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Bacteria Collection: Yersinia intermedia

NCTC Number: NCTC 11469
Current Name: Yersinia intermedia
Original Strain Reference: 3953; Bottone 48; Chester 48
Other Collection No: ATCC 29909; CCUG 11292; CIP 80.28; DSM 18517; WDCM 00217
Previous Catalogue Name: Yersinia intermedia
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
Conditions for growth on liquid media: nutrient broth,37, facultative anaerobe
Isolated From: not recorded
Whole Genome Sequence: http://www.ebi.ac.uk/ena/data/view/ERS473431
Annotated Genome: ftp://ftp.sanger.ac.uk/pub/project/pathogens/NCTC3000/...
16S rRNA Gene Sequence: >gb|AF366380|ATCC 29909|Yersinia intermedia 16S ribosomal RNA gene, partial sequence.| attgaacgctggcgg... >gb|AY332825|ATCC 29909|Yersinia intermedia strain ATCC 29909 16S ribosomal RNA gene,partial sequence.| tgcaagtcgagcggc...
23S rRNA Gene Sequence: >gb|DQ115783|ATCC 29909|Yersinia intermedia 23S ribosomal RNA gene, partial sequence.| tgcgaggcgaaccgg...
Miscellaneous Sequence Data: >gb|AY370873|ATCC 29909|Yersinia intermedia ATCC 29909 gyrase B (gyrB) gene, partial cds.| aaagtttctggcggt...
Bibliography: BRENNER D J ET AL 1980 CURRENT MICROBIOLOGY 4 207 212
Extended Bibliography: showhide Show bibliography
Ref #: 95482
Author(s): Kim,W.;Song,M.O.;Song,W.;Kim,K.J.;Chung,S.I.;Choi,C.S.;Park,Y.H.
Journal: Antonie Van Leeuwenhoek
Title: Comparison of 16S rDNA analysis and rep-PCR genomic fingerprinting for molecular identification of Yersinia pseudotuberculosis
Volume: 83
Page(s): 125-33
Year: 2003
Keyword(s): GENBANK/AF365934 GENBANK/AF365935 GENBANK/AF365936 GENBANK/AF365937 GENBANK/AF365938 GENBANK/AF365939 GENBANK/AF365940 GENBANK/AF365941 GENBANK/AF365942 GENBANK/AF365943 GENBANK/AF365944 GENBANK/AF365945 GENBANK/AF365946 GENBANK/AF365947 GENBANK/AF365948 GENBANK/AF365949 GENBANK/AF365950 GENBANK/AF366375 GENBANK/AF366376 GENBANK/AF366377 GENBANK/AF366378 GENBANK/AF366379 GENBANK/AF366380 GENBANK/AF366381 GENBANK/AF366382 GENBANK/AF366383 GENBANK/AF366384 GENBANK/AF366385 DNA Fingerprinting/*methods DNA, Bacterial/analysis DNA, Ribosomal/analysis Genome, Bacterial Humans Molecular Sequence Data Phylogeny Polymerase Chain Reaction/*methods RNA, Ribosomal, 16S/*genetics *Sequence Analysis, DNA Yersinia pestis/classification/genetics Yersinia pseudotuberculosis/*classification/genetics
Remarks: 16S rDNA sequence analysis and repetitive element sequence-based PCR (rep-PCR) genomic fingerprinting were evaluated on 11 type strains of the genus Yersinia and 17 recognized serotype strains of Y. pseudotuberculosis to investigate their genetic relatedness and to establish the value of techniques for the identification of Y. pseudotuberculosis. A phylogenetic tree constructed from 16S rDNA sequences showed that the type strains of Yersinia species formed distinct clusters with the exception of Y. pestis and Y. pseudotuberculosis. Moreover, Y. pestis NCTC 5923T was found to be closely related to Y. pseudotuberculosis serotypes 1b, 3, and 7. Dendrograms generated from REP-PCR, and ERIC-PCR data revealed that members of the genus Yersinia differed from each other with the degree of similarity 62% and 58%, respectively. However, the BOX-PCR results showed that Y. pestis 5923T clustered with the Y. pseudotuberculosis group with a degree of similarity 74%. According to these findings, 16S rDNA sequence analysis was unable to reliably discriminate Y. pseudotuberculosis from Y. pestis. However, REP-PCR and especially ERIC-PCR provided an effective means of differentiating between members of the taxa.
