Hepatic transcriptome analysis of inter-family variability in flesh n-3 long-chain polyunsaturated fatty acid content in Atlantic salmon

Morais, Sofia; Taggart, John B; Guy, Derrick R; Bell, J Gordon; Tocher, Douglas R

doi:10.1186/1471-2164-13-410

Table 7 Primers used for RT-qPCR analyses

From: Hepatic transcriptome analysis of inter-family variability in flesh n-3 long-chain polyunsaturated fatty acid content in Atlantic salmon

Transcript	Primer sequence (5’-3’)	Fragment	Ta	Efficiency	Accession No.	Source
Δ5fad	GTGAATGGGGATCCATAGCA	192 bp	56°C	0,945	AF478472 ¹	[9]
	AAACGAACGGACAACCAGA
Δ6fad_a	CCCCAGACGTTTGTGTCAG	181 bp	56°C	0,928	AY458652 ¹	[9]
	CCTGGATTGTTGCTTTGGAT
elovl2	CGGGTACAAAATGTGCTGGT	145 bp	60°C	0,926	TC91192 ²	[24]
	TCTGTTTGCCGATAGCCATT
ipi	ACAGCCCTATGGTTATGTGTCATCTC	230 bp	60°C	0,985	CK875291 ¹	[11]
	CAAGGTGAGGCGAATGTTTGAAC
mev	CCCTTAATCAGGGTCCCAAT	247 bp	60°C	0,910	DW005667 ¹	[11]
	GGTGCTGGTTGATGTCAATG
7dchr	CTTCTGGAATGAGGCATGGT	230 bp	60°C	0,977	TC99602 ²	[11]
	ACAGGTCCTTCTGGTGGTTG
srebp2	GACAGGCACAACACAAGGTG	215 bp	60°C	0,887	DY733476 ¹	[11]
	CAGCAGGGGTAAGGGTAGGT
lrp1	ACCAACCGCATCTACTGGAC	204 bp	60°C	0,996	CK898816 ¹	New design
	CAGATTACCAGCCACCCAGT
apoA4a	CCCAAACCAACACCACTCCT	150 bp	60°C	0,997	BT047465 ¹	New design
	GGTTTATATTTCTCACCCTGCAC
apoA4b	CTCTTGCCCTCTTGATGACTG	154 bp	60°C	0,918	BT047267 ¹	New design
	TGACTCATCAGAGCCAATTCA
lpl	AGGGCGTTAATCCATGTCAG	223 bp	60°C	0,917	TC84899 ²	[8]
	GACCTTTCAAAAGGGCATGA
lpp2	TCCGGAAGAACTCGCAATAC	174 bp	60°C	0,926	NM_001140716 ¹	[9]
	ACATCACGTCCACCAAGACA
mgat	TTAACCCAAAGATGCTGCAA	157 bp	60°C	0,977	EG824440 ¹	New design
	CACGCAGTTGTCAGTGGTTT
alox5	TATCTCCCTCTCCCTCAGTCC	155 bp	56°C	0,987	CX727592 ¹	[57]
	GGTCAGCAGTGCCATCA
pla2g4	GTCGCTGGCTGGAGCTGTGG	138 bp	60°C	0,998	NM_001141333 ¹	New design
	AGCCCTATGGGCCCTGGTCA
thas	TGTTCACACGGACCTGATTC	150 bp	60°C	0,986	NM_001165312 ¹	New design
	GACCGGATCGTCATTCTGTT
ptgis	GCGTGTTTGTGGTCATTACG	247 bp	60°C	0,836	GE778709 ¹	New design
	TTCCCTTAGCAAGGTCTGGA
mal	GGCCTCAGTCAAAGAGGAGA	156 bp	60°C	0,946	NM_001141320 ¹	New design
	GGGGAGTGCACACTTTAGGA
ccl13	CGAGGATCCCTCTTCAACAA	178 bp	60°C	0,996	EG831431 ¹	New design
	ATCGTCGACTAGGCAGCAGT
trim25	GCAGGGTCCTATCTCATCCA	215 bp	60°C	0,951	BT048046 ¹	New design
	GGACTGGACCTTTTTATTCTCTCA
lect2	CTGTGTTGTCAGAGTGCGAGATGGT	150 bp	60°C	0,996	BT050009 ¹	[58]
	TACACACAATGTCCAGGCCCTGA
cfh	TGTGATGATGGAGAGATGCAG	193 bp	60°C	0,966	TC141997 ²	New design
	CAAGCGACAAAGAAACCACA
Reference genes*
elf-1α	CTGCCCCTCCAGGACGTTTACAA	175 bp	60°C	1.000	AF321836 ¹	[11]
	CACCGGGCATAGCCGATTCC
β-actin	ACATCAAGGAGAAGCTGTGC	141 bp	56°C	0.939	AF012125 ¹	[11]
	GACAACGGAACCTCTCGTTA

¹ GenBank (http://0-www-ncbi-nlm-nih-gov.brum.beds.ac.uk/).
² Atlantic salmon Gene Index (http://compbio.dfci.harvard.edu/tgi/).
* geNorm average stability (M value) of reference genes = 0.514 [59].

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ISSN: 1471-2164

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