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Bacteria Collection: Pantoea agglomerans

NCTC Number: NCTC 9381
Current Name: Pantoea agglomerans
Original Strain Reference: Brice
Other Collection No: ATCC 27155; CIP 57.51; DSM 3493; GRAHAM BRICE; Graham Price; WDCM 00170
Previous Catalogue Name: Pantoea agglomerans
Type Strain: Yes
Family: Enterobacteriaceae
Hazard Group (ACDP): 2
Release Restrictions: Terms & Conditions of Supply of Microbial Pathogens: Safety
Conditions for growth on solid media: Nutrient agar, 24 hours, 37°C, aerobic
Isolated From: human, knee laceration
Whole Genome Sequence: http://www.ebi.ac.uk/ena/data/view/ERS513136
Annotated Genome: ftp://ftp.sanger.ac.uk/pub/project/pathogens/NCTC3000/...
16S rRNA Gene Sequence: >gb|AJ001239|NCTC 9381 T|Pantoea agglomerans 16S ribosomal RNA, partial 5 end, strain NCTC9381 T.| cctaggcgacgatcc... >gb|AJ001240|NCTC 9381 T|Pantoea agglomerans 16S ribosomal RNA, partial 3 end, strain NCTC9381 T.| cgcgaagaaccttac... >gb|AJ251466|NCTC9381T|Pantoea agglomerans partial 16S rRNA gene, strain NCTC9381T.| gaacgctggcggcag... >gb|AJ233423|DSM 3493|Pantoea agglomerans 16S rRNA gene (strain DSM 3493).| ggcctaacacatgca... >gb|AF130953|ATCC 27155|Pantoea agglomerans strain ATCC 27155 16S ribosomal RNA gene,partial sequence.| ggcggggtaatggcc... >gb|AJ001239|NCTC 9381 T|Pantoea agglomerans 16S ribosomal RNA, partial 5' end, strain NCTC9381 T.| cctaggcgacgatcc... >gb|AJ001240|NCTC 9381 T|Pantoea agglomerans 16S ribosomal RNA, partial 3' end, strain NCTC9381 T.| cgcgaagaaccttac...
23S rRNA Gene Sequence: >gb|AF208655|ATCC 27155|Pantoea agglomerans strain ATCC 27155 23S ribosomal RNA gene,partial sequence.| ttcgcagtttgcatc... >gb|AJ549514|TYPE STRAIN: DSM 3493|Pantoea agglomerans partial 23S rRNA gene, type strain DSM 3493T.| tcatttaaagaaagc...
Miscellaneous Sequence Data: >gb|AY370854|ATCC 27155|Pantoea agglomerans strain ATCC 27155 gyrase B (gyrB) gene, partialcds.| aaagtctccggcggc...
Bibliography: EWING W H & FIFE M A 1972 INT J SYST BACT 22 4
Extended Bibliography: showhide Show bibliography
Ref #: 95525
Author(s): Godfrey,V.;Logan,J.M.;Nicholson,G.;Maggs,A.F.
Journal: Br J Biomed Sci
Title: Problems in identifying blood culture isolates
Volume: 55
Page(s): 12-3
Year: 1998
Keyword(s): GENBANK/AJ001236 GENBANK/AJ001237 GENBANK/AJ001238 GENBANK/AJ001239 GENBANK/AJ001240 GENBANK/AJ001241 GENBANK/AJ001242 GENBANK/AJ001243 GENBANK/AJ001244 GENBANK/AJ001245 Adolescent *Bacterial Typing Techniques Blood/*microbiology Female Gram-Negative Bacteria/*classification Humans Phylogeny RNA, Bacterial/genetics Sequence Analysis, RNA
URL: 9684412
Ref #: 45324
Author(s): Sproer,C.;Mendrock,U.;Swiderski,J.;Lang,E.;Stackebrandt,E.
