International Journal of Genomics / 2014 / Article / Tab 7 / Research Article
Transcriptome of the Deep-Sea Black Scabbardfish, Aphanopus carbo (Perciformes: Trichiuridae): Tissue-Specific Expression Patterns and Candidate Genes Associated to Depth Adaptation Table 7 Comparison of protein sequences of depth related genes between Aphanopus carbo database (All_gs454_xxx) and other fishes. Diff.: amino acid differences; Id. %: percentage of identity; Gaps: number of gaps introduced in the complete alignment and Acc. nr.: NCBI Accession number. 1 Partial sequence; 2 only AA sequence available.
(a) LDH-A (332 AA)All_gs454_00149 vs. Diff. Id. % Gaps Acc. nr. Sphyraena idiastes 16 95.18 0 U80001 Rhinogobiops nicholsii 17 94.88 0 AF079534 Chromis caudalis 21 93.67 0 AY289558 Chionodraco rastrospinosus 26 92.17 1 AF079829 Notothenia coriiceps 27 91.87 1 AF079822 Fundulus heteroclitus 27 91.87 0 L43525 Cyprinus carpio 44 86.75 0 AF076528
(b) MDHc-A (333 AA)All_gs454_00146 vs. Diff. Id. % Gaps Acc. nr. Oryzias latipes 15 95.50 0 NM_1163134 Sphyraena idiastes 20 93.99 0 AF390559 Osmerus mordax 30 90.99 0 BT075651 Salmo salar 35 89.49 0 BT060183
(c) Actin-1 (375 AA)All_gs454_00104 vs. Diff. Id. % Gaps Acc. nr. Scomber scombrus 1 0 100 0 EF607093 Iniperca chuatsi 1 0 100 0 AY395872 Oryzias latipes 1 1 99.73 0 NM_1104806 Pleurogrammus azonus 1 1 99.73 0 AB073381 Coryphaenoides acrolepis 1 1 99.73 0 AB021649 Coryphaenoides cinereus 1 1 99.73 0 AB021651 Coryphaenoides armatus 2a 2 99.47 0 AB086240 Coryphaenoides yaquinae 2a 2 99.47 0 AB086242 Coryphaenoides acrolepis 2a 2 99.47 0 AB021650 Coryphaenoides cinereus 2a 2 99.47 0 AB021652 Cyprinus carpio 1 2 99.47 0 AY395870 Sphyraena idiastes 1 3 99.20 0 AF503593 Coryphaenoides armatus 2b 5 98.67 0 AB086241 Coryphaenoides yaquinae 2b 5 98.67 0 AB086243 Aphanopus carbo 2a 6 98.40 0 All_gs454_00102 Sparus aurata 1 9 97.60 0 AF190473
(d) LDH-B (334 AA)All_gs454_00143 vs. Diff. Id. % Gaps Acc. nr. Lates calcarifer 14 95.81 0 FJ439507 Fundulus heteroclitus 21 93.71 0 L23792 Trachyrincus murrayi 47 85.93 0 AJ609235 Coryphaenoides armatus 50 85.03 0 AJ609232 Merlangius merlangus 52 84.43 1 AJ609234 Gadus morhua 55 83.53 1 AJ609233
(e) MyHC1 (305 AA)All_gs454_00001 vs. Diff. Id. % Gaps Acc. nr. Paracirrhites forsteri 53 94.95 0 AJ243770 Seriola dumerilii 54 94.86 0 AB032020 Siniperca chuatsi 59 94.38 0 AY454304 Oryzias latipes 62 94.10 2 XM_4071618 Cyprinus carpio 69 93.43 2 D89992 Coryphaenoides acrolepis 86 91.82 1 AB330141 Notothenia coriiceps 86 91.82 1 AJ243767 Coryphaenoides yaquinae 89 91.53 1 AB330139 Coryphaenoides armatus 92 91.25 1 AB330140
(f) Hb-A1 (143 AA)All_gs454_01074 vs. Diff. Id. % Gaps Acc. nr. Notothenia angustata 39 72.73 1 P623632 Boreogadus saida 43 69.93 0 DQ125471 Arctogadus glacialis 44 69.93 0 DQ125475 Takifugu rubripes 46 67.83 0 XM_3964767 Gadus morhua 53 62.94 0 O424252
(g) Hb-B1 (146 AA)All_gs454_01018 vs. Diff. Id. % Gaps Acc. nr. Epinephelus coioides 27 81.63 0 GU982530 Anoplopoma fimbria 31 78.91 0 BT082849 Gasterosteus aculeatus 31 78.91 0 NM_1267638 Boreogadus saida 40 72.79 0 Q1AGS62 Notothenia angustata 42 71.43 0 P296282
