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                    U.S. DEPARTMENT OF AGRICULTURE
 Sustainable Perennial Crops Laboratory: Beltsville, MD
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ARS Home Northeast Area Beltsville, Maryland (BARC) Beltsville Agricultural Research Center Sustainable Perennial Crops Laboratory People & Locations







Dapeng  Zhang
                        Sustainable Perennial Crops Laboratory

                        




                        
                        Research Geneticist (Plants)
                        Phone: (301) 504-7477
                        
                        
                        Fax: (301) 504-6478(Employee information on this page comes from the REE Directory. Please contact your front office staff to update the REE Directory.)
                            ProjectsGenotypic Characterization of Genetic Resources for Cacao, Coffee, and Other Tropical Perennial Crops Economically Important to the United States
                                                    In-House Appropriated
                                                                    (D)Accession Number: 444058Identification and Conservation of Fine Flavored Cacao Varieties (Theobroma cacao)
                                                    Non-Funded Cooperative Agreement
                                                                    (N)Accession Number: 436556Molecular Characterization of CATIE International Coffee Collections
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 436780Molecular Characterization of Coffee Germplasm Collection in the Centre National de Recherche Agronomique (CNRA), Cóte d’Ivoire
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 436789Assessment of Soil Quality parameters in Tropical Soils and Elemental Composition in Tropical Crops Subjected to Abiotic Stresses
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 437990Molecular Characterization and Diversity Analysis of Colombian Cacao Genebank Collections and Cacao Pathogens from Colombia
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 440808Development and Implementation of GBS and SNP Tools for Tropical Plant Genotyping
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 442123Evaluate Wild Cacao Germplasm for Tolerance to Biotic and Abiotic Stresses and Develop Genomes and Transcriptomes of Cacao Pathogen Species
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 442174Evaluation of Cacao Germplasm for Enhanced Agronomic Traits in the International Cocao Genebank, Trinidad
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 443779Developing Genomics Resources for Tropical Perennial Crops Economically Important to the United States
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 445245**Publications**
                                                (Clicking on the reprint icon
                                                    Reprint Icon
                                                    will take you to the publication reprint.)Assessing the genetic integrity of sugarcane germplasm in the USDA-ARS national plant germplasm system collection using single-dose SNP markers
                                                        

- (Peer Reviewed Journal)Park, S., Zhang, D., Ali, G.S. 2024. Assessing the genetic integrity of sugarcane germplasm in the USDA-ARS national plant germplasm system collection using single-dose SNP markers. Frontiers in Plant Science. 14.Article 1337736.  https://doi.org/10.3389/fpls.2023.1337736.Cross-pollination with native genotypes improves fruit set and yield quality of Peruvian cacao varieties
                                                        

- (Peer Reviewed Journal)Vansynghel, J., Thomas, E., Ocampo-Ariza, C., Maas, B., Zhang, D., Ulloque-Dewenter, C., Steffan-Dewenter, I. 2023. Cross-pollination with native genotypes improves fruit set and yield quality of Peruvian cacao varieties. Agriculture, Ecosystems and Environment. https://doi.org/10.1016/j.agee.2023.108671.Genotyping of Jujube (Ziziphus spp.) Germplasm in
New Mexico and Southwestern Texas
                                                        

- (Peer Reviewed Journal)Sapkota, D., Zhang, D., Park, S., Meinhardt, L.W., Yao, S. 2023. Genotyping of Jujube (Ziziphus spp.) Germplasm in New Mexico and Southwestern Texas. Plants. 12:2405. https://doi.org/10.3390/plants12132405.Selecting progenies of coffee variety “Mundo Novo” with potential for the specialty coffee market
                                                        

- (Peer Reviewed Journal)Ferraz, G., Lopez, M.E., Zhang, D., Rodrigues-Carvalho, G., Meinhardt, L.W., Chalfun-Junior, A. 2023. Selecting progenies of coffee variety “Mundo Novo” with potential for the specialty coffee market. Beverage Plant Research. 3(1):1-11. https://doi.org/10.48130/BPR-2023-0001.Growth and nutritional responses of juvenile wild and domesticated cacao genotypes to soil acidity
                                                        

- (Peer Reviewed Journal)Ahnert, D., Paiva, A., Almeida, A.F., De Araujo, Q.R., Zhang, D., Baligar, V.C. 2022. Growth and nutritional responses of juvenile wild and domesticated cacao genotypes to soil acidity. Agronomy. https://doi.org/10.3390/agronomy12123124.Accurate cultivar authentication of fresh and dry jujube fruits using DNA fingerprints based on a nanofluidic SNP genotyping system
                                                        

- (Peer Reviewed Journal)Song, L., Meinhardt, L.W., Li, Z., Wan, Z., Zhang, D. 2022. Accurate cultivar authentication of fresh and dry jujube fruits using DNA fingerprints based on a nanofluidic SNP genotyping system. Journal of Agricultural and Food Chemistry. 8(9):792. https://doi.org/10.3390/horticulturae8090792.USA Tea: A synopsis of ongoing tea research and USA production issues
                                                        

- (Review Article)D'Auria, J.C., Cohen, S.P., Leung, J., Glockzin, K., Glockzin, K., Gervay-Hague, J., Zhang, D., Meinhardt, L.W. 2022. USA Tea: A synopsis of ongoing tea research and USA production issues. Frontiers in Plant Science. 13:934651. https://doi.org/10.3389/fpls.2022.934651.Growth and nutritional responses of juvenile wild and domesticated cacao genotypes to soil acidity
                                                        

- (Peer Reviewed Journal)Arevalo-Hernandez, C., Arevalo-Ardini, E., Farfana, A., Amaringo-Gomez, M., Daymond, A., Zhang, D., Baligar, V. 2022. Growth and nutritional responses of juvenile wild and domesticated cacao genotypes to soil acidity. Agronomy. 12(12):3124. https://doi.org/10.3390/agronomy12123124.Is the genetic integrity of wild coffea canephora from ivory coast threatened by hybridization with introduced coffee trees from central africa?
                                                        

