Annexe 3 : Corrélations génétiques entre les caractères zootechniques et les 99 OTU à l'héritabilité non-nulle selon le test du rapport de vraisemblance

<table><thead><tr><th rowspan="2">OTU</th><th colspan="10">Corrélations génétiques</th></tr><tr><th>Poids au sevrage</th><th>Érreur standard</th><th>Jours</th><th>Poids à 63 jours</th><th>Érreur standard</th><th>Indice de consommation</th><th>Érreur standard</th><th>GMQ</th><th>Érreur standard</th><th>Consommation</th><th>Érreur standard</th><th>Consommation résiduelle</th><th>Érreur standard</th></tr></thead><tbody><tr><td>70461</td><td>-0,828</td><td>0,463</td><td>-0,760</td><td>0,383</td><td>-0,616</td><td>0,302</td><td>-0,816</td><td>0,303</td><td>-0,812</td><td>0,326</td><td>-0,681</td><td>0,278</td></tr><tr><td>203865</td><td>0,297</td><td>0,470</td><td>-0,058</td><td>0,402</td><td>0,541</td><td>0,300</td><td>0,000</td><td>0,394</td><td>0,142</td><td>0,318</td><td>0,352</td><td>0,317</td></tr><tr><td>207532</td><td>-0,136</td><td>0,762</td><td>-0,011</td><td>0,659</td><td>-0,659</td><td>0,816</td><td>0,132</td><td>0,504</td><td>-0,387</td><td>0,447</td><td>-0,579</td><td>0,493</td></tr><tr><td>209947</td><td>0,369</td><td>0,373</td><td>0,248</td><td>0,349</td><td>-0,060</td><td>0,259</td><td>0,003</td><td>0,358</td><td>0,031</td><td>0,267</td><td>-0,255</td><td>0,241</td></tr><tr><td>215918</td><td>0,003</td><td>0,401</td><td>0,004</td><td>0,342</td><td>-0,030</td><td>0,240</td><td>-0,239</td><td>0,308</td><td>-0,102</td><td>0,251</td><td>-0,053</td><td>0,234</td></tr><tr><td>268410</td><td>0,406</td><td>0,454</td><td>0,448</td><td>0,395</td><td>0,295</td><td>0,293</td><td>0,025</td><td>0,399</td><td>0,344</td><td>0,323</td><td>0,143</td><td>0,298</td></tr><tr><td>269386</td><td>0,033</td><td>0,455</td><td>0,495</td><td>0,391</td><td>-0,054</td><td>0,267</td><td>0,003</td><td>0,412</td><td>0,411</td><td>0,274</td><td>0,327</td><td>0,251</td></tr><tr><td>277202</td><td>0,959</td><td>0,506</td><td>0,850</td><td>0,525</td><td>0,267</td><td>0,328</td><td>0,830</td><td>0,556</td><td>0,264</td><td>0,396</td><td>0,220</td><td>0,276</td></tr><tr><td>287576</td><td>-0,850</td><td>0,481</td><td>-0,891</td><td>0,302</td><td>-0,647</td><td>0,335</td><td>-0,836</td><td>0,280</td><td>-0,930</td><td>0,294</td><td>-0,610</td><td>0,280</td></tr><tr><td>294747</td><td>0,474</td><td>0,690</td><td>0,149</td><td>0,601</td><td>0,597</td><td>0,597</td><td>-0,379</td><td>0,724</td><td>-0,580</td><td>0,608</td><td>-0,785</td><td>0,724</td></tr><tr><td>297503</td><td>0,285</td><td>0,406</td><td>-0,140</td><td>0,362</td><td>0,452</td><td>0,252</td><td>-0,404</td><td>0,339</td><td>0,156</td><td>0,273</td><td>0,341</td><td>0,242</td></tr><tr><td>299902</td><td>0,573</td><td>0,766</td><td>0,598</td><td>0,811</td><td>0,670</td><td>0,598</td><td>0,309</td><td>0,632</td><td>0,555</td><td>0,603</td><td>0,502</td><td>0,518</td></tr><tr><td>304037</td><td>0,531</td><td>0,751</td><td>0,002</td><td>0,482</td><td>0,366</td><td>0,387</td><td>0,408</td><td>0,832</td><td>0,633</td><td>0,887</td><td>0,003</td><td>0,325</td></tr><tr><td>305608</td><td>0,594</td><td>0,521</td><td>0,365</td><td>0,649</td><td>0,189</td><td>0,491</td><td>0,447</td><td>0,683</td><td>0,374</td><td>0,637</td><td>-0,019</td><td>0,460</td></tr><tr><td>317315</td><td>-0,529</td><td>0,792</td><td>-0,527</td><td>0,649</td><td>-0,604</td><td>0,576</td><td>-0,635</td><td>0,650</td><td>-0,753</td><td>0,645</td><td>-0,636</td><td>0,536</td></tr><tr><td>342182</td><td>0,403</td><td>0,517</td><td>0,004</td><td>0,444</td><td>-0,110</td><td>0,274</td><td>-0,001</td><td>0,439</td><td>-0,727</td><td>0,849</td><td>-0,536</td><td>0,290</td></tr><tr><td>345556</td><td>-0,241</td><td>0,475</td><td>-0,408</td><td>0,384</td><td>-0,295</td><td>0,277</td><td>-0,479</td><td>0,357</td><td>-0,467</td><td>0,276</td><td>-0,449</td><td>0,271</td></tr><tr><td>346918</td><td>0,447</td><td>0,740</td><td>0,674</td><td>0,578</td><td>0,520</td><td>0,532</td><td>0,599</td><td>0,555</td><td>0,695</td><td>0,512</td><td>0,474</td><td>0,412</td></tr><tr><td>351768</td><td>-0,573</td><td>0,725</td><td>-0,754</td><td>0,569</td><td>-0,389</td><td>0,516</td><td>-0,843</td><td>0,581</td><td>-0,646</td><td>0,518</td><td>-0,388</td><td>0,425</td></tr><tr><td>449353</td><td>0,194</td><td>0,638</td><td>-0,598</td><td>0,434</td><td>-0,240</td><td>0,279</td><td>-0,805</td><td>0,457</td><td>-0,971</td><td>0,696</td><td>-0,570</td><td>0,294</td></tr><tr><td>535375</td><td>0,261</td><td>0,531</td><td>-0,046</td><td>0,586</td><td>-0,215</td><td>0,335</td><td>-0,453</td><td>0,619</td><td>-0,392</td><td>0,511</td><td>-0,452</td><td>0,369</td></tr><tr><td>542830</td><td>0,433</td><td>0,393</td><td>0,197</td><td>0,382</td><td>0,335</td><td>0,267</td><td>0,208</td><td>0,357</td><td>0,100</td><td>0,292</td><td>-0,003</td><td>0,268</td></tr><tr><td>550894</td><td>0,362</td><td>0,391</td><td>0,168</td><td>0,333</td><td>0,087</td><td>0,263</td><td>0,092</td><td>0,316</td><td>0,157</td><td>0,262</td><td>0,365</td><td>0,219</td></tr><tr><td>556126</td><td>-0,198</