DOI: 10.6084/m9.figshare.26095246
title: Datasets for 'Quantifying the dietary overlap of two co-occurring mammal species using DNA metabarcoding to assess potential competition'

description: #Title of First Dataset: SpID1.csv---The data collected on individual animals trapped, which had scat samples collected from them for DNA metabarcoding.##Description of the data and file structureThe information is organised by Sample ID, with each line detailing additional information collected about the animal the sample came from.The column named 'ID' contained the id number given to the sample upon collection. 'e' represents samples collected in ethanol, 'R' represents bush rat samples, 'T' represents possum samples.The column named 'Species' contained the species that the sample was collected from.The column named 'Site' contained the site ID of the long term site the animal was trapped in.The column named 'Habitat' contained the vegetation class of the site the sample was collected from.The column named 'Sex' contained the sex of the animal the sample was collected from.The column named 'Age' contained the approximate life stage of the animal the sample was collected from. Life stage was estimated based on visual assessments of body size and reproductive development.Cells containing 'nr' referenced times when age and sex were not able to be collected.<br>---#Title of Second Dataset: taxa_list_trnl3.csvThe data on DNA sequences of plant DNA extracted from scat samples, the number of times the sequence was present for the species, and the species identity of that sequence, based on a Bayesian likelihood analysis. The data was ordered by the DNA sequence code.##Description of the data and file structureThe column named 'Sequence' contains the DNA sequence extracted from scat samples and isolated using the trnl primer to extract plant DNA.The column named 'Possums' contains the number of times the sequence was identified in a Possum scat sample.The column named 'BushRats' contains the number of times the sequence was identified in a Bush Rat scat sample.The column named 'Order' contains the identified Order of the sequence.The column named 'Family' contains the identified Family of the sequence.The column named 'Genus' contains the identified Genus of the sequence.The column named 'Species' contains either the identified Species of the sequence, or the lowest identified taxonomy.Any cells containing 'NA' couldn't be identified to that taxonomic level.The column named 'Taxa' contains a note identifying which taxa the sequence most likely belonged to (at the level of 'plant', 'fungi' and 'invertebrate'). Cells containing 'na' were not identified successfully identified.The column named 'Level' contains the information on what taxonomic level the sequence was successfully identified to. This was only included for plant taxa.<br>---#Title of Third Dataset: taxa_list_coi3.csvThe data on DNA sequences of invertebrate DNA extracted from scat samples, the number of times the sequence was present for the species, and the species identity of that sequence, based on a Bayesian likelihood analysis. The data was ordered by the DNA sequence code.##Description of the data and file structureThe column named 'Sequence' contains the DNA sequence extracted from scat samples and isolated using the COI primer to extract invertebrate DNA.The column named 'Possums' contains the number of times the sequence was identified in a Possum scat sample.The column named 'BushRats' contains the number of times the sequence was identified in a Bush Rat scat sample.The column named 'Phylum' contains the identified Phylum of the sequence.The column named 'Class' contains the identified Class of the sequence.The column named 'Order' contains the identified Order of the sequence.The column named 'Family' contains the identified Family of the sequence.The column named 'Genus' contains the identified Genus of the sequence.The column named 'Species' contains either the identified Species of the sequence, or the lowest identified taxonomy.Any cells containing 'NA' couldn't be identified to that taxonomic level.The column named 'Taxa' contains a note identifying which taxa the sequence most likely belonged to (at the level of 'plant', 'fungi' and 'invertebrate'). Cells containing 'na' were not identified successfully identified.The column named 'Level' contains the information on what taxonomic level the sequence was successfully identified to. This was only included for invertebrate taxa.<br>---#Title of Fourth Dataset: taxa_list_its4.csvThe data on DNA sequences of fungi DNA extracted from scat samples, the number of times the sequence was present for the species, and the species identity of that sequence, based on a Bayesian likelihood analysis. The data was ordered by the DNA sequence code.##Description of the data and file structureThe column named 'Sequence' contains the DNA sequence extracted from scat samples and isolated using the ITS primer to extract fungi DNA.The column named 'Possums' contains the number of times the sequence was identified in a Possum scat sample.The column named 'BushRats' contains the number of times the sequence was identified in a Bush Rat scat sample.The column named 'Phylum' contains the identified Phylum of the sequence.The column named 'Class' contains the identified Class of the sequence.The column named 'Order' contains the identified Order of the sequence.The column named 'Family' contains the identified Family of the sequence.The column named 'Genus' contains the identified Genus of the sequence.The column named 'Species' contains either the identified Species of the sequence, or the lowest identified taxonomy.Any cells containing 'NA' couldn't be identified to that taxonomic level.The column named 'Taxa' contains a note identifying which taxa the sequence most likely belonged to (at the level of 'plant', 'fungi' and 'invertebrate'). Cells containing 'na' were not identified successfully identified.The column named 'Level' contains the information on what taxonomic level the sequence was successfully identified to. This was only included for fungi taxa.<br>---#Title of Fifth Dataset: readspersample_trnl6.csvThe data on the number of times a trnl sequence was read for each sample (i.e., sequences extracted from plant DNA).##Description of the data and file structureThe data was structured as a matrix, with each row being a sequence, and each column being a sample ID.The cells contained the number of reads of the sequence for the matching sample.Sequences with more than 10 reads were identified as present in the sample.<br>---#Title of Sixth Dataset: readspersample_COI5.csvThe data on the number of times a COI sequence was read for each sample (i.e., sequences extracted from invertebrate DNA).##Description of the data and file structureThe data was structured as a matrix, with each row being a sequence, and each column being a sample ID.The cells contained the number of reads of the sequence for the matching sample.Sequences with more than 10 reads were identified as present in the sample.<br>---#Title of Seventh Dataset: readspersample_ITS5.csvThe data on the number of times a ITS sequence was read for each sample (i.e., sequences extracted from fungal DNA).##Description of the data and file structureThe data was structured as a matrix, with each row being a sequence, and each column being a sample ID.The cells contained the number of reads of the sequence for the matching sample.Sequences with more than 10 reads were identified as present in the sample.---#Information on data sourcesSpecies identities of the DNA sequences came from constructed libraries.Plant IDs came from a library constructed from a plant ID list for Booderee National Park, and sequences collected from the NCBI GenBank (NCBI, 2023).Invertebrate IDs came from a library constructed from invertebrate records from the Canberra, Sydney and Nowra areas, collected from the BOLD database (BOLD Systems, 2023).Fungal IDs came from a library constructed from Australian fungal records, collected from the UNITE database (Nielsen et al., 2017). This dataset was restricted to ectomycorrhizal fungi in subsequent analyses.<br><br><br><br><br>