A large new subset of TRIM genes highly diversified by duplication and positive selection in teleost fish

Table 1 ftr expression in zebrafish embryos

Class	Sequences from control embryos (n= 32)	Sequences from virus or IFN-stimulated embryos (n= 35)
1	11 (34%)	9 (26%)
	ftr14 (2x), ftr15 (3x), ftr39 (3x), ftr56, ftr65 (2x)	ftr02 (2x), ftr15, ftr23, ftr39, ftr56 (2x), ftr64, ftr65
1b	-	2 (6%)
		ftr15, ftr39
2	2 (6%)	3 (9%)
	ftr15, ftr65	ftr15 (3x), ftr39*
2b	1 (3%)	1 (3%)
	ftr06	ftr06
3	5 (16%)	6 (17%)
	ftr14, ftr15, ftr19l, ftr51, ftr56	ftr07, ftr14, ftr19l (2x), ftr39, ftr56
3b	4 (13%)	8 (23%)
	ftr03 (3x), ftr65	ftr02(3x), ftr03 (3x), ftr23, ftr34
5	2 (6%)	-
	ftr15, ftr65
5b	7 (22%)	3 (9%)
	ftr15, ftr23, ftr39 (3x), ftr65 (2x)*	ftr39, ftr64, ftr65
6	-	2 (6%)
		ftr56, ftr64*

Group A finTRIM genes expressed in zebrafish embryos, as deduced from 3'RACE. Control embryos were either 72 hpf non-manipulated embryos (four sequences); 72 hpf, mcherry-transduced embryos (six sequences); 78 hpf non-manipulated embryos (10 sequences) or 96 hpf non-manipulated embryos (12 sequences). Stimulated embryos were either 72 hpf, zIFN1-transduced embryos (10 sequences); 78 hpf, SVCV-infected embryos (five sequences); or 96 hpf, IHNV-infected embryos (20 sequences). Multiple occurrences of ftr in different classes correspond either to allelic (*) or to splicing variants. Protein isoforms were classified according to Figure 3. Accession numbers [GenBank:AM941305–AM941371].

ISSN: 1741-7007