Genome / Transcriptome

Filters
Clear Data Availability

Focus of Study: disease reaction

References / BioProjects 5

1 Baruah I.K., Ali S.S., Shao J., Lary D. & Bailey B.A. (2022): Changes in Gene Expression in Leaves of Cacao Genotypes Resistant and Susceptible to Phytophthora palmivora Infection. Frontiers in Plant Science 12: 780805; View More

Reference

Baruah I.K., Ali S.S., Shao J., Lary D. & Bailey B.A. 2022
Changes in Gene Expression in Leaves of Cacao Genotypes Resistant and Susceptible to Phytophthora palmivora Infection. Frontiers in Plant Science 12: 780805
Notes

Treated plants were inoculated with zoospores of Phytophthora palmivora and monitored for disease symptom development out to 48 hours. RNA-Seq was carried out on samples 24 h post Phytophthora palmivora inoculation.

DOI: 10.3389/fpls.2021.780805

Accession Data Project Data; BioProject: PRJNA785999 NCBI ENA; Focus of study: disease reaction; Library Source: transcriptomic; BioSamples: 13 3 clones | Runs: 13 | Experiments: 13 | SampleSource: 1
List plants Search plants View data
2 Julio Alfonso Chia Wong, Didier Pierre Louis Clement, Pierre Mournet, Analine dos Santos Nascimento, José Luis Solís Bonilla, Uilson Vanderlei Lopes, Jose Luis Pires & Karina Peres Gramacho (2022): A high-density genetic map from a cacao F2 progeny and QTL detection for resistance to witches’ broom disease. Tree Genetics & Genomes 18, 31; View More

Reference

Julio Alfonso Chia Wong, Didier Pierre Louis Clement, Pierre Mournet, Analine dos Santos Nascimento, José Luis Solís Bonilla, Uilson Vanderlei Lopes, Jose Luis Pires & Karina Peres Gramacho 2022
A high-density genetic map from a cacao F2 progeny and QTL detection for resistance to witches’ broom disease. Tree Genetics & Genomes 18, 31
DOI: 10.1007/s11295-022-01562-x

Genetic Map (TropGENE DB)

Accession Data Project Data; BioProject: PRJNA641269 NCBI ENA; Focus of study: disease reaction; Library Source: genomic; BioSamples: 583 4 clones | Runs: 583 | Experiments: 583 | SampleSource: 1
List plants Search plants View data
3 CPCRI (2021): Transcriptome analysis of cocoa pods, infected by Phytophthora palmivora (black pod disease condition).; View More

Reference

CPCRI 2021
Transcriptome analysis of cocoa pods, infected by Phytophthora palmivora (black pod disease condition).
Accession Data Project Data; BioProject: PRJNA604260 NCBI ENA; Focus of study: disease reaction; Library Source: transcriptomic; BioSamples: 3 | Runs: 3 | Experiments: 3 | SampleSource: 1
View data

4 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; View More

Reference

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
DOI: 10.1534/g3.120.401153

Additional phenotypic data (CSV file) (based on table S2 with additional name codes added)

Accession Data Project Data; 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
5 Guiltinan, Mark (2019): Theobroma cacao Disease Resistance: Discovery and Functional Characterization of Genes Regulating Plant Immunity in Perennial Crops. NCBI; View More

Reference

Guiltinan, Mark 2019
Theobroma cacao Disease Resistance: Discovery and Functional Characterization of Genes Regulating Plant Immunity in Perennial Crops. NCBI
Notes

A project to establish a new scientific approach for use with perennial crop plants to identify candidate loci for disease resistance using Theobroma cacao. Leaf samples were collected from the La Montaña field site at the CATIE field station in Turrialba, Costa Rica. The study focused on four genetic groups (Guiana, Iquitos, Marañon, and Nanay) and variation in resistance to Phytophthora.
Last updated: November, 2022

plantscience.psu.edu/…

Disease Population Accession Data Project Data; BioProject: PRJNA558793 NCBI ENA; Focus of study: disease reaction; Library Source: genomic; BioSamples: 31 31 clones | Runs: 134 | Experiments: 134 | SampleSource: 1; Library Source: transcriptomic; BioSamples: 31 31 clones | Runs: 31 | Experiments: 31 | SampleSource: 1
List plants Search plants View data

