Model of gene expression in extreme cold - reference transcriptome for the high-Antarctic cryopelagic notothenioid fish Pagothenia borchgrevinki

Table 3 Illumina sequencing and mapping results of liver and gill samples

Tissue (Specimen)	No. read	Retained reads	Annotated transcriptome			Reference transcriptome
Tissue (Specimen)	No. read	Retained reads	% Mapped	% Unmapped	% Ambiguous	% Mapped	% Unmapped	% Ambiguous
Liver (1)	47,999,274	31,104,129	68.5	28.0	3.4	75.8	19.8	4.4
Liver (2)	60,009,042	39,254,065	61.9	34.5	3.5	70.9	24.4	4.7
Liver (3)	47,666,040	26,435,958	62.4	33.9	3.6	71.2	24.0	4.8
Gill (1)	71,817,060	42,149,816	50.4	2.1	2.1	64.7	31.6	3.7
Gill (2)	50,157,764	29,490,860	52.9	2.8	44.0	69.7	25.9	4.4
Gill (3)	59,998,042	35,620,006	43.8	1.9	54.2	61.4	34.9	3.7

Results from Illumina sequencing of liver and gill samples from P. borchgrevinki held at their natural water temperatures. Sequenced 100 nt reads were processed using the Fastx toolkit and processed to remove the adaptor sequence used in library construction, low quality sections of each read, and any reads of uniformly low quality. Retained reads were thus shorter (80 nt) but of higher quality and used for read mapping with the program Bowtie.

ISSN: 1471-2164