Transcriptome analysis reveals differentially expressed genes associated with germ cell and gonad development in the Southern bluefin tuna (Thunnus maccoyii)

Table 6 Southern bluefin tuna germ cell-specific genes from transcriptome assembly of gonad cells

ORF id	Length (bp)	Gene^a	CDs coverage^b	Annotated species	References^c
m.177200	1104	cxcr4	Complete	Stegastes partitus	[107, 118, 119, 153, 154]
m.21888	1173	gfra1	Complete	Xiphophorus maculatus	[107, 155–158]
m.72178	1647	ly75	Complete	Haplochromis burtoni	[8, 107, 159]
m.200580	681	nanos1	Complete	S. partitus	[160–162]
m.83114	483	nanos2	Complete	Dicentrarchus labrax	[107, 156, 163, 164]
m.26953	5511	notch1	5’ partial	S. partitus	[107, 165]
m.156253	4419	pdgfra	Complete	S. partitus	[103, 116, 166]
m.166899	1434	plzf	3’ partial	O. niloticus	[107, 155]
m.3709	1431	pou5f1/oct4	Complete	Larimichthys crocea	[107, 109, 156, 167, 168]
m.15308	1284	wt1	Complete	Maylandia zebra	[115, 116]
m.155583, m.127269	1314	dead end	Complete	T. orientalis	[15, 107, 139]
m.162404	1935	vasa	Complete	T. orientalis	[140, 150–152]

^aORFs were annotated by the NCBI non-redundant (nr) protein database, with an e-value <1×10⁻³. Gene full names and details are provided in sections ‘Germ cell-specific genes’, ‘Germ cell-specific genes’ and ‘Additional annotated germ cell-specific genes’. ^bORF coding regions (CDs) predicted by TransDecoder from each transcript and considered as complete based on the presence of a starting methionine and an ending stop codon. ^cStudies indicating germ cell specificity of the gene

ISSN: 1471-2164