Culture Collections

Bacteria and Mycoplasmas detail

Conditions of Supply of Microbial Pathogens: Safety





Bacteria Collection: Pseudomonas putida

NCTC Number: NCTC 10936
Current Name: Pseudomonas putida
Original Strain Reference: A. 3. 12
Other Collection No: ATCC 12633; A.3.12; BIOTYPE A; CCUG 12690; CFBP 2066; CIP 52.191; DSM 291; DSM 50202; HAMBI 7; ICPB 2963; JCM 13063; JCM 20120; LMG 2257; NBRC 14164; NCAIM B.01634; NCCB 68020; NCCB 72006; NCIB 9494; WDCM 00117; 90
Previous Catalogue Name: Pseudomonas putida
Type Strain: Yes
Family: Pseudomonadaceae
Release Restrictions: Terms & Conditions of Supply of Microbial Pathogens: Safety
Conditions for growth on solid media: Columbia blood agar, 24-48 hours, 37°C, aerobic
Conditions for growth on liquid media: nutrient broth,37, aerobic
Whole Genome Sequence: http://www.ebi.ac.uk/ena/data/view/ERS1018581
Annotated Genome: ftp://ftp.sanger.ac.uk/pub/project/pathogens/NCTC3000/...
16S rRNA Gene Sequence: >gb|AJ308313|BIOTYPE A|ICMP 2758| ATCC 12633| NCIB 9494|Pseudomonas putida partial 16S rRNA gene, strain Biotype A.| agtgggggacaacgt... >gb|AF094736|ATCC 12633|Pseudomonas putida strain ATCC 12633 16S ribosomal RNA gene,partial sequence.| ttgatcatggcctca... >gb|D37923|IFO 14164 (ATCC 12633)|Pseudomonas putida (strain IFO 14164 (ATCC 12633)) gene for 16Sribosomal RNA, partial sequence.| tggcggcaggcctaa... >gb|Z76667|DSM 291T (TYPE STRAIN)|P.putida 16S rRNA gene.| attgaacgctggcgg...
Miscellaneous Sequence Data: >gb|AB039451|ATCC 12633|Pseudomonas putida gyrB gene for DNA gyrase subunit B, partial cds,strain:ATCC 12633.| ctggcggcttgcacg...
Bibliography: STANIER R Y ET AL 1966 J GEN MICROBIOL 43 159;STANIER R Y 1947 J BACT 54
Extended Bibliography: showhide Show bibliography
Ref #: 95530
Author(s): Yamamoto,S.;Harayama,S.
Journal: Appl Environ Microbiol
Title: PCR amplification and direct sequencing of gyrB genes with universal primers and their application to the detection and taxonomic analysis of Pseudomonas putida strains
Volume: 61
Page(s): 1104-9
Year: 1995
Keyword(s): GENBANK/D37923 GENBANK/D37924 GENBANK/D37925 GENBANK/D37926 GENBANK/D37927 Amino Acid Sequence Bacillus subtilis/enzymology/genetics Base Sequence *DNA Primers DNA Topoisomerases, Type II/*genetics DNA, Ribosomal/genetics Escherichia coli/enzymology/genetics Molecular Sequence Data Polymerase Chain Reaction/*methods Pseudomonas putida/enzymology/genetics/*isolation & purification RNA, Ribosomal, 16S/genetics Sequence Alignment Sequence Analysis, DNA/*methods Sequence Homology, Nucleic Acid Species Specificity
Remarks: Degenerate PCR primers, UP-1 and UP-2r, for the amplification of DNA gyrase subunit B genes (gyrB) were designed by using consensus amino acid sequences of gyrases from Escherichia coli, Pseudomonas putida, and Bacillus subtilis. In addition to the degenerate sequences, these primers have sequences at the 5' end which allow direct sequencing of amplified PCR products. With these primers, DNA segments of the predicted size were amplified from a variety of gram-negative and gram-positive genera. The nucleotide sequences of the amplified gyrB DNA from three P. putida strains were determined directly from the amplified fragments. The base substitution frequency of gyrB between the strains of P. putida was much higher than that of the 16S rRNA gene. With a specific set of PCR primers, it was possible to amplify gyrB fragments selectively from P. putida or its subgroups. The direct sequencing method of gyrB developed in this study provides a rapid and convenient system for bacterial identification, taxonomic analysis, and monitoring of bacteria in the natural environment.
URL: 7793912
Ref #: 71030
Author(s): Yamamoto,S.;Kasai,H.;Arnold,D.L.;Jackson,R.W.;Vivian,A.;Harayama,S.
Journal: Microbiology
Title: Phylogeny of the genus Pseudomonas: intrageneric structure reconstructed from the nucleotide sequences of gyrB and rpoD genes
Volume: 146 ( Pt 10)
Page(s): 2385-94
Year: 2000
