Genome / Transcriptome

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Focus of Study: population analysis

References / BioProjects 4

1 University of Nebraska Lincoln (2023)
Investigating genomic make-up, gene content of three wild T. cacao representatives: SCA_6_Ucayalli_Contamana, IMC_67_Iquitos, Pound_7_Nanay. NCBI
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BioProject: PRJNA982528  NCBI   ENA 
Focus of study: population analysis
Library Source: genomic  
BioSamples: 3 3 clones | Runs: 3 | Experiments: 3 | SampleSource: 1
 
List plants Search plants View data

 
2 Xavier Argout, Gaetan Droc, Olivier Fouet, Mathieu Rouard, Karine Labadie, Bénédicte Rhoné, Gaston Rey Loor & Claire Lanaud (2023)
Pangenomic exploration of Theobroma cacao: New Insights into Gene Content Diversity and Selection During Domestication. bioRxiv preprint
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BioProject: PRJNA880462  NCBI   ENA 
Focus of study: population analysis
Library Source: genomic  
BioSamples: 188 188 clones | Runs: 188 | Experiments: 188 | SampleSource: 1
 
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3 Jaime A Osorio-Guarín, Jhon A Berdugo-Cely, Roberto A Coronado-Silva, Eliana Baez, Yeirme Jaimes, Roxana Yockteng (2020)
Genome-Wide Association Study Reveals Novel Candidate Genes Associated with Productivity and Disease Resistance to Moniliophthora spp. in Cacao (Theobroma cacao L.). G3 Genes|Genomes|Genetics, Volume 10, Issue 5, Pages 1713–1725
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BioProject: PRJNA734904  NCBI   ENA 
Focus of study: disease reaction  
 | productivity  
 | population analysis
Library Source: genomic  
BioSamples: 229 228 clones | Runs: 229 | Experiments: 229 | SampleSource: 1
 
List plants Search plants View data

 
4 Cornejo, O.E., Muh-Ching Yee, Victor Dominguez, Mary Andrews, Alexandra Sockell, Erika Strandberg, Donald Livingstone III, Conrad Stack, Alberto Romero, Pathmanathan Umaharan, Stefan Royaert, Nilesh R. Tawari, Pauline Ng, Osman Gutierrez, Wilbert Phillips, Keithanne Mockaitis, Carlos D. Bustamante & Juan C. Motamayor (2018)
Population genomic analyses of the chocolate tree, Theobroma cacao L., provide insights into its domestication process. Commun Biol 1, 167
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BioProject: PRJNA486011  NCBI   ENA 
Project: PRJEB28591  EVA (project)   EVA (analysis) 
Focus of study: population analysis
Library Source: genomic  
BioSamples: 200 187 clones | Runs: 200 | Experiments: 200 | SampleSources: 15
 
List plants Search plants View data

 