- (Peer Reviewed Journal)Gnapi, E.D., Pokou, D., Legnate, H., Zhang, D., Montagnon, C., Bertrand, B., N'Guetta, S. 2022. Is the genetic integrity of wild coffea canephora from ivory coast threatened by hybridization with introduced coffee trees from central africa? Euphytica. 218:62. https://doi.org/10.1007/s10681-022-03004-0.Relationship between genetic distance based on single nucleotide polymorphism markers and hybrid performance in C. canephora
                                                        

- (Peer Reviewed Journal)Akpertey, A., Padi, F., Meinhardt, L.W., Zhang, D. 2022. Relationship between genetic distance based on single nucleotide polymorphism markers and hybrid performance in C. canephora. Plant Breeding. https://doi.org/10.1111/pbr.13005.The chromosome-level rambutan genome reveals a significant role of segmental duplication in the expansion of resistance genes
                                                        

- (Peer Reviewed Journal)Zheng, J., Meinhardt, L.W., Goenaga, R.J., Matsumoto Brower, T.K., Zhang, D., Yin, Y. 2022. The chromosome-level rambutan genome reveals a significant role of segmental duplication in the expansion of resistance genes. Horticulture Research. 9:uhac014. https://doi.org/10.1093/hr/uhac014.Selecting SNP markers reflecting population origin for cacao (Theobroma Cacao L.) germplasm identification
                                                        

- (Peer Reviewed Journal)Gutierrez, O.A., Martinez, K.A., Zhang, D., Livingstone, D.S., Turnbull, C.J., Motamayor, J.C. 2021. Selecting SNP markers reflecting population origin for cacao (Theobroma Cacao L.) germplasm identification. Beverage Plant Research. 1: Article 15. https://doi.org/10.48130/BPR-2021-0015.Assessing genetic integrity of Chinese jujube cultivars using Single Nucleotide Polymorphism (SNP) markers
                                                        

- (Peer Reviewed Journal)Song, L., Zhang, H., Li, Z., Meinhardt, L.W., Zhang, D. 2021. Assessing genetic integrity of Chinese jujube cultivars using Single Nucleotide Polymorphism (SNP) markers. Agronomy. 11:2303. https://doi.org/10.3390/agronomy11112303.Sequencing and de Novo Assembly of Abaca (Musa textilis Née) var. Abuab Genome
                                                        

- (Peer Reviewed Journal)Galvez, L.C., Koh, R.B., Barbosa, C.C., Asunto, J.C., Catalla, J.L., Atienza, R.G., Costalesa, K.T., Aquino, V.M., Zhang, D. 2021. Sequencing and de Novo Assembly of Abaca (Musa textilis Née) var. Abuab Genome. Genes. 12:1202. https://doi.org/10.3390/genes12081202.Selecting a core set of nuclear SNP markers for molecular characterization of Arabica coffee (Coffea arabica L.) genetic resources
                                                        

- (Peer Reviewed Journal)Zhang, D., Vega, F.E., Solano, W., Fuyuan, S., Infante, F., Meinhardt, L.W. 2021. Selecting a core set of nuclear SNP markers for molecular characterization of Arabica coffee (Coffea arabica L.) genetic resources. Conservation Genetics Resources. https://doi.org/10.1007/s12686-021-01201-y.Fruit morphology measurements of Jujube Cultivar ‘Lingwu Changzao’ (Ziziphus jujuba Mill. cv. Lingwuchangzao) during fruit development
                                                        

- (Peer Reviewed Journal)Ma, Y., Song, L., Wang, Z., Zhang, D., Cao, B. 2021. Fruit morphology measurements of Jujube Cultivar ‘Lingwu Changzao’ (Ziziphus jujuba Mill. cv. Lingwuchangzao) during fruit development. Horticulturae. https://doi.org/10.3390/horticulturae7020026.The chromosome-level genome of dragon fruit reveals whole-genome duplication and chromosomal co-localization of betacyanin iosynthetic genes
                                                        

- (Peer Reviewed Journal)Zheng, J., Meinhardt, L.W., Goenaga, R.J., Zhang, D., Yin, Y. 2021. The chromosome-level genome of dragon fruit reveals whole-genome duplication and chromosomal co-localization of betacyanin iosynthetic genes. Horticulture Research. https://doi.org/10.1038/s41438-021-00501-6.Effectiveness of Single Nucleotide Polymorphism Markers in Genotyping Germplasm Collections of Coffea canephora Using KASP Assay
                                                        

- (Peer Reviewed Journal)Akpertey, A., Padi, F., Meinhardt, L.W., Zhang, D. 2021. Effectiveness of Single Nucleotide Polymorphism Markers in Genotyping Germplasm Collections of Coffea canephora Using KASP Assay. Frontiers in Plant Science. https://doi.org/10.3389/fpls.2020.612593.Elevated temperature and drought stress significantly affect fruit quality and activity of anthocyanin-related enzymes in jujube (Ziziphus jujuba mill. cv. ‘Lingwuchangzao’)
                                                        

- (Peer Reviewed Journal)Jiang, W., Li, N., Zhang, D., Meinhardt, L.W., Cao, B., Li, Y., Song, L. 2020. Elevated temperature and drought stress significantly affect fruit quality and activity of anthocyanin-related enzymes in jujube (Ziziphus jujuba mill. cv. ‘Lingwuchangzao’). PLoS ONE. https://doi.org/10.1371/journal.pone.0241491.t003.Molecular characterization of a cacao germplasm collection in Yunnan, China using Single Nucleotide Polymorphism (SNP) markers
                                                        

- (Peer Reviewed Journal)Wang, B., Motilal, L., Meinhardt, L.W., Mischke, B.S., Zhang, D. 2020. Molecular characterization of a cacao germplasm collection in Yunnan, China using Single Nucleotide Polymorphism (SNP) markers. Tropical Plant Biology. https://doi.org/10.1007/s12042-020-09267-y.Establishment of cacao reference genotypes from different genetic groups using SNP markers

- (Abstract Only)Quality green tea (camellia sinensis l.) Clones marked through novel traits

- (Peer Reviewed Journal)Patel, P., Zhang, D., Borthakur, D., Hazarika, M., Boruah, P., Barooah, R., Sabbapondit, S., Neog, N., Gogoi, R. 2019. Quality green tea (camellia sinensis l.) Clones marked through novel traits. Beverages. 5(4):63.Wide ranging differences in tolerance to Phytopthora palmivora in four genetic groups of cacao
                                                        

