Barbara Baker
Plant Gene Expression Center
Research Plant Molecular Geneticist
Phone: (510) 559-5912
Fax: (510) 559-5678
(Employee information on this page comes from the REE Directory. Please contact your front office staff to update the REE Directory.)
Publications
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Clathrin light chains negatively regulate plant immunity by highjacking the autophagy pathway
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Lan, H., Ran, J., Wang, W., Zhang, L., Wu, N., Zhao, Y., Huang, M., Ni, M., Liu, F., Cheng, N., Nakata, P.A., Pan, J., Whitham, S.A., Baker, B.J., Liu, J. 2024. Clathrin light chains negatively regulate plant immunity by highjacking the autophagy pathway. Plant Communications. 5. Article 100937. https://doi.org/10.1016/j.xplc.2024.100937.
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High-quality assembled and annotated genomes of Nicotiana tabacum and Nicotiana benthamiana reveal chromosome evolution and changes in defense arsenals
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Wang, J., Zhang, Q., Tung, J., Zhang, X., Liu, D., Deng, Y., Tian, Z., Chen, H., Wang, T., Yin, W., Li, B., Lai, Z., Dinesh-Kumar, S.P., Baker, B.J., Li, F. 2024. High-quality assembled and annotated genomes of Nicotiana tabacum and Nicotiana benthamiana reveal chromosome evolution and changes in defense arsenals. Molecular Plant. 17(3):423-437. https://doi.org/10.1016/j.molp.2024.01.008.
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Conserved transcription factors NRZ1 and NRM1 regulate NLR receptor-mediated immunity
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Zhang, Q., Wang, J., Li, Y., Tung, J., Deng, Y., Baker, B.J., Dinesh-Kumar, S.P., Li, F. 2024. Conserved transcription factors NRZ1 and NRM1 regulate NLR receptor-mediated immunity. Plant Physiology. 195(1):832-849. https://doi.org/10.1093/plphys/kiae054.
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LncRNA gets into the balancing act
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Li, F., Brunkard, J., Baker, B.J. 2022. LncRNA gets into the balancing act. Cell Host and Microbe. 30(8):1061-1063. https://doi.org/10.1016/j.chom.2022.07.004.
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Polycistronic artificial microRNA-mediated resistance to cucumber green mottle mosaic virus in cucumber
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Miao, S., Liang, C., Li, J., Baker, B.J., Luo, L. 2021. Polycistronic artificial microRNA-mediated resistance to cucumber green mottle mosaic virus in cucumber. International Journal of Molecular Sciences. 22(22). Article 12237. https://doi.org/10.3390/ijms222212237.
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Artificial microRNA-mediated resistance to cucumber green mottle mosaic virus in Nicotiana benthamiana
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Liang, C., Hao, J., Li, J., Baker, B.J., Luo, L. 2019. Artificial microRNA-mediated resistance to cucumber green mottle mosaic virus in Nicotiana benthamiana. Planta. 250:1591–1601. https://doi.org/10.1007/s00425-019-03252-w.
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Artificial microRNA-mediated sresistance to cucumber green mottle mosiac virus in nicotiana benthamiana
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Liang, C., Hao, J., Li, J., Baker, B.J., Luo, L. 2019. Artificial microRNA-mediated sresistance to cucumber green mottle mosiac virus in nicotiana benthamiana. Frontiers in Plant Science. 250:1591–1601. https://doi.org/10.1007/s00425-019-03252-w.
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A two-headed monster to avert disaster:HBS1/SK17 is alternatively spliced to build Eukaryotic RNA surveillance complexes
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Brunkard, J., Baker, B.J. 2018. A two-headed monster to avert disaster:HBS1/SK17 is alternatively spliced to build Eukaryotic RNA surveillance complexes. Frontiers in Plant Science. 9:1333. https://doi.org/10.3389/fpls.2018.01333.
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A role for small RNA in regulation of innate immunity during plant growth
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Deng, Y., Wang, J., Tung, J., Liu, D., Zhou, Y., Shuang, H., Yunlian, D., Baker, B.J., Li, F. 2018. A role for small RNA in regulation of innate immunity during plant growth. Public Library of Science for Pathogens. 14(1):e1006756. https://doi.org/10.1371/journal.ppat.1006756.
