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ARS Home » Pacific West Area » Wenatchee, Washington » Physiology and Pathology of Tree Fruits Research » People & Locations » Yanmin Zhu
Yanmin Zhu
Molecular Biologist (Plants)


Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)
The expression profiles of MATE and MYB gene families in apple roots during defense activation against infection from Pythium ultimum [abstract] - (Abstract Only)
Microscopic features of lignin deposition patterns in young apple roots using brightfield and fluorescence imaging - (Peer Reviewed Journal)
Zhu, Y., Rainbow, J.L., Zhou, Z. 2024. Microscopic features of lignin deposition patterns in young apple roots using brightfield and fluorescence imaging. Fruit Research. 4. Article e007. https://doi.org/10.48130/frures-0023-0045.
Challenges and progress in evaluating apple root resistance responses to Pythium ultimum infection - (Peer Reviewed Journal)
Zhu, Y., Zhou, Z. 2023. Challenges and progress in evaluating apple root resistance responses to Pythium ultimum infection. American Journal of Plant Sciences. 14:1410-1429. https://doi.org/10.4236/ajps.2024.153016.
Microscopic study of lignin deposition patterns in young apple roots during defense activation in response to Pythium ultimum infection [abstract] - (Abstract Only)
Zhu, Y., Rainbow, J.L. 2023. Microscopic study of lignin deposition patterns in young apple roots during defense activation in response to Pythium ultimum infection [abstract]. APS Annual Meeting. Paper No. 268.
Genetic analysis of resistance to Pythium ultimum a major component of replant disease in apple rootstocks - (Peer Reviewed Journal)
Fazio, G., Mazzola, M., Zhu, Y. 2023. Genetic analysis of resistance to Pythium ultimum a major component of replant disease in apple rootstocks. Journal of the American Pomological Society. 77(1)28-37.
The feasibility of using autofluorescence to detect lignin deposition pattern during defense response in apple roots to Pythium ultimum infection - (Peer Reviewed Journal)
Zhu, Y. 2022. The feasibility of using autofluorescence to detect lignin deposition pattern during defense response in apple roots to Pythium ultimum infection. Horticulturae. 8(11). Article 1085. https://doi.org/10.3390/horticulturae8111085.
Transcriptome analysis of transgenic apple fruit overexpressing microRNA172 reveals candidate transcription factors regulating apple fruit development at early stages - (Peer Reviewed Journal)
Zhou, Z., Zhu, Y., Zhang, H., Zhang, R., Gao, Q., Yao, J., Yan, Z. 2021. Transcriptome analysis of transgenic apple fruit overexpressing microRNA172 reveals candidate transcription factors regulating apple fruit development at early stages. PeerJ. 9:e12675. https://doi.org/10.7717/peerj.12675.
The genotype-specific laccase gene expression and lignin deposition patterns in apple root during Pythium ultimum infection - (Peer Reviewed Journal)
Zhu, Y., Zhou, Z. 2021. The genotype-specific laccase gene expression and lignin deposition patterns in apple root during Pythium ultimum infection. Fruit Research. 1. Article 12. https://doi.org/10.48130/FruRes-2021-0012.
Laccase directed lignification is one of the major processes associated with the defense response against Pythium ultimum infection in apple roots - (Peer Reviewed Journal)
Zhu, Y., Li, G., Singh, J., Khan, A., Fazio, G., Saltzgiver, M., Xia, R. 2021. Laccase directed lignification is one of the major processes associated with the defense response against Pythium ultimum infection in apple roots. Frontiers in Plant Science. 12. Article 629776. https://doi.org/10.3389/fpls.2021.629776.
MdPR4, a pathogenesis-related protein in apple, is involved in chitin recognition and resistance response to apple replant disease pathogens - (Peer Reviewed Journal)
Zhou, Z., Zhu, Y., Yi, T., Jia-Long, Y., Shuxun, B., Hengtao, Z., Ruiping, Z., Qiming, G., Zhenzhen, L., Zhenli, Y. 2021. MdPR4, a pathogenesis-related protein in apple, is involved in chitin recognition and resistance response to apple replant disease pathogens. Journal of Plant Physiology. 260.Article 153390. https://doi.org/10.1016/j.jplph.2021.153390.
