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A Sugar Transporter Takes Up both Hexose and Sucrose for Sorbitol-Modulated in vitro Pollen Tube Growth in Apple.

Li CL, Meng D, Pineros MA, Mao Y, Dandekar AM, Cheng L.

Plant Cell. 2019 Dec 11. pii: tpc.00638.2019. doi: 10.1105/tpc.19.00638. [Epub ahead of print]


Comparative genomics of six Juglans species reveals disease-associated gene family contractions.

Trouern-Trend AJ, Falk T, Zaman S, Caballero M, Neale DB, Langley CH, Dandekar AM, Stevens KA, Wegrzyn JL.

Plant J. 2019 Dec 10. doi: 10.1111/tpj.14630. [Epub ahead of print]


Effects of N-Glycosylation on the Structure, Function, and Stability of a Plant-Made Fc-Fusion Anthrax Decoy Protein.

Xiong Y, Karuppanan K, Bernardi A, Li Q, Kommineni V, Dandekar AM, Lebrilla CB, Faller R, McDonald KA, Nandi S.

Front Plant Sci. 2019 Jun 28;10:768. doi: 10.3389/fpls.2019.00768. eCollection 2019.


Proteomic and Metabolomic Analyses of Xylella fastidiosa OMV-Enriched Fractions Reveal Association with Virulence Factors and Signaling Molecules of the DSF Family.

Feitosa-Junior OR, Stefanello E, Zaini PA, Nascimento R, Pierry PM, Dandekar AM, Lindow SE, da Silva AM.

Phytopathology. 2019 Aug;109(8):1344-1353. doi: 10.1094/PHYTO-03-19-0083-R. Epub 2019 Jul 5.


Sequencing a Juglans regia × J. microcarpa hybrid yields high-quality genome assemblies of parental species.

Zhu T, Wang L, You FM, Rodriguez JC, Deal KR, Chen L, Li J, Chakraborty S, Balan B, Jiang CZ, Brown PJ, Leslie CA, Aradhya MK, Dandekar AM, McGuire PE, Kluepfel D, Dvorak J, Luo MC.

Hortic Res. 2019 Mar 25;6:55. doi: 10.1038/s41438-019-0139-1. eCollection 2019.


The plant-based chimeric antimicrobial protein SlP14a-PPC20 protects tomato against bacterial wilt disease caused by Ralstonia solanacearum.

Morais TP, Zaini PA, Chakraborty S, Gouran H, Carvalho CP, Almeida-Souza HO, Souza JB, Santos PS, Goulart LR, Luz JMQ, Nascimento R, Dandekar AM.

Plant Sci. 2019 Mar;280:197-205. doi: 10.1016/j.plantsci.2018.11.017. Epub 2018 Nov 29.


Trans-Graft Protection Against Pierce's Disease Mediated by Transgenic Grapevine Rootstocks.

Dandekar AM, Jacobson A, Ibáñez AM, Gouran H, Dolan DL, Agüero CB, Uratsu SL, Just R, Zaini PA.

Front Plant Sci. 2019 Feb 6;10:84. doi: 10.3389/fpls.2019.00084. eCollection 2019.


In-Field and Early Detection of Xylella fastidiosa Infections in Olive Using a Portable Instrument.

Martinelli F, Marchese A, Giovino A, Marra FP, Della Noce I, Caruso T, Dandekar AM.

Front Plant Sci. 2019 Jan 18;9:2007. doi: 10.3389/fpls.2018.02007. eCollection 2018. No abstract available.


Sugar metabolism and accumulation in the fruit of transgenic apple trees with decreased sorbitol synthesis.

Li M, Li P, Ma F, Dandekar AM, Cheng L.

Hortic Res. 2018 Dec 1;5:60. doi: 10.1038/s41438-018-0064-8. eCollection 2018.


Molecular Profiling of Pierce's Disease Outlines the Response Circuitry of Vitis vinifera to Xylella fastidiosa Infection.