- (Peer Reviewed Journal)Fister, A., Leamdro, M., Zhang, D., Marden, J., Tiffin, P., Depamphilis, C., Maximova, S., Guiltinan, M. 2019. Wide ranging differences in tolerance to Phytopthora palmivora in four genetic groups of cacao. Tree Genetics and Genomes. 16:1. https://doi.org/10.1007/s11295-019-1396-8.Genetic improvement of Chinese jujube for disease resistances: current status, knowledge gaps and research needs
                                                        

- (Peer Reviewed Journal)Song, L., Cao, B., Meinhardt, L.W., Bailey, B.A., Zhang, D. 2019. Genetic improvement of Chinese jujube for disease resistances: current status, knowledge gaps and research needs. Crop Breeding, Genetics and Genomics. 2019;1:e190015. https://doi.org/10.20900/cbgg20190015.Accurate differentiation of green beans of Arabica and Robusta coffee using nanofluidic array of single nucleotide polymorphism (SNP) markers

- (Peer Reviewed Journal)Zhang, D., Vega, F.E., Huawei, T., Johnson, E., Solano, W., Meinhardt, L.W. 2020. Accurate differentiation of green beans of Arabica and Robusta coffee using nanofluidic array of single nucleotide polymorphism (SNP) markers. Journal of AOAC International. 103:315–324.HPLC Quantification and MS/NMR confirmation of Javamide-I/-II in Arabica and Robusta coffee beans from different regions for finding better bean sources for Javamide-I/-II
                                                        

- (Peer Reviewed Journal)Park, J.B., Wang, T.T., Zhang, D., Vega, F.E., Meinhardt, L.W. 2019. HPLC Quantification and MS/NMR confirmation of Javamide-I/-II in Arabica and Robusta coffee beans from different regions for finding better bean sources for Javamide-I/-II. Austin Chromatography. 6(1):1051. https://doi.org/10.26420/austinchromatogrl.2019.1051.Genetic identity and origin of ‘Piura Porcelana’ – a fine-flavored traditional variety of cacao (Theobroma cacao) from the Peruvian Amazon

- (Peer Reviewed Journal)Arevalo, E., Zhou, L., Meinhardt, L.W., Motilal, L., Mischke, B.S., Zhang, D. 2019. Genetic identity and origin of ‘Piura Porcelana’ – a fine-flavored traditional variety of cacao (Theobroma cacao) from the Peruvian Amazon. Tree Genetics and Genomes. 15:11.Assessing hidden parentage and genetic integrity of the “United Fruit Clones” of cacao (Theobroma cacao) from Costa Rica using SNP markers

- (Peer Reviewed Journal)Mata, A., Arciniegas, A.L., Phillips, W.M., Meinhardt, L.W., Mischke, B.S., Zhang, D. 2018. Assessing hidden parentage and genetic integrity of the “United Fruit Clones” of cacao (Theobroma cacao) from Costa Rica using SNP markers. Breeding Science. 68:545-553.Candidate SSR tags for fruit and seed traits of Theobroma cacao L. in the International Cocoa Genebank Trinidad

- (Proceedings)Motilal, L., Zhang, D., Mischke, B.S., Meinhardt, L.W., Umaharan, P. 2018. Candidate SSR tags for fruit and seed traits of Theobroma cacao L. in the International Cocoa Genebank Trinidad. Proceedings of the International Symposium on Cocoa Research. p.13-17.Genetic Diversity and Genetic Structure of Wild Cacao Collected in the Oriente using Single Nucleotide Polymorphisms

- (Proceedings)Motilal, L., Zhang, D., Mischke, B.S., Meinhardt, L.W., Umaharan, P. 2018. Genetic Diversity and Genetic Structure of Wild Cacao Collected in the Oriente using Single Nucleotide Polymorphisms. Proceedings of the International Symposium on Cocoa Research. November 13-17, 2018, Lima, Peru. 12:1-8.Assessing genetic diversity of cacao (Theobroma cacao l.) Chuncho in La Convención, Cusco-Peru

- (Proceedings)Cespedes Del Pozo, W., Blas Sevillano, R., Zhang, D. 2018. Assessing genetic diversity of cacao (Theobroma cacao l.) Chuncho in La Convención, Cusco-Peru. Proceedings of the International Symposium on Cocoa Research. November 13-17, 2017, Cusco, Peru. p. 1-8.Understanding the genetic structure and parentage of the clonal series of cacao UF, CC, PMCT and ARF preserved in the international cacao collection at CATIE (IC3)

- (Proceedings)Arciniegas-Leal, A., Mata-Quiros, A., Phillips-Mora, W., Meinhardt, L.W., Zhang, D. 2018. Understanding the genetic structure and parentage of the clonal series of cacao UF, CC, PMCT and ARF preserved in the international cacao collection at CATIE (IC3). Proceedings of the International Symposium on Cocoa Research. November 13-17, 2017, Lima, Peru. 26:1-11.Cacao genetic resources research at the USDA-ARS Tropical Agriculture Research Station, Mayaguez, Puerto Rico

- (Abstract Only)Goenaga, R.J., Ayala Silva, T., Irish, B.M., Zhang, D., Matsumoto Brower, T.K., Gutierrez, O.A. 2018. Cacao genetic resources research at the USDA-ARS Tropical Agriculture Research Station, Mayaguez, Puerto Rico. Meeting Abstract. Abstract.Molecular characterization of farmer selections of cacao (Theobroma cacao) from Jamaica using Single Nucleotide Polymorphism (SNP) markers
                                                        

- (Peer Reviewed Journal)Lindo, A.A., Robinson, D.E., Tennant, P.F., Meinhardt, L.W., Zhang, D. 2018. Molecular characterization of farmer selections of cacao (Theobroma cacao) from Jamaica using Single Nucleotide Polymorphism (SNP) markers. Tropical Plant Biology. https://doi.org/10.1007/s12042-018-9203-5.Genetic identity and diversity of Nigerian cacao genebank collections verified by Single Nucleotide polymorphisms (SNPs): A guide to field genebank management and utilization
                                                        