Plants 573

1 A 645 [ECU]   View

2 A 2076 [ECU]   View

3 A 2126 [ECU]   View

4 A 2367 [ECU]   View

5 A 2416 [ECU]   View

6 A 2462 [ECU]   View

7 A 2699 [ECU]   View

8 A 2748 [ECU]   View

9 ABC 7   View

10 AGU 3339 /12 [CHA]   View

11 AM 1 /54 [POU]   View

12 AM 2 /18 [POU]   View

13 AMAZ 11   View

14 AMAZ 12   View

15 AMAZ 14   View

16 AMAZ 15 /15   View

17 B 6 /3 [POU]   View

18 B 6 /8 [POU]   View

19 B 60 [ECU]   View

20 B 97 61 /B-2 [BLZ]   View

21 B 97 Ex 1 /C-3 [BLZ]   View

22 B 240 [POU]   View

23 BE 10   View

24 BR 25   View

25 BRISAS 1   View

26 CAB 71   View

27 CAB 76   View

28 CAB 77   View

29 CACAO 2   View

30 CAP 34   View

31 CATIE 1000   View

32 CATONGO   View

33 CC 71   View

34 CCN 10   View

35 CCN 51   View

36 CHOCO774   View

37 CHOCOLATE 1   View

38 CHOCOLATE 2   View

39 CHOCOLATE 4   View

40 CL 27 /50   View

41 COCA 3370 /5 [CHA]   View

42 COL 10 [COL]   View

43 CR 1 [COL]   View

44 CR 11 [COL]   View

45 CR 35 [COL]   View

46 CR 38 [COL]   View

47 CR 43 [COL]   View

48 CRICF 13   View

49 CRICF 16   View

50 CRIOLLO [CRI]   View

51 CRU 59   View

52 CRU 89   View

53 CRU 101   View

54 CRUZ 7 /14   View

55 CS 146   View

56 C SUL 3   View

57 C SUL 7   View

58 CUR 3 [CHA]   View

59 DON-DIEGO   View

60 EB 1915   View

61 EB 2237   View

62 EBC 5   View

63 EBC 6   View

64 EBC 6 /S-10   View

65 EBC 6 /S-401   View

66 EBC 9   View

67 EBC 9 A2   View

68 EBC 10 /S-401   View

69 EBC 27   View

70 EBC 29   View

71 EBC 30   View

72 EBC 38 /S-15   View

73 EBC 48   View

74 EBC 58   View

75 EBC 91   View

76 EBC 119   View

77 EBC 121 /S-1   View

78 EBC 122   View

79 EBC 125 /S-9   View

80 EBC 126   View

81 EBC 133   View

82 EBC 135 /S-1   View

83 EBC 135 /S-2   View

84 EBC 142   View

85 EBC 143   View

86 EBC 147 /S-2   View

87 EBC 148   View

88 EBC 148 /S-9   View

89 EBC 148 /S-401   View

90 EBC 251   View

91 EET 6 [ECU]   View

92 EET 12 [ECU]   View

93 EET 58 [ECU]   View

94 EET 59 [ECU]   View

95 EET 61 [ECU]   View

96 EET 62 [ECU]   View

97 EET 95 [ECU]   View

98 EET 103 [ECU]   View

99 EET 184 [ECU]   View

100 EET 233 [ECU]   View

101 EET 377 [ECU]   View

102 EET 387 [ECU]   View

103 EET 397 [ECU]   View

104 EET 399 [ECU]   View

105 EET 400 [ECU]   View

106 EET 416 [ECU]   View

107 EET 446 [ECU]   View

108 EET 451 [ECU]   View

109 EET 462 [ECU]   View

110 ELP 15   View

111 ELP 20 A   View

112 FCM 1   View

113 FCM 3   View

114 FCM 5   View

115 FCM 8   View

116 FCM 9   View

117 FCM 11   View

118 FCM 12   View

119 FCM 15   View

120 FCM 17   View

121 FCM 18   View

122 FCM 19   View

123 FCM 20   View

124 FCM 22   View

125 FCM 23   View

126 FCM 26   View

127 FCM 28   View

128 FCM 29   View

129 FCM 30   View

130 FCM 31   View

131 FCM 33   View

132 FCM 39   View

133 FCM 40   View

134 FSC 13   View

135 GS 6   View

136 GS 10   View

137 GS 29   View

138 GU 114 /P   View

139 GU 134 /B   View

140 GU 175 /P   View

141 GU 222   View

142 GU 255 /V   View

143 GU 278 /A   View

144 GU 291 F   View

145 GU 300 /P   View

146 GU 307   View

147 GU 308 /A   View

148 GUAY 1   View

149 GUAY 2   View

150 HE 4   View

151 HUILA A   View  Synonyms: POBLACION-HUILA

152 ICA 1   View

153 ICA 2   View

154 ICA 10   View

155 ICA 13   View

156 ICA 70 [COL]   View

157 ICA 83 698   View  Synonyms: 830698

158 ICA 83 699   View  Synonyms: 830699

159 ICA 83 702   View  Synonyms: 830702