Plants 259

1 ABC 7 View

2 AMAZ 12 View

3 AMAZ 15 /15 View

4 B 97 61 /B-2 [BLZ] View

5 CAP 34 View

6 CATONGO View

7 CCN 51 View

8 CHOCO774 View

9 CHOCOLATE 1 View

10 CHOCOLATE 2 View

11 CHOCOLATE 4 View

12 COCA 3370 /5 [CHA] View

13 CR 1 [COL] View

14 CR 11 [COL] View

15 CR 35 [COL] View

16 CR 38 [COL] View

17 CR 43 [COL] View

18 CRICF 13 View

19 CRICF 16 View

20 DON-DIEGO View

21 EBC 6 View

22 EBC 9 View

23 EBC 27 View

24 EBC 29 View

25 EBC 48 View

26 EBC 58 View

27 EBC 119 View

28 EBC 143 View

29 EBC 148 View

30 EET 6 [ECU] View

31 EET 12 [ECU] View

32 EET 59 [ECU] View

33 EET 61 [ECU] View

34 EET 62 [ECU] View

35 EET 184 [ECU] View

36 EET 377 [ECU] View

37 EET 399 [ECU] View

38 EET 400 [ECU] View

39 ELP 37 A View

40 FCM 1 View

41 FCM 3 View

42 FCM 5 View

43 FCM 8 View

44 FCM 9 View

45 FCM 11 View

46 FCM 12 View

47 FCM 15 View

48 FCM 17 View

49 FCM 18 View

50 FCM 19 View

51 FCM 20 View

52 FCM 22 View

53 FCM 23 View

54 FCM 26 View

55 FCM 28 View

56 FCM 29 View

57 FCM 30 View

58 FCM 31 View

59 FCM 33 View

60 FCM 39 View

61 FCM 40 View

62 GS 6 View

63 GS 10 View

64 GS 29 View

65 GU 123 /V View

66 GU 195 /V View

67 GU 257 /E View

68 HUILA A View Synonyms: POBLACION-HUILA

69 ICA 1 View

70 ICA 2 View

71 ICA 10 View

72 ICA 13 View

73 ICA 70 [COL] View

74 ICA 83 698 View Synonyms: 830698

75 ICA 83 699 View Synonyms: 830699

76 ICA 83 702 View Synonyms: 830702

77 ICA 83 703 View Synonyms: 830703

78 ICA 83 704 View Synonyms: 830704

79 ICA 83 710 View Synonyms: 830710

80 ICA 83 713 View Synonyms: 830713

81 ICA 83 714 View Synonyms: 830714

82 ICA 83 715 View Synonyms: 830715

83 ICA 83 716 View Synonyms: 830716

84 ICA 83 720 View Synonyms: 830720

85 ICA 83 723 View Synonyms: 830723

86 ICA 83 736 View Synonyms: 830736

87 ICA 83 740 View Synonyms: 830740

88 ICA 83 745 View Synonyms: 830745

89 ICA 83 746 View Synonyms: 830746

90 ICA 83 747 View Synonyms: 830747

91 ICA 83 752 View Synonyms: 830752

92 ICA 83 755 View Synonyms: 830755

93 ICA 83 758 View Synonyms: 830758

94 ICA 83 759 View Synonyms: 830759

95 ICA 83 761 View Synonyms: 830761

96 ICA 83 763 View Synonyms: 830763

97 ICA 84 777 View Synonyms: 840777

98 ICA 84 778 View Synonyms: 840778

99 ICA 86 1309 View Synonyms: 861309

100 ICA 86 1310 View Synonyms: 861310

101 ICA 86 1311 View Synonyms: 861311

102 ICA 86 1312 View Synonyms: 861312

103 ICA 86 1315 View Synonyms: 861315

104 ICA 86 1317 View Synonyms: 861317

105 ICA 86 1319 View Synonyms: 861319

106 ICA 86 1321 View Synonyms: 861321

107 ICA 86 1340 View Synonyms: 861340

108 ICA 86 1370 View Synonyms: 861370

109 ICA 86 1371 View Synonyms: 861371

110 ICA 86 1372 View Synonyms: 861372

111 ICA 86 1406 View Synonyms: 861406

112 ICA 86 1610 View Synonyms: 861610

113 ICA 86 1611 View Synonyms: 861611

114 ICA 86 1613 View Synonyms: 861613

115 ICA 86 1614 View Synonyms: 861614

116 ICA 86 1618 View Synonyms: 861618

117 ICA 86 1619 View Synonyms: 861619

118 ICA 86 1622 View Synonyms: 861622

119 ICA 86 1623 View Synonyms: 861623

120 ICA 86 1645 View Synonyms: 861645

121 ICA 86 1648 View Synonyms: 861648