Journal: Int J Syst Bacteriol
Title: The phylogenetic position of Serratia, Buttiauxella and some other genera of the family Enterobacteriaceae
Volume: 49 Pt 4
Page(s): 1433-8
Year: 1999
Keyword(s): GENBANK/AJ233400 GENBANK/AJ233401 GENBANK/AJ233402 GENBANK/AJ233403 GENBANK/AJ233404 GENBANK/AJ233405 GENBANK/AJ233406 GENBANK/AJ233407 GENBANK/AJ233408 GENBANK/AJ233409 GENBANK/AJ233410 GENBANK/AJ233411 GENBANK/AJ233412 GENBANK/AJ233413 GENBANK/AJ233414 GENBANK/AJ233415 GENBANK/AJ233416 GENBANK/AJ233417 GENBANK/AJ233418 GENBANK/AJ233419 GENBANK/AJ233420 GENBANK/AJ233421 GENBANK/AJ233422 GENBANK/AJ233423 GENBANK/AJ233424 GENBANK/AJ233425 GENBANK/AJ233426 GENBANK/AJ233427 GENBANK/AJ233428 GENBANK/AJ233429 etc. DNA, Ribosomal/genetics Enterobacteriaceae/classification/*genetics Molecular Sequence Data *Phylogeny Polymerase Chain Reaction/methods RNA, Ribosomal, 16S/genetics Sequence Analysis, DNA Serratia/classification/*genetics
Remarks: The phylogenetic relationships of the type strains of 38 species from 15 genera of the family Enterobacteriaceae were investigated by comparative 16S rDNA analysis. Several sequences of strains from the genera Citrobacter, Erwinia, Pantoea, Proteus, Rahnella and Serratia, analysed in this study, have been analysed previously. However, as the sequences of this study differ slightly from the published ones, they were included in the analysis. Of the 23 enterobacterial genera included in an overview dendrogram of relatedness, members of the genera Xenorhabdus, Photorhabdus, Proteus and Plesiomonas were used as a root. The other genera formed two groups which could be separated, although not exclusively, by signature nucleotides at positions 590-649 and 600-638. Group A contains species of Brenneria, Buttiauxella, Citrobacter, Escherichia, Erwinia, Klebsiella, Pantoea, Pectobacterium and Salmonella. All seven type strains of Buttiauxella share 16S rDNA similarities greater than 99%. Group B embraces two phylogenetically separate Serratia clusters, a lineage containing Yersinia species, Rahnella aquatica, Ewingella americana, and also the highly related pair Hafnia alvei and Obesumbacterium proteus.
URL: 10555323
Ref #: 95479
Author(s): Mitterer,G.;Huber,M.;Leidinger,E.;Kirisits,C.;Lubitz,W.;Mueller,M.W.;Schmidt,W.M.
Journal: J Clin Microbiol
Title: Microarray-based identification of bacteria in clinical samples by solid-phase PCR amplification of 23S ribosomal DNA sequences
Volume: 42
Page(s): 1048-57
Year: 2004
Keyword(s): Abortion, Veterinary/microbiology Animals Bacteria/*genetics/*isolation & purification Base Sequence DNA Primers DNA, Bacterial/genetics/isolation & purification DNA, Ribosomal/*genetics/isolation & purification Female Horses *Oligonucleotide Array Sequence Analysis Polymerase Chain Reaction/*methods Pregnancy Pregnancy Complications, Infectious/microbiology/veterinary RNA, Bacterial/genetics/isolation & purification RNA, Ribosomal, 23S/*genetics/isolation & purification
Remarks: The rapid identification of the bacteria in clinical samples is important for patient management and antimicrobial therapy. We describe a DNA microarray-based PCR approach for the quick detection and identification of bacteria from cervical swab specimens from mares. This on-chip PCR method combines the amplification of a variable region of bacterial 23S ribosomal DNA and the simultaneous sequence-specific detection on a solid phase. The solid phase contains bacterial species-specific primers covalently bound to a glass support. During the solid-phase amplification reaction the polymerase elongates perfectly matched primers and incorporates biotin-labeled nucleotides. The reaction products are visualized by streptavidin-cyanine 5 staining, followed by fluorescence scanning. This procedure successfully identified from pure cultures 22 bacteria that are common causes of abortion and sterility in mares. Using the on-chip PCR method, we also tested 21 cervical swab specimens from mares for the presence of pathogenic bacteria and compared the results with those of conventional bacteriological culture methods. Our method correctly identified the bacteria in 12 cervical swab samples, 8 of which contained more than one bacterial species. Due to the higher sensitivity of the on-chip PCR, this method identified bacteria in five cervical swab samples which were not detected by the conventional identification procedure. Our results show that this method will have great potential to be incorporated into the routine microbiology laboratory.
URL: 15004052
Ref #: 95472
Author(s): Rojas,A.M.;de Los Rios,J.E.;Fischer-Le Saux,M.;Jimenez,P.;Reche,P.;Bonneau,S.;Sutra,L.;Mathieu-Daude,F.;McClelland,M.
