1887

Abstract

Strain PFL01 was isolated from traditional Korean fermented clam, jogae-jeotgal, and characterized. The strain was a facultative anaerobic, Gram-stain-negative bacterium that was rod-shaped, motile and beige-pigmented. The phylogenetic sequence analysis based on the 16S rRNA gene from PFL01 revealed that it was closely related to LMG 10245 and LMG 2784 with 99.3 and 99.3 % sequence identities, respectively. Multilocus sequence type analysis of concatenated partial , , and gene sequences showed a clear distinction of strain PFL01 from its closest related type strains. The discrimination was also supported by unique repetitive extragenic palindromic PCR (Rep-PCR, ERIC-PCR) fingerprint patterns. In addition, results from average nucleotide identity analyses with other species were less than 85 %. and API analyses revealed distinct characteristics from other species of . The cellular fatty acid profile of the strain consisted of C, cyclo-C, Cω7/Cω6 and Cω7/Cω6 as major components. The whole genome of PFL01 was 4.6 Mb with a G+C content of 55.3 mol%. Based on these results, strain PFL01 was classified as a novel species of the genus , for which the name sp. nov. is proposed. The type strain in PFL01 (=KCCM 43247=JCM 31901).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.002737
2018-05-01
2022-01-25
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/68/5/1725.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.002737&mimeType=html&fmt=ahah

