Table 2 |
||||
|
Differential gene expression in 10-dpf NBH and SC embryos as measured by RNA-Seq. |
||||
|
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 |
|
|
||||
|
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). |
||||
|
Oleksiak et al. BMC Genomics 2011 12:263 doi:10.1186/1471-2164-12-263 |
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