- (Peer Reviewed Journal)Olasupo, F., Adewale, D., Aikpokpodion, P., Muyiwa, A., Bhattacharjee, R., Gutierrez, O.A., Motamayor, J., Schnell, R., Ebai, S., Zhang, D. 2018. Genetic identity and diversity of Nigerian cacao genebank collections verified by Single Nucleotide polymorphisms (SNPs): A guide to field genebank management and utilization. Tree Genetics and Genomes. https://doi.org/10.1007/s11295-018-1244-2.Conserving and exploiting cocoa genetic resources: the key challenges

- (Book / Chapter)Laliberte, B., End, M., Cryer, N., Daymond, A., Engels, J., Esks, A., Gilmour, M., Lachenaud, P., Phillips-Mora, W., Turnbull, C., Umaharan, P., Zhang, D., Weise, S. 2018. Conserving and exploiting cocoa genetic resources: the key challenges. In: Umaharan, P., Achieving sustainable cultivation of cocoa, Cambridge, UK: Burleigh Dodds Science Publishing. 25 p.Association mapping of fruit, seed and disease resistance traits in Theobroma cacao L

- (Peer Reviewed Journal)Motilal, L., Zhang, D., Mischke, B.S., Meinhardt, L.W., Boccara, M., Lanaud, C., Umaharan, P. 2016. Association mapping of fruit, seed and disease resistance traits in Theobroma cacao L. Planta. 244(6):1265-1276.Genetic diversity of naturalized cacao (Theobroma cacao L.) in Puerto Rico

- (Peer Reviewed Journal)Cosme-Reyes, S.M., Cuevas, H.E., Zhang, D., Oleksyk, T.K., Irish, B.M. 2016. Genetic diversity of naturalized cacao (Theobroma cacao L.) in Puerto Rico. Tree Genetics and Genomes. doi: 10.1007/s11295-016-1045-4.Developing Single Nucleotide Polymorphism markers for the identification of Coffee germplasm

- (Peer Reviewed Journal)Zhou, L., Vega, F.E., Tan, H., Ramirez Lluch, A., Meinhardt, L.W., Fang, W., Mischke, B.S., Irish, B.M., Zhang, D. 2016. Developing Single Nucleotide Polymorphism markers for the identification of Coffee germplasm. Tropical Plant Biology. 9:82-95.Origin, dispersal and current global distribution of cacao genetic diversity

- (Book / Chapter)Zhang, D., Motilar, L. 2016. Origin, dispersal and current global distribution of cacao genetic diversity. In: Bailey, B. A., Meinhardt, L.W., editors, Cacao Diseases: A history of old enemies and new encounters. Switzerland: Springer. 3-31.Developing Single Nucleotide Polymorphism (SNP) markers for the identification of pineapple (Ananas comosus) germplasm

- (Peer Reviewed Journal)Zhou, L., Matsumoto Brower, T.K., Tan, H., Meinhardt, L.W., Mischke, B.S., Wang, B., Zhang, D. 2015. Developing Single Nucleotide Polymorphism (SNP) markers for the identification of pineapple (Ananas comosus) germplasm. Horticulture Research. 2:15056.Genetic identity and parentage in farmer selections of cacao from Southern Sulawesi, Indonesia revealed by molecular markers

- (Peer Reviewed Journal)Dinarti, D., Susilo, A.W., Meinhardt, L.W., Ji, K., Motilal, L., Mischke, B.S., Zhang, D. 2015. Genetic identity and parentage in farmer selections of cacao from Southern Sulawesi, Indonesia revealed by molecular markers. Journal of Breeding Science. 65:438-446.Combination of RNAseq and SNP nanofluidic array reveals the center of genetic diversity of cacao pathogen Moniliophthora roreri in the upper Magdalena Valley of Colombia and its clonality

- (Peer Reviewed Journal)Ali, S., Shao, J.Y., Strem, M.D., Phillips-Mora, W., Zhang, D., Meinhardt, L.W., Bailey, B.A. 2015. Combination of RNAseq and SNP nanofluidic array reveals the center of genetic diversity of cacao pathogen Moniliophthora roreri in the upper Magdalena Valley of Colombia and its clonality. Frontiers in Microbiology. doi: 10.3389/fmicb.2015.00850.The impact of SNP fingerprinting and parentage analysis on the effectiveness of variety recommendations in cacao

- (Peer Reviewed Journal)Padi, F.K., Ofori, A., Takrama, J., Djan, E., Opoku, S.Y., Bhattacharjee, R., Motamayor, J., Zhang, D. 2015. The impact of SNP fingerprinting and parentage analysis on the effectiveness of variety recommendations in cacao. Tree Genetics and Genomes. DOI:10.1007/s11295-015-0875-9.Macro and micro nutrient uptake parameters and use efficiency in cacao genotypes influenced by deficient to excess levels of soil K
                                                        

- (Peer Reviewed Journal)Li, Y., Elson, M.K., Zhang, D., He, Z., Sicher  Jr, R.C., Baligar, V.C. 2015. Macro and micro nutrient uptake parameters and use efficiency in cacao genotypes influenced by deficient to excess levels of soil K. International Journal of Plant and Soil Science. 7:80-90.Identification of the varietal origin of loose leaf tea based on analysis of a single leaf by SNP nanofluidic array

- (Peer Reviewed Journal)Fang, W., Meinhardt, L.W., Tan, H., Zhou, L., Wang, X., Mischke, B.S., Zhang, D. 2016. Identification of the varietal origin of loose leaf tea based on analysis of a single leaf by SNP nanofluidic array. Journal of Agricultural and Food Chemistry. doi: 10.1016/j.cj.2016.02.001.Developing Single Nucleotide Polymorphism (SNP) markers from transcriptome sequences for the identification of longan (Dimocarpus longan) germplasm

- (Peer Reviewed Journal)Wang, B., Tan, H., Fang, W., Meinhardt, L.W., Mischke, B.S., Matsumoto Brower, T.K., Zhang, D. 2015. Developing Single Nucleotide Polymorphism (SNP) markers from transcriptome sequences for the identification of longan (Dimocarpus longan) germplasm. Horticulture Research. DOI:10.1038/hortres.2014.65.Genetic identity, ancestry and parentage in farmer selections of cacao from Aceh, Indonesia revealed by single nucleotide polymorphism (SNP) markers

