Conservation of Genomic Information in Multiple Displacement Amplified Low-Quantity Metagenomic Material from Marine Invertebrates
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https://hdl.handle.net/10037/30128Date
2023-03-02Type
Journal articleTidsskriftartikkel
Peer reviewed
Abstract
Marine invertebrate microbiomes have been a rich source of bioactive compounds and
interesting genomic features. In cases where the achievable amounts of metagenomic DNA are too
low for direct sequencing, multiple displacement amplification (MDA) can be used for whole genome
amplification. However, MDA has known limitations which can affect the quality of the resulting
genomes and metagenomes. In this study, we evaluated the conservation of biosynthetic gene
clusters (BGCs) and enzymes in MDA products from low numbers of prokaryotic cells (estimated
2–850). Marine invertebrate microbiomes collected from Arctic and sub-Arctic areas served as
source material. The cells were separated from the host tissue, lysed, and directly subjected to
MDA. The MDA products were sequenced by Illumina sequencing. Corresponding numbers of
bacteria from a set of three reference strains were treated the same way. The study demonstrated that
useful information on taxonomic, BGC, and enzyme diversities was obtainable from such marginal
quantities of metagenomic material. Although high levels of assembly fragmentation resulted in
most BGCs being incomplete, we conclude that this genome mining approach has the potential to
reveal interesting BGCs and genes from hard-to-reach biological sources.
Publisher
MDPICitation
Elvheim, Li, Landfald. Conservation of Genomic Information in Multiple Displacement Amplified Low-Quantity Metagenomic Material from Marine Invertebrates. Marine Drugs. 2023;21(3)Metadata
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