The demographic history and adaptation of Canarian goat breeds to environmental conditions through the use of genome-wide SNP data

Senczuk, Gabriele; Macrì, Martina; Di Civita, Marika; Mastrangelo, Salvatore; del Rosario Fresno, Maria; Capote, Juan; Pilla, Fabio; Delgado, Juan Vicente; Amills, Marcel; Martínez, Amparo

doi:10.1186/s12711-023-00869-0

Genetics Selection Evolution

Table 1 Names, geographic origin and codes for each goat breed and their sample sizes and genetic diversity indices

From: The demographic history and adaptation of Canarian goat breeds to environmental conditions through the use of genome-wide SNP data

Breed name	Geographic origin	Breed code	n	Ho	Ho SD	uHe	uHe SD	F_IS	F_ROH
Canarian breeds
Majorera	Canary	MAJ_CA_ES	60	0.380	0.139	0.385	0.118	0.013	0.030
Palmera 1	Canary	PAL_CA_ES	61	0.307	0.197	0.309	0.176	0.004	0.098
Palmera 2	Canary	PAL2_CA_ES	15	0.301	0.175	0.308	0.167	0.024	0.103
North Tinerfeña	Canary	TIN_CA_ES	64	0.363	0.142	0.364	0.134	0.002	0.052
South Tinerfeña	Canary	TIS_CA_ES	39	0.360	0.158	0.364	0.140	0.010	0.034
African breeds
Barcha	Morocco	BAR_MA	4	0.403	0.256	0.422	0.165	0.044	0.046
Bezoar	Iran	BEZ_IR	7	0.275	0.199	0.359	0.176	0.235	0.170
Barki	Egypt	BRK_EG	134	0.410	0.100	0.421	0.093	0.026	0.036
Cameroon goat	Cameroon	CAM_CM	40	0.383	0.137	0.391	0.124	0.020	0.023
Djallonke	Burkina Faso	DJA_BF	12	0.363	0.191	0.368	0.154	0.014	0.023
Draa	Morocco	DRA_MA	4	0.403	0.255	0.420	0.165	0.039	0.061
Ghazalia	Morocco	GHA_MA	4	0.404	0.255	0.419	0.166	0.037	0.053
Guera	Mali	GUE_ML	25	0.392	0.171	0.374	0.141	-0.049	0.058
Maure	Mali	MAU_ML	14	0.398	0.172	0.393	0.133	-0.013	0.011
Moroccan goat	Morocco	MOR_MA	10	0.395	0.171	0.425	0.114	0.070	0.100
Mzabite	Algeria	MZB_AL	12	0.420	0.161	0.432	0.106	0.027	0.070
Naine	Mali	NAI_ML	17	0.362	0.177	0.364	0.151	0.006	0.031
Nubian	Egypt	NBN_EG	84	0.368	0.136	0.380	0.130	0.033	0.102
Noire de l’Atlas	Morocco	NDA_MA	4	0.395	0.255	0.420	0.167	0.058	0.129
Nord	Morocco	NOR_MA	4	0.405	0.253	0.430	0.157	0.059	0.064
Oasis	Egypt	OSS_EG	72	0.376	0.113	0.408	0.108	0.078	0.077
Peulh	Mali	PEU_ML	25	0.391	0.153	0.390	0.127	− 0.004	0.015
Red Sokoto	Nigeria	RSK_NG	21	0.376	0.150	0.397	0.124	0.051	0.069
Sahel	Burkina Faso	SAH_BF	15	0.383	0.169	0.392	0.132	0.023	0.035
Soudanaise	Mali	SDN_ML	24	0.387	0.151	0.389	0.127	0.006	0.011
Sahel	Nigeria	SHL_NG	21	0.395	0.148	0.402	0.119	0.017	0.017
Saidi	Egypt	SID_EG	60	0.392	0.113	0.415	0.102	0.056	0.061
Targui	Mali	TAR_ML	22	0.390	0.152	0.394	0.125	0.009	0.031
Tunisian	Tunisia	TUN_TN	23	0.416	0.135	0.422	0.101	0.015	0.031
West African Dwarf	Cameroon	WAD_CM	34	0.350	0.157	0.363	0.146	0.034	0.034
West African Dwarf	Nigeria	WAD_NG	21	0.354	0.167	0.366	0.147	0.031	0.036
European breeds
Bermeja	Spain	BEY_ES	24	0.407	0.144	0.408	0.115	0.001	0.023
Bianca	Italy	BIA_IT	24	0.393	0.138	0.413	0.110	0.047	0.087
Garganica	Italy	GAR_IT	21	0.416	0.165	0.389	0.128	− 0.068	0.055
Garfagnina	Italy	GRF_IT	27	0.396	0.139	0.413	0.110	0.040	0.068
Mallorquina	Spain	MAL_ES	20	0.370	0.159	0.389	0.132	0.048	0.111
Messinese	Italy	MES_IT	24	0.417	0.136	0.420	0.104	0.006	0.013
Malagueña	Spain	MLG_ES	42	0.423	0.116	0.427	0.093	0.010	0.030
Maltese	Malta	MLT_MT	16	0.369	0.163	0.390	0.132	0.054	0.134
Murciano-Granadina	Spain	MUG_ES	20	0.411	0.148	0.412	0.113	0.003	0.034
Nera di Varzasca	Italy	NVE_IT	19	0.394	0.158	0.398	0.127	0.011	0.045
Blanca de Rasquera	Spain	RAS_ES	20	0.378	0.156	0.399	0.124	0.054	0.111
Vallesana	Italy	VLS_IT	22	0.347	0.166	0.369	0.145	0.061	0.150

Observed Heterozygosity (Ho) with standard deviation (SD), unbiased expected eterozygosity (uHe) with standard deviation (SD), inbreeding coefficient (F_IS) and inbreeding coefficient based on ROH are reported

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ISSN: 1297-9686

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