Genetic Diversity of Kıvırcık Sheep Breed Reared in Different Regions and its Relationship with Other Sheep Breeds in Turkey

Figures & data

Figure 1. Regions from which samples were obtained (KIV=Kıvırcık; KM=Karacabey Merino; PRLK=Pırlak).

Figure 2. Dendrogram constructed following Nei’s minimum genetic distances among five flocks.

Figure 3. Estimation of the population structure with different K values.

Figure 4. Dendrogram constructed following Nei’s minimum genetic distances among three Kıvırcık flocks.

Table 1. Genetic variability measures of the fifteeen investigated loci.

Loci	N	Allelic range, bp	TNA/locus	MNA/locus	NE	PIC	FIS^*	FIT^*	FST^*	Ho	He	Ĥ	DST	GST	HT
OarFCB304	162	148–188	21	15.00	7.86	0.86	-0.028	-0.018	0.010	0.86	0.88	0.86	0.002	0.002	0.871
OarFCB193	163	96–136	18	14.33	7.30	0.85	-0.109	-0.095	0.013	0.93	0.87	0.85	0.004	0.005	0.86
OarFCB20	165	83–125	22	16.67	6.19	0.83	0.210	0.223	0.017	0.70	0.84	0.84	0.007	0.008	0.862
OarAE0129	163	131–165	16	11.00	3.47	0.67	0.277	0.293	0.022	0.53	0.71	0.72	0.008	0.011	0.745
BM1818	165	246–278	12	8.00	2.27	0.49	0.008	0.071	0.063	0.61	0.56	0.49	0.029	0.055	0.529
INRA0132	161	150–178	15	12.00	5.12	0.79	0.130	0.151	0.025	0.65	0.81	0.75	0.012	0.015	0.774
OarCP34	163	108–132	13	10.67	6.99	0.84	-0.128	-0.112	0.014	0.95	0.86	0.84	0.005	0.006	0.859
D5S2	163	186–214	14	10.33	4.31	0.74	0.255	0.271	0.021	0.60	0.77	0.73	0.008	0.011	0.747
CSRD0247	161	211–255	18	13.33	7.09	0.85	-0.119	-0.102	0.015	0.93	0.86	0.84	0.007	0.008	0.853
MCM0527	159	161–181	12	8.67	5.27	0.79	0.300	0.318	0.026	0.51	0.81	0.78	0.012	0.015	0.807
BM8125	161	110–136	13	9.67	5.03	0.77	0.200	0.213	0.016	0.63	0.80	0.79	0.005	0.006	0.803
HSC	161	267–299	16	12.00	5.63	0.80	0.405	0.417	0.020	0.51	0.83	0.80	0.007	0.008	0.82
OARFCB128	163	98–134	15	11.00	6.32	0.82	0.197	0.215	0.023	0.63	0.84	0.82	0.011	0.013	0.846
OARJMP29	163	106–152	19	14.00	7.75	0.86	0.016	0.031	0.015	0.84	0.87	0.87	0.006	0.007	0.885
MAF214	162	174–254	20	11.67	4.19	0.73	-0.185	-0.130	0.046	0.91	0.76	0.75	0.031	0.04	0.785
Mean			16.27	11.89	5.65	0.78	0.095	0.116	0.023	0.72	0.81	0.78	0.010	0.014	0.803

TNA, total number of alleles; MNA, mean number of alleles; NE, effective number of alleles; PIC, polymorphic information content; Ho, observed heterozygosity; He, expected heterozygosity; Ĥ, avarage heterozygosity; D_ST, diversity between breeds; G_ST, coefficient of gene differentiation; H_T, Nei’s gene diversity.

*Wright’s statistics according to Weir and Cockerham (1984).

Table 2. Some diversity parameters for each breed across fifteen loci.

Breeds	N	MNA/locus	Ĥ		FIS	HWE	NPA
			Ho (SE)	He (SE)			^*	^**	Total
KIV	100	14.33	0.71 (0.182)	0.80 (0.085)	0.1196	15	3	37	40
KM	34	10.27	0.72 (0.229)	0.75 (0.124)	0.0672	10	1	5	6
PRLK	31	11.07	0.63 (0.265)	0.78 (0.081)	0.2139	10	1	13	14

MNA, mean number of alleles; H, mean heterozygosity; Ho, observed heterozygosity; He, expected heterozygosity; FIS, within-breed heterozygote deficiency; HWE, Hardy-Weinberg equilibrium; NPA, number of private alleles; SE, standard error; KIV, Kıvırcık; KM, Karacabey Merino; PRLK Pırlak.

*>5%

**<5%.

Table 3. Estimated posterior probabilities for different numbers of inferred clusters and AK statistics.

K	[Ln Pr(X|K)]	ΔK
1	-10051.70	-
2	-9850.62	3.341938
3	-9723.79	0.264650
4	-9572.61

Table 4. Nei’s unbiased measures of genetic identity and genetic distance.

Population	KIV-BURSA	KIV-ISTANBUL	KIV-MANISA
KIV-BURSA	-	0.9462	0.9015
KIV-ISTANBUL	0.0553		0.8937
KIV-MANISA	0.1037	0.1124

Appendix Table. Thermal cycling conditions used in the amplification of microsatellite loci.

Loci (fluorescence dye)	Chromatography	Multiplex group	First denaturation	Denaturation	Annealing	Extension	Cycle	Final extension
BM1818 (D4)	20	1	95°C (5 min)	95°C (40 sec)	63-54.C (40 sec)	72°C (60 sec)	40	72°C (10 min)
D5S2 (D4)	Unknown
INRA0132 (D4)	20
OarAE0129 (D2)	5
OarCP34 (D4)	3
OarFCB193 (D3)	11
OarFCB20 (D2)	2
OarFCB304 (D3)	19
BM8125 (D3)	17	2	95°C (5 min)	95°C (40 sec)	60-50°C (40 sec)	72°C (60 sec)	34	72°C (10 min)
CSRD0247 (D3)	14
HSC (D2)	20
MAF214 (D4)	16
McM0527 (D3)	5
OarFCB128 (D2)	2
OarJMP29 (D4)	24