- (Peer Reviewed Journal)Lukman, Zhang, D., Susilo, A., Dinarti, D., Bailey, B.A., Mischke, B.S., Meinhardt, L.W. 2014. Genetic identity, ancestry and parentage in farmer selections of cacao from Aceh, Indonesia revealed by single nucleotide polymorphism (SNP) markers. Tropical Plant Biology. 7:133-143.Varietal identification of tea (Camellia sinensis [L.] Kuntze) using nanofluidic array of Single Nucleotide Polymorphism (SNP) markers

- (Peer Reviewed Journal)Fang, W., Meinhardt, L.W., Tan, H., Zhou, L., Mischke, B.S., Zhang, D. 2014. Varietal identification of tea (Camellia sinensis [L.] Kuntze) using nanofluidic array of Single Nucleotide Polymorphism (SNP) markers. Horticulture Research. DOI:10.1038/hortres.2014.35.Verification of genetic identity of introduced cacao germplasm in Ghana using single nucleotide polymorphism (SNP) markers

- (Peer Reviewed Journal)Ji, K., Takrama, J., Meinhardt, L.W., Mischke, B.S., Opoku, S., Padi, F., Zhang, D. 2014. Verification of genetic identity of introduced cacao germplasm in Ghana using single nucleotide polymorphism (SNP) markers. African Journal of Biotechnology. 13(21):2127-2136.Exogenous abscisic acid significantly affects proteome in tea plant (Camellia sinensis) exposed to drought stress

- (Peer Reviewed Journal)Zhou, L., Xu, H., Mischke, B.S., Meinhardt, L.W., Zhang, D., Fang, W. 2014. Exogenous abscisic acid significantly affects proteome in tea plant (Camellia sinensis) exposed to drought stress. Horticulture Research. doi:10.1038/hortres.2014.29.Characterization of naturalized cacao populations in Puerto Rico

- (Abstract Only)Cosme-Reyes, S.M., Irish, B.M., Oleksyk, T., Zhang, D., Goenaga, R.J. 2014. Characterization of naturalized cacao populations in Puerto Rico. HortScience 49(9) Supplement, American Society of Horticultural Sciences Annual Conference. S249.Differential gene expression by Moniliophthora roreri while overcoming cacao tolerance in the field

- (Peer Reviewed Journal)Bailey, B.A., Melnick, R.L., Strem, M.D., Crozier, J., Shao, J.Y., Sicher, Jr., R.C., Ali, S.S., Zhang, D., Philips-Mora, W., Meinhardt, L.W. 2014. Differential gene expression by Moniliophthora roreri while overcoming cacao tolerance in the field. Molecular Plant Pathology. DOI:10.1111/mpp.12134.Successful pod infections by Moniliophthora roreri result in differential Theobroma cacao gene expression depending on the clone’s level of tolerance

- (Peer Reviewed Journal)Ali, S., Melnick, R., Strem, M.D., Crozier, J., Shao, J.Y., Sicher  Jr, R.C., Zhang, D., Philips-Mora, W., Meinhardt, L.W., Bailey, B.A. 2014. Successful pod infections by Moniliophthora roreri result in differential Theobroma cacao gene expression depending on the clone’s level of tolerance. Molecular Plant Pathology. DOI:10.1111/mpp.12126.Genetic characterization of guava (psidium guajava l.) Germplasm in the United States using microsatellite markers

- (Peer Reviewed Journal)Sitther, V., Zhang, D., Harris, D., Zee, F.T., Yadav, A., Meinhardt, L.W., Dhekney, S. 2014. Genetic characterization of guava (psidium guajava l.) Germplasm in the United States using microsatellite markers. Genetic Resources and Crop Evolution. DOI: 10.1007/s10722-014-0078-5.Accurate determination of genetic identity for a single cacao bean, using molecular markers with a nanofluidic system, ensures cocoa authenticity and traceability

- (Peer Reviewed Journal)Fang, W., Meinhardt, L.W., Mischke, B.S., Bellato, C., Motilal, L., Zhang, D. 2013. Accurate determination of genetic identity for a single cacao bean, using molecular markers with a nanofluidic system, ensures cocoa authenticity and traceability. Journal of Agricultural and Food Chemistry. 62:481-487.Microsatellite-aided detection of genetic redundancy improves management of the International Cocoa Genebank, Trinidad

- (Peer Reviewed Journal)Motilal, L., Zhang, D., Mischke, B.S., Meinhardt, L.W., Umaharan, P. 2013. Microsatellite-aided detection of genetic redundancy improves management of the International Cocoa Genebank, Trinidad. Tree Genetics and Genomes. 9:1395-1411.Physiological traits and metabolites of cacao seedlings influenced by potassium in growth medium
                                                        

- (Peer Reviewed Journal)Li, Y., Elson, M.K., Zhang, D., Sicher, Jr., R.C., Hang, L., Meinhardt, L.W., Baligar, V.C. 2013. Physiological traits and metabolites of cacao seedlings influenced by potassium in growth medium. American Journal of Plant Sciences. 4:1074-1080.Complex origin of Trinitario-type Theobroma cacao (Malvaceae) revealed using plastid genomics

- (Peer Reviewed Journal)Yang, J., Scascitelli, M., Motilal, L., Sveinsson, S., Engels, J., Kane, N., Dempewolf, H., Zhang, D., Maharaj, K., Cronk, Q. 2013. Complex origin of Trinitario-type Theobroma cacao (Malvaceae) revealed using plastid genomics. Tree Genetics and Genomes. 9(3):829-840.Dynamic changes in pod and fungal physiology associated with the shift from biotrophy to necrotrophy during the infection of Theobroma cacao by Moniliophthora roreri

- (Peer Reviewed Journal)Bailey, B.A., Crozier, J., Strem, M.D., Melnick, R.L., Zhang, D., Maximova, S., Guiltinan, M., Meinhardt, L.W. 2013. Dynamic changes in pod and fungal physiology associated with the shift from biotrophy to necrotrophy during the infection of Theobroma cacao by Moniliophthora roreri. Physiological and Molecular Plant Pathology. 81:84-96.Elucidating genetic identities of cacao germplam in an international cacao collection using molecular markers

- (Peer Reviewed Journal)Motilal, L., Zhang, D., Umaharanl, P., Boccara, M., Mischke, B.S., Sankar, A., Meinhardt, L.W. 2012. Elucidating genetic identities of cacao germplam in an international cacao collection using molecular markers. Plant Genetic Resources: Characterization and Utilization. 10(3):232-241.Genetic diversity in Capsicum baccatum is significantly influenced by its ecogeographical distribution