Small RNA and degradome sequencing identified microRNA-target gene pairs regulating apple root defense responses towards Pythium ultimum infection - (Abstract Only)
Zhu, Y., Saltzgiver, M.J., Xia, R. 2020. Small RNA and degradome sequencing identified microRNA-target gene pairs regulating apple root defense responses towards Pythium ultimum infection [abstract]. APS Annual Meeting. Plant Health.
A systematic analysis of apple root resistance traits to Pythium ultimum infection and the underpinned molecular regulations of defense activation Reprint Icon - (Peer Reviewed Journal)
Zhu, Y., Saltzgiver, M.J. 2020. A systematic analysis of apple root resistance traits to Pythium ultimum infection and the underpinned molecular regulations of defense activation. Horticulture Research. 7:1-11. https://doi.org/10.1038/s41438-020-0286-4.
Transcriptional profiles of MdWRKY33 in apple root in response to infection by Pythium ultimum, abiotic stresses and chemical treatments - (Peer Reviewed Journal)
Zhu, Y., Saltzgiver, M.J. 2019. Transcriptional profiles of MdWRKY33 in apple root in response to infection by Pythium ultimum, abiotic stresses and chemical treatments. International Journal of Plant Pathology. 8(3):87-100. https://doi.org/10.33687/phytopath.008.03.2996.
Identifying an elite panel of apple rootstock germplasm with contrasting root resistance to Pythium ultimum - (Peer Reviewed Journal)
Zhu, Y., Zhao, J., Zhou, Z. 2018. Identifying an elite panel of apple rootstock germplasm with contrasting root resistance to Pythium ultimum. Journal of Plant Pathology & Microbiology. 9(11):1000461. https://doi.org/10.4172/2157-7471.1000461.
A phenotyping protocol for detailed evaluation of apple root resistance responses utilizing tissue culture micropropagated apple plants - (Peer Reviewed Journal)
Zhu, Y., Saltzgiver, M.J., Zhao, J. 2018. A phenotyping protocol for detailed evaluation of apple root resistance responses utilizing tissue culture micropropagated apple plants. American Journal of Plant Sciences. 9(11):2183-2204. https://doi.org/10.4236/ajps.2018.911158.
Genotype-specific suppression of multiple defense pathways in apple root during infection by Pythium ultimum - (Peer Reviewed Journal)
Zhu, Y., Shao, J.Y., Zhou, Z., Davis, R.E. 2019. Genotype-specific suppression of multiple defense pathways in apple root during infection by Pythium ultimum. Horticulture Research. 6:10. https://doi.org/10.1038/s41438-018-0087-1.
Functional characterization of an apple (Malus x domestica) LysM domain receptor encoding gene for its role in defense response - (Peer Reviewed Journal)
Zhou, Z., Cong, P., Tian, T., Zhu, Y. 2018. Functional characterization of an apple (Malus x domestica) LysM domain receptor encoding gene for its role in defense response. Plant Science. 269:56-65.
Using RNA-Seq data to select refence genes for normalizing gene expression in apple roots - (Peer Reviewed Journal)
Zhou, Z., Cong, P., Tian, Y., Zhu, Y. 2017. Using RNA-Seq data to select refence genes for normalizing gene expression in apple roots. PLoS One. https://doi.org/10.1371/journal.pone.0185288.
Comparative transcriptome analysis reveals a preformed defense system in apple root of a resistant genotype of G.935 in the absence of pathogen - (Peer Reviewed Journal)
Zhu, Y., Shao, J.Y., Zhou, Z., Davis, R.E. 2017. Comparative transcriptome analysis reveals a preformed defense system in apple root of a resistant genotype of G.935 in the absence of pathogen. International Journal of Plant Genomics. doi: 10.1155/2017/8950746.
Genotype-specific responses of apple roots to pathogenic infection by Pythium ultimum - (Peer Reviewed Journal)
Zhu, Y., Shin, S., Mazzola, M. 2016. Genotype-specific responses of apple roots to pathogenic infection by Pythium ultimum. Canadian Journal of Plant Pathology. 38(4):483-491.