160 ICA 83 703   View  Synonyms: 830703

161 ICA 83 704   View  Synonyms: 830704

162 ICA 83 710   View  Synonyms: 830710

163 ICA 83 713   View  Synonyms: 830713

164 ICA 83 714   View  Synonyms: 830714

165 ICA 83 715   View  Synonyms: 830715

166 ICA 83 716   View  Synonyms: 830716

167 ICA 83 720   View  Synonyms: 830720

168 ICA 83 723   View  Synonyms: 830723

169 ICA 83 736   View  Synonyms: 830736

170 ICA 83 740   View  Synonyms: 830740

171 ICA 83 745   View  Synonyms: 830745

172 ICA 83 746   View  Synonyms: 830746

173 ICA 83 747   View  Synonyms: 830747

174 ICA 83 752   View  Synonyms: 830752

175 ICA 83 755   View  Synonyms: 830755

176 ICA 83 758   View  Synonyms: 830758

177 ICA 83 759   View  Synonyms: 830759

178 ICA 83 761   View  Synonyms: 830761

179 ICA 83 763   View  Synonyms: 830763

180 ICA 84 777   View  Synonyms: 840777

181 ICA 84 778   View  Synonyms: 840778

182 ICA 86 1309   View  Synonyms: 861309

183 ICA 86 1310   View  Synonyms: 861310

184 ICA 86 1311   View  Synonyms: 861311

185 ICA 86 1312   View  Synonyms: 861312

186 ICA 86 1315   View  Synonyms: 861315

187 ICA 86 1317   View  Synonyms: 861317

188 ICA 86 1319   View  Synonyms: 861319

189 ICA 86 1321   View  Synonyms: 861321

190 ICA 86 1340   View  Synonyms: 861340

191 ICA 86 1370   View  Synonyms: 861370

192 ICA 86 1371   View  Synonyms: 861371

193 ICA 86 1372   View  Synonyms: 861372

194 ICA 86 1406   View  Synonyms: 861406

195 ICA 86 1610   View  Synonyms: 861610

196 ICA 86 1611   View  Synonyms: 861611

197 ICA 86 1613   View  Synonyms: 861613

198 ICA 86 1614   View  Synonyms: 861614

199 ICA 86 1618   View  Synonyms: 861618

200 ICA 86 1619   View  Synonyms: 861619

201 ICA 86 1622   View  Synonyms: 861622

202 ICA 86 1623   View  Synonyms: 861623

203 ICA 86 1645   View  Synonyms: 861645

204 ICA 86 1648   View  Synonyms: 861648

205 ICA 86 1654   View  Synonyms: 861654

206 ICA 86 1683   View  Synonyms: 861683

207 ICA 87 1854   View  Synonyms: 871854

208 ICA 212 [COL]   View

209 ICS 1   View

210 ICS 6   View

211 ICS 39   View

212 ICS 40   View

213 ICS 43   View

214 ICS 48   View

215 ICS 60   View

216 ICS 61   View

217 ICS 78   View

218 ICS 95   View

219 ICS 95 A   View

220 ICS 98   View

221 IMC 12   View

222 IMC 14   View

223 IMC 20   View

224 IMC 36   View

225 IMC 47   View

226 IMC 48   View

227 IMC 50   View

228 IMC 51   View

229 IMC 60   View

230 IMC 63   View

231 IMC 65   View

232 IMC 67   View

233 INIAP T 682 A1 D147   View

234 JA 5 /5 [POU]   View

235 JA 5 /35 [POU]   View

236 JA 5 /36 [POU]   View

237 K 82 [KER]   View

238 KA 2   View

239 KER 6   View

240 Kapawi 1   View

241 L11-H19 [ECU]   View

242 L18-H58 [ECU]   View

243 L46-H75 [ECU]   View

244 L46-H88 [ECU]   View

245 L49-H98 [ECU]   View

246 LAN 7   View

247 LCT EEN 30   View

248 LCT EEN 31   View

249 LCT EEN 36   View

250 LCT EEN 37   View

251 LCT EEN 46   View

252 LCT EEN 57   View

253 LCT EEN 63   View

254 LCT EEN 66   View

255 LCT EEN 68 /S-2   View

256 LCT EEN 81   View

257 LCT EEN 82   View

258 LCT EEN 83 /S-8   View

259 LCT EEN 85   View

260 LCT EEN 86   View

261 LCT EEN 90 /S-7   View

262 LCT EEN 91   View

263 LCT EEN 122   View

264 LCT EEN 141   View

265 LCT EEN 163 /A   View

266 LCT EEN 188   View

267 LCT EEN 189   View

268 LCT EEN 193   View

269 LCT EEN 195   View

270 LCT EEN 201   View

271 LCT EEN 212 /S-4   View

272 LCT EEN 215   View