URL: 12785306
Ref #: 94829
Author(s): Kotetishvili,M.;Kreger,A.;Wauters,G.;Morris JG,J.r.;Sulakvelidze,A.;Stine,O.C.
Journal: J Clin Microbiol
Title: Multilocus sequence typing for studying genetic relationships among Yersinia species
Volume: 43
Page(s): 2674-84
Year: 2005
Keyword(s): GENBANK/AY332802 GENBANK/AY332803 GENBANK/AY332804 GENBANK/AY332805 GENBANK/AY332806 GENBANK/AY332807 GENBANK/AY332808 GENBANK/AY332809 GENBANK/AY332810 GENBANK/AY332811 GENBANK/AY332812 GENBANK/AY332813 GENBANK/AY332814 GENBANK/AY332815 GENBANK/AY332816 GENBANK/AY332817 GENBANK/AY332818 GENBANK/AY332819 GENBANK/AY332820 GENBANK/AY332821 GENBANK/AY332822 GENBANK/AY332823 GENBANK/AY332824 GENBANK/AY332825 GENBANK/AY332826 GENBANK/AY332827 GENBANK/AY332828 GENBANK/AY332829 GENBANK/AY332830 GENBANK/AY332831 GENBANK/AY332832 GENBANK/AY332833 GENBANK/AY332834 GENBANK/AY332835 GENBANK/AY332836 GENBANK/AY332837 GENBANK/AY332838 GENBANK/AY332839 GENBANK/AY332840 GENBANK/AY332841 GENBANK/AY332842 GENBANK/AY332843 GENBANK/AY332844 GENBANK/AY332845 GENBANK/AY332846 GENBANK/AY332847 GENBANK/AY332848 GENBANK/AY332849 GENBANK/AY332850 GENBANK/AY332851 GENBANK/AY332852 GENBANK/AY332853 GENBANK/AY332854 GENBANK/AY332855 GENBANK/AY332856 GENBANK/AY332857 GENBANK/AY332858 GENBANK/AY332859 GENBANK/AY332860 GENBANK/AY332861 GENBANK/AY332862 GENBANK/AY332863 GENBANK/AY332864 GENBANK/AY332865 GENBANK/AY332866 GENBANK/AY332867 GENBANK/AY332868 GENBANK/AY332869 GENBANK/AY332870 GENBANK/AY332871 GENBANK/AY332872 GENBANK/AY332873 GENBANK/AY332874 GENBANK/AY332875 GENBANK/AY332876 GENBANK/AY332877 GENBANK/AY332878 GENBANK/AY332879 GENBANK/AY332880 GENBANK/AY332881 GENBANK/AY332882 GENBANK/AY332883 GENBANK/AY332884 GENBANK/AY332885 GENBANK/AY332886 GENBANK/AY332887 GENBANK/AY332888 GENBANK/AY332889 GENBANK/AY332890 GENBANK/AY332891 GENBANK/AY332892 GENBANK/AY332893 GENBANK/AY332894 GENBANK/AY332895 GENBANK/AY332896 GENBANK/AY332897 GENBANK/AY332898 GENBANK/AY332899 GENBANK/AY332900 GENBANK/AY332901 GENBANK/AY332902 GENBANK/AY332903 GENBANK/AY332904 GENBANK/AY332905 GENBANK/AY332906 GENBANK/AY332907 GENBANK/AY332908 GENBANK/AY332909 GENBANK/AY332910 GENBANK/AY332911 GENBANK/AY332912 GENBANK/AY332913 GENBANK/AY332914 GENBANK/AY332915 GENBANK/AY332916 GENBANK/AY332917 GENBANK/AY332918 GENBANK/AY332919 GENBANK/AY332920 GENBANK/AY332921 GENBANK/AY332922 GENBANK/AY332923 GENBANK/AY332924 GENBANK/AY332925 GENBANK/AY332926 GENBANK/AY332927 GENBANK/AY332928 GENBANK/AY332929 GENBANK/AY332930 GENBANK/AY332931 GENBANK/AY332932 GENBANK/AY332933 GENBANK/AY332934 GENBANK/AY332935 GENBANK/AY332936 GENBANK/AY332937 GENBANK/AY332938 GENBANK/AY332939 GENBANK/AY332940 GENBANK/AY332941 GENBANK/AY332942 GENBANK/AY332943 GENBANK/AY332944 GENBANK/AY332945 GENBANK/AY332946 GENBANK/AY332947 GENBANK/AY332948 GENBANK/AY332949 GENBANK/AY332950 GENBANK/AY332951 GENBANK/AY332952 GENBANK/AY332953 GENBANK/AY332954 GENBANK/AY332955 GENBANK/AY332956 GENBANK/AY332957 GENBANK/AY332958 GENBANK/AY332959 GENBANK/AY332960 GENBANK/AY332961 GENBANK/AY332962 GENBANK/AY332963 GENBANK/AY332964 GENBANK/AY332965 GENBANK/AY332966 