Identification and functional analysis of apple CERK1 homologous genes for their roles in defense activation - (Abstract Only)
Transcriptome changes specifically associated with apple (Malus domestica) root defense response during Pythium ultimum infection - (Peer Reviewed Journal)
Shin, S.B., Zheng, P., Fazio, G., Mazzola, M., Main, D., Zhu, Y. 2016. Transcriptome changes specifically associated with apple (Malus domestica) root defense response during Pythium ultimum infection. Physiological and Molecular Plant Pathology. 94:16-26.
Transcriptome changes in apple peel tissues during CO2 injury symptom development under controlled atmosphere storage regimens - (Peer Reviewed Journal)
Johnson, F.T., Zhu, Y. 2015. Transcriptome changes in apple peel tissues during CO2 injury symptom development under controlled atmosphere storage regimens. Horticulture Research. doi: 10.1038/hortres.2015.61.
Transcriptional regulation of auxin metabolism and ethylene biosynthesis activation during apple (Malus × domestica) fruit maturation - ()
Shin, S.B., Lee, J., Rudell Jr, D.R., Evans, K.C., Zhu, Y. 2016. Transcriptional regulation of auxin metabolism and ethylene biosynthesis activation during apple (Malus × domestica) fruit maturation. Journal of Plant Growth Regulation. 35:655-666.
Differential transcriptional regulation of defense-associated genes among apple rootstock genotypes in response to Pythium ultimum - (Abstract Only)
Zhu, Y., Mazzola, M., Fazio, G. 2015. Differential transcriptional regulation of defense-associated genes among apple rootstock genotypes in response to Pythium ultimum. American Phytopathological Society Annual Meeting. N/A.
Transcript profiles of auxin efflux carrier and IAA-amido synthetase genes suggest the role of auxin on apple (Malus x domestica) fruit maturation patterns - (Peer Reviewed Journal)
Shin, S.B., Lee, J., Rudell Jr, D.R., Evans, K., Zhu, Y. 2015. Transcript profiles of auxin efflux carrier and IAA-amido synthetase genes suggest the role of auxin on apple (Malus x domestica) fruit maturation patterns. American Journal of Plant Sciences. 6:620-630.
Apple function genomics: from fruit to root - (Abstract Only)
Zhu, Y. 2014. Apple function genomics: from fruit to root. Meeting Abstract. N/A.
Apple function genomics: from fruit to root - (Abstract Only)
Zhu, Y. 2014. Apple function genomics: from fruit to root. Meeting Abstract. n/a.
Transcriptional regulation of ethylene and jasmonate mediated defense response in apple (Malus domestica) root during Pythium ultimum infection - (Peer Reviewed Journal)
Shin, S.B., Lv, J., Mazzola, M., Zhu, Y. 2014. Transcriptional regulation of ethylene and jasmonate mediated defense response in apple (Malus domestica) root during Pythium ultimum infection. Horticulture Research. 1:53.
Elucidating the molecular responses of apple rootstock resistant to ARD pathogens: Challenges and opportunities for development of genomics-assisted breeding tools - (Peer Reviewed Journal)
Zhu, Y., Fazio, G., Mazzola, M. 2014. Elucidating the molecular responses of apple rootstock resistant to ARD pathogens: Challenges and opportunities for development of genomics-assisted breeding tools. Horticulture Research. https://doi.org/10.1038/hortres.2014.43.
Genome-wide identification of jasmonate biosynthetic genes and their characterization of their expression profiles during apple (Malus x domestica) fruit maturation - (Peer Reviewed Journal)
Lv, J., Rao, J., Johnson, F., Shin, S.B., Zhu, Y. 2015. Genome-wide identification of jasmonate biosynthetic genes and their characterization of their expression profiles during apple (Malus x domestica) fruit maturation. Plant Growth Regulation. 73:335-364.
Transcriptome profiling on apple root defense responses to infection by Pythium ultimum - (Proceedings)
Zhu, Y., Zheng, P., Shin, S.B., Fazio, G., Mazzola, M., Main, D. 2014. Transcriptome profiling on apple root defense responses to infection by Pythium ultimum. Proceedings of 7th International Rosaceae Genomics Conference. 12.
