Table 1 –

Genes undergoing site-specific and branch-and-site-specific positive selection

Gene	Mus transcript	Myodes transcript	Site	Branch-and-site
Aqpl	ENSMUST00000004774	Mglareolus_00011822	Yes	Yes
Col4a1	ENSMUST00000033898	Mglareolus_00032740	Yes	No
Dspp	ENSMUST00000112771	Mglareolus_00014030	Yes	Yes
Fgf20	ENSMUST00000034014	Mglareolus_00013079	Yes	No
Runx3	EN SMU ST00000056977	Mglareolus_00033992	Yes	No
similar to Runx3	–	–	Yes	No*

^*HOG only contained four genes with one unrooted species’ sequence, could not be tested for branch-and-site specific selection.