td><td>0,745</td><td>-0,005</td><td>0,643</td><td>0,571</td><td>0,616</td><td>-0,089</td><td>0,562</td><td>0,395</td><td>0,600</td><td>0,640</td><td>0,656</td></tr><tr><td>561607</td><td>-0,280</td><td>0,694</td><td>-0,013</td><td>0,527</td><td>-0,720</td><td>0,802</td><td>0,076</td><td>0,524</td><td>-0,435</td><td>0,521</td><td>-0,708</td><td>0,588</td></tr><tr><td>576853</td><td>-0,028</td><td>0,637</td><td>0,446</td><td>0,630</td><td>0,229</td><td>0,390</td><td>0,802</td><td>0,697</td><td>0,504</td><td>0,502</td><td>0,418</td><td>0,466</td></tr><tr><td>581388</td><td>-0,163</td><td>0,422</td><td>0,002</td><td>0,380</td><td>0,031</td><td>0,283</td><td>0,015</td><td>0,370</td><td>0,021</td><td>0,288</td><td>0,375</td><td>0,249</td></tr><tr><td>585989</td><td>0,237</td><td>0,650</td><td>0,488</td><td>0,662</td><td>0,222</td><td>0,474</td><td>0,599</td><td>0,795</td><td>0,521</td><td>0,681</td><td>0,297</td><td>0,564</td></tr><tr><td>589277</td><td>-0,397</td><td>0,665</td><td>-0,454</td><td>0,669</td><td>0,490</td><td>0,384</td><td>-0,479</td><td>0,583</td><td>-0,777</td><td>0,618</td><td>0,238</td><td>0,331</td></tr><tr><td>589410</td><td>0,391</td><td>0,522</td><td>0,229</td><td>0,451</td><td>0,406</td><td>0,305</td><td>0,143</td><td>0,452</td><td>0,397</td><td>0,314</td><td>0,378</td><td>0,299</td></tr><tr><td>592649</td><td>0,041</td><td>0,394</td><td>0,087</td><td>0,342</td><td>0,268</td><td>0,247</td><td>0,082</td><td>0,324</td><td>0,228</td><td>0,252</td><td>0,273</td><td>0,235</td></tr><tr><td>647215</td><td>0,481</td><td>0,457</td><td>0,659</td><td>0,370</td><td>0,364</td><td>0,441</td><td>0,713</td><td>0,430</td><td>0,470</td><td>0,311</td><td>0,167</td><td>0,306</td></tr><tr><td>976470</td><td>0,893</td><td>0,358</td><td>0,506</td><td>0,354</td><td>0,372</td><td>0,287</td><td>0,155</td><td>0,375</td><td>0,407</td><td>0,283</td><td>0,106</td><td>0,269</td></tr><tr><td>1110037</td><td>-0,299</td><td>0,722</td><td>-0,731</td><td>0,883</td><td>-0,408</td><td>0,541</td><td>-0,735</td><td>0,794</td><td>-0,827</td><td>0,930</td><td>-0,662</td><td>0,629</td></tr><tr><td>4377150</td><td>-0,729</td><td>0,660</td><td>-0,799</td><td>0,578</td><td>-0,584</td><td>0,508</td><td>-0,821</td><td>0,792</td><td>-0,591</td><td>0,434</td><td>-0,323</td><td>0,352</td></tr><tr><td>NR101</td><td>-0,658</td><td>0,644</td><td>-0,675</td><td>0,591</td><td>-0,764</td><td>0,908</td><td>-0,801</td><td>0,658</td><td>-0,657</td><td>0,438</td><td>-0,438</td><td>0,351</td></tr><tr><td>NR103</td><td>0,007</td><td>0,443</td><td>-0,114</td><td>0,386</td><td>-0,099</td><td>0,275</td><td>-0,197</td><td>0,366</td><td>-0,149</td><td>0,284</td><td>-0,119</td><td>0,264</td></tr><tr><td>NR1030</td><td>-0,090</td><td>0,046</td><td>-0,668</td><td>0,768</td><td>-0,607</td><td>0,362</td><td>0,100</td><td>0,480</td><td>-0,582</td><td>0,576</td><td>-0,236</td><td>0,338</td></tr><tr><td>NR104</td><td>0,916</td><td>0,440</td><td>0,883</td><td>0,506</td><td>0,192</td><td>0,283</td><td>0,990</td><td>0,489</td><td>0,590</td><td>0,282</td><td>0,177</td><td>0,269</td></tr><tr><td>NR1047</td><td>-0,971</td><td>0,433</td><td>-0,660</td><td>0,357</td><td>-0,471</td><td>0,295</td><td>-0,162</td><td>0,359</td><td>-0,368</td><td>0,282</td><td>0,039</td><td>0,253</td></tr><tr><td>NR1075</td><td>0,191</td><td>0,387</td><td>-0,123</td><td>0,372</td><td>-0,086</td><td>0,254</td><td>-0,320</td><td>0,367</td><td>-0,160</td><td>0,276</td><td>-0,237</td><td>0,250</td></tr><tr><td>NR1133</td><td>0,357</td><td>0,655</td><td>0,406</td><td>0,524</td><td>-0,323</td><td>0,346</td><td>0,149</td><td>0,458</td><td>-0,149</td><td>0,320</td><td>-0,424</td><td>0,333</td></tr><tr><td>NR1187</td><td>0,132</td><td>0,442</td><td>0,193</td><td>0,365</td><td>0,101</td><td>0,257</td><td>-0,028</td><td>0,266</td><td>0,072</td><td>0,275</td><td>-0,063</td><td>0,263</td></tr><tr><td>NR1262</td><td>-0,023</td><td>0,406</td><td>-0,213</td><td>0,342</td><td>-0,280</td><td>0,240</td><td>-0,385</td><td>0,296</td><td>-0,341</td><td>0,248</td><td>-0,316</td><td>0,235</td></tr><tr><td>NR1267</td><td>0,737</td><td>0,723</td><td>0,759</td><td>0,637</td><td>0,599</td><td>0,557</td><td>0,674</td><td>0,697</td><td>0,580</td><td>0,445</td><td>0,297</td><td>0,371</td></tr><tr><td>NR1481</td><td>0,964</td><td>0,679</td><td>0,847</td><td>0,441</td><td>0,099</td><td>0,315</td><td>0,005</td><td>0,382</td><td>0,624</td><td>0,375</td><td>0,311</td><td>0,310</td></tr><tr><td>NR1605</td><td>-0,494</td><td>0,394</td><td>-0,519</td><td>0,398</td><td>-0,223</td><td>0,239</td><td>-0,053</td><td>0,333</td><td>-0,533</td><td>0,292</td><td>-0,135</td><td>0,243</td></tr><tr><td>NR1750</td><td>-0,941</td><td>0,729</td><td>-0,976</td><td>0,782</td><td>-0,742</td><td>0,430</td><td>-0,646</td><td>0,571</td><td>-0,638</td><td>0,537</td><td>-0,530</td><td>0,392</td></tr><tr><td>NR1956</td><td>-0,794</td><td>0,435</td><td>-0,800</td><td>0,400</td><td>-0,608</td><td>0,302</td><td>-0,893</td><td>0,428</td><td>-0,775</td><td>0,339</td><td>-0,458</td><td>0,313</td></tr></tbody></table>
Corrélations génétiques