Candidate gene approach and transcriptome analysis to elucidate the defense responses in apple rootstocks against replant disease inciting pathogens - (Abstract Only)
Profiling the transcriptomic and metabolomic changes associated with apple fruit controlled-atmosphere storage related peel disorder - (Abstract Only)
Johnson, F., Zheng, P., Rudell Jr, D.R., Evans, K., Main, D., Zhu, Y. 2014. Profiling the transcriptomic and metabolomic changes associated with apple fruit controlled-atmosphere storage related peel disorder. Meeting Abstract. 79. Proceedings of 7th International Rosaceae Genomics Conference.
Differential molecular response of apple rootstocks to replant disease causing soil-borne pathogens - (Proceedings)
Shin, S.B., Fazio, G., Norelli, J.L., Mazzola, M., Zhu, Y. 2014. Differential molecular response of apple rootstocks to replant disease causing soil-borne pathogens. Proceedings of 7th International Rosaceae Genomics Conference. 70.
Isolation and characterization of apple Pythium ultimum response genes and their ethylene and jasmonate mediated transcriptional regulation - (Proceedings)
Shin, S.B., Fazio, G., Mazzola, M., Zhu, Y. 2014. Isolation and characterization of apple Pythium ultimum response genes and their ethylene and jasmonate mediated transcriptional regulation. Proceedings of 7th International Rosaceae Genomics Conference. 12.
Cloning and expression of lipoxygenase genes and enzyme activity in ripening persimmon fruit in response to GA and ABA treatment - (Peer Reviewed Journal)
Lv, J., Rao, J., Zhu, Y., Chang, X., Hou, Y., Zhu, Q. 2014. Cloning and expression of lipoxygenase genes and enzyme activity in ripening persimmon fruit in response to GA and ABA treatment. Postharvest Biology and Technology. 92:54-61.
Differential suppression of ethylene biosynthesis and receptor genes in 'Golden Delicious' apple by preharvest and postharvest 1-MCP treatments - (Peer Reviewed Journal)
Varanasi, V., Shin, S.B., Johnson, F., Mattheis, J.P., Zhu, Y. 2013. Differential suppression of ethylene biosynthesis and receptor genes in 'Golden Delicious' apple by preharvest and postharvest 1-MCP treatments. Journal of Plant Growth Regulation. 32:585-595.
Multiple plant hormones and cell wall metabolism regulate apple fruit maturation patterns and texture attributes - (Peer Reviewed Journal)
Zhu, Y., Ping, Z., Vijaya, V., Dorrie, M., Curry, E.A., Mattheis, J.P. 2012. Multiple plant hormones and cell wall metabolism regulate apple fruit maturation patterns and texture attributes. Tree Genetics and Genomes. 8(6):1389-1406.
Gene expression profiles of auxin metabolism in maturing apple fruit - (Abstract Only)
Shin, S.B., Mattheis, J.P., Evans, K., Zhu, Y. 2012. Gene expression profiles of auxin metabolism in maturing apple fruit. Meeting Abstract.
Gene expression profiles for two auxin transporters during apple fruit maturation and ripening - (Abstract Only)
Shin, S.B., Mattheis, J.P., Evans, K., Zhu, Y. 2012. Gene expression profiles for two auxin transporters during apple fruit maturation and ripening. American Society of Horticulture Science Meeting.
A Diagnostic Toolbox for Integrated Management of Apple Postharvest Necrotic Disorders - (Abstract Only)
Rudell Jr, D.R., Watkins, C., Mattheis, J.P., Giovannoni, J.J., Hertog, M., Nicolai, B., Rickard, B., Johnston, J., Hanrahan, I., Reed, N., Zhu, Y. 2011. A Diagnostic Toolbox for Integrated Management of Apple Postharvest Necrotic Disorders. Meeting Abstract. N/A.
Identification of differentially expressed genes potentially associated with apple (Malus x domestica) superficial scald development - (Peer Reviewed Journal)
Zhu, Y., Varanasi, V., Zheng, P., Curry, E.A., Mattheis, J.P. 2012. Identification of differentially expressed genes potentially associated with apple (Malus x domestica) superficial scald development. Acta Horticulturae. doi: 10.17660/ActaHortic.2012.945.60.
