Document Detail

Draft Genome Sequence of Enterococcus hirae Strain INF E1 Isolated from Cultured Milk.
Jump to Full Text
MedLine Citation:
PMID:  25035319     Owner:  NLM     Status:  PubMed-not-MEDLINE    
Abstract/OtherAbstract:
Here, we present the draft genome of Enterococcus hirae INF E1, found as a contaminant in cultured milk and studied for its ability to metabolize milk fat globule membrane glycoconjugates.
Authors:
Davide Porcellato; Hilde M Ostlie; Siv B Skeie
Related Documents :
24185339 - Genotypic and media factors affecting stabilization of polyembryogenic cultures in norw...
24781899 - Discovery of a sar11 growth requirement for thiamin's pyrimidine precursor and its dist...
23279469 - Chromatin patterns of immature canine oocytes after in vitro maturation.
24212679 - Bacterial productivity in ponds used for culture of penaeid prawns.
24167959 - Viability of probiotic lactobacillus casei in yoghurt: defining the best processing ste...
22976279 - Nucleoli from two-cell embryos support the development of enucleolated germinal vesicle...
8806459 - Pai-1 gene expression is growth state-regulated in cultured human epidermal keratinocyt...
19885679 - Synaptogenesis of hippocampal neurons in primary cell culture.
8106569 - Culture of a prostatic cell line in basement membrane gels results in an enhancement of...
Publication Detail:
Type:  Journal Article     Date:  2014-07-17
Journal Detail:
Title:  Genome announcements     Volume:  2     ISSN:  2169-8287     ISO Abbreviation:  Genome Announc     Publication Date:  2014  
Date Detail:
Created Date:  2014-07-18     Completed Date:  2014-07-18     Revised Date:  2014-07-24    
Medline Journal Info:
Nlm Unique ID:  101595808     Medline TA:  Genome Announc     Country:  United States    
Other Details:
Languages:  eng     Pagination:  -     Citation Subset:  -    
Copyright Information:
Copyright © 2014 Porcellato et al.
Export Citation:
APA/MLA Format     Download EndNote     Download BibTex
MeSH Terms
Descriptor/Qualifier:

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine

Full Text
Journal Information
Journal ID (nlm-ta): Genome Announc
Journal ID (iso-abbrev): Genome Announc
Journal ID (hwp): ga
Journal ID (pmc): ga
Journal ID (publisher-id): GA
ISSN: 2169-8287
Publisher: American Society for Microbiology, 1752 N St., N.W., Washington, DC
Article Information
Download PDF
Copyright © 2014 Porcellato et al.
open-access:
Received Day: 5 Month: 5 Year: 2014
Accepted Day: 26 Month: 6 Year: 2014
Electronic publication date: Day: 17 Month: 7 Year: 2014
collection publication date: Season: Jul-Aug Year: 2014
Volume: 2 Issue: 4
E-location ID: e00498-14
PubMed Id: 25035319
ID: 4102856
Publisher Id: genomeA00498-14
DOI: 10.1128/genomeA.00498-14

Draft Genome Sequence of Enterococcus hirae Strain INF E1 Isolated from Cultured Milk
Davide Porcellato
Hilde M. Østlie
Siv B. Skeie
Department of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences, Aas, Norway
Correspondence: Address correspondence to Davide Porcellato, davide.porcellato@nmbu.no.

GENOME ANNOUNCEMENT

The finding of the genus Enterococcus in the cheese environment is controversial. Its presence is considered essential for flavor development in some Mediterranean cheese varieties, while in most other cheeses it is considered negative, as some strains of this genus are opportunistic pathogens (1, 2). The main source of Enterococcus spp. in dairy products is the environmental contamination of milk, and in case of traditional fermented cheese made from raw milk the presence of Enterococcus spp. has been well described (3, 4). Some Enterococcus strains isolated from the dairy environment have previously shown good adaptability to grow in cheese environments as nonstarter lactic acid bacteria (5). Metabolic studies have shown interesting features of a cultured milk isolate of Enterococcus hirae (INF E1) regarding its ability to utilize most milk fat globule membrane monosaccharides (6) and to survive the harsh conditions in the gastrointestinal tract (7). This suggests that E. hirae INF E1 survives in high numbers during cheese ripening and enters the intestine in good shape.

Here, we present the draft genome sequence of the cultured milk isolate E. hirae INF E1. Good-quality DNA was submitted for sequencing on an Illumina MiSeq platform at the Norwegian Sequencing Center (University of Oslo, Oslo, Norway) with 150-fold coverage of the genome. High-quality reads were de novo assembled using CLC Genomics Workbench 5.5 (CLC bio). Contigs obtained from the assembler and with lengths over 1,000 bp and coverages over 20× were oriented and ordered against the complete genome sequence of E. hirae ATCC 9790 using progressiveMauve (8). Coding DNA sequences (CDS) were predicted and annotated using the NCBI Prokaryotic Genome Annotation Pipeline (9).