References

  1. Brady C, Cleenwerck I, Venter S, Coutinho T, de Vos P. Taxonomic evaluation of the genus Enterobacter based on multilocus sequence analysis (MLSA): proposal to reclassify E. nimipressuralis and E. amnigenus into Lelliottia gen. nov. as Lelliottia nimipressuralis comb. nov. and Lelliottia amnigena comb. nov., respectively, E. gergoviae and E. pyrinus into Pluralibacter gen. nov. as Pluralibacter gergoviae comb. nov. and Pluralibacter pyrinus comb. nov., respectively, E. cowanii, E. radicincitans, E. oryzae and E. arachidis into Kosakonia gen. nov. as Kosakonia cowanii comb. nov., Kosakonia radicincitans comb. nov., Kosakonia oryzae comb. nov. and Kosakonia arachidis comb. nov., respectively, and E. turicensis, E. helveticus and E. pulveris into Cronobacter as Cronobacter zurichensis nom. nov., Cronobacter helveticus comb. nov. and Cronobacter pulveris comb. nov., respectively, and emended description of the genera Enterobacter and Cronobacter. Syst Appl Microbiol 2013; 36:309–319 [View Article][PubMed]
    [Google Scholar]
  2. Carter CJ. Wetwood of Elms Champaign: Illinois Natural History Survey Bulletin; v 023, no 04 1945
    [Google Scholar]
  3. Brenner DJ, McWhorter AC, Kai A, Steigerwalt AG, Farmer JJ. Enterobacter asburiae sp. nov., a new species found in clinical specimens, and reassignment of Erwinia dissolvens and Erwinia nimipressuralis to the genus Enterobacter as Enterobacter dissolvens comb. nov. and Enterobacter nimipressuralis comb. nov. J Clin Microbiol 1986; 23:1114–1120[PubMed]
    [Google Scholar]
  4. Izard D, Gavini F, Trinel PA, Leclerc H. Deoxyribonucleic acid relatedness between Enterobacter cloacae and Enterobacter amnigenus sp. nov. Int J Syst Bacteriol 1981; 31:35–42 [View Article]
    [Google Scholar]
  5. Batt CA, Robinson RK. Encyclopedia of Food Microbiology Amsterdam, Netherlands: Elsevier Science; 2014. pp. 195–250
    [Google Scholar]
  6. Liu S, Tang Y. Identification and characterization of a new Enterobacter onion bulb decay caused by Lelliottia amnigena in China. Appl Microbiol Open Access 2016; 2:2 [View Article]
    [Google Scholar]
  7. Tamagnini LM, de Sousa GB, González RD, Budde CE. Behavior of Enterobacter amnigenus and Salmonella typhimurium in Crottin goat's cheese: influence of fluctuating storage temperature. Small Rumin Res 2008; 76:177–182 [View Article]
    [Google Scholar]
  8. García Fontán MC, Lorenzo JM, Parada A, Franco I, Carballo J. Microbiological characteristics of "androlla", a Spanish traditional pork sausage. Food Microbiol 2007; 24:52–58 [View Article][PubMed]
    [Google Scholar]
  9. Kim DM, Jang SJ, Neupane GP, Jang MS, Kwon SH et al. Enterobacter nimipressuralis as a cause of pseudobacteremia. BMC Infect Dis 2010; 10:315 [View Article][PubMed]
    [Google Scholar]
  10. Bollet C, Elkouby A, Pietri P, de Micco P. Isolation of Enterobacter amnigenus from a heart transplant recipient. Eur J Clin Microbiol Infect Dis 1991; 10:1071–1073 [View Article][PubMed]
    [Google Scholar]
  11. Westerfeld C, Papaliodis GN, Behlau I, Durand ML, Sobrin L. Enterobacter amnigenus endophthalmitis. Retin Cases Brief Rep 2009; 3:409–411 [View Article][PubMed]
    [Google Scholar]
  12. Lane D. 16S/23S rRNA sequencing. In Stackebrandt E, Goodfellow M. (editors) Nucleic Acid Techniques in Bacterial Systematics Chichester, UK: John Wiley and Sons; 1991 pp. 115–175
    [Google Scholar]
  13. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol 1990; 215:403–410 [View Article][PubMed]
    [Google Scholar]
  14. Yoon SH, Ha SM, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67:1613–1617 [View Article][PubMed]
    [Google Scholar]
  15. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30:2725–2729 [View Article][PubMed]
    [Google Scholar]
  16. Felenstein J. Inferring phylogenies Sunderland, MA: Sinauer associates; 2004
    [Google Scholar]
  17. Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 1980; 16:111–120 [View Article][PubMed]
    [Google Scholar]
  18. Brady C, Cleenwerck I, Venter S, Vancanneyt M, Swings J et al. Phylogeny and identification of Pantoea species associated with plants, humans and the natural environment based on multilocus sequence analysis (MLSA). Syst Appl Microbiol 2008; 31:447–460 [View Article][PubMed]
    [Google Scholar]
  19. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009; 106:19126–19131 [View Article][PubMed]
    [Google Scholar]
  20. Goris J, Konstantinidis KT, Klappenbach JA, Coenye T, Vandamme P et al. DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 2007; 57:81–91 [View Article][PubMed]
    [Google Scholar]
  21. Rodríguez JM, López-Romalde S, Beaz R, Alonso MC, Castro D et al. Molecular fingerprinting of Vibrio tapetis strains using three PCR-based methods: ERIC-PCR, REP-PCR and RAPD. Dis Aquat Organ 2006; 69:175–183 [View Article][PubMed]
    [Google Scholar]
  22. Olive DM, Bean P. Principles and applications of methods for DNA-based typing of microbial organisms. J Clin Microbiol 1999; 37:1661–1669[PubMed]
    [Google Scholar]
  23. Versalovic J, Koeuth T, Lupski JR. Distribution of repetitive DNA sequences in eubacteria and application to fingerprinting of bacterial genomes. Nucleic Acids Res 1991; 19:6823–6831 [View Article][PubMed]
    [Google Scholar]
  24. Ventura M, Zink R. Rapid identification, differentiation, and proposed new taxonomic classification of Bifidobacterium lactis. Appl Environ Microbiol 2002; 68:6429–6434 [View Article][PubMed]
    [Google Scholar]
  25. Jung SG, Jang JH, Kim AY, Lim MC, Kim B et al. Removal of pathogenic factors from 2,3-butanediol-producing Klebsiella species by inactivating virulence-related wabG gene. Appl Microbiol Biotechnol 2013; 97:1997–2007 [View Article][PubMed]
    [Google Scholar]
  26. Tittsler RP, Sandholzer LA. The use of semi-solid agar for the detection of bacterial motility. J Bacteriol 1936; 31:575–580[PubMed]
    [Google Scholar]
  27. Suzuki K, Goodfellow M, O’Donnell AG. Cell envelopes and classification. In Handbook of New Bacterial Systematics London, United Kingdom: Academic Press; 1993 pp. 195–250
    [Google Scholar]
  28. Lee SH, Ku HJ, Ahn MJ, Hong JS, Lee SH et al. Weissella jogaejeotgali sp. nov., isolated from jogae jeotgal, a traditional Korean fermented seafood. Int J Syst Evol Microbiol 2015; 65:4674–4681 [View Article][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.002737
Loading
/content/journal/ijsem/10.1099/ijsem.0.002737
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF

Most cited this month Most Cited RSS feed

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error