Showing results for: [ Paulsen, Ian ]
Outdoor freshwater mesocosms spiked with varying concentrations of copper were sampled in order to profile microbial communities. Samples collected include water, sediment and cellulose baits. DNA was... more extracted from all sample types. In addition to this, RNA was extracted from sediment samples and reverse transcribed to get cDNA. The v4 region of the 16S ribosomal RNA gene was amplified using Earth Microbiome primers 515F and 806R.
The 16S rRNA gene amplicons were sequenced on the Illumina MiSeq platform with 250 base pair-end reads. Forward and reverse read alignments, quality filtering, chimera checking and OTU clustering were performed using USEARCH v9.
OTU sequences were submitted to GenBank, however, 130 were found to be too novel for submission and thus are made available here.less
Legacy data - Microbial community survey - Published 10 Oct 2017
16S rRNA gene amplification and sequencing were performed to assess the effects of uranium on sediment microbial communities. A total of 12 treatments along a uranium concentration gradient of 0 - 4,0... more00 mg/kg were interrogated, with four replicates per treatment. Data here include: raw MiSeq sequences (paired-end 250 base reads) as well as a mapping file for demultiplexing and a fasta file containing sequences of OTUs not deposited at DDBJ/ENA/GenBank (due to poor sequence similarity with existing entries). less
Estuarine Health Assessment - Next generation sequencing - Published 13 May 2016