- (Peer Reviewed Journal)Albrecht, E., Zhang, D., Saftner, R.A., Stommel, J.R. 2012. Genetic diversity in Capsicum baccatum is significantly influenced by its ecogeographical distribution. BioMed Central (BMC) Genetics. 13:89.Genetic diversity, population structure, conservation and utilization of Theobroma cacao L., genetic resources in the Dominican Republic

- (Peer Reviewed Journal)Boza, E.J., Irish, B.M., Meerow, A.W., Rodriguez, O.A., Ventura-Lopez, M., Gomez, J.A., Moore, J.M., Zhang, D., Motamayor, J.C., Schnell Ii, R.J. 2012. Genetic diversity, population structure, conservation and utilization of Theobroma cacao L., genetic resources in the Dominican Republic. Tree Genetics and Genomes. Available:http://www.bionity.com/en/publications/424313/genetic-diversity-conservation-and-utilization-of-theobroma-cacao-l-genetic-resources-in-the-dominican-republic.html.Genetic diversity and parentage in farmer varieties of cacao (Theobroma cacao L.) from Honduras and Nicaragua as revealed by Single Nucleotide Polymorphism (SNP) markers

- (Peer Reviewed Journal)Ji, K., Zhang, D., Motilal, L., Boccara, M., Lachenaud, P., Meinhardt, L.W. 2012. Genetic diversity and parentage in farmer varieties of cacao (Theobroma cacao L.) from Honduras and Nicaragua as revealed by Single Nucleotide Polymorphism (SNP) markers. Genetic Resources and Crop Evolution. DOI: 10.1007/s10722-012-9847-1.Theobroma

- (Book / Chapter)Zhang, D., Figueira, A., Motilal, L., Lachenaud, P., Meinhardt, L.W. 2011. Theobroma. In: Kole, C., editor. Wild Crop Relatives: Genomic and Breeding Resources, Plantation and Ornamental Crops. New York, NY: Springer-Verlag Berlin Heidelberg. p. 277-296.Cultivar identification, pedigree verification, and diversity analysis among Peach (Prunus persica L. Batsch) Cultivars based on Simple Sequence Repeat markers

- (Peer Reviewed Journal)Sitther, V., Zhang, D., Harris, D., Okie, W.R., Dhekney, S., Yadav, A. 2012. Cultivar identification, pedigree verification, and diversity analysis among Peach (Prunus persica L. Batsch) Cultivars based on Simple Sequence Repeat markers. Journal of the American Society for Horticultural Science. 137:114-121.Dissecting genetic structure in farmer selections of Theobroma cacao in the Peruvian Amazon:  implications for on-farm conservation and rehabilitation

- (Peer Reviewed Journal)Zhang, D., Gardini, E.A., Baligar, V.C., Bailey, B.A., Meinhardt, L.W. 2011. Dissecting genetic structure in farmer selections of Theobroma cacao in the Peruvian Amazon:  implications for on-farm conservation and rehabilitation. Tropical Plant Biology. 4:106-116.Ultra-barcoding in cacao (Theobroma spp.; malvaceae) using whole chloroplast genomes and nuclear ribosomal DNA

- (Peer Reviewed Journal)Kane, N., Sveinsson, S., Dempewolf, H., Yang, J., Zhang, D., Engels, J., Cronk, Q. 2012. Ultra-barcoding in cacao (Theobroma spp.; malvaceae) using whole chloroplast genomes and nuclear ribosomal DNA. American Journal of Botany. 99:320-329.Molecular genetic diversity of Punica granatum L. (pomegranate) as revealed by microsatellite DNA markers

- (Peer Reviewed Journal)Hasnaoui, N., Buonamici, A., Sebastiani, F., Mars, M., Zhang, D., Vendraminc, G. 2012. Molecular genetic diversity of Punica granatum L. (pomegranate) as revealed by microsatellite DNA markers. Gene. 493:105–112.Genetic diversity and population structure of Capsicum baccatum genetic resources

- (Peer Reviewed Journal)Albrecht, E., Saftner, R.A., Stommel, J.R., Zhang, D. 2011. Genetic diversity and population structure of Capsicum baccatum genetic resources. Genetic Resources and Crop Evolution. 59:517-538.Assessing genetic diversity in java fine-flavor cocoa (theobroma cacao l.) Germplasm by simple sequence repeat (ssr) markers

- (Peer Reviewed Journal)Susilo, A., Zhang, D., Motalal, L., Meinhardt, L.W. 2011. Assessing genetic diversity in java fine-flavor cocoa (theobroma cacao l.) Germplasm by simple sequence repeat (ssr) markers. Tropical Agriculture (Trinidad). 55:84-92.Genetic diversity and spatial structure in cacao (Theobroma cacao L.) germplasm from Bolivia

- (Peer Reviewed Journal)Zhang, D., July, W., Johnson, E., Somarriba, E., Philips-Mora, W., Astorga, C., Mischke, B.S., Meinhardt, L.W. 2011. Genetic diversity and spatial structure in cacao (Theobroma cacao L.) germplasm from Bolivia. Genetic Resources and Crop Evolution. DOI: dx.doi.org/10.1007/s10722-011-9680-y.Microsatellite fingerprinting in the International Cocoa Genebank, Trinidad: Accession and plot homogeneity information for germplasm management

- (Peer Reviewed Journal)Motilal, L., Zhang, D., Pathmanathan, U., Mischke, B.S., Pinney, S.M., Meinhardt, L.W. 2011. Microsatellite fingerprinting in the International Cocoa Genebank, Trinidad: Accession and plot homogeneity information for germplasm management. Plant Genetic Resources. 9:430-438.AFLP Phylogeny of 36 Erythroxylum species- genetic relationships among Erythroxylum species inferred by AFLP analysis

- (Peer Reviewed Journal)Emche, S.D., Zhang, D., Islam, M.B., Bailey, B.A., Meinhardt, L.W. 2011. AFLP Phylogeny of 36 Erythroxylum species- genetic relationships among Erythroxylum species inferred by AFLP analysis. Tropical Plant Biology. 4(2):126-133.Comparison of single nucleotide polymorphisms and simple sequence repeats in genotype identification and diversity assessment of cacao germplasm