Zaini PA, Nascimento R, Gouran H, Cantu D, Chakraborty S, Phu M, Goulart LR, Dandekar AM.

Front Plant Sci. 2018 Jun 8;9:771. doi: 10.3389/fpls.2018.00771. eCollection 2018.


Sorbitol Modulates Resistance to Alternaria alternata by Regulating the Expression of an NLR Resistance Gene in Apple.

Meng D, Li C, Park HJ, González J, Wang J, Dandekar AM, Turgeon BG, Cheng L.

Plant Cell. 2018 Jul;30(7):1562-1581. doi: 10.1105/tpc.18.00231. Epub 2018 Jun 5.


Genomic Variation Among and Within Six Juglans Species.

Stevens KA, Woeste K, Chakraborty S, Crepeau MW, Leslie CA, Martínez-García PJ, Puiu D, Romero-Severson J, Coggeshall M, Dandekar AM, Kluepfel D, Neale DB, Salzberg SL, Langley CH.

G3 (Bethesda). 2018 Jul 2;8(7):2153-2165. doi: 10.1534/g3.118.200030.


Identifying Host Molecular Features Strongly Linked With Responses to Huanglongbing Disease in Citrus Leaves.

Balan B, Ibáñez AM, Dandekar AM, Caruso T, Martinelli F.

Front Plant Sci. 2018 Feb 28;9:277. doi: 10.3389/fpls.2018.00277. eCollection 2018.


Identification and analysis of seven effector protein families with different adaptive and evolutionary histories in plant-associated members of the Xanthomonadaceae.

Assis RAB, Polloni LC, Patané JSL, Thakur S, Felestrino ÉB, Diaz-Caballero J, Digiampietri LA, Goulart LR, Almeida NF, Nascimento R, Dandekar AM, Zaini PA, Setubal JC, Guttman DS, Moreira LM.

Sci Rep. 2017 Nov 23;7(1):16133. doi: 10.1038/s41598-017-16325-1.


Effects of transgenic expression of Brevibacterium linens methionine gamma lyase (MGL) on accumulation of Tylenchulus semipenetrans and key aminoacid contents in Carrizo citrange.

Castillo E, Martinelli F, Zakharov-Negre F, Ebeler SE, Buzo TR, McKenry MV, Dandekar AM.

Plant Mol Biol. 2017 Nov;95(4-5):497-505. doi: 10.1007/s11103-017-0666-9. Epub 2017 Oct 20.


Decreased sorbitol synthesis leads to abnormal stamen development and reduced pollen tube growth via an MYB transcription factor, MdMYB39L, in apple (Malus domestica).

Meng D, He M, Bai Y, Xu H, Dandekar AM, Fei Z, Cheng L.

New Phytol. 2018 Jan;217(2):641-656. doi: 10.1111/nph.14824. Epub 2017 Oct 13.


Genetic Mechanisms of the Devious Intruder Candidatus Liberibacter in Citrus.

Martinelli F, Dandekar AM.

Front Plant Sci. 2017 May 31;8:904. doi: 10.3389/fpls.2017.00904. eCollection 2017. No abstract available.


In vitro gene expression and mRNA translocation from transformed walnut (Juglans regia) rootstocks expressing DsRED fluorescent protein to wild-type scions.

Liu X, Walawage SL, Leslie CA, Dandekar AM, Tricoli DM, Hu H, Huang Y, Zhang J, Xv C, Huang J, Zhang Q.

Plant Cell Rep. 2017 Jun;36(6):877-885. doi: 10.1007/s00299-017-2116-1. Epub 2017 Feb 27.


YeATSAM analysis of the walnut and chickpea transcriptome reveals key genes undetected by current annotation tools.

Chakraborty S, Martínez-García PJ, Dandekar AM.

F1000Res. 2016 Nov 17;5:2689. doi: 10.12688/f1000research.10040.1. eCollection 2016.


