Local adaptations of Mediterranean sheep and goats through an integrative approach.
Journal
Scientific reports
ISSN: 2045-2322
Titre abrégé: Sci Rep
Pays: England
ID NLM: 101563288
Informations de publication
Date de publication:
01 11 2021
01 11 2021
Historique:
received:
06
03
2021
accepted:
03
09
2021
entrez:
2
11
2021
pubmed:
3
11
2021
medline:
21
1
2022
Statut:
epublish
Résumé
Small ruminants are suited to a wide variety of habitats and thus represent promising study models for identifying genes underlying adaptations. Here, we considered local Mediterranean breeds of goats (n = 17) and sheep (n = 25) from Italy, France and Spain. Based on historical archives, we selected the breeds potentially most linked to a territory and defined their original cradle (i.e., the geographical area in which the breed has emerged), including transhumant pastoral areas. We then used the programs PCAdapt and LFMM to identify signatures of artificial and environmental selection. Considering cradles instead of current GPS coordinates resulted in a greater number of signatures identified by the LFMM analysis. The results, combined with a systematic literature review, revealed a set of genes with potentially key adaptive roles in relation to the gradient of aridity and altitude. Some of these genes have been previously implicated in lipid metabolism (SUCLG2, BMP2), hypoxia stress/lung function (BMPR2), seasonal patterns (SOX2, DPH6) or neuronal function (TRPC4, TRPC6). Selection signatures involving the PCDH9 and KLH1 genes, as well as NBEA/NBEAL1, were identified in both species and thus could play an important adaptive role.
Identifiants
pubmed: 34725398
doi: 10.1038/s41598-021-00682-z
pii: 10.1038/s41598-021-00682-z
pmc: PMC8560853
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
21363Informations de copyright
© 2021. The Author(s).
Références
PLoS Genet. 2013;9(1):e1003221
pubmed: 23349641
Mol Ecol. 2008 Jan;17(1):275-84
pubmed: 17927711
Bioinformatics. 2008 Jun 1;24(11):1403-5
pubmed: 18397895
BMC Genomics. 2014 Mar 27;15:240
pubmed: 24673797
BMC Genomics. 2019 Sep 18;20(1):717
pubmed: 31533613
BMC Genomics. 2018 Mar 27;19(1):217
pubmed: 29580201
Nature. 1999 Oct 21;401(6755):788-91
pubmed: 10548103
Pulm Circ. 2011 Oct-Dec;1(4):462-9
pubmed: 22530101
Nat Commun. 2018 Aug 6;9(1):3102
pubmed: 30082700
Natl Sci Rev. 2019 Nov;6(6):1201-1222
pubmed: 34691999
Sci Rep. 2016 May 27;6:26770
pubmed: 27230812
Heredity (Edinb). 2016 Mar;116(3):255-64
pubmed: 26555032
Proc Natl Acad Sci U S A. 2003 Dec 23;100(26):16065-70
pubmed: 14668438
Cell Rep. 2019 Mar 19;26(12):3191-3202.e8
pubmed: 30893593
Cardiol Young. 2019 Apr;29(4):462-466
pubmed: 30957726
Genet Sel Evol. 2020 May 14;52(1):25
pubmed: 32408891
PLoS One. 2014 Nov 03;9(11):e112007
pubmed: 25365342
Front Neurosci. 2017 Mar 28;11:138
pubmed: 28400714
Evol Appl. 2019 Mar 12;12(6):1096-1113
pubmed: 31293626
Eur J Hum Genet. 2019 Jan;27(1):150-159
pubmed: 30254217
Anim Genet. 2019 Feb;50(1):54-63
pubmed: 30549070
Genet Sel Evol. 2018 Nov 19;50(1):57