Expression profiles of MdACS3 gene suggest function as an accelerator of apple (Malus x domestica) fruit ripening. - (Peer Reviewed Journal)
Varanasi, V., Mattheis, J.P., Rudell Jr, D.R., Zhu, Y., Shin, S.B. 2011. Expression profiles of MdACS3 gene suggest function as an accelerator of apple (Malus x domestica) fruit ripening. Postharvest Biology and Technology. 62:141-148.
Dynamics of ascorbic acid in ‘Braeburn’ and ‘Gala’ apples during on-tree development and storage in atmospheres conducive to internal browning development - (Peer Reviewed Journal)
Felicetti, E., Mattheis, J.P., Zhu, Y., Fellman, J.K. 2011. Dynamics of ascorbic acid in ‘Braeburn’ and ‘Gala’ apples during on-tree development and storage in atmospheres conducive to internal browning development. Postharvest Biology and Technology. 61:95-102.
Ripening, storage temperature, ethylene action, and oxidative stress alter apple peel phytosterol metabolism - (Peer Reviewed Journal)
Rudell Jr, D.R., Buchanan, D.A., Leisso, R.S., Whitaker, B.D., Mattheis, J.P., Zhu, Y., Varanasi, V. 2011. Ripening, storage temperature, ethylene action, and oxidative stress alter apple peel phytosterol metabolism. Phytochemistry. 72:1328-1340.
Transcriptome profiling of cultivar-specific apple fruit ripening and texture attributes - (Abstract Only)
Zhu, Y., Zheng, P., Varanasi, V., Main, D., Curry, E.A., Mattheis, J.P. 2010. Transcriptome profiling of cultivar-specific apple fruit ripening and texture attributes. Meeting Abstract. N/A.
Phytosterol conjugation in cold-stored apple fruit is linked to oxidative stress and ripening - (Abstract Only)
Rudell Jr, D.R., Whitaker, B.D., Mattheis, J.P., Zhu, Y. 2010. Phytosterol conjugation in cold-stored apple fruit is linked to oxidative stress and ripening. HortScience. 45(8).
The cultivar-specific expression patterns of MdACS3 gene and apple fruit ripening and quality - (Abstract Only)
Varanasi, V., Mattheis, J.P., Rudell Jr, D.R., Zhu, Y. 2010. The cultivar-specific expression patterns of MdACS3 gene and apple fruit ripening and quality. Gordon Research Conferences. N/A.
Transcriptome profiling analysis of cultivar-specific apple fruit ripening and texture attributes - (Abstract Only)
Zhu, Y., Zheng, P., Varanasi, V., Main, D., Curry, E.A., Mattheis, J.P. 2010. Transcriptome profiling analysis of cultivar-specific apple fruit ripening and texture attributes. American Society of Plant Biologists Annual Meeting. N/A.
Utility testing of an apple skin color MdMYB1 marker in two progenies - (Peer Reviewed Journal)
Zhu, Y., Evans, K., Peace, C. 2010. Utility testing of an apple skin color MdMYB1 marker in two progenies. Molecular Breeding. doi: 10.1007/s11032-010-9449-6.
Phytosterol conjugation in cold-storage apple fruit is linked to oxidative stress and ripening - (Abstract Only)
Rudell Jr, D.R., Whitaker, B.D., Mattheis, J.P., Zhu, Y. 2010. Phytosterol conjugation in cold-storage apple fruit is linked to oxidative stress and ripening. Meeting Abstract.
The role of cultivar-specific expression patterns of MdACS3 gene on apple fruit ripening and quality - (Abstract Only)
Varanasi, V., Rudell Jr, D.R., Mattheis, J.P., Zhu, Y. 2010. The role of cultivar-specific expression patterns of MdACS3 gene on apple fruit ripening and quality. Plant and Animal Genome Conference. N/A.
