Bacteria associated with Loripes orbiculatus gill tissue and seagrass environment

PRJNA1378740 · illumina_amplicon · Created 2026-08-18

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Project metadata
Project Title
Bacteria associated with Loripes orbiculatus gill tissue and seagrass environment
Organism
Candidatus Thiodiazotropha sp. AKAK2 + 7 others
Organization
Joint Microbiome Facility
SRA Runs
283
Samples
197
Data
872,967,846 reads, 177.08 Gbp
Description
Description: Bacterial samples were collected from Loripes orbiculatus and seagrass environment (sediment, overlying seawater, seagrass blades and seagrass roots) to examine diversity of Ca. Thiodiazotropha symbionts in the bivalve hosts and seagrass environment. Both 16S rRNA amplicon and metagenome sequencing were used to examine diversity within the bivalve host and 16S rRNA amplicon sequencing was used to examine diversity within the compartments of the seagrass habitat. Sequencing was performed at the Joint Microbiome Facility of the Medical University of Vienna and the University of Vienna under the project IDs JMF-2203-01, JMF-2203-02, and JMF-2201-06.
Selected data types
PlatformILLUMINA
StrategyAMPLICON
SourceMETAGENOMIC
Runs197
Data1.23 Gbp
2

Pipeline Analysis

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Processed with illumina_amplicon on Alliance Canada HPC.

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Assays and primers used

inferred primers

Forward
CAAGCGTTAATCGGAATTACTGGGCGTA
Reverse
CCTGTTTGCTACCCACGCTTTCGCACCT
Samples
76 · primers in 49.8% of reads, median across the assay's samples

inferred primers

Forward
CAAGCGTTAATCGGAATTACTGGGCGTA
Reverse
CAAGCGTTAATCGGAATTACTGGGCGTA
Samples
29 · primers in 47.8% of reads, median across the assay's samples

inferred primers

Forward
CCTGTTTGCTACCCACGCTTTCGCACCT
Reverse
CAAGCGTTAATCGGAATTACTGGGCGTA
Samples
23 · primers in 47.6% of reads, median across the assay's samples

inferred primers

Forward
CCTGTTTGCTACCCACGCTTTCGCACCT
Reverse
CCTGTTTGCTACCCACGCTTTCGCACCT
Samples
19 · primers in 27.1% of reads, median across the assay's samples

inferred primers

Forward
CAAGCGTTAATCGGAATTACTGGGCGTA
Reverse
Samples
1 · primers in 48.8% of reads, median across the assay's samples

1,509 ASVs across the run.

Pipeline info

Container image

illumina-amplicon
05f23de10d82
Cluster
grex