<table><thead><tr><th>OTU</th><th>Poids au sevrage</th><th>Erreur standard</th><th>Poids à 63 jours</th><th>Erreur standard</th><th>Indice de consommation</th><th>Erreur standard</th><th>GMQ</th><th>Erreur standard</th><th>Consommation</th><th>Erreur standard</th><th>Consommation résiduelle</th><th>Erreur standard</th></tr></thead><tbody><tr><td>NR2078</td><td>-0,013</td><td>0,524</td><td>-0,155</td><td>0,461</td><td>-0,151</td><td>0,331</td><td>0,043</td><td>0,439</td><td>-0,306</td><td>0,350</td><td>-0,352</td><td>0,330</td></tr><tr><td>NR2135</td><td>-0,899</td><td>0,947</td><td>-0,726</td><td>0,756</td><td>-0,735</td><td>0,939</td><td>-0,803</td><td>0,836</td><td>-0,520</td><td>0,594</td><td>0,019</td><td>0,376</td></tr><tr><td>NR2350</td><td>-0,688</td><td>0,554</td><td>-0,915</td><td>0,730</td><td>-0,359</td><td>0,243</td><td>0,000</td><td>0,410</td><td>-0,597</td><td>0,500</td><td>0,001</td><td>0,258</td></tr><tr><td>NR2381</td><td>-0,707</td><td>0,528</td><td>-0,508</td><td>0,470</td><td>-0,951</td><td>0,373</td><td>-0,301</td><td>0,443</td><td>-0,823</td><td>0,418</td><td>-0,950</td><td>0,371</td></tr><tr><td>NR2479</td><td>0,781</td><td>0,482</td><td>0,963</td><td>0,631</td><td>0,569</td><td>0,425</td><td>0,934</td><td>0,717</td><td>0,560</td><td>0,321</td><td>0,121</td><td>0,283</td></tr><tr><td>NR2551</td><td>0,039</td><td>0,531</td><td>-0,402</td><td>0,540</td><td>-0,479</td><td>0,371</td><td>-0,432</td><td>0,519</td><td>-0,661</td><td>0,433</td><td>-0,661</td><td>0,315</td></tr><tr><td>NR2774</td><td>-0,742</td><td>0,712</td><td>-0,742</td><td>0,623</td><td>-0,775</td><td>0,718</td><td>-0,946</td><td>0,895</td><td>-0,342</td><td>0,515</td><td>-0,206</td><td>0,342</td></tr><tr><td>NR2818</td><td>-0,276</td><td>0,447</td><td>-0,551</td><td>0,350</td><td>-0,266</td><td>0,276</td><td>-0,753</td><td>0,393</td><td>-0,487</td><td>0,274</td><td>-0,289</td><td>0,274</td></tr><tr><td>NR2842</td><td>0,618</td><td>0,412</td><td>0,412</td><td>0,369</td><td>0,059</td><td>0,239</td><td>-0,196</td><td>0,349</td><td>0,063</td><td>0,277</td><td>-0,316</td><td>0,238</td></tr><tr><td>NR2963</td><td>0,795</td><td>0,407</td><td>0,960</td><td>0,391</td><td>0,415</td><td>0,273</td><td>0,839</td><td>0,461</td><td>0,682</td><td>0,298</td><td>0,351</td><td>0,274</td></tr><tr><td>NR309</td><td>-0,815</td><td>0,751</td><td>-0,936</td><td>0,686</td><td>-0,780</td><td>0,564</td><td>-0,690</td><td>0,530</td><td>-0,528</td><td>0,439</td><td>-0,363</td><td>0,342</td></tr><tr><td>NR310</td><td>-0,661</td><td>0,692</td><td>-0,546</td><td>0,598</td><td>-0,854</td><td>0,407</td><td>-0,218</td><td>0,468</td><td>-0,887</td><td>0,586</td><td>-0,681</td><td>0,367</td></tr><tr><td>NR3115</td><td>0,373</td><td>0,398</td><td>0,725</td><td>0,284</td><td>0,039</td><td>0,277</td><td>0,933</td><td>0,290</td><td>0,428</td><td>0,247</td><td>0,117</td><td>0,252</td></tr><tr><td>NR3225</td><td>-0,559</td><td>0,780</td><td>-0,621</td><td>0,812</td><td>-0,619</td><td>0,498</td><td>-0,359</td><td>0,679</td><td>-0,712</td><td>0,704</td><td>-0,529</td><td>0,493</td></tr><tr><td>NR3472</td><td>0,715</td><td>0,884</td><td>0,744</td><td>0,939</td><td>0,709</td><td>0,890</td><td>0,519</td><td>0,906</td><td>0,769</td><td>0,964</td><td>0,501</td><td>0,587</td></tr><tr><td>NR3473</td><td>-0,860</td><td>0,383</td><td>-0,847</td><td>0,340</td><td>-0,824</td><td>0,201</td><td>-0,373</td><td>0,344</td><td>-0,809</td><td>0,258</td><td>-0,571</td><td>0,240</td></tr><tr><td>NR3795</td><td>0,671</td><td>0,758</td><td>0,353</td><td>0,691</td><td>0,610</td><td>0,483</td><td>0,049</td><td>0,535</td><td>0,660</td><td>0,771</td><td>0,273</td><td>0,384</td></tr><tr><td>NR4148</td><td>-0,071</td><td>0,450</td><td>-0,291</td><td>0,454</td><td>-0,249</td><td>0,261</td><td>-0,931</td><td>0,802</td><td>-0,352</td><td>0,316</td><td>-0,350</td><td>0,255</td></tr><tr><td>NR4149</td><td>-0,573</td><td>0,816</td><td>-0,808</td><td>0,786</td><td>-0,648</td><td>0,486</td><td>-0,001</td><td>0,424</td><td>-0,776</td><td>0,506</td><td>0,000</td><td>0,322</td></tr><tr><td>NR4405</td><td>0,421</td><td>0,411</td><td>0,391</td><td>0,381</td><td>0,136</td><td>0,260</td><td>0,243</td><td>0,381</td><td>0,183</td><td>0,282</td><td>0,056</td><td>0,259</td></tr><tr><td>NR4488</td><td>-0,638</td><td>0,651</td><td>-0,849</td><td>0,652</td><td>-0,602</td><td>0,448</td><td>-0,451</td><td>0,553</td><td>-0,642</td><td>0,511</td><td>-0,494</td><td>0,434</td></tr><tr><td>NR4868</td><td>-0,833</td><td>0,443</td><td>-0,921</td><td>0,410</td><td>-0,735</td><td>0,266</td><td>-0,778</td><td>0,382</td><td>-0,778</td><td>0,316</td><td>-0,489</td><td>0,273</td></tr><tr><td>NR4892</td><td>-0,673</td><td>0,356</td><td>-0,316</td><td>0,350</td><td>-0,105</td><td>0,239</td><td>0,026</td><td>0,356</td><td>-0,009</td><td>0,275</td><td>0,365</td><td>0,216</td></tr><tr><td>NR5062</td><td>0,001</td><td>0,457</td><td>-0,020</td><td>0,381</td><td>0,002</td><td>0,274</td><td>0,218</td><td>0,361</td><td>-0,131</td><td>0,274</td><td>0,199</td><td>0,261</td></tr><tr><td>NR5242</td><td>-0,950</td><td>0,601</td><td>-0,881</td><td>0,546</td><td>-0,084</td><td>0,308</