Table 1.

Haplotypes or mutations responsible for embryonic lethality discovered by genome-scanning for haplotype or genotype homozygote insufficiency.

Breed	Haplotype	OMIA1 9 913 ID	Gene(s)2	Freq (%)	BTA3	Region (bp)
Ayrshire4	AH1	1 934	UBE3B	13.00	17	65 921 497
	AH2	2 134	RPAP2	9.80	3	51 267 548
Brown Swiss4	BH1	1 825	—	6.67	7	42 811 272–47 002 161
	BH2	1 939	TUBD1	7.78	19	11 063 520
Holstein-United States4	HH0	151	FANCI	2.76	21	21 184 869–21 188 198
	HH1	1	APAF1	1.92	5	63 150 400
	HH2	1 823	—	1.66	1	94 860 836–96 553 339
	HH3	1 824	SMC2	2.95	8	95 410 507
	HH4	1 826	GART	0.37	1	1 277 227
	HH5	1 941	TFB1M	2.22	9	93 223 651–93 370 998
	HHC	1 340	SLC35A3	1.37	3	43 412 427
	HCD	1 965	APOB	2.50	11	77 958 995
Holstein-France5	BY	151	FANCI	3.60	21	20 200 000–22 300 000
	HH1	1	APAF1	2.60	5	61 400 000–66 200 000
	HH2	1 823	—	1.70	1	93 000 000–97 400 000
	HH3	1 824	SMC2	2.50	8	94 000 000–96 500 000
	HH4	1 826	GART	3.60	1	1 900 000–3 300 000
	HH5/HH6	1 340	SLC35A3	3.90–4.60	3	45 800 000–52 600 000
	HH13	1 836	—	3.70	18	56 400 000–58 400 000
Holstein-Nordic6	05–1 351/05–1 476	1 907	—	1.60–2.02	5	106 713 645–114 405 063
	07–501	1 909	—	1.92	7	34 633 456–36 127 497
	08–1 276/08–1 301/08–1 326/08–1 351	—	—	1.48–1.54	8	83 888 935–89 859 523
	11–926/11–976/11–1 001/11–1 026	1 910	—	1.35–1.37	11	55 345 639–63 759 322
	19–151	1 911	—	1.95	19	13 154 786–14 478 389
	21–276/21–30½1–326	—	—	1.94–2.05	21	20 477 690–24 844 501
Holstein-New Zealand7	—	2 036	TTF1	3.52	11	102 485 897–102 515 271
	—	2 037	RABGGTB	2.13	3	69 316 067–69 322 906
	—	2 038	RNF20	1.82	8	92 911 255–92 935 750
Jersey-United States4	JH1	1 697	CWC15	12.10	15	15 707 169
	JH2	1 942	—	1.30	26	8 812 759–9 414 082
Jersey-New Zealand7	—	2 035	OBFC1	6.59	26	24 700 354–24 737 868
Montbeliarde5	MH1	1 827	SHBG	9.00	19	27 600 000–29 400 000
	MH2	1 828	SLC37A2	7.00	29	27 900 000–29 100 000
	MH3	1 842	—	5.10	2	31 500 000–32 800 000
	MH5	1 844	—	7.10	6	73 300 000–74 400 000
	MH6	1 845	—	2.60	7	80 100 000–81 700 000
	MH8	1 847	—	3.50	13	76 400 000–77 600 000
Normande5	NH1	1 851	—	1.80	24	38 100 000–39 200 000
	NH2	1 852	—	3.80	1	145 700 000–146 800 000
	NH5	1 829	—	1.90	7	3 600 000–4 600 000
	NH6	1 855	—	1.90	15	59 800 000–61 100 000
Danish Swedish and Finnish Red Cattle8	A27	1 901	RNASEH2B	6.50–16.00	12	20 101 696–20 755 193
Nordic Red Cattle9	—		BTBD9, GLO1, DNAH8		23	12 291 761–12 817 087
Angus10	ANH1	—	—	2.30	1	27 786 985–29 095 768
	ANH2	—	—	7.60	4	82 467 969–83 996 686
	ANH3	—	—	2.30	8	62 040 920–63 000 189
	ANH4	—	—	3.20	12	59 989 293–61 258 655
	ANH5	—	—	3.80	15	82 317 986–83 144 172
	ANH6	—	—	4.50	17	46 514 063–47 462 424
	ANH7	—	—	4.40	29	43 043 207–44 243 444
Fleckvieh11	FH1	1 957	—	2.90	1	1 668 494–6 187 555
	FH2	1 958	SLC2A2	4.10	1	97 239 973
	FH3	1 959	—	3.30	10	26 929 817–35 479 280
	FH4	1 960	SUGT1	3.30	12	11 131 497
Belgian Blue7	—	2 042	EXOSC4	1.33	14	1 947 198–1 949 074
	—	2 043	MED22	1.15	11	104 305 076–104 311 650
	—	2 039	MYH6	4.99	10	21 325 414–21 344 965
	—	2 041	RPIA	1.89	11	47 220 160–47 254 704
	—	2 040	SNAPC4	5.13	11	103 884 749–103 905 548

¹Online mendelian inheritance in animals. Taxon ID 9 913 represent cattle.

²Multiple listed genes represent a deletion.

³Bos taurus chromosome.

⁴Cole et al. (2017).

⁵Fritz et al. (2013).

⁶Sahana et al. (2013).

⁷Charlier et al. (2016).

⁸Kadri et al. (2014).

⁹Sahana et al. (2016).

¹⁰Hoff et al. (2017). Haplotypes not validated as fertility associated.

¹¹Pausch et al. (2015).