Table 1.
CNS dopaminergic neuron enhancer screen: DNA elements tested.
Table of genomic DNA fragments tested in vivo, grouped according to functional category, gene, and species. Position relative to translation start site (chosen instead of transcriptional start site because of variability in zebrafish genome annotation), and enhancer fragment size are also listed. Primer sequences are in Table S1.
| Gene | Enhancer | Species | Category+ | CNS Expression* | Stable/Allele″ | Positionˆ (kb) | Fragment Size (kb) |
|---|---|---|---|---|---|---|---|
| ddc | Dr | F | - | 6.6 | 3.4 | ||
| slc6a3 | A | Dr | F | - | -0.7 | 1.9 | |
| E | Dr | F | - | -5.1 | 5.1 | ||
| slc6a3 (BAC) | BX1837** | Mm | F | - | |||
| drd2B | A | Dr | F | - | -0.2 | 6.7 | |
| f.slc6a3 | A | Fr | F | - | -0.4 | 4.5 | |
| B | Fr | F | - | 1.7 | 3.8 | ||
| fezl | Dr | T | + | -3.4 | 3.7 | ||
| LB1 | 219 | Mm | - | FOXP2 intragenic | 1.3 | ||
| 298 | Mm | + | SHFM1-DLX5 | 0.7 | |||
| 304 | Mm | + | JMJD2C-PTPRD | 0.6 | |||
| Lmx1a.2 | A | Dr | T | + | + | -0.1 | 5.2 |
| B | Dr | T | + | + | -2.0 | 1.3 | |
| C | Dr | T | + | + | -0.1 | 2.5 | |
| msxE | Dr | T | + | + | -0.1 | 2 | |
| ngn12 | 3.1delLATE | Dr | T | + | + | 0 | 2.4 |
| nurr1 | Dr | T | - | 4.5 | 4.5 | ||
| otpa | Dr | T | - | 1.0 | 2.4 | ||
| f.otpb | A | Fr | T | - | -0.1 | 2.0 | |
| B | Fr | T | - | -2.1 | 1.8 | ||
| otpb | A | Dr | T | + | +; zc48 | -4.8 | 4.4 |
| B | Dr | T | - | -4.8 | 1.8 | ||
| C | Dr | T | + | + | -4.1 | 3.7 | |
| D | Dr | T | - | -7.2 | 2.5 | ||
| E | Dr | T | + | + | -4.1 | 2.7 | |
| F | Dr | T | - | -1.3 | 1.3 | ||
| G | Dr | T | + | + | -4.8 | 3.4 | |
| H | Dr | T | - | -4.1 | 1.1 | ||
| I | Dr | T | + | + | -2.8 | 0.4 | |
| pitx3 | A | Dr | T | + | +; zc50 | -0.3 | 6.7 |
| f.TH | A | Fr | F | + | +; zc56 | -5.4 | 5.1 |
| B | Fr | F | + | + | -2.7 | 2.7 | |
| C | Fr | F | - | - | -5.4 | 3.1 | |
| D | Fr | F | - | - | -8.0 | 2.7 | |
| E | Fr | F | + | + | -2.6 | 0.8 | |
| F | Fr | F | - | - | -1.1 | 1.3 | |
| G | Fr | F | + | + | -7.7 | 7.8 | |
| H | Fr | F | - | - | -6.1 | 6.0 | |
| I | Fr | F | - | - | -6.1 | 3.5 | |
| J | Fr | F | - | - | -2.6 | 0.3 | |
| K | Fr | F | + | + | -2.3 | 0.5 | |
| L | Fr | F | + | + | -2.2 | 0.4 | |
| M | Fr | F | + | + | -2.3 | 0.3 | |
| O | Fr | F | - | - | -1.8 | 0.7 | |
| rat TH3 | Rn | F | - | -0.1 | 4.5 | ||
| th | A | Dr | F | - | -12 | 2.3 | |
| B | Dr | F | - | -4.7 | 4.5 | ||
| C | Dr | F | - | -2.1 | 5.8 | ||
| D | Dr | F | - | 7.3 | 6 | ||
| uchL1 | A | Dr | F | - | -0.8 | 1.1 | |
| slc18a2 | A | Dr | F | - | 0.1 | 0.3 | |
| B | Dr | F | - | -3.1 | 1 | ||
| C | Dr | F | - | -10.6 | 1 | ||
| D | Dr | F | - | 0.1 | 2 | ||
Expression was evaluated from 12hpf through 96hpf.
GENSAT1 BAC clones (Gong et al., 2003).
“Category” refers to the gene type-F: functional (function of dopamine neurons), T: transcription factor involved in specifying dopamine neurons.
Stable indicates that a stable transgenic line was generated and tested. If the line has been maintained this is indicated by an allele number.
“Position” is relative to translation start site (negative is upstream); except for Lawrence-Berkeley clones, which lists flanking or intragenic region.
Abbreviations: LB: Lawrence-Berkeley clones; Fr: Fugu rubripes (pufferfish); Mm: Mus musculus (mouse); Rn: Rattus norvegicus (rat); Dr: Danio rerio (zebrafish).