol 59:945–952
KämpferP.,
KroppenstedtR.,
DottW.1991; A numerical classification of the genera Streptomyces and Streptoverticillium using miniaturized physiological tests.. J Gen Microbiol 137:1831–1891
KlijnN.,
WeerkampA.,
de VosW.1991; Identification of mesophilic lactic acid bacteria by using polymerase chain reaction amplified variable regions of 16S rRNA and specific DNA probes.. Appl Environ Microbiol 57:3390–3393
LiesackW.,
StackebrandtE.1992; Occurrence of novel groups of the domain bacteria as revealed by analysis of genetic material isolated from an Australian terrestrial environment.. J Bacteriol 174:5072–5078
LiesackW.,
WeylandH.,
StackebrandtE.1991; Potential risks of gene amplification by PCR as determined by 16S rDNA analysis of a mixed-culture of strict barophilic bacteria.. Microb Ecol 32:191–198
MehlingA.,
WehmeierU.F.,
PiepersbergW.1995; Application of random amplified polymorphic DNA (RAPD) assays in identifying conserved regions of actinomycete genomes.. FEMS Microbiol Lett 128:119–126
PernodetJ.-L.,
BoccardF.,
AlegreM.T.,
GagmatJ.,
GuerineauM.1989; Organization and nucleotide sequence analysis of a ribosomal RNA cluster from Streptomyces ambofaciens.. Gene 79:33–46
PhillipsL.,
WellingtonE.M.H.1992; The distribution of DNA sequences hybridizing with antibiotic production and resistance gene probes within type strains and wild isolates of Streptomyces species.. J Antibiot 45:1481–1491
PiepersbergW.1993; Streptomyces and Corynebacteria.
. In Biotechnology pp. 434–468RehmH.J.,
ReedG.
in cooperation with , A. Pühler & P. Stadler.. Edited by Weinheim:: VCH.;
RetzlaffL,
MayerG.,
BeyerS.,
AhlertJ.,
VerseckS.,
DistlerJ.,
PiepersbergW.1993; Streptomycin production in streptomycetes: a progress report.. In Industrial Microorganisms: Basic and Applied Molecular Genetics pp. 47–59HegemannG.,
BaltzR.,
SkatrudP.
Edited by Washington, DC:: American Society for Microbiology.;
SalamaM.,
SandineW.,
GiovanniS.1991; Development and application of oligonucleotide probes for identification of Lactococcus lactis subsp.cremoris.
. Appl Environ Microbiol 57:1313–1318
StackebrandtE.,
WittD.,
KemmerlingC.,
KroppenstedtR.,
LiesackW.1991; Designation of streptomycete 16S and 23S rRNA-based target regions for oligonucleotide probes.. Appl Environ Microbiol 57:1468–1477
SteffanR.R.,
AtlasR.M.1988; DNA amplification to enhance detection of genetically engineered bacteria in environmental samples.. Appl Environ Microbiol 54:2185–2191
SuzukiY.,
OnoY.,
NagataA.,
YamadaT.1988; Molecular cloning and characterization of an rRNA operon in Streptomyces lividans TK21.. J Bacteriol 170:631–636
WilliamsS.T.,
GoodfellowM.,
AldersonG.,
WellingtonE.M.H.,
SneathP.H.A.,
SackinM.J.1983; Numerical classification of Streptomyces and related genera.. J Gen Microbiol 129:1743–1813
WilsonK.1990; Preparation of genomic DNA from bacteria.. In Current Protocols in Molecular Biology section 2.4.
AusubelF.A.,
BrentR.,
KingstonR.E.,
MooreD.D.,
SmithJ.A.,
SeidmanJ.G.,
StruhlK.
Edited by New York:: Greene Publishing & Wiley Interscience.;
WipatA.,
WellingtonE.,
SaundersV.1991; Streptomycesmarker plasmids for monitoring survival and spread of streptomycetes in soil.. Appl Environ Microbiol 57:3322–3330
WoodcockD.M.1989; Quantitative evaluation of Escherichia colihost strains for tolerance to cytosine methylation in plasmid and phage recombinants.. Nucleic Acids Res 17:3469–3478
ZhangH.-Z.,
SchmidtH.,
PiepersbergW.1992; Molecular cloning and characterization of two lincomycin-resistance genes, lmrA and lmrB, from Streptomyces lincolnensis. 78-11.. Mol Microbiol 6:2147–2157