Genotype-specific responses in Atlantic salmon (Salmo salar) subject to dietary fish oil replacement by vegetable oil: a liver transcriptomic analysis

Morais, Sofia; Pratoomyot, Jarunan; Taggart, John B; Bron, James E; Guy, Derrick R; Bell, J Gordon; Tocher, Douglas R

doi:10.1186/1471-2164-12-255

Table 5 Primers used for RT-qPCR analyses

From: Genotype-specific responses in Atlantic salmon (Salmo salar) subject to dietary fish oil replacement by vegetable oil: a liver transcriptomic analysis

Transcript	Primer sequence (5'-3')	Fragment	Ta	Efficiency	Accession No.	Source
Δ5fad	GTGAATGGGGATCCATAGCA	192 bp	56°C	0.995	AF478472 ¹	[66]
	AAACGAACGGACAACCAGA
Δ6fad_a	CCCCAGACGTTTGTGTCAG	181 bp	56°C	0.944	AY458652 ¹	[66]
	CCTGGATTGTTGCTTTGGAT
elovl5a	ACAAGACAGGAATCTCTTTCAGATTAA	137 bp	60°C	0.925	AY170327 ¹	[15]
	TCTGGGGTTACTGTGCTATAGTGTAC
elovl5b	ACAAAAAGCCATGTTTATCTGAAAGA	141 bp	60°C	0.940	DW546112 ¹	[15]
	CACAGCCCCAGAGACCCACTT
elovl2	CGGGTACAAAATGTGCTGGT	145 bp	60°C	0.960	TC91192 ²	[15]
	TCTGTTTGCCGATAGCCATT
FAS	GTGCCCACTGAATACCATCC	212 bp	60°C	0.995	CK876943 ¹	New design
	ATGAACCATTAGGCGGACAG
PPARα	TCCTGGTGGCCTACGGATC	111 bp	60°C	0.986	DQ294237 ¹	[67]
	CGTTGAATTTCATGGCGAACT
PPARβ	GAGACGGTCAGGGAGCTCAC	151 bp	60°C	0.992	AJ416953 ¹	[67]
	CCAGCAACCCGTCCTTGTT
PPARγ	CATTGTCAGCCTGTCCAGAC	144 bp	60°C	0.999	AJ416951 ¹	[67]
	TTGCAGCCCTCACAGACATG
SREBP-1	GCCATGCGCAGGTTGTTTCTTCA	151 bp	63°C	0.942	TC148424 ²	[20]
	TCTGGCCAGGACGCATCTCACACT
GST	ATTTTGGGACGGGCTGACA	81 bp	60°C	0.989	GE619558 ¹	[68]
	CCTGGTGCTCTGCTCCAGTT
HOX	GTCAACGCATCACCCTTCTT	206 bp	60°C	0.997	BT046987 ¹	New design
	ATGGGGTCCTTCATCCTCTT
GFPT1	GTGGTTTGGCAGACCTCCTA	177 bp	60°C	0.999	NM_001140266 ¹	New design
	TGTACGGTGCCATCTTTCAA
ApoB	AGCCTTCGATGCTGTCGGCCA	153 bp	60°C	1.000	TC79364 ²	[12]
	AGGAGCACAGGCAGGGTGGTT
EL	CCGGTGCTGCTGGAGGAAGC	378 bp	60°C	0.962	NM_001140535 ¹	[12]
	CGACATGCAGGTCATCGGT
LPP2	TCCGGAAGAACTCGCAATAC	174 bp	60°C	0.949	NM_001140716 ¹	New design
	ACATCACGTCCACCAAGACA
AGPAT	GAGAGCCAGAGGTTGAGGTG	245 bp	60°C	0.941	NM_001141753 ¹	New design
	CAGAGTGAAGGCGATGTGAA
Reference genes:
elf-1α	CTGCCCCTCCAGGACGTTTACAA	175 bp	60°C	0.986	AF321836 ¹	[15]
	CACCGGGCATAGCCGATTCC
β-actin	ACATCAAGGAGAAGCTGTGC	141 bp	56°C	0.968	AF012125 ¹	[15]
	GACAACGGAACCTCTCGTTA
Cofilin-2	AGCCTATGACCAACCCACTG	224 bp	60°C	0.999	TC63899 ²	[15]
	TGTTCACAGCTCGTTTACCG

¹ GenBank (http://www.ncbi.nlm.nih.gov/)
² Atlantic salmon Gene Index (http://compbio.dfci.harvard.edu/tgi/)

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ISSN: 1471-2164

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