122 ICA 86 1654 View Synonyms: 861654

123 ICA 86 1683 View Synonyms: 861683

124 ICA 87 1854 View Synonyms: 871854

125 ICA 212 [COL] View

126 ICS 1 View

127 ICS 6 View

128 ICS 39 View

129 ICS 40 View

130 ICS 48 View

131 ICS 60 View

132 ICS 78 View

133 ICS 95 View

134 ICS 95 A View

135 ICS 98 View

136 IMC 31 View

137 IMC 57 View

138 IMC 60 View

139 IMC 67 View

140 IMC 105 View

141 KER 1-L View

142 KER 6 View

143 LOLITA-WALK1 View

144 LUKER 40 View

145 LUKER 50 View

146 MON 1 View

147 NA 33 View

148 NA 34 View

149 NA 70 View

150 NA 246 View

151 NA 710 View

152 NA 807 View

153 NA 916 View

154 OYA 2 B View

155 PA 13 [PER] View

156 PA 16 [PER] View

157 PA 35 [PER] View

158 PA 46 [PER] View

159 PA 67 [PER] View

160 PA 71 [PER] View

161 PA 81 [PER] View

162 PA 107 [PER] View

163 PA 121 [PER] View

164 PA 150 [PER] View

165 PA 279 [PER] View

166 PA 299 [PER] View

167 PENTAGONA /V View Synonyms: PENTAGONA /VERDE

168 PERSEA 1 View

169 PERSEA 2 View

170 PINA 1 View Synonyms: PINA

171 POUND 7 View Synonyms: P 7 [POU]

172 POUND 12 View Synonyms: P 12 [POU]

173 POUND 18 View Synonyms: P 18 [POU]

174 PUEBLO-BELLO View

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

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

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

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

179 SAN MARTINERO View

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

181 SC 1 [COL] View

182 SC 5 [COL] View

183 SC 6 [COL] View

184 SC 11 [COL] View

185 SC 14 [COL] View

186 SC 24 [COL] View

187 SC 32 [COL] View

188 SC 34 [COL] View

189 SC 38 [COL] View

190 SC 41 [COL] View

191 SC 45 [COL] View

192 SC 49 [COL] View

193 SC 51 [COL] View

194 SC 56 [COL] View

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

196 SCA 6 View

197 SCA 9 View

198 SCA 12 View

199 SCC 21 [COR] View

200 SCC 61 [COR] View

201 SCC 85 [COR] View

202 SCC 86 [COR] View

203 SOPETRAN 12 View

204 SPA 5 [COL] View

205 SPA 9 [COL] View

206 SPA 10 [COL] View

207 SPA 12 [COL] View

208 SPA 13 [COL] View

209 SPA 19 [COL] View

210 SPEC 54 /1 View

211 SUI 2 View

212 SUI 39 View

213 SUI 44 View

214 SUI 61 View

215 SUI 69 View

216 SUI 72 View

217 SUI 75 View

218 SUI 83 View

219 SUI 99 View

220 SUI 100 View

221 TCS 1 View

222 TCS 6 View

223 TCS 13 View

224 TCS 19 View

225 TCS 22 View

226 TCS 24 View

227 TCS 25 View

228 TCS 26 View

229 TCS 29 View

230 TCS 30 View

231 TCS 31 View

232 TCS 34 View

233 TCS 35 View

234 TCS 36 View

235 TCS 37 View

236 TCS 38 View

237 TCS 39 View

238 TO 5 View

239 TSA 641 View Synonyms: TSA 141

240 TSA 644 View

241 TSAN 792 View Synonyms: TSH 792

242 TSAN 812 View Synonyms: TSH 812

243 TSH 516 (SCA 6 x ICS 1) - F2 population View

244 TSH 565 View

245 TSH 660 View

246 TUMACO View Synonyms: POBLACION-TUMACO

247 TUMACO 2 View

248 TUMACO 3 View

249 TUMACO 5 View

250 TUMACO 6 View

251 TUMACO 7 View

252 Trinidad View

253 UF 29 View

254 UF 273 View

255 UF 650 View Synonyms: EET 8 [IMP]

256 UF 667 View

257 UF 676 View

258 UF 677 View Synonyms: EET 9 [IMP]

259 UF 700 View