Keyword(s): GENBANK/AB039381 GENBANK/AB039382 GENBANK/AB039383 GENBANK/AB039384 GENBANK/AB039385 GENBANK/AB039386 GENBANK/AB039387 GENBANK/AB039388 GENBANK/AB039389 GENBANK/AB039390 GENBANK/AB039391 GENBANK/AB039392 GENBANK/AB039393 GENBANK/D37297 GENBANK/D37926 GENBANK/D86005 GENBANK/D86006 GENBANK/D86007 GENBANK/D86008 GENBANK/D86009 GENBANK/D86010 GENBANK/D86011 GENBANK/D86012 GENBANK/D86013 GENBANK/D86014 GENBANK/D86015 GENBANK/D86016 GENBANK/D86017 GENBANK/D86018 GENBANK/D86019 etc. Base Sequence DNA Gyrase DNA Topoisomerases, Type II/*genetics DNA-Directed RNA Polymerases/*genetics *Genes, Bacterial Molecular Sequence Data *Phylogeny Polymerase Chain Reaction/methods Pseudomonas/classification/*genetics Sigma Factor/*genetics
Remarks: Phylogenetic analysis of the genus Pseudomonas: was conducted by using the combined gyrB and rpoD nucleotide sequences of 31 validly described species of Pseudomonas: (a total of 125 strains). Pseudomonas: strains diverged into two major clusters designated intrageneric cluster I (IGC I) and intrageneric cluster II (IGC II). IGC I was further split into two subclusters, the 'P: aeruginosa complex', which included P: aeruginosa, P: alcaligenes, P: citronellolis, P: mendocina, P: oleovorans and P: pseudoalcaligenes, and the 'P: stutzeri complex', which included P: balearica and P: stutzeri. IGC II was further split into three subclusters that were designated the 'P: putida complex', the 'P: syringae complex' and the 'P: fluorescens complex'. The 'P: putida complex' included P: putida and P: fulva. The 'P: syringae complex' was the cluster of phytopathogens including P: amygdali, P: caricapapayae, P: cichorii, P: ficuserectae, P: viridiflava and the pathovars of P. savastanoi and P. syringae. The 'P. fluorescens complex' was further divided into two subpopulations, the 'P. fluorescens lineage' and the 'P. chlororaphis lineage'. The 'P. fluorescens lineage' contained P. fluorescens biotypes A, B and C, P. azotoformans, P. marginalis pathovars, P. mucidolens, P. synxantha and P. tolaasii, while the 'P. chlororaphis lineage' included P. chlororaphis, P. agarici, P. asplenii, P. corrugata, P. fluorescens biotypes B and G and P. putida biovar B. The strains of P. fluorescens biotypes formed a polyphyletic group within the 'P. fluorescens complex'.
URL: 11021915
Ref #: 95451
Author(s): Hilario,E.;Buckley,T.R.;Young,J.M.
Journal: Antonie Van Leeuwenhoek
Title: Improved resolution on the phylogenetic relationships among Pseudomonas by the combined analysis of atp D, car A, rec A and 16S rDNA
Volume: 86
Page(s): 51-64
Year: 2004
Keyword(s): Carbamoyl-Phosphate Synthase (Glutamine-Hydrolyzing)/*genetics DNA, Bacterial/chemistry/isolation & purification Evolution, Molecular Phylogeny Proton-Translocating ATPases/*genetics Pseudomonas/*classification/*genetics RNA, Ribosomal, 16S/*genetics Rec A Recombinases/*genetics Sequence Analysis, DNA
Remarks: A study of representatives of the bacterial genus Pseudomonas, analysing a combined data set of four molecular sequences with completely different properties and evolutionary constraints, is reported. The best evolutionary model was obtained with a hierarchical hypothesis testing program to describe each data set and the combined data set is presented and analysed under the likelihood criterion. The resolution among Pseudomonas taxa based on the combined data set analysis of the different lineages increased due to a synergistic effect of the individual data sets. The unresolved fluorescens lineage, as well as other weakly supported lineages in the single data set trees, should be revised in detail at the biochemical and molecular level. The taxonomic status of biovars of P. putida is discussed.
URL: 15103237
Ref #: 13721
Author(s): Yamamoto,S.;Harayama,S.
Journal: Appl Environ Microbiol
Title: PCR amplification and direct sequencing of gyrB genes with universal primers and their application to the detection and taxonomic analysis of Pseudomonas putida strains
Volume: 61
Page(s): 1104-9
Year: 1995
