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Table 2 Differential gene expression in 10-dpf NBH and SC embryos as measured by RNA-Seq.

From: Transcriptomic assessment of resistance to effects of an aryl hydrocarbon receptor (AHR) agonist in embryos of Atlantic killifish (Fundulus heteroclitus) from a marine Superfund site

Gene SC-DMSO SC-PCB NBH-DMSO NBH-PCB
UnAn_29411_6378* (CYP1B1) # 0 66 0 0
Cytochrome P450 1A1 (EC 1.14.14.1) (CYPIA1)_1115 # 0 4987 0 3
T-cell surface glycoprotein CD3 delta chain precursor (T-cell receptor T3 delta chain)_3770 # 0 0 0 0
UnAn_27910_5543* (CYP1B1) # 0 66 0 0
Tubulointerstitial nephritis antigen-like precursor (Androgen-regulated gene protein 1) (Adrenocortical zonation factor 1) (AZ-1) (Tubulointersititial nephritis antigen-related protein) (TARP)_4042 # 1 0 3 6
UnAn_29159_6257** (apolipoprotein E) # 41 177 52 37
UnAn_28041_5632** (apolipoprotein E) # 41 177 52 37
Acidic phosphoprotein precursor (50 kDa antigen)_277 # 0 0 0 0
UnAn_23610r_4780** (apolipoprotein E) # 41 177 52 37
UnAn_21996_4295 # 0 0 0 0
Apomucin (Mucin core protein) (Fragment)_492 # 18 31 8 10
C61 protein [Mus musculus]_684 # 0 0 0 2
WAP four-disulfide core domain protein 3 precursor (Putative protease inhibitor WAP14)_6790 # 0 0 0 0
Tyrosine aminotransferase (EC 2.6.1.5) (L-tyrosine:2-oxoglutarate aminotransferase) (TAT)_4064 # 0 0 0 0
MHC class II transactivator (CIITA)_2363 # 0 0 0 0
UnAn_23121_4564 # 2 0 3 0
Troponin C, slow skeletal and cardiac muscles (TN-C)_3995 13 26 22 14
Epsin-4 (Epsin-related protein) (EpsinR) (Enthoprotin)_1384 # 0 0 0 0
UnAn_27985_5592 # 19 10 14 11
AMP deaminase 1 (EC 3.5.4.6) (Myoadenylate deaminase) (AMP deaminase isoform M)_431 # 0 0 0 0
UnAn_29343_6349 # 134 179 92 137
UnAn_29849_6655 2 0 0 0
Cathepsin D precursor (EC 3.4.23.5)_755 0 0 1 0
UnAn_22785_4432 129 103 77 135
UnAn_20648_4152 5 0 9 8
Mitogen-activated protein kinase kinase 1 interacting protein 1 (MEK binding partner 1) (Mp1)_2424 11 7 5 13
Epididymal secretory glutathione peroxidase precursor (EC 1.11.1.9) (Epididymis-specific glutathione peroxidase-like protein) (EGLP)_1378 3 4 0 1
Muted protein homolog_2461 22 5 4 7
UnAn_22879_4456 50 35 42 32
UnAn_22354_4332 12 22 32 25
Type II antifreeze protein precursor (AFP)_4059 2 1 2 0
T-cell surface glycoprotein CD8 beta chain precursor (CD8 antigen 37 kDa chain) (OX-8 membrane antigen)_3771 11 9 13 12
UnAn_20957_4180 0 0 1 2
Chromobox protein homolog 2 (Modifier 3 protein) (M33)_827 0 0 0 0
Beta enolase (EC 4.2.1.11) (2-phospho-D-glycerate hydro-lyase) (Muscle-specific enolase) (MSE) (Skeletal muscle enolase) (Enolase 3)_620 18 15 18 20
UnAn_27466_5284 12 12 14 19
Transcription factor PU.1_3890 0 0 0 0
UnAn_22873_4452 0 0 0 0
RWD domain containing protein 1 (Small androgen receptor-interacting protein)_3458 15 9 10 1
Parvalbumin beta_2778 49 44 40 60
  1. The probe sequences representing genes with significant differences in pairwise comparisons in the 10-dpf samples (see Table 1) were used in blast searches against a database of the reads from each EST library using BlastStation-Local (version 1.4). The number of reads matching each probe sequence is indicated. The e-value cut-off was approximately 1x10-20, and the percent identity limit was set as 90% or higher. NBH: New Bedford Harbor; SC: Scorton Creek; PCB: PCB-126; DMSO: dimethylsulfoxide. Unannotated genes are denoted by UnAn and a unique number. The probes labeled with asterisks (* or **) belong to the same transcript, and therefore share the same 454 read counts. Some of the unannotated probes were subsequently annotated after extension using the 454 database; see Table S4 (Additional file 6) for details. Probes labeled with "#" are those exhibiting significant induction by PCB in SC embryos but not NBH embryos in the microarray analysis (see Table 1).