Inflammatory responses in primary muscle cell cultures in Atlantic salmon (Salmo salar)

Pooley, Nicholas J; Tacchi, Luca; Secombes, Christopher J; Martin, Samuel AM

doi:10.1186/1471-2164-14-747

BMC Genomics

Table 4 Differential expression of genes for growth regulation & structural proteins

From: Inflammatory responses in primary muscle cell cultures in Atlantic salmon (Salmo salar)

Gene ID¹	Annotation²	Mean fold change± SE³	Identity⁴
Ssa#S30261281	DW548249	17.2 ± 2.5	IGF binding protein 6
Ssa#S22669043	AY462105	4.6 ± 0.2	Growth hormone receptor isoform 1 precursor
Ssa#S35518234	EG804612	2.9 ± 0.2	CCAAT/enhancer binding protein delta
Ssa#DW566454	DW566454	2.6 ± 0.4	Signal transducer and activator of transcription 2
Ssa#STIR16259	TC75448	2.3 ± 0.1	YY1 transcription factor
Ssa#STIR03019	BT049051	−2.1 ± 0.0	Regulator of g-protein signaling 18
SsaHomCont3_080	SsaHomContl3	−2.2 ± 0.3	Beta-actin
Ssa#S30278631	DW565599	−2.2 ± 0.1	Collagen alpha 2 type VI
Omy#TC165689	TC165689	−2.4 ± 0.2	Collagen alpha 2 type V preproprotein
Ssa#S18891260	CB515159	−2.4 ± 0.4	Type I collagen alpha 2 chain
Ssa#S26643985	DQ163908	−2.5 ± 0.2	Growth hormone receptor isoform 2 precursor
Ssa#S35580189	EG866567	−2.5 ± 0.0	Collagen alpha 1 type II isoform 1 precursor
Ssa#STIR17006	TC76573	−2.6 ± 0.2	Growth arrest-specific 1
Ssa#CA041082	CA041082	−2.8 ± 0.2	Transforming growth factor, beta receptor III
Ssa#S35580645	EG867023	−2.8 ± 0.2	Vascular endothelial growth factor D
Ssa#CA037592	CA037592	−2.8 ± 0.2	Myosin IB
Ssa#S31998683	DY727280	−2.8 ± 0.2	Laminin, beta 1
Ssa#S35563089	EG849467	−2.9 ± 0.3	Collagen alpha 1 type V
Ssa#S31977813	DY706603	−3.1 ± 0.1	Myosin phosphatase-Rho interacting protein isoform 1
Ssa#STIR25506	TC89337	−3.1 ± 0.1	Type i keratin s8
Ssa#S46924879	EU861009.1	−3.4 ± 0.1	IGF binding protein 5
Ssa#S32004569	DY733166	−3.5 ± 0.5	Corticotropin releasing factor precursor
Ssa#STIR05529	BT046528	−3.5 ± 0.2	Collagen triple helix repeat containing 1
Ssa#TC91867	TC91867	−4.2 ± 0.3	Collagen alpha 1 type XI isoform A preproprotein
Ssa#S35504964	EG791342	−4.6 ± 0.5	Troponin I, slow skeletal muscle
Ssa#STIR00115_3	BT045917	−4.8 ± 0.6	Tropomyosin-1 alpha chain
Ssa#STIR11900	TC69277	−5.2 ± 0.4	Myosin ic
Ssa#S37580916	EF432866	−5.4 ± 0.7	IGF binding 7 precursor
Ssa#S37580919	EF432861	−7.9 ± 0.4	IGF binding protein 4
Ssa#S35582593	EG868971	−10.9 ± 5.3	Collagen alpha 1 type X precursor
Ssa#STIR30922	TC97553	−27.9 ± 2.7	Myf5 protein

List of selected mRNAs related to growth regulation & structural proteins found to be increased or decreased in expression in response to rIL-1β stimulation. Genes were assigned to the table based upon both their GO identifier and previous knowledge of their functions. Genes with greatest fold differences in expression are presented, the genes that are lower in expression are denoted by (-) value. The genes shown were significant at p < 0.05 following t- tests with Benjamini-Hochberg FDR and greater than 2-fold change. ¹Indicates the unique code for the feature on the microarray, ² Accession number of the cDNA sequence, accession numbers beginning with TC are for oligos from the TIGR Atlantic Salmon Gene Index. ³Fold change, in the case of oligos that featured multiple times in the gene list the one with the highest fold change is reported. ⁴Identity of the probe target as determined by BLASTX and BLASTN searches.

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ISSN: 1471-2164

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