Keyword(s): GENBANK/D37923 GENBANK/D37924 GENBANK/D37925 GENBANK/D37926 GENBANK/D37927 Amino Acid Sequence Bacillus subtilis/enzymology/genetics Base Sequence *DNA Primers DNA Topoisomerases, Type II/*genetics DNA, Ribosomal/genetics Escherichia coli/enzymology/genetics Molecular Sequence Data Polymerase Chain Reaction/*methods Pseudomonas putida/enzymology/genetics/*isolation & purification RNA, Ribosomal, 16S/genetics Sequence Alignment Sequence Analysis, DNA/*methods Sequence Homology, Nucleic Acid Species Specificity Support, Non-U.S. Gov't
Remarks: Degenerate PCR primers, UP-1 and UP-2r, for the amplification of DNA gyrase subunit B genes (gyrB) were designed by using consensus amino acid sequences of gyrases from Escherichia coli, Pseudomonas putida, and Bacillus subtilis. In addition to the degenerate sequences, these primers have sequences at the 5' end which allow direct sequencing of amplified PCR products. With these primers, DNA segments of the predicted size were amplified from a variety of gram-negative and gram-positive genera. The nucleotide sequences of the amplified gyrB DNA from three P. putida strains were determined directly from the amplified fragments. The base substitution frequency of gyrB between the strains of P. putida was much higher than that of the 16S rRNA gene. With a specific set of PCR primers, it was possible to amplify gyrB fragments selectively from P. putida or its subgroups. The direct sequencing method of gyrB developed in this study provides a rapid and convenient system for bacterial identification, taxonomic analysis, and monitoring of bacteria in the natural environment.
URL: 95314243
Ref #: 1300
Author(s): Skerman,V.B.D.;McGowan,V.;Sneath,P.H.A.(ed)
Journal: Int. J. Syst. Bacteriol.
Title: Approved Lists of Bacterial Names.
Volume: 30
Page(s): 225-420
Year: 1980
Ref #: 171
Author(s): Stanier,R.Y.;Palleroni,N.J.;DoudoroffM.
Journal: J. Gen. Microbiol.
Title: The aerobic pseudomonads: a taxonomic study.
Volume: 43
Page(s): 159-275
Year: 1966
Ref #: 4029
Author(s): Owen,R.J.;Jackman,P.J.H.
Journal: J. Gen. Microbiol.
Title: The similarities between Pseudomonas paucimobilis and allied bacteria derived from analysis of DNA and electrophoretic protein patterns.
Volume: 128
Page(s): 2945-2954
Year: 1982
Ref #: 7293
Author(s): Yamamoto,S.;Harayama,S.
Journal: Int. J. Syst. Bacteriol.
Title: Phylogenetic relationships of Pseudomonas putida strains deduced from the nucleotide sequences of gyrB, rpoD and 16S rRNA genes.
Volume: 48
Page(s): 813-819
Year: 1998
Data: (90, ATCC 12633) Type strain / ATCC in 1973 / A. B. Pardee / R. Y. Stanier / Biotype A / Stanier, R. Y. (1947) J. Bact. 54, 191 / Stanier, R. Y. et al. (1966) J. gen. Microbiol. 43, 159
Accession Date: 01/01/1973
History: ISOLATED BY STANIER R Y -PARDEE A B -ATCC
Authority: (Trevisan 1889) Migula 1895 (AL)
Depositor: ATCC
Taxonomy: TaxLink: S2483 (Pseudomonas putida (Trevisan 1889) Migula 1895) - Date of change: 5/02/2003
Biosafety Responsibility: It is the responsibility of the customer to ensure that their facilities comply with biosafety regulations for their own country

Additional Information

Note: Links open in a new window

Note:

The Culture Collections hold cell cultures, bacteria, fungi and virus strains from worldwide sources. Our scientists ensure that the identification of the cultures is correct and they remain unchanged from when they are first deposited with the Collection. Nevertheless, some of the data we provide about the cultures is supplied by the person depositing the strains and, although we have multiple checking procedures in place, we cannot always verify all their data. Please note that the Culture Collections cannot be held responsible for any inaccuracies in the data provided by the depositors.

Cultures supplied by Culture Collections are to be used as controls for microbiology testing and for research purposes only. Please view the Terms & Conditions of Supply for more information.

Contact us if you want to discuss commercial use of the cultures.

Available Formats

Ampoule (Bacteria)

Back to top
Copyright © Public Health England.

Please confirm your country of origin from the list below.