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Research Article

Influence of Oenococcus oeni and Brettanomyces bruxellensis on Wine Microbial Taxonomic and Functional Potential Profiles

Marie Lisandra Zepeda-Mendoza, Nathalia Kruse Edwards, Mikkel Gulmann Madsen, Martin Abel-Kistrup, Lara Puetz, Thomas Sicheritz-Ponten, Jan H. Swiegers
Am J Enol Vitic.  2018 69: 321-333 ; DOI: 10.5344/ajev.2018.17092
Marie Lisandra Zepeda-Mendoza
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
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  • For correspondence: dkhsw@chr-hansen.com dklize@chr-hansen.com
Nathalia Kruse Edwards
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
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Mikkel Gulmann Madsen
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
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Martin Abel-Kistrup
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
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Lara Puetz
2Centre for Geo-Genetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen K, Denmark
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Thomas Sicheritz-Ponten
3Center for Biological Sequence Analysis, Department of Bio and Health Informatics, Technical University of Denmark, Anker Engelunds Vej 1 Bygning 101A, 2800 Kgs. Lyngby, Denmark
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Jan H. Swiegers
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
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  • For correspondence: dkhsw@chr-hansen.com dklize@chr-hansen.com
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Data supplements

  • Supplemental Data

    Supplemental Table 1  Reads abundance statistics and number of microbial species identifications.

    Supplemental Table 2  Differentially abundant pathways with putative relation to microbial survival/interactions in enological conditions with different inoculations of Oenococcus oeni and Brettanomyces bruxellensis strains.

    Supplemental Table 3  Top 10 abundant nt-database microbial identifications of the unmapped reads from sample Control_1, top 10 abundant nt-database microbial identifications of the unmapped reads from sample Control_2, and top 10 abundant nt-database microbial identifications of the unmapped reads from sample OEN_23.

    Supplemental Figure 1  Principal component analysis (PCA) of the functional potential profile of all samples. Brettanomyces bruxellensis strains CBS 73 (BA), CBS 2336 (BB), and CBS 2499 (BC). Oenococcus oeni strains esterase positive (OEP) and esterase negative (OEN). PCA of the counts of all filtered assembled genes from all samples, including those with lowest (OEN_23) and deepest (OEN-BB_18) sequencing.

    Supplemental Figure 2  Plasmid and fungal principal component analysis (PCA). Brettanomyces bruxellensis strains CBS 73 (BA), CBS 2336 (BB), and CBS 2499 (BC). Oenococcus oeni strains esterase positive (OEP) and esterase negative (OEN). (A) Plasmid and (B) fungal taxonomic PCA.

    Supplemental Figure 3  Evaluation of the effect of sequencing depth on functional potential profiling. Brettanomyces bruxellensis strains CBS 73 (BA), CBS 2336 (BB), and CBS 2499 (BC). Oenococcus oeni strains esterase positive (OEP) and esterase negative (OEN). (A) Comparison of the number of assembled contigs, identified genes, and total nonredundant (nr) genes per sample. (B) Total nr genes per sample compared to the total number of cleaned reads (scale is in thousands).

    Files in this Data Supplement:

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Influence of Oenococcus oeni and Brettanomyces bruxellensis on Wine Microbial Taxonomic and Functional Potential Profiles
Marie Lisandra Zepeda-Mendoza, Nathalia Kruse Edwards, Mikkel Gulmann Madsen, Martin Abel-Kistrup, Lara Puetz, Thomas Sicheritz-Ponten, Jan H. Swiegers
Am J Enol Vitic.  2018  69: 321-333  ; DOI: 10.5344/ajev.2018.17092
Marie Lisandra Zepeda-Mendoza
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
  • Find this author on Google Scholar
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  • For correspondence: dkhsw@chr-hansen.com dklize@chr-hansen.com
Nathalia Kruse Edwards
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
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Mikkel Gulmann Madsen
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
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Martin Abel-Kistrup
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
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Lara Puetz
2Centre for Geo-Genetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen K, Denmark
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Thomas Sicheritz-Ponten
3Center for Biological Sequence Analysis, Department of Bio and Health Informatics, Technical University of Denmark, Anker Engelunds Vej 1 Bygning 101A, 2800 Kgs. Lyngby, Denmark
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Jan H. Swiegers
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
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  • For correspondence: dkhsw@chr-hansen.com dklize@chr-hansen.com

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Influence of Oenococcus oeni and Brettanomyces bruxellensis on Wine Microbial Taxonomic and Functional Potential Profiles
Marie Lisandra Zepeda-Mendoza, Nathalia Kruse Edwards, Mikkel Gulmann Madsen, Martin Abel-Kistrup, Lara Puetz, Thomas Sicheritz-Ponten, Jan H. Swiegers
Am J Enol Vitic.  2018  69: 321-333  ; DOI: 10.5344/ajev.2018.17092
Marie Lisandra Zepeda-Mendoza
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • For correspondence: dkhsw@chr-hansen.com dklize@chr-hansen.com
Nathalia Kruse Edwards
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
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Mikkel Gulmann Madsen
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
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Martin Abel-Kistrup
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
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Lara Puetz
2Centre for Geo-Genetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen K, Denmark
  • Find this author on Google Scholar
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  • Search for this author on this site
Thomas Sicheritz-Ponten
3Center for Biological Sequence Analysis, Department of Bio and Health Informatics, Technical University of Denmark, Anker Engelunds Vej 1 Bygning 101A, 2800 Kgs. Lyngby, Denmark
  • Find this author on Google Scholar
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Jan H. Swiegers
1Chr. Hansen A/S, Bøge Allé 10, 2970 Hørsholm, Denmark
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  • Search for this author on this site
  • For correspondence: dkhsw@chr-hansen.com dklize@chr-hansen.com
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