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Frequent gain and loss of resistance against tobacco mosaic virus (TMV) in Nicotiana Species
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Yuan, X., Yan, C., Wu, Z., Ren, F., Zhan, H., Baker, B.J., Chen, J., Kuang, H. 2015. Frequent gain and loss of resistance against tobacco mosaic virus (TMV) in Nicotiana Species. Molecular Plant. 8(12):1813-1815. doi: 10.1016/j.molp.2015.09.001.
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Identification of I-7 expands the repertoire of genes for resistance to Fusarium wilt in tomato to three resistance gene classes
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Gonzales-Cendales, Y., Catanzariti, A., Baker, B.J., Mcgrath, D.J., Jones, D.A. 2015. Identification of I-7 expands the repertoire of genes for resistance to Fusarium wilt in tomato to three resistance gene classes. Molecular Plant Pathology. doi: 10.1111/mpp.12294/epdf.
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Loss of GSNOR1 function leads to compromised auxin signaling and polar auxin transport
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Wang, D., Shi, Y., Wang, C., Cohen, J., Hendrickson Culler, A., Baker, B.J., Liu, J. 2015. Loss of GSNOR1 function leads to compromised auxin signaling and polar auxin transport. Molecular Plant. 8(9):1350-1365.
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S-nitrosylation mediates nitric oxide -auxin crosstalk in auxin signaling and polar auxin transport
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Nb is a TIR-NLR innate immune receptor that requires EDS1 for induction of the hypersensitive response to the potato virus X movement protein
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Preparation of cDNA Library for dRNA-seq
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Li, F., Baker, B.J. 2012. Preparation of cDNA Library for dRNA-seq. Bio-protocol. Vol 70, Pages 891-901.
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SoMART, a web server for miRNA, tasiRNA and target gene analysis in Solanaceae plants
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Li, F., Orban, R., Baker, B.J. 2012. SoMART, a web server for miRNA, tasiRNA and target gene analysis in Solanaceae plants. Genome Research. 70:891-901.
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miRNA regulation of plant innate receptors
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Li, F., Pignatta, D., Bendix, C., Brunkard, J., Cohn, M., Tung, J., Sun, H., Kumar, P., Baker, B.J. 2012. miRNA regulation of plant innate receptors. Proceedings of the National Academy of Sciences. 5:1790-1795.
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Inferred origin of several Native American potatoes from the Pacific Northwest using SSR markers
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Zhang, L., Brown, C.R., Culley, D., Baker, B.J., Kunibe, E., Denny, H., Smith, C., Ward, N., Beavert, T., Coburn, J., Pavek, J.J., Dauenhauer, N., Dauenhauer, R. 2010. Inferred origin of several Native American potatoes from the Pacific Northwest using SSR markers. Euphytica. 174:15-29.
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Identification of miniature inverted-repeat transposable elements (MITEs) and biogenesis of their siRNAs in the Solanaceae: New functional implications for MITEs
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Kuang, H., Padmanabhan, C., Li, F., Kamei, A., Bhaskar, P.B., Ouyang, S., Jiang, J., Buell, C., Baker, B.J. 2008. Identification of miniature inverted-repeat transposable elements (MITEs) and biogenesis of their siRNAs in the Solanaceae: New functional implications for MITEs. Genome Research. 19:42-56.
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The Use of STS Markers in the Marker-assisted Selection of Columbia Root-knot Nematode Resistance Introgressed from Solanum bulbocastanum
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Zhang, L., Mojtahedi, H., Kuang, H., Baker, B.J., Brown, C.R. 2007. The Use of STS Markers in the Marker-assisted Selection of Columbia Root-knot Nematode Resistance Introgressed from Solanum bulbocastanum. Crop Science. 47:2021-2026.
