Characterization of a New Ezakiella Isolated from the Human Vagina: Genome Sequence and Description of Ezakiella massiliensis sp. nov.

Current Microbiology

Volumn 75, Issue 4, 2018, Pages 456-463

  Diop, Khoudia ^a   Andrieu, Claudia ^a   Michelle, Caroline ^a   Armstrong, Nicholas ^a   Bittar, Fadi ^a   Bretelle, Florence ^a   Fournier, Pierre Edouard ^a   Raoult, Didier ^a,b   Fenollar, Florence ^a  

^a AIX MARSEILLE UNIVERSITY   (France)

^b KING ABDULAZIZ UNIVERSITY   (Saudi Arabia)

Author keywords

[No Author keywords available]

Indexed keywords

AMOXICILLIN; CEFTRIAXONE; GENOMIC DNA; IMIPENEM; METRONIDAZOLE; PENICILLIN G; RNA 16S; VANCOMYCIN; FATTY ACID;

ADULT; ANTIBIOTIC SENSITIVITY; ARTICLE; BACTERIAL GROWTH; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATE; CASE REPORT; CLINICAL ARTICLE; DNA BASE COMPOSITION; DNA EXTRACTION; ENZYME ACTIVITY; EZAKIELLA MASSILIENSIS; FATTY ACID ANALYSIS; FEMALE; GENE IDENTIFICATION; GENE SEQUENCE; GENOME ANALYSIS; GRAM POSITIVE BACTERIUM; HUMAN; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; MINIMUM INHIBITORY CONCENTRATION; NONHUMAN; PHENOTYPE; PHYLOGENETIC TREE; PHYLOGENY; PRIORITY JOURNAL; STRAIN IDENTIFICATION; VAGINA FLORA; VAGINITIS; YOUNG ADULT; BACTERIAL GENOME; CHEMISTRY; CLASSIFICATION; FIRMICUTES; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; VAGINA;

ADULT; BACTERIAL TYPING TECHNIQUES; FATTY ACIDS; FEMALE; FIRMICUTES; GENOME, BACTERIAL; HUMANS; PHYLOGENY; VAGINA; VAGINOSIS, BACTERIAL; YOUNG ADULT;

EID: 85035309131     PISSN: 03438651     EISSN: 14320991     Source Type: Journal    
DOI: 10.1007/s00284-017-1402-z     Document Type: Article

References (30)