273 LCT EEN 218   View

274 LCT EEN 220   View

275 LCT EEN 221   View

276 LCT EEN 227   View

277 LCT EEN 246   View

278 LCT EEN 249   View

279 LCT EEN 255   View

280 LCT EEN 261 /S-1   View

281 LCT EEN 267   View

282 LCT EEN 312   View

283 LCT EEN 325   View

284 LCT EEN 332   View

285 LCT EEN 333   View

286 LCT EEN 334   View

287 LCT EEN 362   View

288 LCT EEN 368   View

289 LCT EEN 372   View

290 LCT EEN 403   View

291 LCT EEN 411   View

292 LCT EEN 413   View

293 LCT EEN 414   View

294 LCT EEN 415   View

295 LIB 3   View

296 LOLITA-WALK1   View

297 LP 3 /40 [POU]   View

298 LP 4 /48 [POU]   View

299 LUKER 40   View

300 LUKER 50   View

301 LX 32   View

302 LX 43   View

303 M 1 [IDN]   View

304 M 2 [IDN]   View

305 M 4 [IDN]   View

306 M 5 [IDN]   View

307 M 6 [IDN]   View

308 M 7 [IDN]   View

309 M 8 [SUR]   View

310 MAN 15 /2 [BRA]   View

311 MATINA   View

312 MATINA 1 /6   View

313 MATINA 2   View

314 MO 4   View

315 MO 9   View

316 MO 76   View

317 MO 96   View

318 MO 99   View

319 MO 109   View

320 MO 121   View

321 MOCORONGO   View

322 MON 1   View

323 MXC 67   View

324 NA 33   View

325 NA 45   View

326 NA 92   View

327 NA 127   View

328 NA 286   View

329 NA 331   View

330 NA 435   View

331 NA 672   View

332 NA 697   View

333 NA 702   View

334 NA 712   View

335 NH 40   View

336 NH 53   View

337 NUPA 1   View

338 NUPA 2   View

339 Nank 3   View

340 Nank 5   View

341 OC 61 [VEN]   View

342 P 30 [POS]   View

343 PA 13 [PER]   View

344 PA 35 [PER]   View

345 PA 46 [PER]   View

346 PA 51 [PER]   View

347 PA 56 [PER]   View

348 PA 67 [PER]   View

349 PA 70 [PER]   View

350 PA 88 [PER]   View

351 PA 107 [PER]   View

352 PA 120 [PER]   View

353 PA 121 [PER]   View

354 PA 126 [PER]   View

355 PA 137 [PER]   View

356 PA 150 [PER]   View

357 PA 169 [PER]   View

358 PA 191 [PER]   View

359 PA 218 [PER]   View

360 PA 289 [PER]   View

361 PA 293 [PER]   View

362 PA 296 [PER]   View

363 PAL8 A1   View

364 PAL9 A2   View

365 PAL13 A1   View

366 PAL15 A1   View

367 PAL35 A5   View

368 PBC 123   View

369 PENTAGONA /V   View  Synonyms: PENTAGONA /VERDE

370 PER 2   View

371 PERSEA 1   View

372 PERSEA 2   View

373 PLAYA ALTA 1 [VEN]   View

374 PMF 20   View

375 PMF 27   View

376 POUND 7   View  Synonyms: P 7 [POU]

377 POUND 7 /B   View

378 POUND 10 /B   View

379 POUND 12   View  Synonyms: P 12 [POU]

380 POUND 18   View  Synonyms: P 18 [POU]

381 PUEBLO-BELLO   View

382 Pang 6   View

383 Pang 9   View

384 Pang 10   View

385 Pang 11   View

386 Pang 12   View

387 Pang 15   View

388 Pang 16   View

389 Pang 18   View

390 Pang 21   View

391 Pang 24   View

392 RB 29 [BRA]   View

393 RB 33 /3 [BRA]   View

394 RB 37 [BRA]   View

395 RB 39 [BRA]   View

396 RB 40 [BRA]   View

397 RB 41 [BRA]   View

398 RB 43 [BRA]   View

399 RB 46 [BRA]   View

400 RB 47 [BRA]   View

401 RB 48 [BRA]   View

402 RB 49 [BRA]   View

403 REDAMEL 1 /27   View

404 REDAMEL 1 /31   View

405 RIM 2 [MEX]   View  Synonyms: R 2 [MEX]

406 RIM 13 [MEX]   View  Synonyms: R 13 [MEX]

407 RIM 41 [MEX]   View  Synonyms: R 41 [MEX]

408 RIM 105 [MEX]   View  Synonyms: R 105 [MEX]

409 SA 16 [BRA]   View

410 SAN MARTINERO   View

411 SAN MIGUEL 1 [CHA]   View  Synonyms: SM 1 [CHA]

412 SC 1 [COL]   View

413 SC 5 [COL]   View

414 SC 6 [COL]   View

415 SC 11 [COL]   View

416 SC 14 [COL]   View

417 SC 24 [COL]   View