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THE R1 RESISTANCE CLUSTER CONTAINS THREE GROUPS OF INDEPENDENTLY EVOLVING, TYPE I R1 HOMOLOGUES AND SHOWS SUBSTANTIAL STRUCTURAL VARIATION AMONG HAPLOTYPES OF SOLANUM DEMISSUM
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Kuang, H., Wei, F., Marano, M., Wirtz, U., Wang, X., Liu, J., Shum, W., Zaborsky, J., Tallon, L.J., Rensink, W., Lobst, S., Zhang, P., Tornqvist, C., Tek, A., Bamberg, J., Helgeson, J.P., Fry, W., You, F., Luo, M., Jiang, J., Buell, C., Baker, B.J. 2005. The R1 resistance cluster contains three groups of independently evolving, type I R1 homologues and shows substantial structural variation among haplotypes of Solanum demissum. Plant Journal. 44(1):37-51.
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EDS1 IN TOMATO IS REQUIRED FOR RESISTANCE MEDIATED BY TIR-CLASS R GENES AND THE RECEPTOR-LIKE R GENE VE
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Hu, G., Dehart, A.K., Li, Y., Ustach, C., Handley, V., Navarre, R., Hwang, C.F., Aegerter, B.J., Williamson, V., Baker, B.J. 2005. EDS1 in tomato is required for resistance mediated by TIR-class R genes and the receptor-like R gene Ve. Plant Journal. 42(3):376-91.
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COMPARATIVE GENOMICS ENABLED THE ISOLATION OF THE R3A LATE BLIGHT RESISTANCE GENE IN POTATO
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Huang, S., Van Der Vossen, E.A., Kuang, H., Vleeshouwers, V.G., Zhang, N., Borm, T.J., Van Eck, H.J., Baker, B.J., Jacobsen, E., Visser, R.G. 2005. Comparative genomics enabled the isolation of the R3a late blight resistance gene in potato. Plant Journal. 42(2):251-61.
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VPEY EXHIBITS A CASPASE-LIKE ACTIVITY THAT CONTRIBUTES TO DEFENSE AGAINST PATHOGENS
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Rojo, E., Martin, R., Carter, C., Zouhar, J., Pan, S., Plotnikova, J., Jin, H., Paneque, M., Sanchez-Serrano, J., Baker, B.J., Ausubel, F.M., Raikhel, N.V. 2004. VPEy Exhibits a Caspase-like Activity that Contributes to Defense against Pathogens. Current Biology, 14:1897-1906.
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VIRUS-INDUCED GENE SILENCING IN SOLANUM SPECIES
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Gianinna, B., Martin-Hermandez, A.M., Jin, H., Chen, J., Baulcombe, D.C., Baker, B.J., Jones, J.G. 2004. Virus-induced gene silencing in Solanum species. Plant Journal 39(2)264-271.
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VIRUS-INDUCED GENE SILENCING IN SOLANUM SPECIES
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Brigneti, G., Martin-Hernandezx, A.M., Jin, H., Chen, J., Baulcombe, D.C., Baker, B.J., Jones, J.G. 2004. Virus-induced gene silencing in solanum species. Plant Journal, 39(2): 264.
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THE TOMATO RESISTANCE PROTEIN BS4 IS A PREDICTED NON-NUCLEAR TIR-NB-LRR PROTEIN THAT MEDIATES DEFENSE RESPONSES TO SEVERELY TRUNCATED DERIVATIVES OF AVRBS4 AND OVEREXPRESSED AVRBS3
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Schornack, S., Ballvora, A., Gurlebeck, D., Peart, J., Ganal, M., Baker, B.J., Bonas, U., Lahaye, T. 2003. The tomato resistance protein Bs4 is a predicted non-nuclear TIR-NB-LRR protein that mediates defense responses to severely truncated derivatives of AvrBs4 and overexpressed AvrBs3. Plant Journal 37(1) 46-60.
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BIOTIC INTERACTIONS - SIGNALS FROM THE ENVIRONMENT: THE GOOD, THE BAD AND THE UGLY!
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BAKER, B.J., PARKER, J. BIOTIC INTERACTIONS - SIGNALS FROM THE ENVIRONMENT: THE GOOD, THE BAD AND THE UGLY! CURRENT OPINION IN PLANT BIOLOGY. 2003. 6(4):297-299.
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FUNCTION OF A MITOGREN-ACTIVATED PROTEIN KINASE PATHWAY IN N GENE-MEDIATED RESISTANCE IN TOBACCO
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JIN, H., LIU, Y., YANG, K., KIM, C., BAKER, B.J., ZHANG, S. FUNCTION OF A MITOGREN-ACTIVATED PROTEIN KINASE PATHWAY IN N GENE-MEDIATED RESISTANCE IN TOBACCO. PLANT JOURNAL. 2003. 33(4):719-731.
