10.5061/DRYAD.N6278
Paula, Debora P.
University of Minnesota
Linard, Benjamin
Natural History Museum
Andow, David A.
University of Minnesota
Sujii, Edison R.
Embrapa Genetic Resources and Biotechnology; Parque Estação Biológica W5
Norte P.O. Box 02372 Brasília DF 70770-917 Brazil
Pires, Carmen S. S.
Embrapa Genetic Resources and Biotechnology; Parque Estação Biológica W5
Norte P.O. Box 02372 Brasília DF 70770-917 Brazil
Vogler, Alfried P.
Natural History Museum
Data from: Detection and decay rates of prey and prey symbionts in the gut
of a predator through metagenomics
Dryad
dataset
2014
mtDNA
coccinellid
nuclear genome
Harmonia axyridis
analyte detectability period
gut content
Acyrthosiphon pisum
analyte detectability half-life
aphid
2014-12-23T16:55:54Z
2014-12-23T16:55:54Z
en
https://doi.org/10.1111/1755-0998.12364
3605020510 bytes
1
CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
DNA methods are useful to identify ingested prey items from the gut of
predators, but reliable detection is hampered by low amounts of degraded
DNA. PCR-based methods can retrieve minute amounts of starting material
but suffer from amplification biases and cross-reactions with the predator
and related species genomes. Here, we use PCR-free direct shotgun
sequencing of total DNA isolated from the gut of the harlequin ladybird
Harmonia axyridis at five time points after feeding on a single pea aphid
Acyrthosiphon pisum. Sequence reads were matched to three reference
databases: Insecta mitogenomes of 587 species, including H. axyridis
sequenced here; A. pisum nuclear genome scaffolds; and scaffolds and
complete genomes of 13 potential bacterial symbionts. Immediately after
feeding, multicopy mtDNA of A. pisum was detected in tens of reads, while
hundreds of matches to nuclear scaffolds were detected. Aphid nuclear DNA
and mtDNA decayed at similar rates (0.281 and 0.11 h−1 respectively), and
the detectability periods were 32.7 and 23.1 h. Metagenomic sequencing
also revealed thousands of reads of the obligate Buchnera aphidicola and
facultative Regiella insecticola aphid symbionts, which showed exponential
decay rates significantly faster than aphid DNA (0.694 and 0.80 h−1,
respectively). However, the facultative aphid symbionts Hamiltonella
defensa, Arsenophonus spp. and Serratia symbiotica showed an unexpected
temporary increase in population size by 1–2 orders of magnitude in the
predator guts before declining. Metagenomics is a powerful tool that can
reveal complex relationships and the dynamics of interactions among
predators, prey and their symbionts.
DPP-T50-1_S1_L001_R1_001_QCZipped Fastq file (R1) of the sequenced
TruSeq-Illumina library of the gut contents of Harmonia axyridis before
feeding (negative control).DPP-T50-1_S1_L001_R2_001_QCZipped Fastq file
(R2) of the sequenced TruSeq-Illumina library of the gut contents of
Harmonia axyridis before feeding (negative
control).DPP-T50-2_S2_L001_R1_001_QCZipped Fastq file (R1) of the
sequenced TruSeq-Illumina library of the gut contents of Harmonia axyridis
immediately after feeding.DPP-T50-2_S2_L001_R2_001_QCZipped Fastq file
(R2) of the sequenced TruSeq-Illumina library of the gut contents of
Harmonia axyridis immediately after
feeding.DPP-T50-3_S3_L001_R1_001_QCZipped Fastq file (R1) of the sequenced
TruSeq-Illumina library of the gut contents of Harmonia axyridis 3 hours
after feeding.DPP-T50-3_S3_L001_R2_001_QCZipped Fastq file (R2) of the
sequenced TruSeq-Illumina library of the gut contents of Harmonia axyridis
3 hours after feeding.DPP-T50-4_S4_L001_R1_001_QCZipped Fastq file (R1) of
the sequenced TruSeq-Illumina library of the gut contents of Harmonia
axyridis 24 hours after feeding.DPP-T50-4_S4_L001_R2_001_QCZipped Fastq
file (R2) of the sequenced TruSeq-Illumina library of the gut contents of
Harmonia axyridis 24 hours after feeding.DPP-T50-5_S5_L001_R1_001_QCZipped
Fastq file (R1) of the sequenced TruSeq-Illumina library of the gut
contents of Harmonia axyridis 48 hours after feeding (negative
control).DPP-T50-5_S5_L001_R2_001_QCZipped Fastq file (R2) of the
sequenced TruSeq-Illumina library of the gut contents of Harmonia axyridis
48 hours after feeding.DPP-T50-6_S6_L001_R1_001_QCZipped Fastq file (R1)
of the sequenced TruSeq-Illumina library of the gut contents of Harmonia
axyridis 96 hours after feeding.DPP-T50-6_S6_L001_R2_001_QCZipped Fastq
file (R2) of the sequenced TruSeq-Illumina library of the gut contents of
Harmonia axyridis 96 hours after feeding.
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