pubmed: 30449276
BMC Genomics. 2015 Jun 23;16:474
pubmed: 26100605
Genet Sel Evol. 2018 Mar 22;50(1):9
pubmed: 29566643
Mol Med Rep. 2016 Feb;13(2):1577-85
pubmed: 26718737
Animal. 2016 Feb;10(2):262-73
pubmed: 26503101
Mol Biol Evol. 2013 Jul;30(7):1687-99
pubmed: 23543094
BMC Bioinformatics. 2011 Jun 18;12:246
pubmed: 21682921
BMC Genomics. 2018 Jan 23;19(1):71
pubmed: 29357834
Genome Res. 2014 Aug;24(8):1308-15
pubmed: 24721644
J Cell Biol. 2013 Jan 7;200(1):61-80
pubmed: 23277425
Front Immunol. 2017 Jun 16;8:707
pubmed: 28670316
Mol Ecol Resour. 2017 Jan;17(1):67-77
pubmed: 27601374
Genet Sel Evol. 2018 Nov 19;50(1):58
pubmed: 30449284
Mol Neurobiol. 2016 May;53(4):2112-23
pubmed: 25934101
Genes Genomics. 2019 Aug;41(8):973-981
pubmed: 31119684
Heredity (Edinb). 2015 Nov;115(5):415-25
pubmed: 25944466
Genome Biol Evol. 2019 Jan 1;11(1):72-85
pubmed: 30517636
BMC Genet. 2018 May 18;19(1):31
pubmed: 29776331
Int J Biometeorol. 2014 Sep;58(7):1665-72
pubmed: 24362770
Cell Adh Migr. 2015;9(3):202-13
pubmed: 25914083
PLoS One. 2014 Aug 15;9(8):e103813
pubmed: 25126940
BMC Genomics. 2015 Mar 17;16:194
pubmed: 25888314
PLoS Biol. 2012 Feb;10(2):e1001258
pubmed: 22346734
Sci Rep. 2016 Dec 12;6:38932
pubmed: 27941843
G3 (Bethesda). 2018 Mar 2;8(3):945-952
pubmed: 29339406
Biochem Biophys Res Commun. 2016 Apr 15;472(4):617-23
pubmed: 26966068
Anim Genet. 2017 Feb;48(1):55-66
pubmed: 27807880
Genetics. 2014 Apr;196(4):973-83
pubmed: 24496008
Front Genet. 2019 Oct 01;10:901
pubmed: 31632437
PLoS One. 2019 Jun 14;14(6):e0209632
pubmed: 31199810
Bioinformatics. 2011 Aug 1;27(15):2156-8
pubmed: 21653522
J Cell Sci. 2015 Sep 1;128(17):3317-29
pubmed: 26187851
Mol Ecol Resour. 2015 Sep;15(5):1179-91
pubmed: 25684545
iScience. 2019 Jan 25;11:519-530
pubmed: 30581096
PLoS One. 2013 May 22;8(5):e63512
pubmed: 23717440
Mol Ecol. 2015 Sep;24(17):4348-70
pubmed: 26184487
Animals (Basel). 2019 Feb 28;9(3):
pubmed: 30823364
Front Genet. 2018 Jul 19;9:249
pubmed: 30105047
Anim Genet. 2014 Apr;45(2):256-66
pubmed: 24303943
Nat Commun. 2018 Mar 6;9(1):813
pubmed: 29511174
Am J Hum Genet. 2007 Sep;81(3):559-75
pubmed: 17701901
Mol Ecol Resour. 2018 Nov;18(6):1223-1233
pubmed: 29802785
Front Genet. 2018 Aug 14;9:318
pubmed: 30154830
Front Genet. 2017 Dec 07;8:205
pubmed: 29270192
Sci Rep. 2017 Oct 30;7(1):14348
pubmed: 29084988
Proc Natl Acad Sci U S A. 2003 Aug 5;100(16):9440-5
pubmed: 12883005
Genome Res. 2009 Sep;19(9):1655-64
pubmed: 19648217
Sci Rep. 2016 Jun 07;6:27296
pubmed: 27272025
Mol Biol Evol. 2016 Oct;33(10):2576-92
pubmed: 27401233
Genet Sel Evol. 2018 Dec 27;50(1):72
pubmed: 30587124
J Cell Sci. 2015 Apr 15;128(8):1455-64
pubmed: 25749861
Mol Ecol. 2011 Jun;20(12):2555-66
pubmed: 21651634
Am J Physiol Regul Integr Comp Physiol. 2010 Mar;298(3):R833-42
pubmed: 20042692
Multivariate Behav Res. 1966 Apr 1;1(2):245-76
pubmed: 26828106
PLoS One. 2009;4(3):e4668
pubmed: 19270757
Front Genet. 2018 Dec 19;9:607
pubmed: 30619449
Genet Sel Evol. 2016 Oct 6;48(1):76
pubmed: 27716022