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COMPARATIVE ANALYSES OF POTATO EXPRESSED SEQUENCE TAG LIBRARIES
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RONNING, C.M., STEGALKINA, S.S., ASCENZI, R.A., BOUGRI, O., HART, A.L., UTTERBACH, T.R., VANAKEN, S.E., RIEDMULLER, S.B., WHITE, J.A., CHO, J., PERTEA, G.M., LEE, Y., KARAMYCHEVA, S., SULTANA, R., TSAI, J., QUACKENBUSH, J., GRIFFITHS, H.M., RESTREPO, S., SMART, C.D., FRY, W.E., VAN DER HOEVEN, R., TANKSLEY, S., ZHANG, P., JIN, H., YAMAMOTO, M.L., BAKER, B.J., BUELL, C. COMPARATIVE ANALYSES OF POTATO EXPRESSED SEQUENCE TAG LIBRARIES. PLANT PHYSIOLOGY. 2003. 131:419-429.
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INTERACTION BETWEEN TWO MITOGEN-ACTIVATED PROTEIN KINASES DURING TOBACCO DEFENSE SIGNALING
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BAKER, B.J. INTERACTION BETWEEN TWO MITOGEN-ACTIVATED PROTEIN KINASES DURING TOABCCOM DEFENSE SIGNALING. PLANT JOURNAL. 2003. 34:149-160.
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STRUCTURE-FUNCTION ANALYSIS OF THE TOBACCO MOSAIC VIRUS RESISTANCE GENE N
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Dinehsh-Kumar, S., Baker, B.J. 2000. Structure-function analysis of the tobacco mosaic virus resistance gene N. Proceedings of the National Academy of Sciences 97(26):14789-14794.
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ALTERNATIVELY SPLICED N RESISTANCE GENE TRANSCRIPTS: THEIR POSSIBLE ROLE INTOBACCO MOSAIC VIRUS RESISTANCE
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Baker, B.J., Dinesh-Kumar, S.P. 2000. Alternatively spliced N resistance gene transcripts: Their possible role in tobacco mosaic virus resistance. Proceedings of the National Academy of Sciences 97(4):1908-1913.
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THE HELICASE DOMAIN OF THE TMV REPLICASE PROTEINS INDUCES THE N-MEDIATED DEFENCE RESPONSE IN TOBACCO
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Erickson, F., Holzberg, S., Calderon-Urrea, A., Handley, V., Axtell, M., Corr, C., Baker, B.J. 1999. The helicase domain of the TMV replicase proteins induces the N-mediated defence response in tobacco. Plant Journal 18(1) 67-75.
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INTERACTIONS BETWEEN TOBACCO MOSAIC VIRUS AND THE TOBACCO N GENE
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Baker, B.J., Erickson, F.L., Dinesh-Kumar, S.P., Holzberg, S., Ustach, C., Dutton, M., Handley, V., Corr, C. 1999. Interactions between tobacco mosaic virus and the tobacco N gene. Proceedings of the Royal Society of London B., 354(1383):653-658.
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SIGNALING IN PLANT-MICROBE INTERACTIONS
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Baker, B.J., Zambryski, P., Staskawicz, B., Dinesh-Kumar, S.P. 1997. Signaling in plant-microbe interactions. Science 276(5313):726-733.
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DS EXCISION FROM EXTRACHROMOSOMAL GEMINIVIRUS VECTOR DNA IS COUPLED TO VECTOR DNA REPLICATION IN MAIZE
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Wirtz, U., Obsorne, B., Baker, B.J. 1997. Ds excision from extrachromosomal geminivirus vector DNA is coupled to vector DNA replicaiton in maize. Plant Journal 11(1):125.
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MOVERS AND SHAKERS: MAIZE TRANSPOSONS AS TOOLS FOR ANALYZING OTHER PLANT GENOMES
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Osborne, B.I., Baker, B.J. 1995. Movers and shakers: maize transposons as tools for analyzing other plant genomes. Current Opinion in Cell Biology, 7(3), 407-413.
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ARS News Articles
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