- (Abstract Only)Zhang, D., Livingstone, D., Irish, B.M., Kuhn, D.N., Schnell II, R.J., Meinhardt, L.W. 2011. Comparison of single nucleotide polymorphisms and simple sequence repeats in genotype identification and diversity assessment of cacao germplasm. Annual International Plant & Animal Genome Conference. 2011.Molecular characterization of peach [Prunus persica (L.) Batsch] germplasm in the United States using microsatellite markers

- (Abstract Only)Viji, G., Harris, D.L., Zhang, D., Okie, W.R., Yadav, A.K. 2010. Molecular characterization of peach [Prunus persica (L.) Batsch] germplasm in the United States using microsatellite markers [abstract]. Recent Progress in Medicinal Plants. 45(8):S304.Yield variation among clones of lowbush blueberry (Vaccinium angustifolium Ait.) as a function of kinship, self-compatibility, and combining ability

- (Abstract Only)Bell, D.J., Rowland, L.J., Stommel, J.R., Zhang, D., Drummond, F.A. 2010. Yield variation among clones of lowbush blueberry (Vaccinium angustifolium Ait.) as a function of kinship, self-compatibility, and combining ability. BARC Poster Day.The relic Criollo cacao in Belize- genetic diversity and relationship with Trinitario and other cacao clones held in the International Cocoa Genebank, Trinidad

- (Peer Reviewed Journal)Motilal, L., Zhang, D., Umaharan, P., Mischke, B.S., Mooleedhar, V., Meinhardt, L.W. 2010. The relic Criollo cacao in Belize- genetic diversity and relationship with Trinitario and other cacao clones held in the International Cocoa Genebank, Trinidad. Plant Genetic Resources: Characterization and Utilization. Available at http://dx.doi.org/10.1017/S1479262109990232.CACAO (THEOBROMA CACAO L.) GENETIC RESOURCES RESEARCH AT THE USDA-ARS TROPICAL AGRICULTURE RESEARCH STATION

- (Proceedings)Irish, B.M., Goenaga, R.J., Schnell Ii, R.J., Motamayor, J., Brown, J.S., Zhang, D. 2010. CACAO (THEOBROMA CACAO L.) GENETIC RESOURCES RESEARCH AT THE USDA-ARS TROPICAL AGRICULTURE RESEARCH STATION. Proceedings of the International Cocoa Producer's Conference. PP. 417-423.Microsatellite Fingerprinting of the USDA-ARS Tropical Agriculture Research Station Cacao (Theobroma cacao L.) Germplasm Collection.

- (Peer Reviewed Journal)Irish, B.M., Goenaga Portela, R.J., Zhang, D., Schnell Ii, R.J., Brown, J.S., Motamayor, J. 2010. Microsatellite Fingerprinting of the USDA-ARS Tropical Agriculture Research Station Cacao (Theobroma cacao L.) Germplasm Collection. Crop Science. 50:656-667.The spatial genetic structure of lowbush blueberry, Vaccinium angustifolium Ait., in four fields in Maine

- (Peer Reviewed Journal)Bell, D.J., Rowland, L.J., Zhang, D., Drummond, F.A. 2009. The spatial genetic structure of lowbush blueberry, Vaccinium angustifolium Ait., in four fields in Maine. Botany. 87:932-946Molecular characterization of an earliest cacao (Theobroma cacao L.) collection from Peruvian Amazon using microsatllite DNA markers

- (Peer Reviewed Journal)Zhang, D., Boccara, M., Motilal, L., Mischke, B.S., Johnson, E.S., Butler, D., Bailey, B.A., Meinhardt, L.W. 2009. Molecular characterization of an earliest cacao (Theobroma cacao L.) collection from Peruvian Amazon using microsatllite DNA markers. Tree Genetics and Genomes. http://dx.doi.org/10.1007/s11295-009-0212-2.Increasing accuracy and throughput in large-scale microsatellite fingerprinting of cacao field germplasm collections

- (Peer Reviewed Journal)Motilal, L., Zhang, D., Umaharan, P., Mischke, B.S., Boccara, M., Pinney, S.M. 2008. Increasing accuracy and throughput in large-scale microsatellite fingerprinting of cacao field germplasm collections. Tropical Plant Biology. 2:23-37.The occurrence and frequency of Witches’ Broom Disease associated with Wild Cacao from the Upper Amazon of Peru

- (Abstract Only)Arevalo, E.G., Marquez, D.K., Samuels, G.J., Zhang, D., Robles, R., Arevalo, J., Barreto, A., Alvardo, C., Baligar, V.C., Meinhardt, L.W. 2008. The occurrence and frequency of Witches’ Broom Disease associated with Wild Cacao from the Upper Amazon of Peru. XX Congress Peruano de Fitopatologia 2008. Meeting Abstract. #58.Moniliophthora perniciosa, the causal agent of witches’ broom disease of cacao: What’s new from this old foe?

- (Review Article)Meinhardt, L.W., Rincones, J., Bailey, B.A., Aime, M.C., Griffith, C., Zhang, D., Pereira, G. 2008. Moniliophthora perniciosa, the causal agent of witches’ broom disease of cacao: What’s new from this old foe. Molecular Plant Pathology. 9(5):577-588.Population Structure and Genetic Diversity of the Trinitario Cacao (Theobroma Cacao L.) from Trinidad and Tobago

- (Peer Reviewed Journal)Johnson, E.S., Bekele, F., Brown, J.S., Song, J.H., Motamayor, J., Zhang, D., Schnell II, R.J., Meinhardt, L.W. 2009. Population Structure and Genetic Diversity of the Trinitario Cacao (Theobroma Cacao L.) from Trinidad and Tobago. Crop Science. 49:564-572.Molecular characterization of an International cocoa collection using microsallte markers

- (Peer Reviewed Journal)Zhang, D., Mischke, B.S., Johnson, E.S., Mora, A., Phillips-Mora, W., Meinhardt, L.W. 2008. Molecular characterization of an International cocoa collection using microsallte markers. Tree Genetics & Genomics. doi:  http://dx.doi.org/10.1007/s11295-008-0163-z.Variability of butterfat content in cacao (Theobroma cacao L.): combination and correlation with other seed-derived traits at the International Cocoa Genebank, Trinidad