The draft genome of E. hirae INF E1 consists of 22 contigs, for a total of 2,807,725 bp with a GC content of 36.8%. The largest contig is 560,880 bp. The total number of coding sequences (CDS) was 2,404 and the number of RNAs was 53. A plasmid of length 5,376 bp was found and encoded 7 hypothetical proteins. Two confirmed clustered regularly interspaced short palindromic repeat (CRISPR) arrays were identified using CRISPRfinder (10).

Interestingly, three gene clusters for the production of secondary metabolites were identified using the Antibiotics and Secondary Metabolite Analysis Shell (11). The three gene clusters encode proteins for the production of a putative class II lantipeptide, a terpene, and a bacteriocin. The construction of the metabolic model for E. hirae INF E1 will help to elucidate the possible energy sources and metabolic pathways present in this isolate and the biological importance and adaptation of this species in the dairy environment.

Nucleotide sequence accession numbers.

This whole-genome shotgun project has been deposited at DDBJ/EMBL/GenBank under the accession number JMIG00000000. The version described in this paper is version JMIG01000000.


Notes

Citation Porcellato D, Østlie HM, Skeie SB. 2014. Draft genome sequence of Enterococcus hirae strain INF E1 isolated from cultured milk. Genome Announc. 2(4):e00498-14. doi:10.1128/genomeA.00498-14.

ACKNOWLEDGMENTS

We acknowledge the Norwegian Research Council (Oslo), the Norwegian Foundation for Research Levy on Agricultural Products (Oslo), and the Norwegian Agricultural Agreement Research Fund, and TINE SA (Oslo, Norway) for financial support.


REFERENCES
1.. Ogier JC,Serror P. Year: 2008Safety assessment of dairy microorganisms: the Enterococcus genus. Int. J. Food Microbiol.126:291–301. 10.1016/j.ijfoodmicro.2007.08.01717889954
2.. Franz CM,Huch M,Abriouel H,Holzapfel W,Gálvez A. Year: 2011Enterococci as probiotics and their implications in food safety. Int. J. Food Microbiol.151:125–140. 10.1016/j.ijfoodmicro.2011.08.01421962867
3.. Kagkli DM,Vancanneyt M,Hill C,Vandamme P,Cogan TM. Year: 2007Enterococcus and Lactobacillus contamination of raw milk in a farm dairy environment. Int. J. Food Microbiol.114:243–251. 10.1016/j.ijfoodmicro.2006.09.01617189657
4.. Moreno MR,Sarantinopoulos P,Tsakalidou E,De Vuyst L. Year: 2006The role and application of enterococci in food and health. Int. J. Food Microbiol.106:1–24. 10.1016/j.ijfoodmicro.2005.06.02616216368
5.. Colombo F,Borgo F,Fortina MG. Year: 2009Genotypic characterization of nonstarter lactic acid bacteria involved in the ripening of artisanal Bitto PDO cheese. J. Basic Microbiol.49:521–530. 10.1002/jobm.20080038119810037
6.. Moe KM,Faye T,Abrahamsen RK,Ostlie HM,Skeie S. Year: 2012Growth and survival of cheese ripening bacteria on milk fat globule membrane isolated from bovine milk and its monosaccharides. Int. Dairy J.25:29–35. 10.1016/j.idairyj.2011.12.014
7.. Faye T,Tamburello A,Vegarud GE,Skeie S. Year: 2012Survival of lactic acid bacteria from fermented milks in an in vitro digestion model exploiting sequential incubation in human gastric and duodenum juice. J. Dairy Sci.95:558–566. 10.3168/jds.2011-470522281320
8.. Darling AE,Mau B,Perna NT. Year: 2010progressiveMauve: multiple genome alignment with gene gain, loss and rearrangement. PLoS One5:e11147. 10.1371/journal.pone.001114720593022
9.. Angiuoli SV,Gussman A,Klimke W,Cochrane G,Field D,Garrity G,Kodira CD,Kyrpides N,Madupu R,Markowitz V,Tatusova T,Thomson N,White O. Year: 2008Toward an online repository of standard operating procedures (SOPs) for (meta)genomic annotation. Omics12:137–141. 10.1089/omi.2008.001718416670
10.. Grissa I,Vergnaud G,Pourcel C. Year: 2007CRISPRFinder: a web tool to identify clustered regularly interspaced short palindromic repeats. Nucleic Acids Res.35:W52–W57. 10.1093/nar/gkm36017537822
11.. Medema MH,Blin K,Cimermancic P,de Jager V,Zakrzewski P,Fischbach MA,Weber T,Takano E,Breitling R. Year: 2011antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. Nucleic Acids Res.39:W339–W346. 10.1093/nar/gkr46621672958

Article Categories:
  • Prokaryotes


Previous Document:  Genome Sequence of Lactobacillus delbrueckii subsp. lactis CNRZ327, a Dairy Bacterium with Anti-Infl...
Next Document:  Genome Sequences of the Oxytetracycline Production Strain Streptomyces rimosus R6-500 and Two Mutant...