Post-genotyping optimization of dataset formation could affect genetic diversity parameters: an example of analyses with alpine goat breeds

Pogorevc, Neža; Simčič, Mojca; Khayatzadeh, Negar; Sölkner, Johann; Berger, Beate; Bojkovski, Danijela; Zorc, Minja; Dovč, Peter; Medugorac, Ivica; Horvat, Simon

doi:10.1186/s12864-021-07802-z

Table 3 Matrix of calculated differences between D_EST values of breeds in Alp1Step and Alp2Step (D_EST Alp2Step - D_EST Alp1Step)

From: Post-genotyping optimization of dataset formation could affect genetic diversity parameters: an example of analyses with alpine goat breeds

	FR_CMA	IT_VLD	CH_SAA	CH_VAL	CH_NVR	CH_TSG	CH_TGB	CH_APP	CH_BOT	CH_PEA	CH_GST	CH_CHA	IT_ORO	IT_ABL	IT_CMA	IT_VLP	IT_PSR	AT_BLB	AT_CHA	AT_PNZ	AT_TAP	SI_DRZ	AT_STP
FR_CMA	0
IT_VLD	0.005	0
CH_SAA	0.004	0.013	0
CH_VAL	−0.011	−0.005	−0.008	0
CH_NVR	−0.005	0.003	0.003	−0.012	0
CH_TSG	0.008	0.018	0.014	−0.003	0.014	0
CH_TGB	−0.005	0.001	−0.002	− 0.011	−0.006	0.003	0
CH_APP	−0.004	0.002	−0.001	−0.009	− 0.006	0.002	0.003	0
CH_BOT	−0.004	0.001	0.001	−0.011	− 0.007	0.005	− 0.002	−0.002	0
CH_PEA	−0.001	0.007	0.005	−0.010	− 0.004	0.012	− 0.003	−0.002	− 0.004	0
CH_GST	−0.005	0.001	0.002	−0.014	− 0.007	0.004	− 0.005	−0.005	− 0.007	−0.004	0
CH_CHA	0.018	0.019	0.015	−0.003	0.007	0.020	0.003	0.006	0.003	0.011	0.005	0
IT_ORO	0.003	0.011	0.009	−0.005	0.004	0.017	0.000	0.003	0.003	0.006	0.002	0.016	0
IT_ABL	0.001	0.009	0.012	−0.011	−0.002	0.016	0.046	0.008	0.005	0.005	0.001	0.017	0.009	0
IT_CMA	0.073	0.050	0.038	0.018	0.036	0.052	0.024	0.023	0.025	0.040	0.033	0.033	0.040	0.054	0
IT_VLP	−0.007	0.004	0.005	−0.016	−0.009	0.007	−0.009	−0.008	− 0.009	−0.005	− 0.011	0.010	0.003	−0.003	0.047	0
IT_PSR	0.002	0.011	0.012	−0.008	0.001	0.017	−0.002	− 0.001	−0.001	0.004	−0.003	0.017	0.010	0.005	0.052	0.003	0
AT_BLB	−0.007	0.004	0.003	−0.014	− 0.008	0.007	− 0.007	−0.007	− 0.008	−0.005	− 0.009	0.008	0.003	−0.004	0.043	−0.007	0.000	0
AT_CHA	−0.002	0.007	0.006	−0.011	−0.003	0.009	−0.004	− 0.003	−0.005	0.000	−0.005	0.002	0.006	0.003	0.023	−0.005	0.003	−0.004	0
AT_PNZ	0.003	0.011	0.010	−0.007	0.002	0.016	0.001	−0.001	0.001	0.004	0.000	0.015	0.010	0.008	0.045	0.002	0.010	0.001	0.004	0
AT_TAP	−0.006	0.002	0.001	−0.010	− 0.005	0.008	− 0.007	−0.004	− 0.006	−0.003	− 0.006	0.005	0.002	−0.001	0.025	−0.008	0.000	−0.007	− 0.004	0.002	0
SI_DRZ	0.012	0.018	0.016	0.000	0.008	0.021	0.005	0.004	0.008	0.012	0.007	0.021	0.016	0.014	0.051	0.009	0.017	0.009	0.013	0.017	0.006	0
AT_STP	−0.002	0.007	0.020	−0.012	−0.005	0.013	−0.006	−0.003	− 0.004	0.000	− 0.006	0.014	0.006	0.002	0.051	−0.006	0.003	−0.006	0.000	0.006	0.004	0.013	0
MIN	−0.011	− 0.005	−0.008	− 0.016	−0.012	− 0.003	−0.011	− 0.009	−0.011	− 0.010	−0.014	− 0.003	−0.005	− 0.011	0.018	− 0.016	−0.008	− 0.014	−0.011	− 0.007	−0.010	0.000	−0.012
MAX	0.073	0.050	0.038	0.018	0.036	0.052	0.046	0.023	0.025	0.040	0.033	0.033	0.040	0.054	0.073	0.047	0.052	0.043	0.023	0.045	0.025	0.051	0.051
MEAN	0.003	0.009	0.008	−0.008	0.000	0.013	0.001	0.000	−0.001	0.003	−0.001	0.012	0.008	0.009	0.040	−0.001	0.007	−0.001	0.001	0.007	−0.001	0.014	0.004

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