CGD Citations

Peer-reviewed papers citing CGD

 

  1. Li, Q., Qi, J., Qin, X., Dou, W., Lei, T., Hu, A., ... & Xu, L. (2020). CitGVD: a comprehensive database of citrus genomic variationsHorticulture Research7(1), 1-8.
  2. Ferreira, M. D. G., Castro, J. A., Silva, R. J. S., & Micheli, F. (2019). HVA22 from citrus: A small gene family whose some members are involved in plant response to abiotic stressPlant Physiology and Biochemistry142, 395-404.
  3. Li, S. J., Xie, X. L., Liu, S. C., Chen, K. S., & Yin, X. R. (2019). Auto-and mutual-regulation between two CitERFs contribute to ethylene-induced citrus fruit degreeningFood chemistry299, 125163.
  4. Chagné, D., Vanderzande, S., Kirk, C., Profitt, N., Weskett, R., Gardiner, S. E., ... & Bassil, N. V. (2019). Validation of SNP markers for fruit quality and disease resistance loci in apple (Malus× domestica Borkh.) using the OpenArray® platformHorticulture research6(1), 1-16.
  5. Ouyang, Z. G., Mi, L. F., Duan, H. H., Hu, W., Chen, J. M., Peng, T., & Zhong, B. L. (2019). Differential expressions of citrus CAMTAs during fruit development and responses to abiotic stressesBIOLOGIA PLANTARUM63(1), 354-364.
  6. Spoor, S., Cheng, C. H., Sanderson, L. A., Condon, B., Almsaeed, A., Chen, M., ... & Bett, K. (2019). Tripal v3: an ontology-based toolkit for construction of FAIR biological community databasesDatabase2019.
  7. Zheng, Y., Wu, S., Bai, Y., Sun, H., Jiao, C., Guo, S., ... & Xu, Y. (2019). Cucurbit Genomics Database (CuGenDB): a central portal for comparative and functional genomics of cucurbit cropsNucleic acids research47(D1), D1128-D1136.
  8. Hodgson, H., De La Peña, R., Stephenson, M. J., Thimmappa, R., Vincent, J. L., Sattely, E. S., & Osbourn, A. (2019). Identification of key enzymes responsible for protolimonoid biosynthesis in plants: Opening the door to azadirachtin productionProceedings of the National Academy of Sciences116(34), 17096-17104.
  9. Deng, H., Cai, Z., Xiang, S., Guo, Q., Huang, W., & Liang, G. (2019). Karyotype analysis of diploid and spontaneously occurring tetraploid blood orange (Citrus sinensis (L.) Osbeck) using multicolor FISH with repetitive DNA sequences as probesFrontiers in Plant Science10, 331.
  10. Miao, L., Chen, C., Yao, L., Tran, J., & Zhang, H. (2019). Genome-wide identification, characterization, interaction network and expression profile of GAPDH gene family in sweet orange (Citrus sinensis)PeerJ7, e7934.
  11. Deng, H., Xiang, S., Guo, Q., Jin, W., Cai, Z., & Liang, G. (2019). Molecular cytogenetic analysis of genome-specific repetitive elements in Citrus clementina Hort. Ex Tan. and its taxonomic implicationsBMC plant biology19(1), 77.
  12. Liu, Y., ul Qamar, M. T., Feng, J. W., Ding, Y., Wang, S., Wu, G., ... & Chen, L. L. (2019). Comparative analysis of miniature inverted–repeat transposable elements (MITEs) and long terminal repeat (LTR) retrotransposons in six Citrus speciesBMC plant biology19(1), 140.
  13. Cao, M., Zhang, S., Li, M., Liu, Y., Dong, P., Li, S., ... & Zhou, Y. (2019). Discovery of Four Novel Viruses Associated with Flower Yellowing Disease of Green Sichuan Pepper (Zanthoxylum armatum) by Virome AnalysisViruses11(8), 696.
  14. Long, J. M., Liu, C. Y., Feng, M. Q., Liu, Y., Wu, X. M., & Guo, W. W. (2018). miR156-SPL modules regulate induction of somatic embryogenesis in citrus callusJournal of experimental botany69(12), 2979-2993.