GENBANK/AY332967 GENBANK/AY332968 GENBANK/AY332969 GENBANK/AY332970 GENBANK/AY332971 GENBANK/AY332972 GENBANK/AY332973 GENBANK/AY332974 GENBANK/AY332975 GENBANK/AY332976 GENBANK/AY332977 GENBANK/AY332978 GENBANK/AY332979 GENBANK/AY332980 GENBANK/AY332981 GENBANK/AY332982 GENBANK/AY332983 GENBANK/AY332984 GENBANK/AY332985 GENBANK/AY332986 GENBANK/AY332987 GENBANK/AY332988 GENBANK/AY332989 GENBANK/AY332990 GENBANK/AY332991 GENBANK/AY332992 GENBANK/AY332993 GENBANK/AY332994 GENBANK/AY332995 GENBANK/AY332996 GENBANK/AY332997 GENBANK/AY332998 GENBANK/AY332999 GENBANK/AY333000 GENBANK/AY333001 GENBANK/AY333002 GENBANK/AY333003 GENBANK/AY333004 GENBANK/AY333005 GENBANK/AY333006 GENBANK/AY333007 GENBANK/AY333008 GENBANK/AY333009 GENBANK/AY333010 GENBANK/AY333011 GENBANK/AY333012 GENBANK/AY333013 GENBANK/AY333014 GENBANK/AY333015 GENBANK/AY333016 GENBANK/AY333017 GENBANK/AY333018 GENBANK/AY333019 GENBANK/AY333020 GENBANK/AY333021 GENBANK/AY333022 GENBANK/AY333023 GENBANK/AY333024 GENBANK/AY333025 GENBANK/AY333026 GENBANK/AY333027 GENBANK/AY333028 GENBANK/AY333029 GENBANK/AY333030 GENBANK/AY333031 GENBANK/AY333032 GENBANK/AY333033 GENBANK/AY333034 GENBANK/AY333035 GENBANK/AY333036 GENBANK/AY333037 GENBANK/AY333038 GENBANK/AY333039 GENBANK/AY333040 GENBANK/AY333041 GENBANK/AY333042 GENBANK/AY333043 GENBANK/AY333044 GENBANK/AY333045 GENBANK/AY333046 GENBANK/AY333047 GENBANK/AY333048 GENBANK/AY333049 GENBANK/AY333050 GENBANK/AY333051 GENBANK/AY333052 GENBANK/AY333053 GENBANK/AY333054 GENBANK/AY333055 GENBANK/AY333056 GENBANK/AY333057 GENBANK/AY333058 GENBANK/AY333059 GENBANK/AY333060 GENBANK/AY333061 GENBANK/AY333062 GENBANK/AY333063 GENBANK/AY333064 GENBANK/AY333065 GENBANK/AY333066 GENBANK/AY333067 GENBANK/AY333068 GENBANK/AY333069 Animals Bacterial Proteins/*genetics Bacterial Typing Techniques DNA, Bacterial/analysis DNA, Ribosomal/analysis Dogs Humans Molecular Sequence Data RNA, Ribosomal, 16S/*genetics *Sequence Analysis, DNA Variation (Genetics) Yersinia/*classification/*genetics
Remarks: The intra- and interspecies genetic relationships of 58 strains representing all currently known species of the genus Yersinia were examined by multilocus sequence typing (MLST), using sequence data from 16S RNA, glnA, gyrB, recA, and Y-HSP60 loci. Yersinia aldovae, Y. bercovieri, Y. intermedia, Y. pestis, Y. pseudotuberculosis, Y. rohdei, and Y. ruckeri were genetically more homogeneous than were Y. enterocolitica, Y. frederiksenii, Y. kristensenii, and Y. mollaretii. The MLST data concerning the genetic relatedness within and among various species of Yersinia support the idea that Y. pestis and Y. pseudotuberculosis are two lineages within the same species rather than two distinct species. Y. ruckeri is the genetically most distant species within the genus. There was evidence of O-antigen switching and genetic recombination within and among various species of Yersinia. The genetic relatedness data obtained by MLST of the four housekeeping genes and 16S RNA agreed in most, but not all, instances. MLST was better suited for determining genetic relatedness among yersiniae than was 16S RNA analysis. Some strains of Y. frederiksenii and Y. kristensenii are genetically less related to other strains within those species, compared to strains of all other species within the genus. The taxonomic standing of these strains should be further examined because they may represent currently unrecognized Yersinia species.
