kinship_matrix

Kinship matrix, calculated in GEMMA, used for genome wide association mapping in GEMM

BIM_file

.bim file, generated by PLINK, used for genome wide association mapping in GEMM

BED_file

.bed file, generated by PLINK, used for genome wide association mapping in GEMM

FAM_file

.fam file, generated by PLINK, used for genome wide association mapping in GEMM

SNPstreamWildHybrids_Turner2011evolution

Genotype data, wild-caught hybrids

ReproPhenotypes_Turner2011evolution

Reproductive phenotype data. Column headings are defined in "Materials and Methods.

SNPchip5cMlabBredMales_Turner2011evolution

Genotype data for lab-bred hybrid males. 1 marker/ ~5 cM, from Mouse Diversity Array

Candidate promoter sequences of the solitary genes.

<p>A: detail of the P element showing the sequences used to generate the position-specific weight matrix for homeodomain factor binding sites; on the main sequence, 3'-pointing arrows in salmon show position and orientation of homeodomain factor binding sites as annotated by Vassalli <i>et al</i>.; blue arrows, also 3'-oriented, show emipalindromes identified by EMBOSS Palindrome and used to extend sequences to be added to the matrix; grey boxes mark sequence stretches conserved between the P element and the neighboring <i>Olfr713</i> (<i>P3</i>) promoter (Conserved P-P3) or between the P and the H element (Conserved P-H); a matrix (depicted on the right, top) was obtained aligning the three extended binding sites on P element and the single extended binding site on H element (identical to the central binding site on P element). B: on the putative promoter of <i>Olfr266</i> (3'-pointing grey arrow) a homeodomain factor binding site (3'-pointing salmon arrow labelled as HDBS) is predicted; also, sequences conserved in Mammalia Eutheria are found (green boxes); more towards the 3'-end of the putative promoter, SNPs that are present in the wild for <i>Mus musculus domesticus</i> are found in two positions. C: multi-alignments of candidate promoter sequences (5'-3') from different mouse populations for the solitary genes plus (orange box) the non-solitary, reference odorant receptor gene <i>Olfr6</i> (<i>M50</i>); for <i>Olfr466</i> two different sequences are presented, one 5' RACE-derived (tagged with [R]) and one based on Plessy <i>et al</i>. (labelled with [P]); B6 stands for C57BL/6J, W stands for consensus of all wild-caught populations, F stands for French population, G stands for German population and I stands for Iranian population; in brown are marked mutant C57BL/6J bases; in violet are highlighted bases differing from consensus; thin vertical lines (light blue) on sequence alignment mark the position of variations in at least some of the 36 non-C57BL/6J laboratory strains, reporting also the fraction of strains carrying the variation (above) and the variation details (below); for <i>Olfr266</i>, sequences boxed in green are conserved in Mammalia Eutheria, and bases in arrowed salmon box (arrow points towards 3') are part of the predicted homeodomain factor binding site.</p

Chromosomal distribution of the solitary genes in Muridae.

<p>Solitary genes for <i>Mus musculus</i> (GRCm38.p1) and <i>Rattus norvegicus</i> (RGSC 3.4) are indicated in light green if intact, in dark green if pseudogenized. Grey dashed lines connect each solitary gene with its ortholog. Yellow and orange squares, amplified below the chromosomal diagram of the corresponding species, show pairs of solitary genes that (based on annotation) retain a conserved synteny in Muridae (while a non-annotated, neighboring odorant receptor gene is present for <i>Olr390</i>). The distance (measured in Mb) between genes of each gene pair is annotated. Chromosome bands represent Giemsa staining.</p

Solitary genes expressed in the mouse main olfactory epithelium.

<p><i>In situ</i> hybridization of the main olfactory epithelium of three-day-old mice (n = 3), showing the expression of the eight mouse solitary genes: <i>Olfr19</i> (<i>M12</i>), <i>Olfr49</i>, <i>Olfr266</i>, <i>Olfr267</i>, <i>Olfr370</i>, <i>Olfr371</i>, <i>Olfr466</i> and <i>Olfr1402</i> (green). Nuclear counterstaining is with DAPI (magenta). The table on the right reports the average number of olfactory sensory neurons (± a standard deviation) for each solitary gene. Scale bars: 20 μm.</p