  15. Falk, T., Herndon, N., Grau, E., Buehler, S., Richter, P., Zaman, S., ... & Feltus, F. A. (2018). Growing and cultivating the forest genomics database, TreeGenes. Database2018.
  16. Guo, Z. H., Shu, W. S., Cheng, H. Y., Wang, G. M., Qi, K. J., Zhang, S. L., & Gu, C. (2018). Expression analysis of TCP genes in peach reveals an involvement of PpTCP. A2 in ethylene biosynthesis during fruit ripeningPlant Molecular Biology Reporter36(4), 588-595.
  17. Li, X., Si, W., Qin, Q., Wu, H., & Jiang, H. (2018). Deciphering evolutionary dynamics of SWEET genes in diverse plant lineagesScientific reports8(1), 1-12.
  18. Castro, J. A., Ferreira, M. D. G., Silva, R. J. S., Andrade, B. S., & Micheli, F. (2017). Alternative oxidase (AOX) constitutes a small family of proteins in Citrus clementina and Citrus sinensis L. OsbPloS one12(5).
  19. Jung, S., Lee, T., Cheng, C. H., Ficklin, S., Yu, J., Humann, J., & Main, D. (2017). Extension modules for storage, visualization and querying of genomic, genetic and breeding data in Tripal databasesDatabase2017.
  20. Chery, J. G., Sass, C., & Specht, C. D. (2017). Development of single‐copy nuclear intron markers for species‐level phylogenetics: Case study with Paullinieae (Sapindaceae) 1Applications in plant sciences5(9), 1700051.
  21. Rawat, N., Kumar, B., Albrecht, U., Du, D., Huang, M., Yu, Q., ... & Deng, Z. (2017). Genome resequencing and transcriptome profiling reveal structural diversity and expression patterns of constitutive disease resistance genes in Huanglongbing-tolerant Poncirus trifoliata and its hybridsHorticulture research4(1), 1-8.
  22. Barichello, D., Farinacio, R., dos Santos, C. C. N., Andrade, G. A., Nagashima, G. T., Garbúglio, D. D., ... & Carlos, E. F. (2017). Drought-tolerant transgenic Swingle Citrumelo controls accumulation of proline modulating the expression of key genes of the proline metabolismCitrus Research & Technology38(2), 1-12.
  23. Araújo Castro, J., Gomes Ferreira, M. D., Santana Silva, R. J., Andrade, B. S., & Micheli, F. (2017). Alternative oxidase (AOX) constitutes a small family of proteins in Citrus clementina and Citrus sinensis L. OsbPLOS ONE12(5), e0176878.
  24. Roselli, S., Olry, A., Vautrin, S., Coriton, O., Ritchie, D., Galati, G., ... & Bourgaud, F. (2017). A bacterial artificial chromosome (BAC) genomic approach reveals partial clustering of the furanocoumarin pathway genes in parsnipThe Plant Journal89(6), 1119-1132.
  25. da Silva, E. G., Ito, T. M., & de Souza, S. G. H. (2017). 'In silico'genome-wide identification and phylogenetic analysis of the WRKY transcription factor family in sweet orange ('Citrus sinensis')Australian Journal of Crop Science11(6), 716.
  26. Doud, M. M., Wang, Y., Hoffman, M. T., Latza, C. L., Luo, W., Armstrong, C. M., ... & Duan, Y. (2017). Solar thermotherapy reduces the titer of Candidatus Liberibacter asiaticus and enhances canopy growth by altering gene expression profiles in HLB-affected citrus plantsHorticulture research4(1), 1-9.
  27. Yu, Q., Chen, C., Du, D., Huang, M., Yao, J., Yu, F., ... & Gmitter, F. G. (2017). Reprogramming of a defense signaling pathway in rough lemon and sweet orange is a critical element of the early response to ‘Candidatus Liberibacter asiaticus’Horticulture research4(1), 1-15.
  28. Yin, X. R., Xie, X. L., Xia, X. J., Yu, J. Q., Ferguson, I. B., Giovannoni, J. J., & Chen, K. S. (2016). Involvement of an ethylene response factor in chlorophyll degradation during citrus fruit degreeningThe Plant Journal86(5), 403-412.
  29. Jung, S., Lee, T., Ficklin, S., Yu, J., Cheng, C. H., & Main, D. (2016). Chado use case: storing genomic, genetic and breeding data of Rosaceae and Gossypium crops in ChadoDatabase2016.
