Assessing signatures of selection through variation in linkage disequilibrium between taurine and indicine cattle

Pérez O’Brien, Ana M; Utsunomiya, Yuri T; Mészáros, Gábor; Bickhart, Derek M; Liu, George E; Van Tassell, Curtis P; Sonstegard, Tad S; Da Silva, Marcos VB; Garcia, José Fernando; Sölkner, Johann

doi:10.1186/1297-9686-46-19

Genetics Selection Evolution

Table 4 Common signals between VarLD signals and bovine CNV

From: Assessing signatures of selection through variation in linkage disequilibrium between taurine and indicine cattle

Comparison	Chr	Signal position (bp)	CNV position (bp)	Author	Genes (*)
GIR/BSW	1	70,765,503:70,792,506	70,749,256:70,782,268	[16, 17]	LMLN
NEL/BSW	3	15,271,777:15,311,541	15,239,708:15,333,979	[16]	BT.58583
NEL/ANG	3	15,299,719:15,400,121	15,239,708:15,333,979	[16, 17]	BT.58583
GIR/BSW	4	73,396,066:73,553,054	73,525,485:73,535,374	[17]	ZNF804B
GIR/ANG		73,468,102:73,561,003
NEL/BSW		73,483,619:73,529,284
NEL/ANG		73,512,503:73,542,817		[16, 17]
GIR/NEL	5	48,655,139:49,351,919	49,247,629:49,260,811	[16, 17]	TBC1D30
GIR/ANG	6	1,129,004:1,201,370	1,193,082:1,294,965	[16, 17]	-
NEL/ANG	6	1,169,452:1,207,911	1,193,082:1,294,965	[16, 17]	-
GIR/NEL	6	54,209,812:54,244,211	54,230,479:54,239,347	[16, 17]	-
GIR/NEL	6	66,750,850:66,787,589	66,752,193:66,763,697	[16, 17]	-
GIR/NEL	6	81,372,213:81,431,979	81,418,922:81,428,078	[16, 17]	-
GIR/BSW		81,574,642:81,625,162	81,459,939:81,580,677		TECRL
GIR/ANG		81,580,533:81,637,706	81,459,939:81,580,677		TECRL
BSW/ANG	7	53,792,514:53,993,49	53,905,353:53,952,520	[16, 17]	PCDHB4
			53,966,895:54,000,730	[17]	PCDHB6
			53,966,895:54,000,730	[17]	PCDHB7
GIR/NEL	7	65,840,794:65,909,733	65,783,735:65,871,908	[16, 17]	-
GIR/BSW	8	46,292,757:46,328,656	46,318,922:46,341,524	[16, 17]	C8H9orf135
GIR/ANG		46,309,661:46,327,604
NEL/BSW		46,312,788:46,316,213
NEL/ANG	9	49,905,617:49,915,316	49,985,406:50,007,670	[17]	ASCC3
GIR/BSW	12	41,634,760:41,915,116	41,713,393:41,718,971	[16, 17]	-
NEL/BSW	12	41,664,252:41,803,562	41,713,393:41,718,971	[16, 17]	-
GIR/BSW	12	41,634,760:41,915,116	41,806,286:41,835,914	[16, 17]	-
GIR/ANG	12	41,788,070:41,814,404	41,806,286:41,835,914	[16, 17]	-
GIR/ANG	12	41,987,029:42,007,452	41,947,274:41,976,705	[17]
GIR/ANG	12	41,987,029:42,007,452	41,992,061:42,022,492	[16, 17]	-
NEL/ANG	12	60,197,449:60,278,968	60,210,227:60,213,095	[16, 17]	-
NEL/BSW	15	663,684:677,309	547,375:843,231	[16, 17]	-
NEL/BSW	15	51,762,198:51,925,201	51,800,593:51,828,442		RRM1
NEL/ANG	15	51,800,901:51,937,349	51,800,593:51,828,442		RRM1
GIR/NEL	20	40,153,984:40,330,326	40,254,029:40,255,874	[16, 17]	ADAMTS12
GIR/NEL	21	60,490,921:60,601,371	60,520,424:60,545,084	[16, 17]	-
GIR/NEL	21	60,490,921:60,601,371	60,560,357:60,579,349	[16, 17]	-
BSW/ANG	23	375,470:629,385	436,008:1,208,595	[16, 17]	KHDRBS2
BSW/ANG	23	756,762:853,782	436,008:1,208,595	[16, 17]	KHDRBS2

The breed comparison where the signal came from, the chromosome number, the VarLD signal and CNV positions in bp, the author reporting the CNV, and the genes with a short description, are all reported here; several VarLD signals that coincide with the same CNV are indicated in bold characters, while several CNV concurring with one signal are indicated in italic characters; *Gene ID source: ENSEMBL: http://www.ensembl.org/.

Back to article page

ISSN: 1297-9686

Contact us

Submission enquiries: helene.hayes@inrae.fr
General enquiries: info@biomedcentral.com