URL: 15956383
Ref #: 95003
Author(s): Cocolin,L.;Comi,G.
Journal: Int J Food Microbiol
Title: Use of a culture-independent molecular method to study the ecology of Yersinia spp. in food
Volume: 105
Page(s): 71-82
Year: 2005
Keyword(s): Colony Count, Microbial/methods DNA, Bacterial/*analysis Electrophoresis, Agar Gel/methods Food Contamination/*analysis Food Microbiology Polymerase Chain Reaction/*methods Serotyping Species Specificity Vegetables/*microbiology Yersinia/*isolation & purification
Remarks: A culture-independent method for the direct detection in food of Yersinia spp. was developed in this study. It is based on the amplification of a 359 bp PCR product from the RNA polymerase beta-subunit gene (rpoB) and subsequent analysis by denaturing gradient gel electrophoresis (DGGE). Direct detection of Yersinia spp. by PCR-DGGE was carried out in ready-to-eat vegetables and the results compared with the results of the traditional, culture-dependent method. The DGGE profiles were determined to be species-specific. As a matter of fact, Yersinia enterocolitica, Yersinia intermedia, Yersinia frederiskenii and Yersinia kristensenii showed differential migrations in the gels. Moreover, Y. enterocolitica serotypes O:3, O:5 and O:9 were distinguishable, as well. Only for a limited number of traditionally isolated strains, the biochemical and molecular identification agree. In particular, an overestimation of Y. enterocolitica, as determined biochemically, was observed. Finally when the protocol was applied to 27 food samples, a good correlation was obtained when the results of traditional and direct methods were analyzed. The molecular method was able to identify Y. enterocolitica, not detected by plating analysis. However, for 4 samples, that, by plating analysis, were determined to contain Yersinia spp., no PCR product could be obtained after enrichment, probably due to low numbers of target cells, thereby not allowing the possibility to perform DGGE analysis. The protocol described here represents a reliable tool for the detection of Yersinia spp. in food, which can be used to obtain the needed results faster than with traditional culturing methods.
URL: 16085330
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
Data: (ATCC 29909, CIP 80. 28) Type strain / Centre Nationale des Yersinia / Brenner, D. J. et al. (1980) Current Microbiology 4, 207-212
Accession Date: 01/01/1982
History: CENTRE NATIONALE DES YERSINIA;CPHL,COLINDALE,LONDON
Authority: Brenner et al. 1981 (ALI)
Depositor: HOLMES B
Taxonomy: TaxLink: S3613 (Yersinia intermedia Brenner et al. 1981) - 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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