  30. Wang, Y., Zhou, L., Yu, X., Stover, E., Luo, F., & Duan, Y. (2016). Transcriptome profiling of Huanglongbing (HLB) tolerant and susceptible citrus plants reveals the role of basal resistance in HLB toleranceFrontiers in plant science7, 933.
  31. Nwugo, C. C., Doud, M. S., Duan, Y. P., & Lin, H. (2016). Proteomics analysis reveals novel host molecular mechanisms associated with thermotherapy of ‘Ca. Liberibacter asiaticus’-infected citrus plants. BMC plant biology16(1), 253.
  32. Shimizu, T., Kitajima, A., Nonaka, K., Yoshioka, T., Ohta, S., Goto, S., ... & Kaminuma, E. (2016). Hybrid origins of citrus varieties inferred from DNA marker analysis of nuclear and organelle genomesPloS one11(11).
  33. Fujii, H., Ohta, S., Nonaka, K., Katayose, Y., Matsumoto, T., Endo, T., ... & Shimada, T. (2016). Parental diagnosis of satsuma mandarin (Citrus unshiu Marc.) revealed by nuclear and cytoplasmic markersBreeding science, 16060.
  34. Reyes, C. A., De Francesco, A., Ocolotobiche, E. E., Costa, N., & García, M. L. (2016). Uncontrolled Citrus psorosis virus infection in Citrus sinensis transgenic plants expressing a viral 24K-derived hairpin that does not trigger RNA silencingPhysiological and Molecular Plant Pathology94, 149-155.
  35. Terol, J., Tadeo, F., Ventimilla, D., & Talon, M. (2016). An RNA‐Seq‐based reference transcriptome for CitrusPlant biotechnology journal14(3), 938-950.
  36. Ramos-González, P. L., Chabi-Jesus, C., Guerra-Peraza, O., Breton, M. C., Arena, G. D., Nunes, M. A., ... & Freitas-Astúa, J. (2016). Phylogenetic and molecular variability studies reveal a new genetic clade of Citrus leprosis virus CViruses8(6), 153.
  37. Reyes, C. A., Ocolotobiche, E. E., Marmisollé, F. E., Robles Luna, G., Borniego, M. B., Bazzini, A. A., ... & García, M. L. (2016). Citrus psorosis virus 24 K protein interacts with citrus miRNA precursors, affects their processing and subsequent miRNA accumulation and target expressionMolecular plant pathology17(3), 317-329.
  38. Ayadi, M., Hanana, M., Kharrat, N., Merchaoui, H., Marzoug, R. B., Lauvergeat, V., ... & Mzid, R. (2016). The WRKY transcription factor family in Citrus: Valuable and useful candidate genes for citrus breedingApplied biochemistry and biotechnology180(3), 516-543.
  39. Yu, Y., Chen, C., & Gmitter, F. G. (2016). QTL mapping of mandarin (Citrus reticulata) fruit characters using high-throughput SNP markersTree genetics & genomes12(4), 77.
  40. Raga, V., Intrigliolo, D. S., Bernet, G. P., Carbonell, E. A., & Asins, M. J. (2016). Genetic analysis of salt tolerance in a progeny derived from the citrus rootstocks Cleopatra mandarin and trifoliate orange. Tree genetics & genomes12(3), 34.
  41. Li, S. J., Yin, X. R., Xie, X. L., Allan, A. C., Ge, H., Shen, S. L., & Chen, K. S. (2016). The Citrus transcription factor, CitERF13, regulates citric acid accumulation via a protein-protein interaction with the vacuolar proton pump, CitVHA-c4Scientific reports6, 20151.
  42. Wu, J., Chen, L., Lin, D., Ma, Z., & Deng, X. (2016). Development and Application of a Multiplex Real-Time PCR Assay as an Indicator of Potential Allergenicity in Citrus FruitsJournal of agricultural and food chemistry64(47), 9089-9098.
  43. Devaiah, S. P., Owens, D. K., Sibhatu, M. B., Sarkar, T. R., Strong, C. L., Mallampalli, V. K., ... & Wamucho, A. (2016). Identification, recombinant expression, and biochemical analysis of putative secondary product glucosyltransferases from Citrus paradisiJournal of agricultural and food chemistry64(9), 1957-1969.
