Table 1 Key statistics and sequencing platforms for salmon louse assemblies available March 2021.

From: The salmon louse genome may be much larger than sequencing suggests

Assemblies and accession details

Assembly level

Louse origin

Size (Mbps)

N50 (Kbps)

Sequencing platform (s)

Depth

Reference

UVic_Lsal_1.0 GCA_016086655.1

Chromosome

Pacific

668.1

48,457

Oxford Nanopore, Illumina

45X

Database only***

UStir_LSAA

PRJEB43242

Chromosome

Atlantic

632.5

609.3*

5100

43,017**

PacBio

107**

Database only***

LSalAtl2S licebase.org

Scaffold

Atlantic

695.4

478

Illumina HiSeq, 454, Sanger fosmid end

175X

41

Atlantic female GCA_001005205.1

Scaffold

Atlantic

665.1

16

Illumina HiSeq

45X

Database only***

Atlantic male GCA_001005235.1

Scaffold

Atlantic

665.3

13

Illumina HiSeq

55X

Database only***

ASM18125v2 GCA_000181255.2

Scaffold

Pacific

790.1

10

Illumina, 454

88X

42

  1. Depths of sequencing coverage are the values associated with the assemblies and are estimated based on assembly-indicated genome sizes (i.e. ≈700 Mbps). The ASM18125v2 assembly is quite fragmented and the authors indicate that the assembly overestimates the actual size suggested to be around 600 Mbps (https://www.ncbi.nlm.nih.gov/bioproject/PRJNA40179). Only LSalAtl2s is extensively assessed and the predicted gene set appears to be quite complete as it contains 92.4% of the expected genes in a BUSCO analysis and maps ≈ 90% of transcriptome reads48,49.
  2. *The UStir_LSAA assembly comprised 158 sequences in total, 15 of which were identified as chromosomes. The value denoted ‘*’ is the assembly size for these 15 chromosomes.
  3. **Calculated based on the 632.5 Mbp assembly size.
  4. ***Data available in public repositories were included with permission from the assembly authors in adherence to the Fort Lauderdale agreement50.
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