td><td>-0,444</td><td>0,450</td><td>-0,416</td><td>0,363</td><td>-0,044</td><td>0,300</td></tr><tr><td>NR530</td><td>-0,130</td><td>0,539</td><td>-0,506</td><td>0,422</td><td>-0,130</td><td>0,331</td><td>-0,569</td><td>0,418</td><td>-0,394</td><td>0,345</td><td>-0,199</td><td>0,329</td></tr><tr><td>NR5314</td><td>-0,405</td><td>0,450</td><td>0,001</td><td>0,406</td><td>-0,087</td><td>0,257</td><td>0,183</td><td>0,366</td><td>-0,020</td><td>0,291</td><td>0,226</td><td>0,257</td></tr><tr><td>NR5729</td><td>-0,946</td><td>0,312</td><td>-0,722</td><td>0,339</td><td>-0,451</td><td>0,238</td><td>-0,229</td><td>0,401</td><td>-0,461</td><td>0,269</td><td>0,002</td><td>0,254</td></tr><tr><td>NR5836</td><td>0,717</td><td>0,868</td><td>0,395</td><td>1,004</td><td>0,564</td><td>0,525</td><td>0,619</td><td>1,083</td><td>0,519</td><td>0,783</td><td>0,408</td><td>0,430</td></tr><tr><td>NR5974</td><td>0,394</td><td>0,355</td><td>0,522</td><td>0,304</td><td>-0,025</td><td>0,235</td><td>0,291</td><td>0,323</td><td>0,126</td><td>0,246</td><td>-0,222</td><td>0,222</td></tr><tr><td>NR614</td><td>0,043</td><td>0,628</td><td>-0,025</td><td>0,534</td><td>0,578</td><td>0,513</td><td>-0,083</td><td>0,511</td><td>0,444</td><td>0,516</td><td>0,638</td><td>0,576</td></tr><tr><td>NR6150</td><td>0,005</td><td>0,542</td><td>0,324</td><td>0,493</td><td>-0,097</td><td>0,285</td><td>0,643</td><td>0,434</td><td>0,244</td><td>0,380</td><td>0,294</td><td>0,329</td></tr><tr><td>NR6287</td><td>0,664</td><td>0,626</td><td>0,812</td><td>0,651</td><td>0,774</td><td>0,508</td><td>0,756</td><td>0,503</td><td>0,692</td><td>0,564</td><td>0,662</td><td>0,366</td></tr><tr><td>NR6336</td><td>0,729</td><td>0,605</td><td>0,840</td><td>0,668</td><td>0,507</td><td>0,459</td><td>0,889</td><td>0,653</td><td>0,583</td><td>0,563</td><td>0,333</td><td>0,335</td></tr><tr><td>NR6372</td><td>0,104</td><td>0,707</td><td>-0,241</td><td>0,732</td><td>-0,348</td><td>0,518</td><td>0,000</td><td>0,527</td><td>-0,316</td><td>0,563</td><td>0,000</td><td>0,464</td></tr><tr><td>NR6480</td><td>0,725</td><td>0,692</td><td>0,598</td><td>0,536</td><td>0,856</td><td>0,652</td><td>0,513</td><td>0,618</td><td>0,789</td><td>0,468</td><td>0,680</td><td>0,453</td></tr><tr><td>NR6518</td><td>-0,842</td><td>0,617</td><td>-0,835</td><td>0,397</td><td>-0,410</td><td>0,387</td><td>-0,988</td><td>0,376</td><td>-0,534</td><td>0,335</td><td>-0,117</td><td>0,277</td></tr><tr><td>NR6623</td><td>-0,994</td><td>0,618</td><td>-0,952</td><td>0,497</td><td>-0,571</td><td>0,474</td><td>-0,777</td><td>0,501</td><td>-0,722</td><td>0,392</td><td>-0,315</td><td>0,318</td></tr><tr><td>NR6646</td><td>-0,230</td><td>0,430</td><td>-0,130</td><td>0,380</td><td>0,168</td><td>0,258</td><td>-0,011</td><td>0,357</td><td>0,096</td><td>0,276</td><td>0,251</td><td>0,250</td></tr><tr><td>NR6748</td><td>-0,915</td><td>0,506</td><td>-0,142</td><td>0,426</td><td>-0,554</td><td>0,218</td><td>0,247</td><td>0,313</td><td>-0,266</td><td>0,297</td><td>-0,301</td><td>0,223</td></tr><tr><td>NR6834</td><td>-0,117</td><td>0,469</td><td>-0,016</td><td>0,410</td><td>-0,101</td><td>0,297</td><td>-0,003</td><td>0,391</td><td>-0,142</td><td>0,320</td><td>-0,148</td><td>0,296</td></tr><tr><td>NR6868</td><td>-0,995</td><td>1,000</td><td>-0,831</td><td>0,774</td><td>-0,380</td><td>0,377</td><td>-0,875</td><td>0,833</td><td>-0,672</td><td>0,557</td><td>-0,368</td><td>0,380</td></tr><tr><td>NR7</td><td>0,003</td><td>0,574</td><td>0,001</td><td>0,491</td><td>0,413</td><td>0,363</td><td>-0,192</td><td>0,410</td><td>0,456</td><td>0,491</td><td>0,202</td><td>0,319</td></tr><tr><td>NR7448</td><td>-0,844</td><td>0,436</td><td>-0,999</td><td>0,355</td><td>-0,638</td><td>0,372</td><td>-0,461</td><td>0,405</td><td>-0,759</td><td>0,344</td><td>-0,264</td><td>0,323</td></tr><tr><td>NR745</td><td>0,089</td><td>0,394</td><td>0,163</td><td>0,345</td><td>-0,091</td><td>0,243</td><td>0,057</td><td>0,327</td><td>0,024</td><td>0,259</td><td>-0,112</td><td>0,240</td></tr><tr><td>NR7782</td><td>-0,211</td><td>0,504</td><td>0,290</td><td>0,518</td><td>0,074</td><td>0,277</td><td>0,963</td><td>0,781</td><td>0,419</td><td>0,366</td><td>0,502</td><td>0,271</td></tr><tr><td>NR7822</td><td>0,661</td><td>0,460</td><td>0,097</td><td>0,376</td><td>0,636</td><td>0,243</td><td>0,003</td><td>0,335</td><td>0,358</td><td>0,300</td><td>0,500</td><td>0,250</td></tr><tr><td>NR7863</td><td>0,000</td><td>0,398</td><td>-0,038</td><td>0,343</td><td>0,293</td><td>0,233</td><td>-0,001</td><td>0,336</td><td>0,176</td><td>0,249</td><td>0,264</td><td>0,224</td></tr><tr><td>NR8026</td><td>0,382</td><td>0,373</td><td>0,356</td><td>0,353</td><td>0,060</td><td>0,246</td><td>0,089</td><td>0,345</td><td>0,136</td><td>0,266</td><td>-0,071</td><td>0,242</td></tr><tr><td>NR8104</td><td>-0,293</td><td>0,424</td><td>0,003</td><td>0,344</td><td>-0,294</td><td>0,228</td><td>0,000</td><td>0,361</td><td>0,077</td><td>0,262</td><td>-0,200</td><td>0,243</td></tr></tbody></table>
Annexe 3 : Corrélation génétiques entre les caractères zootechniques et les taxons bactériens à l'héritabilité non-nulle selon le test du rapport de vraisemblance