Journal: Int J Syst Evol Microbiol
Title: Erwinia toletana sp. nov., associated with Pseudomonas savastanoi-induced tree knots
Volume: 54
Page(s): 2217-22
Year: 2004
Keyword(s): GENBANK/AF130885 GENBANK/AF130909 GENBANK/AF130910 GENBANK/AF130953 GENBANK/AF130962 GENBANK/AF130963 GENBANK/AF130964 GENBANK/AF130965 GENBANK/AF130966 GENBANK/AF130968 Bacterial Typing Techniques DNA, Bacterial/chemistry/isolation +ACY-amp+ADs- purification DNA, Ribosomal/chemistry/isolation +ACY-amp+ADs- purification Erwinia/+ACo-classification/cytology/+ACo-isolation +ACY-amp+ADs- purification/metabolism Genes, rRNA Gentian Violet Molecular Sequence Data Nucleic Acid Hybridization Olea/+ACo-microbiology Phenazines Phylogeny Plant Diseases/+ACo-microbiology Pseudomonas/+ACo-isolation +ACY-amp+ADs- purification RNA, Bacterial/genetics RNA, Ribosomal, 16S/genetics Sequence Analysis, DNA
Remarks: Gram-negative bacteria were isolated from knots induced by Pseudomonas savastanoi in olive trees (Olea europaea L.). A total of nine endophytic bacterial strains were isolated, each from inside a different tree knot. Biochemical characterization indicated that all the strains belong to the family Enterobacteriaceae. Phylogenetic analyses of the 16S rRNA genes of these novel isolates revealed that they formed a homogeneous cluster within Erwinia species. DNA signatures of these isolates were identical to those described for the genus Erwinia. The strains formed a homogeneous group as shown by DNA-DNA hybridization analysis and numerical analysis of phenotypic data, clearly differentiated from all species of Erwinia with validly published names. The data provide strong evidence of the differentiation of these strains from the most closely related species. Therefore, these isolates represent a novel species, for which the name Erwinia toletana sp. nov. is proposed. The isolates are available at CFBP, CECT and ATCC. The G content is 520.5 mol+ACU-. The type strain is CFBP 6631(T) (+AD0-A37(T)+AD0-ATCC 700880(T)+AD0-CECT 5263(T)).
URL: 15545461
Ref #: 43181
Author(s): Delmas,J.;Breysse,F.;Devulder,G.;Flandrois,J.P.;Chomarat,M.
Journal: Diagn Microbiol Infect Dis
Title: Rapid identification of Enterobacteriaceae by sequencing DNA gyrase subunit B encoding gene
Volume: 55
Page(s): 263-8
Year: 2006
Keyword(s): Bacterial Typing Techniques/*methods DNA Gyrase/*genetics Enterobacteriaceae/enzymology/genetics/*isolation & purification Genotype Humans Sequence Analysis, DNA/methods
Remarks: Real-time polymerase chain reaction and sequencing were used to characterize a 506-bp-long DNA fragment internal to the gyrB gene (gyrBint). The sequences obtained from 32 Enterobacteriaceae-type strains and those available in the Genbank nucleotide sequence database (n = 24) were used as a database to identify 240 clinical enterobacteria isolates. Sequence analysis of the gyrBint fragment of 240 strains showed that gyrBint constitutes a discriminative target sequence to differentiate between Enterobacteriaceae species. Comparison of these identifications with those obtained by phenotypic methods (Vitek 1 system and/or Rapid ID 32E; bioMerieux, Marcy l'Etoile, France) revealed discrepancies essentially with genera Citrobacter and Enterobacter. Most of the strains identified as Enterobacter cloacae by phenotypic methods were identified as Enterobacter hormaechei strains by gyrBint sequencing. The direct sequencing of gyrBint would be useful as a complementary tool in the identification of clinical Enterobacteriaceae isolates.
URL: 16626902
Ref #: 12300
Author(s): Sproer,C.;Mendrock,U.;Swiderski,J.;Lang,E.;Stackebrandt,E.
