Software Open Access

Fungal Resistance gene-directed genome mining (FRIGG) pipeline

Inge Kjærbølling; Tammi C. Vesth; Mikael Rørdam Andersen


DataCite XML Export

<?xml version='1.0' encoding='utf-8'?>
<resource xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://datacite.org/schema/kernel-4" xsi:schemaLocation="http://datacite.org/schema/kernel-4 http://schema.datacite.org/meta/kernel-4.1/metadata.xsd">
  <identifier identifierType="DOI">10.5281/zenodo.2560245</identifier>
  <creators>
    <creator>
      <creatorName>Inge Kjærbølling</creatorName>
      <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://orcid.org/">0000-0002-1111-9889</nameIdentifier>
      <affiliation>Department of Biotechnology and Biomedicine, Technical University of Denmark</affiliation>
    </creator>
    <creator>
      <creatorName>Tammi C. Vesth</creatorName>
      <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://orcid.org/">0000-0003-4182-1764</nameIdentifier>
      <affiliation>Department of Biotechnology and Biomedicine, Technical University of Denmark</affiliation>
    </creator>
    <creator>
      <creatorName>Mikael Rørdam Andersen</creatorName>
      <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://orcid.org/">0000-0003-4794-6808</nameIdentifier>
      <affiliation>Department of Biotechnology and Biomedicine, Technical University of Denmark</affiliation>
    </creator>
  </creators>
  <titles>
    <title>Fungal Resistance gene-directed genome mining (FRIGG) pipeline</title>
  </titles>
  <publisher>Zenodo</publisher>
  <publicationYear>2019</publicationYear>
  <subjects>
    <subject>fungal</subject>
    <subject>genomics</subject>
    <subject>comparative genomics</subject>
    <subject>Aspergillus</subject>
    <subject>Penicillium</subject>
    <subject>genome mining</subject>
    <subject>secondary metabolism</subject>
    <subject>bioactive compounds</subject>
    <subject>antibiotics</subject>
  </subjects>
  <dates>
    <date dateType="Issued">2019-02-08</date>
  </dates>
  <language>en</language>
  <resourceType resourceTypeGeneral="Software"/>
  <alternateIdentifiers>
    <alternateIdentifier alternateIdentifierType="url">https://zenodo.org/record/2560245</alternateIdentifier>
  </alternateIdentifiers>
  <relatedIdentifiers>
    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsVersionOf">10.5281/zenodo.2560244</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="URL" relationType="IsPartOf">https://zenodo.org/communities/zenodo</relatedIdentifier>
  </relatedIdentifiers>
  <version>1.0.0</version>
  <rightsList>
    <rights rightsURI="http://www.opensource.org/licenses/GPL-3.0">GNU General Public License v3.0 only</rights>
    <rights rightsURI="info:eu-repo/semantics/openAccess">Open Access</rights>
  </rightsList>
  <descriptions>
    <description descriptionType="Abstract">&lt;p&gt;Fungal secondary metabolites are a rich source of valuable natural products, and genome sequencing has revealed a proliferation of predicted biosynthetic gene clusters in the genomes. It is however currently an unfeasible task to characterize all biosynthetic gene clusters and to identify possible uses of the compounds. Therefore, a rational approach is needed to identify a shortlist of gene clusters responsible for producing valuable compounds.&amp;nbsp;&lt;br&gt;
To this end, several bioactive clusters include a resistance gene, which is a paralog of the target gene inhibited by the compound. This mechanism can be used to identify those clusters.&lt;/p&gt;

&lt;p&gt;We have developed the FRIGG (Fungal ResIstance Gene-directed Genome mining) pipeline for identifying this type of biosynthetic gene clusters based on homology patterns of the cluster genes. As an example dataset, the FRIGG pipeline has been run using 51 &lt;em&gt;Aspergillus&lt;/em&gt;&amp;nbsp;and&amp;nbsp;&lt;em&gt;Penicillium&lt;/em&gt;&amp;nbsp;genomes, identifying 72 unique families of putative resistance genes. The dataset is included with the software.&lt;/p&gt;</description>
  </descriptions>
</resource>
351
535
views
downloads
All versions This version
Views 351351
Downloads 535535
Data volume 18.5 GB18.5 GB
Unique views 293293
Unique downloads 235235

Share

Cite as