<table><thead><tr><th rowspan="2">Variable</th><th colspan="10">Corrélation génétiques</th></tr><tr><th>Poids au sevrage</th><th>Erreur standard</th><th>Poids à 63 jours</th><th>Erreur standard</th><th>Indice de consommation</th><th>Erreur standard</th><th>GMQ</th><th>Erreur standard</th><th>Consommation</th><th>Erreur standard</th><th>Consommation résiduelle</th><th>Erreur standard</th></tr></thead><tbody><tr><td>Genre : Alistipes</td><td>-0,293</td><td>0,530</td><td>-0,736</td><td>0,416</td><td>-0,297</td><td>0,343</td><td><strong>-0,906</strong></td><td><strong>0,392</strong></td><td>-0,579</td><td>0,316</td><td>-0,283</td><td>0,291</td></tr><tr><td>Phyla : Firmicutes</td><td>0,222</td><td>0,756</td><td>0,327</td><td>0,862</td><td>0,631</td><td>0,583</td><td>0,655</td><td>0,784</td><td>0,491</td><td>0,748</td><td>0,406</td><td>0,491</td></tr><tr><td>Phyla : Proteobacteria</td><td>0,717</td><td>0,379</td><td>0,673</td><td>0,379</td><td>0,247</td><td>0,259</td><td>0,389</td><td>0,387</td><td>0,448</td><td>0,292</td><td>0,103</td><td>0,262</td></tr></tbody></table>