1. Citron DM, Ostovari MI, Karlsson A, Goldstein EJ (1991) Evaluation of the E test for susceptibility testing of anaerobic bacteria. J Clin Microbiol 29:2197–2203
2. Collins MD, Facklam RR, Rodrigues UM, Ruoff KL (1993) Phylogenetic analysis of some Aerococcus-like organisms from clinical sources: description of Helcococcus kunzii gen. nov., sp. nov. Int J Syst Evol Microbiol 43:425–429
3. Dione N, Sankar SA, Lagier JC, Khelaifia S, Michele C, Armstrong N, Richez M, Abrahão J, Raoult D, Fournier PE (2016) Genome sequence and description of Anaerosalibacter massiliensis sp. nov. New Microbes New Infect 10:66–76
4. T, a new bacterial genus isolated from the human vagina. New Microbes New Infect 15:94–103
5. Diop K, Diop A, Bretelle F, Cadoret F, Michelle C, Richez M, Cocallemen JF, Raoult D, Fournier PE, Fenollar F (2017) Olegusella massiliensis gen. nov., sp. nov., strain KHD7T, a new bacterial genus isolated from the female genital tract of a patient with bacterial vaginosis. Anaerobe 44:87–95
6. Diop K, Raoult D, Bretelle F, Fenollar F (2016) “Murdochiella vaginalis” sp. nov., a new bacterial species cultivated from the vaginal flora of a woman with bacterial vaginosis. Hum Microbiome J 2:15–16
7. Drancourt M, Bollet C, Carlioz A, Martelin R, Gayral JP, Raoult D (2000) 16S ribosomal DNA sequence analysis of a large collection of environmental and clinical unidentifiable bacterial isolates. J Clin Microbiol 38:3623–3630
8. Ezaki T, Kawamura Y, Li N, Li ZY, Zhao L, Shu S (2001) Proposal of the genera Anaerococcus gen. nov., Peptoniphilus gen. nov. and Gallicola gen. nov. for members of the genus Peptostreptococcus. Int J Syst Evol Microbiol 51:1521–1528
9. Fredricks DN, Fiedler TL, Marrazzo JM (2005) Molecular identification of bacteria associated with bacterial vaginosis. N Engl J Med 353:1899–1911
10. Gouret P, Paganini J, Dainat J, Louati D, Darbo E, Pontarotti P, Levasseur A (2011) Integration of evolutionary biology concepts for functional annotation and automation of complex research in evolution: the multi-agent software system DAGOBAH. In: Pontarotti P (ed) Evolutionary biology—concepts, biodiversity, macroevolution and genome evolution. Springer, Berlin, pp 71–87
11. Gouret P, Vitiello V, Balandraud N, Gilles A, Pontarotti P, Danchin EG (2005) FIGENIX: intelligent automation of genomic annotation: expertise integration in a new software platform. BMC Bioinform 6:198
12. Kim M, Oh H-S, Park SC, Chun J (2014) Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 64:346–351
13. Lagier JC, Armougom F, Million M, Hugon P, Pagnier I, Robert C, Bittar F, Fournous G, Gimenez G, Maraninchi M, Trape JF, Koonin EV, La Scola B, Raoult D (2012) Microbial culturomics: paradigm shift in the human gut microbiome study. Clin Microbiol Infect 18:1185–1193
14. Lagier JC, Hugon P, Khelaifia S, Fournier PE, La Scola B, Raoult D (2015) The rebirth of culture in microbiology through the example of culturomics to study human gut microbiota. Clin Microbiol Rev 28:237–264
15. Lamont RF, Sobel JD, Akins RA, Hassan SS, Chaiworapongsa T, Kusanovic JP, Romero R (2011) The vaginal microbiome: new information about genital tract flora using molecular based techniques. BJOG 118:533–549
16. LPSN Ezakiella. In: LPSN. http://www.bacterio.net/ezakiella.html. Accessed 26 Jan 2017
17. Matuschek E, Brown DF, Kahlmeter G (2014) Development of the EUCAST disk diffusion antimicrobial susceptibility testing method and its implementation in routine microbiology laboratories. Clin Microbiol Infect 20:O255–O266
18. Menard J, Fenollar F, Henry M, Bretelle F, Raoult D (2008) Molecular quantification of Gardnerella vaginalis and Atopobium vaginae loads to predict bacterial vaginosis. Clin Infect Dis 47:33–43
19. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M (2013) Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinform 14:60
20. Murdoch DA (1998) Gram-positive anaerobic cocci. Clin Microbiol Rev 11:81–120
21. Murdoch DA, Mitchelmore IJ, Tabaqchali S (1994) The clinical importance of gram-positive anaerobic cocci isolated at St Bartholomew’s Hospital, London, in 1987. J Med Microbiol 41:36–44
22. Murdoch DA, Shah HN (1999) Reclassification of Peptostreptococcus magnus (Prevot 1933) Holdeman and Moore 1972 as Finegoldia magna. comb.nov. and Peptostreptococcus micros (Prevot 1933) Smith 1957 as Micromonas micros comb. nov. Anaerobe 5:555–559
23. Murray PR, Baron EJ, Jorgensen JH, Landry ML, Pfaller MA (2007) Manual of clinical microbiology, 9th edn. ASM Press, Washington, D.C.
24. Oren A, Garrity GM (2015) List of new names and new combinations previously effectively, but not validly, published. Int J Syst Evol Microbiol 65:1105–1111
25. Patel NB, Tito RY, Obregón-Tito AJ, O’Neal L, Trujillo-Villaroel O, Marin-Reyes L, Troncoso-Corzo L, Guija-Poma E, Hamada M, Uchino Y, Lewis CM, Lawson PA (2015) Ezakiella peruensis gen. nov., sp. nov. isolated from human fecal sample from a coastal traditional community in Peru. Anaerobe 32:43–48
26. Ramasamy D, Mishra AK, Lagier JC, Padhmanabhan R, Rossi M, Sentausa E, Raoult D, Fournier PE (2014) A polyphasic strategy incorporating genomic data for the taxonomic description of novel bacterial species. Int J Syst Evol Microbiol 64:384–391
27. Sasser M (2006) Bacterial identification by gas chromatographic analysis of fatty acids methyl esters (GC-FAME). MIDI, Technical Note
28. Seng P, Drancourt M, Gouriet F, La Scola B, Fournier P, Rolain JM, Raoult D (2009) Ongoing revolution in bacteriology: routine identification of bacteria by matrix-assisted laser desorption ionization time-of-flight mass spectrometry. Clin Infect Dis 49:543–551
29. Stackebrandt E, Ebers J (2006) Taxonomic parameters revisited: tarnished gold standards. Microbiol Today 33:152
30. Tindall BJ, Euzeby JP (2006) Proposal of Parvimonas gen. nov. and Quatrionicoccus gen. nov. as replacements for the illegitimate, prokaryotic, generic names Micromonas Murdoch and Shah 2000 and Quadricoccus Maszenan et al. 2002, respectively. Int J Syst Evol Microbiol 56:2711–2713