Journal: Int J Syst Bacteriol
Title: The phylogenetic position of Serratia, Buttiauxella and some other genera of the family Enterobacteriaceae
Volume: 49 Pt 4
Page(s): 1433-8
Year: 1999
Keyword(s): GENBANK/AJ233400 GENBANK/AJ233401 GENBANK/AJ233402 GENBANK/AJ233403 GENBANK/AJ233404 GENBANK/AJ233405 GENBANK/AJ233406 GENBANK/AJ233407 GENBANK/AJ233408 GENBANK/AJ233409 GENBANK/AJ233410 GENBANK/AJ233411 GENBANK/AJ233412 GENBANK/AJ233413 GENBANK/AJ233414 GENBANK/AJ233415 GENBANK/AJ233416 GENBANK/AJ233417 GENBANK/AJ233418 GENBANK/AJ233419 GENBANK/AJ233420 GENBANK/AJ233421 GENBANK/AJ233422 GENBANK/AJ233423 GENBANK/AJ233424 GENBANK/AJ233425 GENBANK/AJ233426 GENBANK/AJ233427 GENBANK/AJ233428 GENBANK/AJ233429 etc. DNA, Ribosomal/genetics Enterobacteriaceae/classification/*genetics Molecular Sequence Data *Phylogeny Polymerase Chain Reaction/methods RNA, Ribosomal, 16S/genetics Sequence Analysis, DNA Serratia/classification/*genetics
Remarks: The phylogenetic relationships of the type strains of 38 species from 15 genera of the family Enterobacteriaceae were investigated by comparative 16S rDNA analysis. Several sequences of strains from the genera Citrobacter, Erwinia, Pantoea, Proteus, Rahnella and Serratia, analysed in this study, have been analysed previously. However, as the sequences of this study differ slightly from the published ones, they were included in the analysis. Of the 23 enterobacterial genera included in an overview dendrogram of relatedness, members of the genera Xenorhabdus, Photorhabdus, Proteus and Plesiomonas were used as a root. The other genera formed two groups which could be separated, although not exclusively, by signature nucleotides at positions 590-649 and 600-638. Group A contains species of Brenneria, Buttiauxella, Citrobacter, Escherichia, Erwinia, Klebsiella, Pantoea, Pectobacterium and Salmonella. All seven type strains of Buttiauxella share 16S rDNA similarities greater than 99%. Group B embraces two phylogenetically separate Serratia clusters, a lineage containing Yersinia species, Rahnella aquatica, Ewingella americana, and also the highly related pair Hafnia alvei and Obesumbacterium proteus.
URL: 20023023
Ref #: 12648
Author(s): Godfrey,V.;Logan,J.M.;Nicholson,G.;Maggs,A.F.
Journal: Br J Biomed Sci
Title: Problems in identifying blood culture isolates
Volume: 55
Page(s): 12-3
Year: 1998
Keyword(s): GENBANK/AJ001236 GENBANK/AJ001237 GENBANK/AJ001238 GENBANK/AJ001239 GENBANK/AJ001240 GENBANK/AJ001241 GENBANK/AJ001242 GENBANK/AJ001243 GENBANK/AJ001244 GENBANK/AJ001245 Adolescent *Bacterial Typing Techniques Blood/*microbiology Case Report Female Gram-Negative Bacteria/*classification Human Phylogeny RNA, Bacterial/genetics Sequence Analysis, RNA Support, Non-U.S. Gov't
URL: 98349037
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 #: 2942
Author(s): Ewing,W.H.;Five,M.A.
Journal: Int. J. Syst. Bacteriol.
Title: Enterobacter agglomerans (Beijerinck) comb. nov. (the herbicola-lathyri bacteria).
Volume: 22
Page(s): 4-11
Year: 1972
Ref #: 3841
Author(s): Beji,A.;Mergaert,J.;Gavini,F.;Izard,D.;Kersters,K.;Leclerc,H.;DeLey,J.
Journal: Int. J. Syst. Bacteriol.
Title: Subjective synonymy of Erwinia herbicola, Erwinia milletiae and Enterobacter agglomerans and redefinition of the taxon by genotypic and phenotypic data.
Volume: 38
Page(s): 77-88
Year: 1988
Ref #: 4035
Author(s): Gavini,F.;Mergaert,J.;Beji,A.;Mielcarek,C.;Izard,D.;Kersters,K.;DeLey,J.
Journal: Int. J. Syst. Bacteriol.
Title: Transfer of Enterobacter agglomerans (Beijerinck 1888) Ewing and Fife 1972 to Pantoea gen. nov. as Pantoea agglomerans comb. nov. and description of Pantoea dispersa sp. nov.
Volume: 39
Page(s): 337-345
Year: 1989
Data: (ATCC 27155) Type strain / M. S. Pereira, PHLS Salisbury in 1956 / Knee laceration / Enterobacter agglomerans / Ewing, W. H. & Fife, M. A. (1972) Int. J. syst. Bact. 22, 4
Accession Date: 01/01/1956
History: ISOLATED BY PEREIRA M S PHLS SALISBURY
Authority: (Ewing and Fife 1972) Gavini et al. 1989
Depositor: PEREIRA M S
Taxonomy: TaxLink: S2208 (Erwinia herbicola) - 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

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