Virginia Tech
Browse
1/1
13 files

Peeper Inoculation Experiment and Amphibian Development Survey

dataset
posted on 2023-10-19, 13:16 authored by Korin JonesKorin Jones, Myra HugheyMyra Hughey, Lisa BeldenLisa Belden

This dataset consists of the files accompanying two projects. First, the Peeper Inoculation Experiment (PIE) consisted of two short term studies investigating microbiome development in spring peepers. In short, we differentially reared tadpoles from identified pairs of adult peepers in either the field of lab to understand the effects of environment and parentage on microbiome structure in peeper embryos and tadpoles. Next, we performed an inoculation experiment in which spring peeper embryos were selectively inoculated with one of three priority bacteria isolates followed by a community inoculum. The second project, the Amphibian Development Survey (ADS), consists of whole-body samples collected from amphibians around the Blacksburg, Virginia area. Samples were obtained from eggs, tadpoles, and juvenile frogs of spring peepers, gray treefrogs, wood frogs, American toads and eggs from Jefferson salamanders.

Funding

Department of Biological Sciences at Virginia Tech, Vassar College, and Tom and Ana Moore. During the writing of the associated manuscripts, KRJ was supported by a National Science Foundation Graduate Research Fellowship

History

Publisher

University Libraries, Virginia Tech

Corresponding Author Name

Korin Rex Jones

Corresponding Author E-mail Address

korinrex@utexas.edu

Files/Folders in Dataset and Description

PIE = Peeper Inoculation Experiment ADS = Amphibian Development Survey [EMB_barcodes.fastq.gz] – PIE: Barcodes for single end 16S sequences from embryos, tadpoles and adult swabs [EMB_sequences.fastq.gz] – PIE: Single end 16S sequences from embryos, tadpoles and adult swabs [PIE_barcodes.fastq.gz] – PIE: Barcodes for single end 16S sequences for whole body tadpoles [PIE_sequences.fastq.gz] – PIE: Single end 16S sequences for whole body tadpoles [barcodes.fastq.gz] – PIE/ADS: Barcodes for single end 16S sequences for whole body embryos, tadpoles, juvenile frogs and adult swabs [sequences.fastq.gz] – PIE/ADS: Single end 16S sequences for whole body embryos, tadpoles, juvenile frogs and adult swabs [2barcodes.fastq.gz] – ADS: Barcodes for single end 16S sequences for whole body embryos, tadpoles, and juvenile frogs [2sequences.fastq.gz] – ADS: Single end 16S sequences for whole body embryos, tadpoles, and juvenile frogs [PIEGG_Metadata_P1P2.csv] – PIE: Metadata file. This file includes illumine barcodes and linker primer sequences for each sample. This also contains treatment information. Treatments are labeled in terms of primary isolate developmental stage, egg, or adult sex. Pairs are numbered according to parents. • J = Janthinobacterium lividum, P1 = Pseudomonas 1, P2 = Pseudomonas 2, Comm = Community inoculum, W = Water [ADS_UP4_Meta.csv] – ADS: Metadata file. This file includes illumine barcodes and linker primer sequences for each sample. This also includes species/life stage/location information for samples [PIE_Pub_Upload_Final.Rmd] – PIE: R notebook used to analyze PIE associated data [PIE_Pub_qiime2.docx] – PIE: qiime2 script used to process raw sequences

Usage metrics

    Biological Sciences

    Licence

    Exports

    RefWorks
    BibTeX
    Ref. manager
    Endnote
    DataCite
    NLM
    DC