TY - JOUR
T1 - 18S rDNA amplicon sequence data (V1-V3) of the Palmyra Atoll National Wildlife Refuge, Central Pacific
AU - Reid, Brendan N.
AU - Servis, Jennifer A.
AU - Timmers, Molly
AU - Rohwer, Forest
AU - Naro-Maciel, Eugenia
N1 - Funding Information:
Funding for this project was provided by the Professional Staff Congress of the City University of New York (to ENM) and the Lerner Gray Fund for Marine Research of the American Museum of Natural History (to JAS). All work was carried out under authorized permits to Forest Rohwer and Rusty Brainard (NOAA). We would like to thank Kevin Green and Ben Knowles at San Diego State University for the logistical processing of water samples, as well as Kerry Reardon at NOAA for ARMS collections, and Seth Wollney and Vasiliki Stergioula at CSI for assistance with bioinformatics and lab work. Finally, we extend thanks to Eleanor Sterling and George Amato for their initial advice and direction on the project. Any use of trade, product, or firm names is for descriptive purposes only and does not imply endorsement by the U.S. Government. We are grateful to our Editor, Anastasija Zaiko, as well as Reviewers David Stankovic, Florian Leese, and anonymous for helpful comments.
Publisher Copyright:
© 2022 The authors.
PY - 2022
Y1 - 2022
N2 - To address the global biodiversity crisis, standardized data that are rapidly obtainable through minimally invasive means are needed for documenting change and informing conservation within threatened and diverse systems, such as coral reefs. In this data paper, we describe 18S rRNA gene amplicon data (V1-V3 region) generated from samples collected to begin characterizing coral reef eukaryotic community composition at the Palmyra Atoll National Wildlife Refuge in the Central Pacific Ocean. Sixteen samples were obtained across four sample types: sediments from two sieved fractions (100-500 μm, n = 3; 500 μm-2 mm, n = 3) and sessile material scrapings (n = 3) from Autonomous Reef Monitoring Structures (ARMS) sampled in 2015, as well as seawater from 2012 (n = 7). After filtering and contaminant removal, 3,861 Amplicon Sequence Variants (ASVs) were produced from 1,062,238 reads. The rarefaction curves demonstrated adequate sampling depth, and communities grouped by sample type. The dominant orders across samples were polychaete worms (Eunicida), demosponges (Poecilosclerida), and bryozoans (Cheilostomatida). The ten most common orders in terms of relative abundance comprised ∼60% of all sequences and 23% of ASVs, and included reefbuilding crustose coralline algae (CCA; Corallinophycidae) and stony corals (Scleractinia), two taxa associated with healthy reefs. Highlighting the need for further study, ∼21% of the ASVs were identified as uncultured, incertae sedis, or not assigned to phylum or order. This data paper presents the first 18S rDNA survey at Palmyra Atoll and serves as a baseline for biodiversity assessment, monitoring, and conservation of this remote and pristine ecosystem.
AB - To address the global biodiversity crisis, standardized data that are rapidly obtainable through minimally invasive means are needed for documenting change and informing conservation within threatened and diverse systems, such as coral reefs. In this data paper, we describe 18S rRNA gene amplicon data (V1-V3 region) generated from samples collected to begin characterizing coral reef eukaryotic community composition at the Palmyra Atoll National Wildlife Refuge in the Central Pacific Ocean. Sixteen samples were obtained across four sample types: sediments from two sieved fractions (100-500 μm, n = 3; 500 μm-2 mm, n = 3) and sessile material scrapings (n = 3) from Autonomous Reef Monitoring Structures (ARMS) sampled in 2015, as well as seawater from 2012 (n = 7). After filtering and contaminant removal, 3,861 Amplicon Sequence Variants (ASVs) were produced from 1,062,238 reads. The rarefaction curves demonstrated adequate sampling depth, and communities grouped by sample type. The dominant orders across samples were polychaete worms (Eunicida), demosponges (Poecilosclerida), and bryozoans (Cheilostomatida). The ten most common orders in terms of relative abundance comprised ∼60% of all sequences and 23% of ASVs, and included reefbuilding crustose coralline algae (CCA; Corallinophycidae) and stony corals (Scleractinia), two taxa associated with healthy reefs. Highlighting the need for further study, ∼21% of the ASVs were identified as uncultured, incertae sedis, or not assigned to phylum or order. This data paper presents the first 18S rDNA survey at Palmyra Atoll and serves as a baseline for biodiversity assessment, monitoring, and conservation of this remote and pristine ecosystem.
KW - ARMS
KW - PANWR
KW - QIIME2
KW - eDNA
KW - next-generation sequencing
KW - seawater
KW - sediment
KW - sessile
UR - http://www.scopus.com/inward/record.url?scp=85129866202&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=85129866202&partnerID=8YFLogxK
U2 - 10.3897/mbmg.6.78762
DO - 10.3897/mbmg.6.78762
M3 - Article
AN - SCOPUS:85129866202
VL - 6
SP - 89
EP - 99
JO - Metabarcoding and Metagenomics
JF - Metabarcoding and Metagenomics
SN - 2534-9708
ER -