3affed0d-fe6f-4916-89e3-e672639191e5 English ISO/IEC 8859-1 (also known as Latin 1) dataset dataset NERC EDS Environmental Information Data Centre Lancaster Environment Centre, Library Avenue, Bailrigg Lancaster LA1 4AP UK info@eidc.ac.uk https://eidc.ac.uk/ EIDC website The Environmental Information Data Centre (EIDC) is the UK's national data centre for terrestrial and freshwater sciences. information pointOfContact 2025-11-13T16:16:24 UK GEMINI 2.3 WGS 84 Mammal occurrence identified from metabarcoding of two leech species from Sabah, Malaysia 2018-08-08 publication https://catalogue.ceh.ac.uk/id/3affed0d-fe6f-4916-89e3-e672639191e5 10.5285/3affed0d-fe6f-4916-89e3-e672639191e5 doi: Drinkwater, R., Schnell, I.D., Bohmann, K., Bernard, H., Veron, G., Clare, E., Gilbert, T.P., Rossiter, S.J. (2018). Mammal occurrence identified from metabarcoding of two leech species from Sabah, Malaysia. NERC Environmental Information Data Centre 10.5285/3affed0d-fe6f-4916-89e3-e672639191e5 This dataset contains the results from a metabarcoding study of terrestrial leech blood meals to detect differences in the diets of two leech species, Haemadipsa picta and Haemadipsa sumatrana. Mammal taxa were identified using metabarcoding of 16s rRNA and comparisons of operational taxonomic units (OTUs) to a curated reference database from NCBI (National Center for Biotechnology Information) GenBank. All leeches were collected from the Stability of Altered Forest Ecosystems project (SAFE; www.SAFEproject.net) as part of the NERC Human Modified tropical Forest Programme and the LOMBOK consortia (Land-use Options for Maintaining BiOdiversity & eKosystem functions). Leech samples were collected at different sites across a habitat gradient, to assess these invertebrates as molecular sampling tools for mammals. Individuals were pooled before amplicon sequencing with Illumina MiSeq 150-200bp x2. The resultant raw sequences were filtered and clustered at 97%, curated and then assigned to the reference database using BLAST and MEGAN programmes. Full details about this dataset can be found at https://doi.org/10.5285/3affed0d-fe6f-4916-89e3-e672639191e5 Drinkwater, R. Queen Mary University of London r.drinkwater@qmul.ac.uk pointOfContact Drinkwater, R. Queen Mary University of London r.drinkwater@qmul.ac.uk https://orcid.org/0000-0001-6892-1664 ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author Schnell, I.D. Natural History Museum of Denmark ibschnell@snm.ku.dk https://orcid.org/0000-0002-0436-785X ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author Bohmann, K. Natural History Museum of Denmark kbohmann@snm.ku.dk https://orcid.org/0000-0001-7907-064X ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author Bernard, H. Universiti of Malaysia Sabah hbtiandun@gmail.com author Veron, G. Muséum national d'Histoire naturelle geraldine.veron@mnhn.fr https://orcid.org/0000-0003-4247-3976 ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author Clare, E. Queen Mary University of London e.clare@qmul.ac.uk https://orcid.org/0000-0002-6563-3365 ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author Gilbert, T.P. Natural History Museum of Denmark tgilbert@snm.ku.dk https://orcid.org/0000-0002-5805-7195 ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author Rossiter, S.J. Queen Mary University of London s.j.rossiter@qmul.ac.uk author NERC EDS Environmental Information Data Centre info@eidc.ac.uk custodian NERC Environmental Information Data Centre info@eidc.ac.uk publisher Haemadipsa picta Haemadipsa sumatrana Wikidata 2012-10-29 creation Sabah Borneo GeoNames 2006-01-01 creation Biodiversity otherRestrictions no limitations otherRestrictions This resource is made available under the terms of the Open Government Licence otherRestrictions If you reuse this data, you should cite: Drinkwater, R., Schnell, I.D., Bohmann, K., Bernard, H., Veron, G., Clare, E., Gilbert, T.P., Rossiter, S.J. (2018). Mammal occurrence identified from metabarcoding of two leech species from Sabah, Malaysia. NERC Environmental Information Data Centre https://doi.org/10.5285/3affed0d-fe6f-4916-89e3-e672639191e5 textTable 150 English utf8 biota 2015-02-01 2015-06-30 113.75 119.353 4.182 7.111 Comma-separated values (CSV) NERC EDS Environmental Information Data Centre info@eidc.ac.uk distributor https://data-package.ceh.ac.uk/data/3affed0d-fe6f-4916-89e3-e672639191e5 Download the data Download a copy of this data download https://data-package.ceh.ac.uk/sd/3affed0d-fe6f-4916-89e3-e672639191e5.zip Supporting information Supporting information available to assist in re-use of this dataset information dataset dataset Commission Regulation (EU) No 1089/2010 of 23 November 2010 implementing Directive 2007/2/EC of the European Parliament and of the Council as regards interoperability of spatial data sets and services 2010-12-08 Individuals of both species were collected at 25m2 vegetation plots in the forest blocks (A-F, LFE, LF1-3 & VJR) at the SAFE project Sabah (corresponding to second order points). Plots are approximately 173m apart and all plots were sampled 4 times between February 2015 and June 2015. Sampling consists of searching the leaf litter and undergrowth for leeches for a fixed time of 20 minutes. Individuals are kept in RNALater to stabilise DNA until extraction. DNA extraction of pools of ten individual leeches was undertaken using a digestion buffer with modified QiaQuick (Qiagen) protocol and dual tagged PCR in triplicate reactions (details in Drinkwater et al. in review). After screening samples for successful PCR amplification, a total of 41 samples of pooled Haemadipsa sumatrana and 49 pooled Haemadipsa picta from six sites remained for sequencing (B, F, D, LF, LFE, VJR). Amplicons were pooled for library build following Carøe et al, 2017) and sequencing with Illumina MiSeq 150-200bp x2. Sumaclust was used for OTU clustering (Mercier et al., 2013) and LULU was used for post-clustering filtering (Frøslev et al., 2017). This resulted in the final contingency table comparing mammal detections with leech pool. Carøe, C., Gopalakrishnan, S., Vinner, L., Mak, S. S. T., Sinding, M. H. S., Samaniego, J. A., Wales, N., Sicheritz-Ponten, M., Gilbert, M. T. P. (2017). Single-tube library preparation for degraded DNA. Methods in Ecology and Evolution, 9(2), 410-419. https://doi.org/10.1111/2041-210X.12871 Frøslev, T. G., Kjøller, R., Bruun, H. H., Ejrnæs, R., Brunbjerg, A. K., Pietroni, C., & Hansen, A. J. (2017). Algorithm for post-clustering curation of DNA amplicon data yields reliable biodiversity estimates. Nature Communications, 8(1), 1188. https://doi.org/10.1038/s41467-017-01312-x Mercier, C., Boyer, F., Bonin, A., & Coissac, E. (2013). SUMATRA and SUMACLUST: fast and exact comparison and clustering of sequences. In Programs and Abstracts of the SeqBio workshop (pp. 27-29).