Raw data and analytical code Turissini et al. 2015

Raw data and analytical code Turissini et al. 201

Histoplasma H88: Reference genome

Histoplasma H88: Reference genom

hybrid_food_choice

Zip file containing raw data as well as scripts used for the analyses. Perl scripts were used to load the data into a MySQL database, and R scripts were used for the analyses and to generate the paper figures

Histoplasma BAM files

Histoplasma BAM file

Supplementary Tables: S1-S6 (Sepulveda et al. mBio 2017)

Supplementary Tables: S1-S6 (Sepulveda et al. mBio 2017

Frequencies of the nine <i>sechellia</i> markers in the six competition experiments over 20 generations.

<p>X-axis: generations. Y-axis: frequencies of <i>sechellia</i> markers. Each plot monitors the frequency of a single <i>sechellia</i> introgression relative to its <i>simulans</i> counterpart. A–C plots represent experiments with only a single introgression per genotype, while D1–F2 plots represent experiments with two <i>sechellia</i> introgressions per genotype, even though each plot follows only a single introgression/marker. Five experimental replicates for each marker. See <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1002795#pgen.1002795.s001" target="_blank">Figure S1</a> for introgression details.</p

The introgression lines for establishing initial generation of six cross sets for competition experiments.

<p>The light bars represent <i>simulans</i> chromosome II or III, and the dark blocks represent <i>sechellia</i> introgression regions. Confirmed introgressions are shown in black. Unconfirmed introgressions are shown in grey. Microsatellite markers tracked in the experiment are labeled by the inverted triangles: A: DMU25686 (cytological position: 93F14); B: DRODORSAL (36C8); C: DROGPAD (47A9); D1: AC005732 (cytological position 24C9); D2: DMRHO (62A2); E1: DMMP20 (49F13); E2: DMCATHPO (75E1); F1: DS00361 (54B5); F2: DMU43090 (99D5) <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1002795#pgen.1002795-Macdonald1" target="_blank">[53]</a>, <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1002795#pgen.1002795-Colson1" target="_blank">[54]</a> (see <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1002795#s4" target="_blank">Materials and Methods</a> for details of each marker and for single versus double introgression designs).</p

Fertility (viability+fecundity) assays of introgression lines and the <i>simulans</i> strain.

<p>Note: Fertility was measured by the total progeny produced by three pairs of flies for 15 days (N = 10).</p>*<p>Tukey-Kramer HSD value here shows significant difference between the sim132 <i>D. simulans</i> strain and introgression strains, taking into account multiple testing. It is equal to Abs(Mean[i]-Mean[j])-LSD. The value must be positive to be significant at <i>P-value</i><0.05. NS = not significant. All analyses were performed using JMP software (SAS). 25H line was lost before it could be tested.</p

Summary of maximum likelihood estimates of recombination rate (<i>c</i>) and selection coefficient (<i>s</i>) parameters with different dominance (<i>h</i>).

<p>Note: Data was summarized from contour plots described in <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1002795#pgen.1002795.s002" target="_blank">Figure S2</a>.</p

Mating success tests between each introgression line and the <i>simulans</i> strain.

<p>Note: Labels inside parentheses for each introgression line indicate the experiment performed in <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1002795#pgen-1002795-g001" target="_blank">Figure 1</a>. N_SS = <i>simulans</i> homotypic pairs, N_SI = <i>simulans</i> females x introgression males, N_IS = introgression females x <i>simulans</i> males, N_II = introgression homotypic pairs. 25H line (corresponding to experiment A in <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1002795#pgen-1002795-g001" target="_blank">Figure 1</a>) was lost before it could be tested.</p