Transcriptome of the Deep-Sea Black Scabbardfish, Aphanopus carbo (Perciformes: Trichiuridae): Tissue-Specific Expression Patterns and Candidate Genes Associated to Depth Adaptation

Table 6

Species list with informations on their type of environment (M = marine, BR = brackish and FW = freshwater), climate, depth range (in meters) and the type of genes used in the study with relative Genbank accession numbers.

Order	Family	Species	Common name	Environment	Climate	Depth range	Gene	NCBI Acc. Nr
Perciformes	Trichiuridae	Aphanopus carbo	Black scabbardfish	M	Deep-water	200–1700	COI	EU854076
Beloniformes	Adrianichthydae	Oryzias latipes	Japanese rice fish	FW + BR	Subtropical	shallow	ACTA1, MDHc, MyHC, COI	NM_001104806, NM_001163134, XM_004071618, AB498066
Scorpaeniformes	Hexagrammidae	Pleurogrammus azonus	Okhotsk atka mackerel	M	Temperate	0–240	ACTA1	AB073381
Perciformes	Scombridae	Scomber scombrus	Atlantic mackerl	M	Temperate	0–200 (0–1000)	ACTA1, COI	EF607093, KC015895
Perciformes	Percihcthyidae	Siniperca chuatsi	Mandarin fish	FW	Temperate	10	ACTA1, MyHC, COI	AY395872, AY454304, NC_015822
Perciformes	Sparidae	Sparus aurata	Gilthead seabream	M	Temperate	1–30 (1–150)	ACTA1	AF190473
Perciformes	Sphyraenidae	Sphyraena idiastes	Pelican barracuda	M	Tropical	3–24	ACTA1, LDH-A, MDHc, mMDH	AF503593, SIU80001, AF390559, AF390561
Tetraodontiformes	Tetraodontidae	Takifugu rubripes	Japanese pufferfish	M + FW + BR	Temperate	0–200 (0–1000)	Hb-A, mMDH, COI	XM_003964767, XM_003965959, HM102315
Scorpaeniformes	Anoplopomatidae	Anoplopoma fimbria	Sablefish	M	Deep-water	0–2740	Hb-B, COI	BT082849, JQ353978
Perciformes	Serranidae	Epinephelus coioides	Orange-spotted grouper	M + BR	Subtropical	1–100	Hb-B	GU982530
Gasterosteiformes	Gasterosteidae	Gasterosteus aculeatus	Three-spined stickleback	M + FW + BR	Temperate	0–100	Hb-B	NM_001267638
Perciformes	Nototheniidae	Notothenia coriiceps	Black rockcod	M	Polar	0–550	LDH-A, MyHC, COI	AF079822, AJ243767, EU326390
Perciformes	Nototheniidae	Notothenia angustata	Maori chief	M	Temperate	0–100	Hb-A, Hb-B	P62363, P29628
Gadiformes	Macrouridae	Coryphaenoides armatus	Abyssal grenadier	M	Deep-water	282–5180	LDH-B, MyHC, COI	AJ609232, AB330140, FJ164497
Gadiformes	Gadidae	Gadus morhua	Atlantic cod	M + BR	Temperate	0–600	LDH-B, COI	AJ609233, KC015385
Gadiformes	Gadidae	Arctogadus glacialis	Arctic cod	M	Deep-water	0–1000	Hb-A, COI	Q1AGS4, KC015200
Perciformes	Latidae	Lates calcarifer	Barramundi	M + FW + BR	Tropical	10–40	LDH-B, COI	FJ439507, JQ431879
Gadiformes	Gadidae	Merlangius merlangus	Whiting	M	Temperate	30–100 (10–200)	LDH-B, COI	AJ609234, JQ623954
Cyprinodontiformes	Poeciliidae	Poecilia reticulata	Guppy	FW + BR	Tropical	Shallow	LDH-B, COI	EF408825, JX968696
Gadiformes	Macrouridae	Trachyrincus murrayi	Roughnose grenadier	M	Deep-water	0–1630	LDH-B, COI	AJ609235, AP008990
Perciformes	Channichthyidae	Chionodraco rastrospinosus	Ocellated icefish	M	Polar	0–1000	LDH-A, COI	AF079829, EU326337
Perciformes	Pomacentridae	Chromis caudalis	Blue-axil chromis	M	Tropical	15–55	LDH-A	AY289558
Perciformes	Gobiidae	Rhinogobiops nicholsii	Blackeye goby	M	Subtropical	?-106	LDH-A	AF079534
Cypriniformes	Cyprinidae	Cyprinus carpio	Common carp	FW + BR	Subtropical	shallow	LDH-A, MyHC, COI	AF076528, D89992, HQ960709
Cyprinodontiformes	Fundulidae	Fundulus heteroclitus	Mummichog	M + FW + BR	Temperate	shallow	LDH-A, LDH-B, COI	L43525, L23792, EU524629
Osmeriformes	Osmeridae	Osmerus mordax	Rainbow smelt	M + FW + BR	Temperate	0–425	MDHc, mMDH	BT075651, BT075600
Salmoniformes	Salmonidae	Salmo salar	Atlantic salmon	M + FW + BR	Temperate	10–23 (0–210)	MDHc, mMDH	BT060183, BT048216
Gadiformes	Macrouridae	Coryphaenoides acrolepis	Pacific grenadier	M	Deep-water	900–1300	MyHC, COI	AB330141, JQ354060
Gadiformes	Macrouridae	Coryphaenoides yaquinae	n.a.	M	Deep-water	3400–5800	MyHC, COI	AB330139, GU440291
Perciformes	Cirrhitidae	Paracirrhites forsteri	Blackside hawkfish	M	Tropical	5–35	MyHC, COI	AJ243770, HQ561521
Perciformes	Carangidae	Seriola dumerili	Greater amberjack	M	Subtropical	18–72 (1–360)	MyHC, COI	AB032020, KC015917
Gadiformes	Gadidae	Boreogadus saida	Polar cod	M + BR	Polar	0–400	Hb-A, Hb-B, COI	DQ125471, Q1AGS6, KC015250