Overexpression of several Arabidopsis histone genes increases Agrobacterium-medicated transformation and transgene expression in plants - (Peer Reviewed Journal)
Gabriela, T.N., Spantzel, J., Lee, L., Zhu, Y., Lin, K., Johnson, S.J., Gelvin, S.B. 2009. Overexpression of several Arabidopsis histone genes increases Agrobacterium-medicated transformation and transgene expression in plants. The Plant Cell. 21(10):3350-3367.
Transcriptomic analysis of apple fruit ripening and texture attributes - (Abstract Only)
Zhu, Y., Varanasi, V., Zheng, P., Main, D., Curry, E.A., Mattheis, J.P. 2009. Transcriptomic analysis of apple fruit ripening and texture attributes. American Society of Plant Biologists Annual Meeting. N/A.
Ascorbic Acid Profiles in 'Delicious' and 'Honeycrisp' Apples During on-Tree Development and Cold Storage - (Abstract Only)
Felicetti, E., Zhu, Y., Mattheis, J.P. 2008. Ascorbic Acid Profiles in 'Delicious' and 'Honeycrisp' Apples During on-Tree Development and Cold Storage. Meeting Abstract.
Characterization of cultivar differences in alcohol acyltransferase and 1-aminocyclopropane-1-carboxylate synthase gene expression and volatile ester emission during apple fruit maturation and ripening - (Peer Reviewed Journal)
Zhu, Y., Rudell Jr, D.R., Mattheis, J.P. 2008. Characterization of cultivar differences in alcohol acyltransferase and 1-aminocyclopropane-1-carboxylate synthase gene expression and volatile ester emission during apple fruit maturation and ripening. Postharvest Biology and Technology. 49(3):330-339.
Metabolic evaluation of 'Braeburn' browning - (Abstract Only)
Rudell Jr, D.R., Mattheis, J.P., Fellicetti, E., Zhu, Y. 2008. Metabolic evaluation of 'Braeburn' browning. International Society for Horticultural Science Meeting. N/A.
Cultivar variation in apple fruit firmness and texture during maturation, ripening and storage - (Abstract Only)
Mattheis, J.P., Zhu, Y. 2008. Cultivar Variation in Apple Fruit Firmness and Texture During Maturation, Ripening and Storage. Meeting Abstract. N/A.
Md-ACS1 and Md-ACO1 genotyping of apple (Malus x domestica Borkh.) breeding parents and suitability for marker-assisted selection - (Peer Reviewed Journal)
Zhu, Y., Barritt, B. 2008. Md-ACS1 and Md-ACO1 genotyping of apple (Malus x domestica Borkh.) breeding parents and suitability for marker-assisted selection. Tree Genetics & Genomics. 4:555-562.
Characterization of alcohol acyl transferase and 1-aminocyclopropane-1-carboxylate synthase gene expression and volatile compound emission during apple fruit development and ripening - (Proceedings)
Zhu, Y., Rudell Jr, D.R., Mattheis, J.P. 2008. Characterization of Alcohol Acyl Transferase and 1-Aminocyclopropane-1-Carboxylate Synthase Gene Expression and Volatile Compound Emission during Apple Fruit Development and Ripening. Postharvest Biology and Technology. doi: 10.1016/j.postharvbio.2008.03.015.
Md-ACS1 and Md-AC01 genotyping of apple breeding parents and suitability for marker-assisted selection - (Proceedings)
Zhu, Y., Barritt, B. 2009. Md-ACS1 and Md-AC01 genotyping of apple breeding parents and suitability for marker-assisted selection. Eucarpia Fruit Breeding Symposium. N/A.
DELETION MUTAGENESIS OF p22phox SUBUNIT OF FLAVOCYTOCHROME b558: IDENTIFICATION OF REGIONS CRITICAL FOR gp91phox MATURATION AND NADPH OXIDASE ACTIVITY - (Peer Reviewed Journal)
Zhu, Y., Marchal, C., Casbon, A., Stull, N., Von Lohneysen, K., Knaus, U.G., Jesaitis, A.J., Mccormick, S., Nauseef, W.M., Dinauer, M. 2006. Deletion mutagenesis of p22phox subunit of flavocytochrome b558: identification of regions critical for gp91phox maturation and nadph oxidase activity. Journal of Biological Chemistry. 281:30336-30346.