- (Peer Reviewed Journal)Khan, N., Motilal, L.A., Sukha, D.A., Bekele, F.L., Iwaro, A.D., Bidaisee, P., Umaharn, L.H., Grierson, L.H., Zhang, D. 2008. Variability of butterfat content in cacao (Theobroma cacao L.): combination and correlation with other seed-derived traits at the International Cocoa Genebank, Trinidad. Plant Genetic Resources. http://dx.doi.org/10.1017/S1479262108994132.Identification of Candidate Gene Markers in Common Bean for Resistance to the Soybean Rust Pathogen

- (Trade Journal)Bellato, C.M., Frederick, R.D., Bowers, J., Zhang, D., Pastor Corrales, M.A. 2007. Identification of Candidate Gene Markers in Common Bean for Resistance to the Soybean Rust Pathogen. Bean Improvement Cooperative Annual Report. 50:121-122.Genetic diversity and population structure in wild stands of cacao trees (Theobroma cacao L.) in French Guiana

- (Peer Reviewed Journal)Lachenaud, P., Zhang, D. 2008. Genetic diversity and population structure in wild stands of cacao trees (Theobroma cacao L.) in French Guiana. Forest Science. 65(3):310.ON THE ANCESTRY OF THE ICS CLONES OF TRINIDAD AND TOBAGO

- (Abstract Only)Johnson, E.S., Bekele, F.L., Zhang, D., Schnell Ii, R.J., Meinhardt, L.W. 2008. On the ancestry of the ics clones of trinidad and tobago. Plant and Animal Genome VX Conference Abstracts.Poster Presentation at the PAG XVI Conference, San Diego, CA. January 12-16, Abstr. P121, p. 149.Microsatellite fingerprinting of the cacao (Theobroma cacao) germplasm collection at the USDA-ARS, Tropical Agriculture Reserarch Station.

- (Abstract Only)Irish, B.M., Goenaga, R.J., Schnell Ii, R.J., Motamayor, J.C., Brown, J.S., Zhang, D. 2007. Microsatellite fingerprinting of the cacao (Theobroma cacao) germplasm collection at the USDA-ARS, Tropical Agriculture Reserarch Station.. Caribbean Food Crops Society Proceedings 43:219.Genomics of Theobroma cacao, “the Food of the Gods”

- (Book / Chapter)Guiltinan, M.J., Verica, J., Zhang, D., Figueira, A. 2008. Genomics of Theobroma cacao, “the Food of the Gods”. In: Moore, P.H. & Ming, R. editors Genomics of Tropical Crop Plants. 1st edition. New York, NY: Springer. p. 145-170.Genetic diversity and population structure of cacao landraces in Northern and Central coastal Ecuador

- (Peer Reviewed Journal)Zhang, D., Amores, F., Cedeno, A., Hermann, M., Meinhardt, L.W. 2008. Genetic diversity and population structure of cacao landraces in Northern and Central coastal Ecuador. Conservation Genetics. 9(2) 327-337.DNA FINGERPRINTING OF FUNGAL AND PLANT GENOMES USING CAPILLARY ELECTROPHORESIS

- (Abstract Only)Mischke, B.S., Oneill, N.R., Zhang, D. 2005. DNA fingerprinting of fungal and plant genomes using capillary electrophoresis. American Phytopathological Society Potomac Division Meeting. 95:S170.GENETIC DIVERSITY AND POPULATION STRUCTURE OF COCOA (THEOBROMA CACAO L.) IN THE HULLAGA AND UCAYALI VALLEYS OF PERU

- (Peer Reviewed Journal)Zhang, D., Arevalo, E.G., Mischke, B.S., Zuniga, L.C., Barreto, A.C. 2006. Genetic diversity and population structure of cocoa (theobroma cacao l.) in the hullaga and ucayali valleys of peru. Annals Of Botany. 98:647-655“Refractario” cocoa – genetic identity and genetic structure assessed using microsallite markers

- (Peer Reviewed Journal)Zhang, D., Boccara, M., Motilal, L., Butler, D.R., Umaharan, P., Mischke, B.S., Meinhardt, L.W. 2006. “Refractario” cocoa – genetic identity and genetic structure assessed using microsallite markers. Conservation Genetics. 9(2):327-337.FIELD GUIDE TO THE UF CLONES OF COSTA RICA

- (Proceedings)Johnson, E., Phillips, W., Bekele, F., Zhang, D., Schnell Ii, R.J. 2007. Field guide to the uf clones of costa rica. Proceedings of the International Cocoa Producer's Conference. San Jose, Costa Rica Oct 9-14. Vol. I: 641-646.ACCURACY AND RELIABILITY OF HIGH-THROUGHPUT MICROSATELLITE GENOTYPING FOR CACAO CULTIVAR IDENTIFICATION

- (Peer Reviewed Journal)Zhang, D., Mischke, B.S., Goenaga, R.J., Nicholas, C., Ford, C., Hemeida, A.A., Saunders, J.A. 2006. Accuracy and reliability of high-throughput microsatellite genotyping for cacao cultivar identification. Crop Science. 46:2084-2092.A COMPUTER SIMULATION STUDY ON THE NUMBER OF LOCI TO AND TREES REQUIRED TO ESTIMATE GENETIC VARIABILITY IN CACAO (THEBROMOA CACAO L.)

- (Peer Reviewed Journal)Cervantes-Martinez, C., Brown, J.S., Motamayor, J.C., Zhang, D., Schnell II, R.J. 2006. A computer simulation study on the number of loci and trees required to estimate genetic variability in cacao (Thebromoa cacao L.). Tree Genetics & Genomics.INTER- AND INTRA-SPECIFIC VARIATIONS AMONG FIVE ERYTHROXLUM TAXA ASSESSED BY AFLP

- (Peer Reviewed Journal)Johnson, E.L., Zhang, D. 2005. Inter- and intra-specific variations among five erythroxlum taxa assessed by aflp. Annals Of Botany, 95:601-608.
                    ARS News Articles
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                                                New Flavors Emerge from Peruvian Cacao Collection Tripitem
                                                Cacao Collection Expedition May Yield Weapons for Combating Witches' Broom Disease


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