Table 2.
Reciprocal blasting of deduced Daphnia pulex proteins versus known Drosophila melanogaster protein sequences in FlyBase
| Daphnia protein | Top named protein hit in FlyBase
|
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|---|---|---|---|---|
| Protein name | FlyBase ID | Homology to query
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| Blast score | E-value | |||
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|
CORE CLOCK PROTEINS1
| ||||
| Dappu-CKII α | CKIIalpha-PC | FBpp0070043 | 566.2 | 1.06e-161 |
| Dappu-CKII β | CKIIbeta-PE | FBpp0089135 | 409.1 | 9.91e-115 |
|
| ||||
| Dappu-CLK | CLK-PA | FBpp0076500 | 397.9 | 1.64e-110 |
|
| ||||
| Dappu-CWO | CWO-PA | FBpp0081723 | 106.3 | 7.84e-23 |
|
| ||||
| Dappu-CYC | CYC-PA | FBpp0074693 | 432.6 | 3.92e-73 |
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| ||||
| Dappu-DBT | DCO-PC (DBT) | FBpp0085106 | 540.8 | 5.61e-154 |
|
| ||||
| Dappu-PDP1e | PDP1-PD | FBpp0076495 | 109.8 | 2.72e-24 |
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| Dappu-PER | PER-PA | FBpp0070455 | 264.6 | 3.30e-70 |
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| ||||
| Dappu-PP1 A | PP1alpha-96A-PA | FBpp0084026 | 598.2 | 2.36e-171 |
| Dappu-PP1 B | FLW-PB (PP1) | FBpp0071382 | 599.7 | 8.31e-172 |
|
| ||||
| Dappu-PP2A MTS | PP4-19C-PE (MTS) | FBpp0077017 | 592.8 | 1.02e-169 |
| Dappu-PP2A WBT A | WDB-PE | FBpp0084579 | 625.9 | 1.67e-179 |
| Dappu-PP2A WBT B | PP2A-B′-PJ | FBpp0288759 | 744.2 | 0 |
| Dappu-PP2A TWS | TWS-PH | FBpp0081671 | 755.0 | 0 |
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| ||||
| Dappu-SGG | SGG-PA | FBpp0070450 | 658.7 | 0 |
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| Dappu-SLIMB | SLMB-PA (SLIMB) | FBpp0083434 | 803.1 | 0 |
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| ||||
| Dappu-TIM1 A | TIM-PJ | FBpp0291971 | 308.1 | 2.47e-83 |
| Dappu-TIM1 B | TIM-PJ | FBpp0291971 | 261.9 | 1.69e-69 |
| Dappu-TIM1 C | TIM-PJ | FBpp0291971 | 275.8 | 9.85e-74 |
| Dappu-TIM1 D | TIM-PC | FBpp0077254 | 251.1 | 3.03e-66 |
| Dappu-TIM1 E | TIM-PI | FBpp0291970 | 255.8 | 1.10e-67 |
| Dappu-TIM1 F | TIM-PC | FBpp0077254 | 212.2 | 2.43e-54 |
| Dappu-TIM1 G | TIM-PI | FBpp0291970 | 219.2 | 7.13e-57 |
| Dappu-TIM1 H | TIM-PI | FBpp0291970 | 193.7 | 5.21e-49 |
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| ||||
| Dappu-VRI | VRI-PD | FBpp0289297 | 149.1 | 8.29e-36 |
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| ||||
|
INPUT PATHWAY PROTEINS1
| ||||
| Dappu-CRY A | CRY-PA | FBpp0083150 | 476.1 | 5.56e-140 |
| Dappu-CRY B | PHR6-4-PB | FBpp0080935 | 495.0 | 2.59e-134 |
| Dappu-CRY C | PHR6-4-PB | FBpp0080935 | 594.7 | 5.15e-170 |
| Dappu-CRY D | PHR6-4-PB | FBpp0080935 | 167.5 | 2.12e-41 |
|
| ||||
|
OUTPUT PATHWAY PROTEINS
| ||||
| Dappu-PDHR | PDFR-PA | FBpp0099841 | 345.5 | 5.62e-95 |
Abbreviations: CKII, casein kinase II; CLK, CLOCK; CRY, CRYPTOCHROME; CWO, CLOCKWORK ORANGE; CYC, CYCLE; DBT, DOUBLETIME; MTS, MICROTUBULE STAR; PDFR, PIGMENT DISPERSING FACTOR RECEPTOR; PDHR, PIGMENT DISPERSING HOROMONE RECEPTOR; PDP1ε; PAR DOMAIN PROTEIN 1ε; PER, PERIOD; PHR, PHOTOLYASE; PP1, PROTEIN PHOSPHATASE 1; PP2A, PROTEIN PHOSPHATASE 2A; SGG, SHAGGY; SLIMB, SUPERNUMERARY LIMBS; TIM, TIMELESS; TWS, TWINS; VRI, VRILLE; WBT, WIDERBORST.
It should be noted that the group designations are based on the organization of the Drosophila melanogaster clock, whose proteins were used for querying the Daphnia genome. Unlike Drosophila, which possesses only CRY1 (an input pathway protein), D. pulex appears to contain multiple CRY isoforms, including both CRY1 and CRY2 (a core clock protein), though in this table, all are presented under the “INPUT PATHWAY PROTEIN” heading.