Metagenomic analysis of the microbial community in fermented grape marc reveals that Lactobacillus fabifermentans is one of the dominant species: insights into its genome structure

No abstract is available for this paper.

• Publication year

  2014

• Venue

  Applied Microbiology and Biotechnology

• Publication date

  2014-05-16

• Fields of study

  Biology, Medicine, Environmental Science

• Identifiers
  DOI 10.1007/s00253-014-5795-3PMID 24831027
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

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  2013influential reference
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• The RAST Server: Rapid Annotations using Subsystems Technology

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• SSF production of lactic acid from cellulosic biosludges.

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• Polyphasic taxonomy of acetic acid bacteria: an overview of the currently applied methodology.

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• Velvet: algorithms for de novo short read assembly using de Bruijn graphs.

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• The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

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• CRISPRFinder: a web tool to identify clustered regularly interspaced short palindromic repeats

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• The Pfam protein families database

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