Diatom Metabarcoding Data from Lake Sediments Comparing Sample Sizes and Pipelines

Wengang Kang from Technische Universität Braunschweig presents a dataset comparing diatom metabarcoding results from lake surface sediments. The data tests the effect of using 10 g versus 0.5 g of sediment for DNA extraction and compares results from three different bioinformatics pipelines. It also includes comparisons between metabarcoding data and traditional morphological inventories from corresponding samples.

Use Cases

• Benchmarking bioinformatics pipelines for consistency based on comparisons of three different processing methods
• Assessing the impact of sediment sample quantity on DNA extraction yield and community profiles based on tests with 10 g and 0.5 g samples
• Validating metabarcoding against traditional microscopy for diatom identification based on comparisons of community analysis results
• Studying diatom-environment relationships in aquatic ecosystems based on rbcL gene amplicon data from lake sediments

Strengths

• Directly compares results from two distinct sediment sample quantities (10 g and 0.5 g wet weight)
• Tests consistency across three different bioinformatics pipelines
• Includes a validation step comparing metabarcoding data with morphological inventories from the same samples

Limitations

• Row count is unknown, which may limit suitability assessment
• Column-level documentation is absent; field semantics must be inferred after download
• Data may reflect geographic or methodological bias inherent to the specific lake study

Provenance

Source

Technische Universität Braunschweig

Collection Method

DNA extraction from lake surface sediment samples followed by high-throughput sequencing of the diatom rbcL region.

Freshness

Last update date is unknown; freshness unverified

Geography

Lake surface sediments (specific location not provided)