Research Article

Gene Expression Profiling of Grass Carp (Ctenopharyngodon idellus) and Crisp Grass Carp

Table 6

Differentially expressed genes involved in nucleic acid metabolism in the muscle of crisp grass carp and grass carp.

Gene nameAffy-IDFold change

Regulation of transcription
 T-box 24Dr.18309.1.S1_at5.279783
 Ubiquitin specific protease-16Dr.21873.1.A1_at4.844206
 si:ch211-45m15.2Dr.8200.1.S1_at4.653204
 Neurogenin-1Dr.555.1.S1_at4.347208
 zgc:152921Dr.21248.1.A1_at3.604867
 l(3)mbt-like 2 (Drosophila)Dr.17271.1.A1_at3.197401
 Myelocytomatosis oncogene bDr.16048.1.S1_at3.10492
 zgc:92106Dr.7710.1.A1_at2.86037
 E74-like factor 2 (ets domain transcription factor)Dr.2328.1.S1_at2.775788
 zgc:153012Dr.17420.1.S1_at2.482655
 TGFB-induced factor homeobox-1Dr.139.1.S1_at2.45607
 Ventral anterior homeobox-1DrAffx.1.61.S1_at2.194558
 Diencephalon/mesencephalon homeobox-1aDr.18845.1.S1_at2.072013
 Homeobox B4aDr.15716.1.S1_at2.071785
 CCR4-NOT transcription complex, subunit 3bDr.6354.2.A1_x_at1.938399
 Telomeric repeat binding factor (NIMA-interacting) 1 Dr.25530.1.A1_at0.662482
 Retinoic acid receptor, alpha bDr.305.1.S1_at0.566773
 Activating transcription factor-7 interacting proteinDr.433.2.S1_at0.312221
 zgc:162976Dr.6862.1.A1_at0.278785
 si:dkey-211g8.3Dr.18812.1.S1_at0.256496
 Sine oculis-related homeobox-6aDr.26486.1.S1_at0.243693
 Suppressor of Ty 6 homolog (S. cerevisiae)Dr.6422.1.S1_at0.240522
 POU domain gene-12Dr.37.2.S1_at0.230685
 wu:fd12d03Dr.2692.1.A1_at0.210638
 Heat shock transcription factor-1Dr.8301.1.S1_a_at0.193731
 Interferon regulatory factor-7Dr.10428.1.S1_at0.184330
 LIM homeobox-1aDr.24443.1.A1_at0.182767
 Pre-B-cell leukemia transcription factor 1a; zgc:158824; pre-B-cell leukemia transcription
  factor 4; hypothetical LOC100004634; hypothetical protein LOC100150879
Dr.4926.1.S1_at0.175405
 Runt-related transcription factor-3Dr.10668.1.S2_at0.174100
 Zinc fingers and homeoboxes-3Dr.26180.1.A1_at0.150721
 Transcription elongation factor A (SII), 3Dr.15634.1.S1_at0.093517
RNA processing
 Trinucleotide repeat containing-4Dr.8323.1.S1_at6.653872
 Molybdenum cofactor synthesis-3Dr.13391.1.S1_at2.424007
 PRP39 pre-mRNA processing factor 39 homolog (yeast)Dr.340.1.S1_at1.852201
 Survival of motor neuron protein interacting protein-1Dr.2724.1.S1_at0.480291
 XPA binding protein-2Dr.12501.1.A1_at0.348226
 Polypyrimidine tract binding protein-1aDr.20803.2.S1_at0.166418
Tetratricopeptide-like helical domain
 Tetratricopeptide repeat domain-8Dr.11994.1.A1_at2.342792
 PRP39 pre-mRNA processing factor 39 homolog (yeast)Dr.340.1.S1_at1.852201
 Tetratricopeptide repeat domain-5Dr.6679.1.A1_at0.463885
 Sperm associated antigen-1Dr.9954.1.A1_at0.355814
 XPA binding protein-2Dr.12501.1.A1_at0.348226
 FIC domain containingDr.13784.1.A1_at0.337339
 Procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase),
  alpha polypeptide 2; hypothetical protein
  LOC100151456
Dr.19144.1.A1_at0.253430
 Protein-kinase, interferon-inducible double stranded RNA dependent inhibitorDr.10669.1.S1_at0.182015

Fold change = (signal intensity of a gene in the muscle of crisp grass carp)/(signal intensity of the gene in the muscle of grass carp).