C-CoMP AE2504 NES-LTER Station 11 Area 15m Long-Read Metagenome Assembly Anvi'o Contigs Database

This record contains an anvi'o contigs database generated from a long-read metagenome collected during NSF Center for Chemical Currencies of a Microbial Planet (C-CoMP) cruise AE2504 (RV Atlantic Explorer) by the Autonomous Underwater Vehicle (AUV) Clio at 15m depth from 39°41.45106'N 71°13.01052’W (the area of the Northeast U.S. Shelf Long-Term Ecological Research Site Station 11) on March 20, 2025 at 20:58:29 UTC. A 0.2-51µm fraction was taken from 37.3L of filtered seawater. Part of the filter was used in long-read sequencing using three PacBio SMRT flow cells done by Bruno Huettel and colleagues at the Max Planck Genome Center Cologne. Reads were assembled from the three replicate sequencing batches using hifiasm-meta: 28,798,865 reads containing 176,458,060,393 bp, for a mean read length of 6 kbp, were assembled into 394,006 contigs containing 10,391,455,687 bp, for a mean contig length of 26 kbp.Here are the DOIs of Zenodo records for associated long-read metagenomic databases:BATS_15032025_15m: 10.5281/zenodo.20724152LTER_20032025_15m (currently viewing): 10.5281/zenodo.20724154BATS_06092025_15m: 10.5281/zenodo.20724156LTER_14092025_15m: 10.5281/zenodo.20724162EDDY_10092025_67m: 10.5281/zenodo.20724166BATS_05092025_200m: 10.5281/zenodo.20724069 TSV files originating from `anvi-display-contig-stats` contain summary statistics on assembled contigs (contig_summary.tsv), gene calls in contigs (gene_summary.tsv), and estimated numbers of genomes from single copy core genes (genome_summary.tsv). Shell scripts allowing replication of the computational workflow, including assembly and generation of the contigs databases, and TSV files containing summary statistics for this and associated metagenomes can be found in record 10.5281/zenodo.20724152 Here is an example of an anvi'o command interfacing with the database, showing how to extract gene calls as amino acid sequences:anvi-get-sequences-for-gene-calls -c LTER_20032025_15m.db --get-aa-sequences -o LTER_20032025_15m.faa We encourage use of this database with proper attribution to the Center for Chemical Currencies of a Microbial Planet (C-CoMP) per licensing requirements. If you are using this database, please include a citation for this Zenodo record in your work. We also encourage that you contact C-CoMP with questions and to notify us that you are using the database by emailing C-CoMP Digital Coordinator Laura Gray at [e-mail].