U.S. flag An official website of the United States government.
Official websites use .gov

A .gov website belongs to an official government organization in the United States.

Secure .gov websites use HTTPS

A lock ( ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.

i

Metatranscriptome Library Preparation Influences Analyses of Viral Community Activity During a Brown Tide Bloom

Supporting Files


Details

  • Journal Title:
    Frontiers in Microbiology
  • Personal Author:
  • NOAA Program & Office:
    NOS (National Ocean Service)
  • Description:
    There is growing interest in the use of metatranscriptomics to study virus community dynamics. We used RNA samples collected from harmful brown tides caused by the eukaryotic alga Aureococcus anophagefferens within New York (United States) estuaries and in the process observed how preprocessing of libraries by either selection for polyadenylation or reduction in ribosomal RNA (rRNA) influenced virus community analyses. As expected, more reads mapped to the A. anophagefferens genome in polyadenylation-selected libraries compared to the rRNA-reduced libraries, with reads mapped in each sample correlating to one another regardless of preprocessing of libraries. Yet, this trend was not seen for reads mapping to the Aureococcus anophagefferens Virus (AaV), where significantly more reads (approximately two orders of magnitude) were mapped to the AaV genome in the rRNA-reduced libraries. In the rRNA-reduced libraries, there was a strong and significant correlation between reads mappings to AaV and A. anophagefferens. Overall, polyadenylation-selected libraries produced fewer viral contigs, fewer reads mapped to viral contigs, and different proportions across viral realms and families, compared to their rRNA-reduced pairs. This study provides evidence that libraries generated by rRNA reduction and not selected for polyadenylation are more appropriate for quantitative characterization of viral communities in aquatic ecosystems by metatranscriptomics.
  • Keywords:
  • Source:
    Frontiers in Microbiology, 12
  • DOI:
  • ISSN:
    1664-302X
  • Format:
    PDF
  • Publisher:
    Frontiers Media SA
  • Document Type:
    Journal Article
  • Funding:
  • License:
  • Rights Information:
    CC BY
  • Compliance:
    Library
  • Main Document Checksum:
    urn:sha256:c09fcba4239ad9f2e5f9ef0a93c76ed58fe0d0909a346e47248234a40835046f
  • Download URL:
  • File Type:
    Filetype[PDF - 3.43 MB ]
PREVIOUS
ON THIS PAGE
Details Supporting Files
The NOAA IR serves as an archival repository of NOAA-published products including scientific findings, journal articles, guidelines, recommendations, or other information authored or co-authored by NOAA or funded partners. As a repository, the NOAA IR retains documents in their original published format to ensure public access to scientific information.
BACK TO TOP