  44. Li, S. J., Liu, X. J., Xie, X. L., Grierson, D., Yin, X. R., & Chen, K. S. (2015). CrMYB73, a PH-like gene, contributes to citric acid accumulation in citrus fruit. Scientia Horticulturae197, 212-217.
  45. Xu, M., Li, Y., Zheng, Z., Dai, Z., Tao, Y., & Deng, X. (2015). Transcriptional analyses of mandarins seriously infected by ‘Candidatus Liberibacter asiaticus’PLoS One10(7).
  46. Lin, Q., Jiang, Q., Lin, J., Wang, D., Li, S., Liu, C., ... & Chen, K. (2015). Heat shock transcription factors expression during fruit development and under hot air stress in Ponkan (Citrus reticulata Blanco cv. Ponkan) fruitGene559(2), 129-136.
  47. Lin, Q., Wang, C., Dong, W., Jiang, Q., Wang, D., Li, S., ... & Chen, K. (2015). Transcriptome and metabolome analyses of sugar and organic acid metabolism in Ponkan (Citrus reticulata) fruit during fruit maturationGene554(1), 64-74.
  48. Ito, T. M., Rampim, M. C., Vieira, C. E., Polido, P. B., Kaschuk, G., & de Souza, S. G. H. (2015). Modulation of the transcriptional activity of the AP2/ERF family (DREB genes) in orange (Citrus sinensis) leaves subjected to drought stressAfrican Journal of Biotechnology14(11), 901-909.
  49. Terol, J., Ibañez, V., Carbonell, J., Alonso, R., Estornell, L. H., Licciardello, C., ... & Talon, M. (2015). Involvement of a citrus meiotic recombination TTC-repeat motif in the formation of gross deletions generated by ionizing radiation and MULE activationBMC genomics16(1), 69.
  50. Lin, Q., Li, S., Dong, W., Feng, C., Yin, X., Xu, C., ... & Chen, K. (2015). Involvement of CitCHX and CitDIC in developmental-related and postharvest-hot-air driven citrate degradation in citrus fruitsPloS one10(3).
  51. Asins, M. J., Raga, V., Bernet, G. P., & Carbonell, E. A. (2015). Genetic analysis of reproductive, vegetative and fruit quality traits to improve Citrus varietiesTree genetics & genomes11(6), 117.
  52. Wang, Y., Zhou, L., Li, D., Dai, L., Lawton-Rauh, A., Srimani, P. K., ... & Luo, F. (2015). Genome-wide comparative analysis reveals similar types of NBS genes in hybrid Citrus sinensis genome and original Citrus clementine genome and provides new insights into non-TIR NBS genesPloS one10(3).
  53. Roy, A., Stone, A. L., Shao, J., Otero-Colina, G., Wei, G., Choudhary, N., ... & Schneider, W. L. (2015). Identification and molecular characterization of nuclear Citrus leprosis virus, a member of the proposed Dichorhavirus genus infecting multiple Citrus species in MexicoPhytopathology105(4), 564-575.
  54. da Costa Silva, S., Mendes, S., dos Santos Soares Filho, W., & Pedrosa-Harand, A. (2015). Chromosome homologies between Citrus and Poncirus—the comparative cytogenetic map of mandarin (Citrus reticulata)Tree genetics & genomes11(1), 811.
  55. Chagné, D., Crowhurst, R. N., Pindo, M., Thrimawithana, A., Deng, C., Ireland, H., ... & Bianco, L. (2014). The draft genome sequence of European pear (Pyrus communis L.‘Bartlett’)PloS one9(4).
  56. Xie, X. L., Shen, S. L., Yin, X. R., Xu, Q., Grierson, D., Ferguson, I., & Chen, K. S. (2014). Isolation, classification and transcription profiles of the AP2/ERF transcription factor superfamily in citrusMolecular biology reports41(7), 4261-4271.
  57. Azim, M. K., Khan, I. A., & Zhang, Y. (2014). Characterization of mango (Mangifera indica L.) transcriptome and chloroplast genomePlant molecular biology85(1-2), 193-208.