418 SC 32 [COL]   View

419 SC 34 [COL]   View

420 SC 38 [COL]   View

421 SC 41 [COL]   View

422 SC 45 [COL]   View

423 SC 49 [COL]   View

424 SC 51 [COL]   View

425 SC 56 [COL]   View

426 SC 78 [COL]   View  Synonyms: C 58 [COL]

427 SCA 5   View

428 SCA 6   View

429 SCA 9   View

430 SCA 10   View

431 SCA 11   View

432 SCA 12   View

433 SCA 19   View

434 SCA 24   View

435 SCC 21 [COR]   View

436 SCC 61 [COR]   View

437 SCC 85 [COR]   View

438 SCC 86 [COR]   View

439 SHAI 001   View

440 SHAI 004   View

441 SHAM 2   View

442 SHAM 4   View

443 SIAL 70   View

444 SIAL 84   View

445 SIAL 169   View

446 SIC 806   View

447 SIL 1   View

448 SILECIA 8 [ECU]   View

449 SJ 2 /22 [POU]   View

450 SJU 3   View

451 SLC 4   View

452 SNA 604   View

453 SNA 707   View

454 SNA 1001   View

455 SNA 1003   View

456 SOPETRAN 12   View

457 SP 1 [VEN]   View

458 SP 3 [VEN]   View

459 SP 9 [VEN]   View

460 SP 10 [VEN]   View

461 SPA 5 [COL]   View

462 SPA 7 [COL]   View

463 SPA 9 [COL]   View

464 SPA 10 [COL]   View

465 SPA 12 [COL]   View

466 SPA 13 [COL]   View

467 SPA 19 [COL]   View

468 SPEC 54 /1   View

469 SPEC 194 /75   View

470 SUI 2   View

471 SUI 39   View

472 SUI 44   View

473 SUI 61   View

474 SUI 69   View

475 SUI 72   View

476 SUI 75   View

477 SUI 83   View

478 SUI 99   View

479 SUI 100   View

480 T 5 [PER]   View

481 T 85 [POS]   View

482 TAP 3 [CHA]   View

483 TAP 6 [CHA]   View

484 TAP 10 [CHA]   View

485 T BICOLOR   View

486 TCS 1   View

487 TCS 6   View

488 TCS 13   View

489 TCS 19   View

490 TCS 22   View

491 TCS 24   View

492 TCS 25   View

493 TCS 26   View

494 TCS 29   View

495 TCS 30   View

496 TCS 31   View

497 TCS 34   View

498 TCS 35   View

499 TCS 36   View

500 TCS 37   View

501 TCS 38   View

502 TCS 39   View

503 TEO 2   View

504 TEO 3   View

505 T GRANDIFLORUM   View  Synonyms: T GRANDIFLORA

506 TIPUTINI 1 [CHA]   View

507 TO 5   View

508 TRD 45   View

509 TRD 86   View

510 TSA 641   View  Synonyms: TSA 141

511 TSA 644   View

512 TSA 654   View

513 TSAN 792   View  Synonyms: TSH 792

514 TSAN 812   View  Synonyms: TSH 812

515 TSH 516   View

516 TSH 565   View

517 TSH 660   View

518 TSH 1188   View

519 T SPECIOSUM   View

520 TUMACO   View  Synonyms: POBLACION-TUMACO

521 TUMACO 2   View

522 TUMACO 3   View

523 TUMACO 5   View

524 TUMACO 6   View

525 TUMACO 7   View

526 Tiwi 4   View

527 Tiwi 35   View

528 Tiwi 36   View

529 Tiwi 52   View

530 Tiwi 57   View

531 Tiwi 58   View

532 Tiwi 59   View

533 Tiwi 61   View

534 Tiwi 66   View

535 Tiwi 67   View

536 Tiwi 70   View

537 Tiwi 71   View

538 Tiwi 73   View

539 Tiwi 74   View

540 Tiwi 75   View

541 Tiwi 76   View

542 Trinidad   View

543 UF 11   View

544 UF 12   View

545 UF 29   View

546 UF 273   View

547 UF 650   View  Synonyms: EET 8 [IMP]

548 UF 667   View

549 UF 668   View

550 UF 676   View

551 UF 677   View  Synonyms: EET 9 [IMP]

552 UF 700   View

553 UNAP 2 [CHA]   View

554 VENC 4 [FRA]   View  Synonyms: VEN 4 [FRA]

555 VENC 20 [FRA]   View  Synonyms: VEN 20 [FRA]

556 WIN 1   View

557 WIN 2   View

558 Yacu 3   View

559 Yacu 5   View

560 Yacu 9   View

561 Yacu 16   View

562 Yacu 17   View

563 Yacu 19   View

564 ZEA   View

565 Zamo 1   View

566 Zamo 3 19   View

567 Zamo 4   View

568 Zamo 6   View

569 Zamo 8   View

570 Zamo 11   View

571 Zamo 12   View

572 Zamo 14   View

573 Zamo 16   View