Data

Surface swabs outperform most traditional honeybee (Apis mellifera) hive samples for recovery of eDNA and eRNA

Commonwealth Scientific and Industrial Research Organisation
Hill, Erin ; Milla, Liz ; Encinas-Viso, Francisco ; O'Dwyer, James ; Gooden, Ben ; Hopper, Mariana ; Roberts, John
Viewed: [[ro.stat.viewed]] Cited: [[ro.stat.cited]] Accessed: [[ro.stat.accessed]]
ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Adc&rfr_id=info%3Asid%2FANDS&rft_id=info:doi10.25919/d2gq-vf73&rft.title=Surface swabs outperform most traditional honeybee (Apis mellifera) hive samples for recovery of eDNA and eRNA&rft.identifier=https://doi.org/10.25919/d2gq-vf73&rft.publisher=Commonwealth Scientific and Industrial Research Organisation&rft.description=Raw data files, analysis scripts and input files to generate data presented in the manuscriptLineage: DNA and RNA was collected from honeybee hives to compare taxonomic composition derived from different sample types (hive entrance swabs (DNA/RNA), hive debris swabs (DNA), honey (DNA/RNA), internal pollen (DNA/RNA), pollen traps (DNA), top box bees (DNA/RNA), and return forager bees (DNA)), using a DNA metabarcoding and RNA metatranscriptomic approach.DNA samples were amplified and sequenced on an Illumina MiSeq v3 600 cycle run. Metabarcoding primers used were:Bacteria (16S):515-FY GTGYCAGCMGCCGCGGTAA806R GGACTACNVGGGTWTCTAATAnimal (COI):FwhF2 GGDACWGGWTGAACWGTWTAYCCHCCFwhR2n GTRATWGCHCCDGCTARWACWGGAmel_PNA (honeybee blocking primer) CATTCTTCACCTTCAGTAGAFungi (ITS1):ITS1f CTTGGTCATTTAGAGGAAGTAAITS2r GCTGCGTTCTTCATCGATGCPlant (ITS2):S2F ATGCGATACTTGGTGTGAAT4rev TCCTCCGCTTATTGATATGCRNA samples were sequenced using a NextSeq 2000 P2 2 x 150 bp run.&rft.creator=Hill, Erin &rft.creator=Milla, Liz &rft.creator=Encinas-Viso, Francisco &rft.creator=O'Dwyer, James &rft.creator=Gooden, Ben &rft.creator=Hopper, Mariana &rft.creator=Roberts, John &rft.date=2025&rft.edition=v1&rft.coverage=westlimit=149.097; southlimit=-35.2788; eastlimit=149.1172; northlimit=-35.197599999999994; projection=WGS84&rft_rights=Creative Commons Attribution Noncommercial-Share Alike 4.0 Licence https://creativecommons.org/licenses/by-nc-sa/4.0/&rft_rights=Data is accessible online and may be reused in accordance with licence conditions&rft_rights=All Rights (including copyright) CSIRO 2025.&rft_subject=biosecurity&rft_subject=environmental biomonitoring&rft_subject=honey&rft_subject=non-invasive sampling&rft_subject=pathogens&rft_subject=pollen&rft_subject=surveillance&rft_subject=weeds&rft_subject=Biosecurity science and invasive species ecology&rft_subject=Ecological applications&rft_subject=ENVIRONMENTAL SCIENCES&rft_subject=Environmental assessment and monitoring&rft_subject=Environmental management&rft.type=dataset&rft.language=English Access the data
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Data is accessible online and may be reused in accordance with licence conditions

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Raw data files, analysis scripts and input files to generate data presented in the manuscript
Lineage: DNA and RNA was collected from honeybee hives to compare taxonomic composition derived from different sample types (hive entrance swabs (DNA/RNA), hive debris swabs (DNA), honey (DNA/RNA), internal pollen (DNA/RNA), pollen traps (DNA), top box bees (DNA/RNA), and return forager bees (DNA)), using a DNA metabarcoding and RNA metatranscriptomic approach.
DNA samples were amplified and sequenced on an Illumina MiSeq v3 600 cycle run. Metabarcoding primers used were:
Bacteria (16S):
515-FY GTGYCAGCMGCCGCGGTAA
806R GGACTACNVGGGTWTCTAAT
Animal (COI):
FwhF2 GGDACWGGWTGAACWGTWTAYCCHCC
FwhR2n GTRATWGCHCCDGCTARWACWGG
Amel_PNA (honeybee blocking primer) CATTCTTCACCTTCAGTAGA
Fungi (ITS1):
ITS1f CTTGGTCATTTAGAGGAAGTAA
ITS2r GCTGCGTTCTTCATCGATGC
Plant (ITS2):
S2F ATGCGATACTTGGTGTGAAT
4rev TCCTCCGCTTATTGATATGC
RNA samples were sequenced using a NextSeq 2000 P2 2 x 150 bp run.

Available: 2025-09-17

Data time period: 2023-01-20 to 2024-04-11

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149.1172,-35.1976 149.1172,-35.2788 149.097,-35.2788 149.097,-35.1976 149.1172,-35.1976

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Subjects
Biosecurity Science and Invasive Species Ecology | Environmental Sciences | Ecological Applications | Environmental Assessment and Monitoring | Environmental Management | biosecurity | environmental biomonitoring | honey | non-invasive sampling | pathogens | pollen | surveillance | weeds |

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Identifiers
ACN 633 798 857