  58. Caruso, M., Distefano, G., Paolo, D. P., La Malfa, S., Russo, G., Gentile, A., & Recupero, G. R. (2014). High resolution melting analysis for early identification of citrus hybrids: A reliable tool to overcome the limitations of morphological markers and assist rootstock breedingScientia horticulturae180, 199-206.
  59. Ito, T. M., Polido, P. B., Rampim, M. C., Kaschuk, G., & Souza, S. G. (2014). Genome-wide identification and phylogenetic analysis of the AP2/ERF gene superfamily in sweet orange (Citrus sinensis)Genet Mol Res13(3), 7839-7851.
  60. Pinheiro, T. T., Figueira, A., & Latado, R. R. (2014). Early-flowering sweet orange mutant ‘x11’as a model for functional genomic studies of CitrusBMC research notes7(1), 511.
  61. Tecle, I. Y., Edwards, J. D., Menda, N., Egesi, C., Rabbi, I. Y., Kulakow, P., ... & Mueller, L. A. (2014). solGS: a web-based tool for genomic selectionBMC bioinformatics15(1), 398.
  62. Pereira, A. L., Carazzolle, M. F., Abe, V. Y., de Oliveira, M. L., Domingues, M. N., Silva, J. C., ... & Benedetti, C. E. (2014). Identification of putative TAL effector targets of the citrus canker pathogens shows functional convergence underlying disease development and defense response. BMC genomics15(1), 157.
  63. Licciardello, C., D’Agostino, N., Traini, A., Recupero, G. R., Frusciante, L., & Chiusano, M. L. (2014). Characterization of the glutathione S-transferase gene family through ESTs and expression analyses within common and pigmented cultivars of Citrus sinensis (L.) OsbeckBMC plant biology14(1), 39.
  64. An, C., Orbovic, V., & Mou, Z. (2013). An efficient intragenic vector for generating intragenic and cisgenic plants in citrus. American Journal of Plant Sciences4(11), 2131.
  65. Bernardi, J., Mazza, R., Caruso, P., Recupero, G. R., Marocco, A., & Licciardello, C. (2013). Use of an expressed sequence tag-based method for single nucleotide polymorphism identification and discrimination of Citrus species and cultivars. Molecular breeding31(3), 705-718.
  66. Peng, G., Xie, X. L., Jiang, Q., Song, S., & Xu, C. J. (2013). Chlorophyll a/b binding protein plays a key role in natural and ethylene-induced degreening of Ponkan (Citrus reticulata Blanco)Scientia Horticulturae160, 37-43.
  67. Mercati, F., Riccardi, P., Leebens-Mack, J., Abenavoli, M. R., Falavigna, A., & Sunseri, F. (2013). Single nucleotide polymorphism isolated from a novel EST dataset in garden asparagus (Asparagus officinalis L.)Plant science203, 115-123.
  68. Ma, G., Zhang, L., Matsuta, A., Matsutani, K., Yamawaki, K., Yahata, M., ... & Kato, M. (2013). Enzymatic formation of β-citraurin from β-cryptoxanthin and zeaxanthin by carotenoid cleavage dioxygenase4 in the flavedo of citrus fruitPlant Physiology163(2), 682-695.
  69. Shangguan, L., Han, J., Kayesh, E., Sun, X., Zhang, C., Pervaiz, T., ... & Fang, J. (2013). Evaluation of genome sequencing quality in selected plant species using expressed sequence tagsPLoS One8(7).
  70. Iorio, R. A., Del Duca, S., Calamelli, E., Pula, C., Lodolini, M., Scamardella, F., ... & Ricci, G. (2013). Citrus allergy from pollen to clinical symptomsPLoS One8(1).
  71. Peng, G., Wang, C., Song, S., Fu, X., Azam, M., Grierson, D., & Xu, C. (2013). The role of 1-deoxy-d-xylulose-5-phosphate synthase and phytoene synthase gene family in citrus carotenoid accumulationPlant Physiology and Biochemistry71, 67-76.
  72. Roy, A., Shao, J., Hartung, J. S., Schneider, W., & Brlansky, R. H. (2013). A case study on discovery of novel citrus leprosis virus cytoplasmic type 2 utilizing small RNA libraries by next generation sequencing and bioinformatic analysesJ. Data Mining Genomics Proteomics4(129), 2153-0602.