Annexe 4 : Corrélation génétiques entre les caractères zootechniques et l'indice de Shannon à l'héritabilité non-nulle selon le test du rapport de vraisemblance

<table><thead><tr><th rowspan="2">Variable</th><th colspan="10">Corrélation génétiques</th></tr><tr><th>Poids au sevrage</th><th>Erreur standard</th><th>Poids à 63 jours</th><th>Erreur standard</th><th>Indice de consommation</th><th>Erreur standard</th><th>GMQ</th><th>Erreur standard</th><th>Consommation</th><th>Erreur standard</th><th>Consommation résiduelle</th><th>Erreur standard</th></tr></thead><tbody><tr><td>a-diversité : Indice de Shannon</td><td>0,952</td><td>0,651</td><td>0,700</td><td>0,514</td><td>0,338</td><td>0,383</td><td>0,937</td><td>0,747</td><td>0,464</td><td>0,373</td><td>0,230</td><td>0,369</td></tr></tbody></table>
Annexe 5 : Graphiques Manhattan plots pour les OTU ayant au moins un QTL détecté

<figure><img src="image_28.png" /></figure>

OTU 207532

<figure><img src="image_29.png" /></figure>

OTU 299902

<figure><img src="image_30.png" /></figure>

OTU 317315

<figure><img src="image_31.png" /></figure>

OTU 351768

<figure><img src="image_32.png" /></figure>

OTU 550894

<figure><img src="image_33.png" /></figure>

OTU 585989
<figure><img src="image_34.png" /></figure>

OTU 589277

<figure><img src="image_35.png" /></figure>

OTU 4377150

<figure><img src="image_36.png" /></figure>

OTU NR614

<figure><img src="image_37.png" /></figure>

OTU NR1187

<figure><img src="image_38.png" /></figure>

OTU NR2381

<figure><img src="image_39.png" /></figure>

OTU NR2842
<figure><img src="image_40.png" /></figure>

OTU NR4488

<figure><img src="image_41.png" /></figure>

OTU NR4892

<figure><img src="image_42.png" /></figure>

OTU NR5836

<figure><img src="image_43.png" /></figure>

OTU NR6518

<figure><img src="image_44.png" /></figure>

OTU NR6868
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<table><tr><td>INTRODUCTION</td><td>1</td></tr></table>

<table><tr><td>I LA SELECTION DE L'EFFICACITE ALIMENTAIRE, UN ENJEU EN CUNICULTURE</td><td>3</td></tr></table>

