Inga Leena Angell

Towards the Digital Salmon: From a reactive to a pre-emptive research strategy in aquaculture (DigiSal)

Salmon farming in the future must navigate conflicting and shifting demands of sustainability, shifting feed prices, disease, and product quality. The industry needs to develop a flexible, integrated basis of knowledge for rapid response to new challenges. Project DigiSal will lay the foundations for a Digital Salmon: an ensemble of mathematical descriptions of salmon physiology, combining ...

Salmon farmed on modern feeds contains less of the healthy, long-chain fatty acids (EPA and DHA) than before. Up until the turn of the millennium, farmed salmon were fed fish oil as a replacement for their omega-3 rich natural prey. However, fish oil is now a scarce resource, and more than half of the fat in modern feeds comes from plant oils that are inexpensive, but devoid of long-chain omega-3 fatty acids. How can we increase the omega-3 content of salmon on sustainable feeds?

One option is ...

16S rRNA amplicon sequencing (Illumina MiSeq, V3-V4 region) to assess community structure.

This is the fatty acid profile data from the freshwater portion of the feed switch trial. The last column has the sample ID eg: D0_MA-L-1/9_6 (Day 0, MA- Marine oil, L-liver, 1/9 sept 1, fish number 6

Fatty acid Systematic Name C14:0 Myristic acid myristin-syre C16:0 Palmitic acid palmitin-syre C16:1n7 Palmitoleic palmitolein-syre C17:0 C17:1 C18:0 stearic acid stearin-syre 18:1n9c oleic acid olje-syre C18:2n6c linoleic acid linolsyre C20:1 eicosenoic acid C18:3n3 linolenic acid linolensyre C20:2 ...

FASTA file of representative sequences for operational taxonomic units in gut microbiota analyses from feed-switch experiment at Solbergstrand January 2016.

Gut microbiota analysis of fish sampled in january 2016. The data is found in row 335-548 and downwards (Sheet 1). The first 16 colums contain information about the fish, and the following columns (From R to AJO) each represent an OTU (Operational taxonomic unit) with the given taxonomy for each OTU presented in the bottom row. Sequencing depth was kept at 13000 sequences per sample, thus the numbers presented in the OTU columns represent the number of sequences matching the specific OTU from the ...

Gut microbiota analysis of the fish whose gross phenotypes are listed in https://fairdomhub.org/data_files/1244. Besides identification of the fish, the data are a 130 x 435 matrix showing amounts of operational taxonomic units (OTUs), one row per fish and one column per OTU (https://en.wikipedia.org/wiki/Operational_taxonomic_unit). Sequences that characterize each OTU are in https://fairdomhub.org/data_files/1317. Amounts are measured as the number out of 2000 sequences examined that contain a ...

Combined taxonomy table of abundance of OTUs (Operational Taxonomy Units) in both freshwater and saltwater samples from 16S V3-V4 Illumina sequencing of gut microbiota. Primers used for sequencing are given in https://fairdomhub.org/sops/270 The OTUs are presented in number of counts per sample (n=349). Each row represent one sample. Raw data are available in the Sequence Read Archive database under accession number SRP119730 (https://trace.ncbi.nlm.nih.gov/Traces/sra/?study=SRP119730).

Describes the workflow used for preparation of a 16S rRNA gene amplicon (V3-V4 region) Library for sequencing on a MiSeq platform (Illumina) using V3 sequencing chemistry with 300 base pairs paired-end reads.

Describes how the DNA was isolated from salmon intestinal samples before preparations of 16S rRNA gene amplicons for the Illumina MiSeq system.