  73. Fujii, H., Shimada, T., Nonaka, K., Kita, M., Kuniga, T., Endo, T., ... & Omura, M. (2013). High-throughput genotyping in citrus accessions using an SNP genotyping arrayTree genetics & genomes9(1), 145-153.
  74. Sanderson, L. A., Ficklin, S. P., Cheng, C. H., Jung, S., Feltus, F. A., Bett, K. E., & Main, D. (2013). Tripal v1. 1: a standards-based toolkit for construction of online genetic and genomic databasesDatabase2013.
  75. Serra, I. A., Bernardo, L., Spadafora, A., Faccioli, P., Canton, C., & Mazzuca, S. (2013). The Citrus clementina putative allergens: from proteomic analysis to structural featuresJournal of agricultural and food chemistry61(37), 8949-8958.
  76. Nwugo, C. C., Duan, Y., & Lin, H. (2013). Study on citrus response to huanglongbing highlights a down-regulation of defense-related proteins in lemon plants upon ‘Ca. Liberibacter asiaticus’ infectionPloS one8(6).
  77. de Carvalho, K., de Campos, M. K. F., Domingues, D. S., Pereira, L. F. P., & Vieira, L. G. E. (2013). The accumulation of endogenous proline induces changes in gene expression of several antioxidant enzymes in leaves of transgenic Swingle citrumeloMolecular Biology Reports40(4), 3269-3279.
  78. Nwugo, C. C., Lin, H., Duan, Y., & Civerolo, E. L. (2013). The effect of ‘Candidatus Liberibacter asiaticus’ infection on the proteomic profiles and nutritional status of pre-symptomatic and symptomatic grapefruit (Citrus paradisi) plantsBMC plant biology13(1), 59.
  79. Gmitter, F. G., Chen, C., Machado, M. A., De Souza, A. A., Ollitrault, P., Froehlicher, Y., & Shimizu, T. (2012). Citrus genomicsTree Genetics & Genomes8(3), 611-626.
  80. Cheng, J., Khan, M. A., Qiu, W. M., Li, J., Zhou, H., Zhang, Q., ... & Li, S. (2012). Diversification of genes encoding granule-bound starch synthase in monocots and dicots is marked by multiple genome-wide duplication eventsPLoS One7(1).
  81. Li, Z. T., Gmitter, F. G., Grosser, J. W., Chen, C., & Gray, D. J. (2012). Isolation and characterization of a novel anthocyanin-promoting MYBA gene family in CitrusTree genetics & genomes8(4), 675-685.
  82. Voo, S. S., Grimes, H. D., & Lange, B. M. (2012). Assessing the biosynthetic capabilities of secretory glands in Citrus peelPlant physiology159(1), 81-94.
  83. Zhang, L., Ma, G., Shirai, Y., Kato, M., Yamawaki, K., Ikoma, Y., & Matsumoto, H. (2012). Expression and functional analysis of two lycopene β-cyclases from citrus fruitsPlanta236(4), 1315-1325.
  84. Romero, P., Lafuente, M. T., & Rodrigo, M. J. (2012). The Citrus ABA signalosome: identification and transcriptional regulation during sweet orange fruit ripening and leaf dehydrationJournal of Experimental Botany63(13), 4931-4945.
  85. Hyun, T. K., & Kim, J. S. (2011). Genomic identification of putative allergen genes in woodland strawberry (Fragaria vesca) and mandarin orange (Citrus clementina)Plant Omics J4(7), 428-34.
  86. Belknap, W. R., Wang, Y., Huo, N., Wu, J., Rockhold, D. R., Gu, Y. Q., & Stover, E. (2011). Characterizing the citrus cultivar Carrizo genome through 454 shotgun sequencingGenome54(12), 1005-1015.
  87. Ficklin, S. P., Sanderson, L. A., Cheng, C. H., Staton, M. E., Lee, T., Cho, I. H., ... & Main, D. (2011). Tripal: a construction toolkit for online genome databasesDatabase2011.
  88. Jung, S., Menda, N., Redmond, S., Buels, R. M., Friesen, M., Bendana, Y., ... & Bett, K. E. (2011). The chado natural diversity module: a new generic database schema for large-scale phenotyping and genotyping dataDatabase2011.