<table><tr><td>I.A L'IMPORTANCE DE L'EFFICACITE ALIMENTAIRE POUR LA DURABILITE DE LA CUNICULTURE</td><td>3</td></tr></table>

<table><tr><td>I.B L'AMELIORATION DE L'EFFICACITE ALIMENTAIRE GRACE A LA SELECTION GENETIQUE</td><td>5</td></tr></table>

<table><tr><td>I.B.1 Les principes de l'amélioration génétique animale</td><td>5</td></tr></table>

<table><tr><td>I.B.2 Les stratégies de sélection existantes et leur impact sur l'efficacité alimentaire chez le lapin en croissance</td><td>6</td></tr></table>

<table><tr><td>I.B.2.a La diversité des caractères étudiés</td><td>6</td></tr></table>

<table><tr><td>I.B.2.b Des stratégies de sélection diversifiées</td><td>7</td></tr></table>

<table><tr><td>I.B.3 L'étude de l'efficacité alimentaire selon différents caractères zootechniques</td><td>9</td></tr></table>

<table><tr><td>I.B.3.a Les avantages et inconvénients de ces caractères dans le cadre de la sélection</td><td>9</td></tr></table>

<table><tr><td>I.B.3.b L'influence du choix du critère sur les résultats de la sélection pour l'efficacité alimentaire</td><td>10</td></tr></table>

<table><tr><td>I.B.3.b.i L'impact sur le poids au sevrage, le poids final et la maturité à l'abattage</td><td>10</td></tr></table>

<table><tr><td>I.B.3.b.ii L'impact sur l'amélioration de l'indice de consommation</td><td>10</td></tr></table>

<table><tr><td>I.B.3.b.iii L'impact sur la qualité des carcasses et de la viande</td><td>11</td></tr></table>

<table><tr><td>I.B.3.b.iv L'impact sur la digestibilité et les rejets</td><td>12</td></tr></table>

<table><tr><td>I.C LE MICROBIOTE, UNE NOUVELLE PISTE QUI RESTE A EXPLORER POUR AMELIORER L'EFFICACITE ALIMENTAIRE CHEZ LE LAPIN</td><td>13</td></tr></table>

<table><tr><td>I.C.1 Le lapin, un hôte hébergeant des communautés microbiennes</td><td>13</td></tr></table>

<table><tr><td>I.C.2 Le rôle clé du microbiote lors de la digestion chez le lapin</td><td>14</td></tr></table>

<table><tr><td>I.C.2.a Le rôle majeur du microbiote dans la digestion</td><td>14</td></tr></table>

<table><tr><td>I.C.2.b La composition du microbiote et son influence sur la digestion</td><td>14</td></tr></table>

<table><tr><td>I.C.3 Est-il possible de sélectionner selon la composition du microbiote ?</td><td>16</td></tr></table>

<table><tr><td>I.C.3.a Une transmission plurifactorielle</td><td>16</td></tr></table>

<table><tr><td>I.C.3.b Le microbiote est-il génétiquement héritable ?</td><td>16</td></tr></table>

<table><tr><td>II ETUDE DU DISPOSITIF EXPERIMENTAL MICRORABBIT</td><td>18</td></tr></table>

<table><tr><td>II.A MATERIEL ET METHODES</td><td>18</td></tr></table>

<table><tr><td>II.A.1 Les caractéristiques du dispositif Microrabbit</td><td>18</td></tr></table>

<table><tr><td>II.A.1.a Le design expérimental</td><td>18</td></tr></table>

<table><tr><td>II.A.1.a.i La population étudiée</td><td>18</td></tr></table>

<table><tr><td>II.A.1.a.ii L'élevage des animaux</td><td>18</td></tr></table>

<table><tr><td>II.A.1.a.iii Les facteurs enregistrés</td><td>19</td></tr></table>

<table><tr><td>II.A.1.b Les caractères zootechniques étudiés</td><td>20</td></tr></table>

<table><tr><td>II.A.1.b.i Mesures et estimations</td><td>20</td></tr></table>

<table><tr><td>II.A.1.c Le microbiote caecal</td><td>20</td></tr></table>

<table><tr><td>II.A.1.c.i Méthodes d'extraction et de séquençage</td><td>20</td></tr></table>

<table><tr><td>II.A.1.c.ii Regroupement par OTU</td><td>21</td></tr></table>

<table><tr><td>II.A.1.c.iii Transformations et filtrage des données</td><td>21</td></tr></table>

