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Table 2 Genomic windows identified in the single breed FST analysis on different porcine chromosomes (SSC) and shared by two or more pig breeds and wild boars

From: Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems

Genome windows (SSC: start–end bp)Pig populationsAnnotated genes (± 200 kb)
5:29,300,001–29,400,001Bísara, Moravka, SardaGNSd, RASSF3d, TBC1D30d, WIF1a, LOC106510322b, LEMD3a
5:29,400,001–29,500,001Alentejana, Bísara, Moravka, SardaTBC1D30d, LOC10651032d, WIF1c, LEMD3a, MSRB3a
5:29,500,001–29,600,001Bísara, Moravka, SardaLOC106510322d, WIF1c, LEMD3c, MSRB3a
5:29,700,001–29,800,001Alentejana, BísaraWIF1a, LEMD3a, MSRB3c
5:30,000,001–30,100,001Swallow-Bellied Mangalitsa, Moravka, SardaHMGA2a, MSRB3a
5:30,100,001–30,200,001Moravka, SardaHMGA2c
5:30,200,001–30,300,001Moravka, SardaLLPHd, TMBIM4d, HMGA2c
5:30,500,001–30,600,001Swallow-Bellied Mangalits, MoravkaHMGA2a, LLPHd, HELBd, GRIP1d, IRAK3b, TMBIM4b
6:53,300,001–53,400,001Lithuanian White old type, Italian Large WhiteSELENOWd, BSPH1d, EHD2d, BICRAb, CRXd, MEIS3d, NOP53d, C5AR2d, SULT2A1d, C5AR1d, ZNF541b, NAPAd, SLC8A2d, DHX34d, ELSPBP1d, KPTNd
8:43,800,001–43,900,001Turopolje, Black SlavonianMSMO1d, LOC110262006d, CPEd, LOC110261946d, TMEM192d, LOC110261945d, KLHL2b, LOC102163658d, LOC102163398d
8:46,600,001–46,700,001Swallow-Bellied Mangalitsa, Turopolje, Schwäbisch-Hällisches Schwein–
8:66,300,001–66,400,001Lithuanian White old type, Lithuanian Indigenous WattleLOC100515222d, YTHDC1d, LOC100515741d, LOC100516628b, LOC100624891d, LOC110262115d, LOC110262116d, LOC100623504d, LOC100515394d, UGT2B31b
8:66,900,001––67,000,001Bísara, SardaLOC110262013d, CABS1d, LOC110262014d, ODAMd, LOC100624541d, PRR27d, CSN1S2b, LOC110262119d, CSN2b, CSN1S1b, SULT1E1d, CSN3d, STATHb
9:99,500,001–99,600,001Nero Siciliano, Majorcan BlackLOC106504983b, SEMA3Cd, LOC110255497b, CD36d, LOC100511343d
9:99,900,001–100,000,001Nero Siciliano, Majorcan BlackGNAT3b, CD36d, GNAI1d
15:57,800,001–57,900,001eMora Romagnola, Italian Duroc–
15:97,300,001–97,400,001Schwäbisch-Hällisches Schwein, Wild Boar–
15:105,300,001–105,400,001Casertana, Majorcan BlackTMEM237d, CDK15d, ALS2b, C2CD6d, MPP4b
  1. aGenes affecting or associated to several traits
  2. bGenes affecting or associated to several traits and within the reported windows
  3. cOther listed genes that are within the reported windows
  4. dOther listed genes are ± 200 kb upstream or downstream the reported windows
  5. eRegion close to the OCA2 gene
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Genetics Selection Evolution

ISSN: 1297-9686