<table><tr><td>II.A.1.c.iv Indices d'alpha-diversité</td><td>23</td></tr></table>
<table>
  <tbody>
    <tr>
      <td>II.A.2</td>
      <td>Les analyses statistiques et génétiques</td>
      <td>24</td>
    </tr>
    <tr>
      <td>II.A.2.a</td>
      <td>L'étude des lignées et de leurs impacts sur les caractères zootechniques et le microbiote</td>
      <td>24</td>
    </tr>
    <tr>
      <td>II.A.2.a.i</td>
      <td>Les caractères zootechniques</td>
      <td>24</td>
    </tr>
    <tr>
      <td>II.A.2.a.ii</td>
      <td>Le microbiote</td>
      <td>25</td>
    </tr>
    <tr>
      <td>II.A.2.a.ii.1</td>
      <td>La composition du microbiote</td>
      <td>25</td>
    </tr>
    <tr>
      <td>II.A.2.a.ii.2</td>
      <td>Les indices d'alpha-diversité du microbiote</td>
      <td>26</td>
    </tr>
    <tr>
      <td>II.A.2.b</td>
      <td>Estimations de paramètres génétiques</td>
      <td>26</td>
    </tr>
    <tr>
      <td>II.A.2.b.i</td>
      <td>Le modèle linéaire mixte</td>
      <td>26</td>
    </tr>
    <tr>
      <td>II.A.2.b.ii</td>
      <td>La méthode du REML appliquée à la génétique quantitative</td>
      <td>27</td>
    </tr>
    <tr>
      <td>II.A.2.d.i</td>
      <td>L'estimation des paramètres génétiques des caractères zootechniques</td>
      <td>28</td>
    </tr>
    <tr>
      <td>II.A.2.d.ii</td>
      <td>L'estimation des paramètres génétiques liés à la composition du microbiote</td>
      <td>29</td>
    </tr>
    <tr>
      <td>II.A.2.d.ii.1</td>
      <td>Les estimations par OTU</td>
      <td>29</td>
    </tr>
    <tr>
      <td>II.A.2.d.ii.2</td>
      <td>Les estimations pour les taxons et les indices d'alpha-diversité</td>
      <td>30</td>
    </tr>
    <tr>
      <td>II.A.3</td>
      <td>Etudes d'association pangénomique pour trouver des QTL liés à la composition du microbiote</td>
      <td>31</td>
    </tr>
    <tr>
      <td>II.A.3.a</td>
      <td>Le génotypage des animaux</td>
      <td>32</td>
    </tr>
    <tr>
      <td>II.A.3.b</td>
      <td>Le contrôle qualité</td>
      <td>32</td>
    </tr>
    <tr>
      <td>II.A.3.c</td>
      <td>Le modèle linéaire mixte</td>
      <td>32</td>
    </tr>
    <tr>
      <td>II.A.3.d</td>
      <td>L'interprétation des résultats</td>
      <td>33</td>
    </tr>
    <tr>
      <td>II.B</td>
      <td>RESULTATS ET DISCUSSION</td>
      <td>34</td>
    </tr>
    <tr>
      <td>II.B.1</td>
      <td>Les résultats des analyses descriptives</td>
      <td>34</td>
    </tr>
    <tr>
      <td>II.B.1.a</td>
      <td>L'influence de la sélection pour la consommation résiduelle sur les caractères zootechniques</td>
      <td>34</td>
    </tr>
    <tr>
      <td>II.B.1.a.i</td>
      <td>Distinguer l'influence de la lignée de la mère adoptive, de celle de la lignée du lapereau sur les caractères zootechniques</td>
      <td>34</td>
    </tr>
    <tr>
      <td>II.B.1.a.ii</td>
      <td>L'impact de la sélection résiduelle sur les caractères zootechniques</td>
      <td>36</td>
    </tr>
    <tr>
      <td>II.B.1.b</td>
      <td>L'influence des lignées sur microbiote</td>
      <td>38</td>
    </tr>
    <tr>
      <td>II.B.1.b.i</td>
      <td>L'effet des lignées sur la composition du microbiote</td>
      <td>38</td>
    </tr>
    <tr>
      <td>II.B.1.b.ii</td>
      <td>Les indices d'alpha-diversité</td>
      <td>40</td>
    </tr>
    <tr>
      <td>II.B.2</td>
      <td>Les estimations d'héritabilité</td>
      <td>42</td>
    </tr>
    <tr>
      <td>II.B.2.a</td>
      <td>Les héritabilités estimées pour les caractères zootechniques</td>
      <td>42</td>
    </tr>
    <tr>
      <td>II.B.2.b</td>
      <td>La composition du microbiote est-elle héritable ?</td>
      <td>43</td>
    </tr>
    <tr>
      <td>II.B.2.b.i</td>
      <td>Les héritabilités estimées pour les OTU</td>
      <td>43</td>
    </tr>
    <tr>
      <td>II.B.2.b.ii</td>
      <td>Les héritabilités estimées pour différents taxons bactériens</td>
      <td>47</td>
    </tr>
    <tr>
      <td>II.B.2.b.iii</td>
      <td>Les héritabilités estimées pour les indices d'alpha diversité</td>
      <td>49</td>
    </tr>
    <tr>
      <td>II.B.3</td>
      <td>Les caractères zootechniques et la composition du microbiote sont-ils corrélés génétiquement ?</td>
      <td>49</td>
    </tr>
    <tr>
      <td>II.B.3.a</td>
      <td>Les corrélations entre caractères zootechniques</td>
      <td>49</td>
    </tr>
    <tr>
      <td>II.B.3.b</td>
      <td>Les corrélations entre la composition du microbiote et les caractères zootechniques</td>
      <td>51</td>
    </tr>
    <tr>
      <td>II.B.3.b.i</td>
      <td>Les corrélations entre les caractères zootechniques et les OTU</td>
      <td>51</td>
    </tr>
    <tr>
      <td>II.B.3.b.ii</td>
      <td>Les corrélations entre les caractères zootechniques, les taxons et les indices d'alpha-diversité</td>
      <td>54</td>
    </tr>
    <tr>
      <td>II.B.4</td>
      <td>L'identification de QTL liés à la composition du microbiote</td>
      <td>54</td>
    </tr>
    <tr>
      <td>CONCLUSION</td>
      <td></td>
      <td>57</td>
    </tr>
    <tr>
      <td>ANNEXE 1 : DISTRIBUTION DES OBSERVATIONS POUR LES PERFORMANCES ZOOTECHNIQUES</td>
      <td></td>
      <td>61</td>
    </tr>
  </tbody>
</table>