Expression, Purification, and Biophysical Characterization of a Secreted Anthrax Decoy Fusion Protein in Nicotiana benthamiana.

Karuppanan K, Duhra-Gill S, Kailemia MJ, Phu ML, Lebrilla CB, Dandekar AM, Rodriguez RL, Nandi S, McDonald KA.

Int J Mol Sci. 2017 Jan 4;18(1). pii: E89. doi: 10.3390/ijms18010089.


A genetic genomics-expression approach reveals components of the molecular mechanisms beyond the cell wall that underlie peach fruit woolliness due to cold storage.

Pons C, Martí C, Forment J, Crisosto CH, Dandekar AM, Granell A.

Plant Mol Biol. 2016 Nov;92(4-5):483-503. Epub 2016 Oct 6.


The Secreted Protease PrtA Controls Cell Growth, Biofilm Formation and Pathogenicity in Xylella fastidiosa.

Gouran H, Gillespie H, Nascimento R, Chakraborty S, Zaini PA, Jacobson A, Phinney BS, Dolan D, Durbin-Johnson BP, Antonova ES, Lindow SE, Mellema MS, Goulart LR, Dandekar AM.

Sci Rep. 2016 Aug 5;6:31098. doi: 10.1038/srep31098.


Proteomic analysis highlights the role of detoxification pathways in increased tolerance to Huanglongbing disease.

Martinelli F, Reagan RL, Dolan D, Fileccia V, Dandekar AM.

BMC Plant Biol. 2016 Jul 28;16(1):167. doi: 10.1186/s12870-016-0858-5.


Molecular Responses to Small Regulating Molecules against Huanglongbing Disease.

Martinelli F, Dolan D, Fileccia V, Reagan RL, Phu M, Spann TM, McCollum TG, Dandekar AM.

PLoS One. 2016 Jul 26;11(7):e0159610. doi: 10.1371/journal.pone.0159610. eCollection 2016.


Brassinosteroid's multi-modular interaction with the general stress network customizes stimulus-specific responses in Arabidopsis.

Bjornson M, Dandekar AM, Chory J, Dehesh K.

Plant Sci. 2016 Sep;250:165-177. doi: 10.1016/j.plantsci.2016.06.007. Epub 2016 Jun 16.


Transient Expression of Tetrameric Recombinant Human Butyrylcholinesterase in Nicotiana benthamiana.

Alkanaimsh S, Karuppanan K, Guerrero A, Tu AM, Hashimoto B, Hwang MS, Phu ML, Arzola L, Lebrilla CB, Dandekar AM, Falk BW, Nandi S, Rodriguez RL, McDonald KA.

Front Plant Sci. 2016 Jun 16;7:743. doi: 10.3389/fpls.2016.00743. eCollection 2016.


Sequence/structural analysis of xylem proteome emphasizes pathogenesis-related proteins, chitinases and β-1, 3-glucanases as key players in grapevine defense against Xylella fastidiosa.

Chakraborty S, Nascimento R, Zaini PA, Gouran H, Rao BJ, Goulart LR, Dandekar AM.

PeerJ. 2016 May 24;4:e2007. doi: 10.7717/peerj.2007. eCollection 2016.


The walnut (Juglans regia) genome sequence reveals diversity in genes coding for the biosynthesis of non-structural polyphenols.

Martínez-García PJ, Crepeau MW, Puiu D, Gonzalez-Ibeas D, Whalen J, Stevens KA, Paul R, Butterfield TS, Britton MT, Reagan RL, Chakraborty S, Walawage SL, Vasquez-Gross HA, Cardeno C, Famula RA, Pratt K, Kuruganti S, Aradhya MK, Leslie CA, Dandekar AM, Salzberg SL, Wegrzyn JL, Langley CH, Neale DB.

Plant J. 2016 Sep;87(5):507-32. doi: 10.1111/tpj.13207. Epub 2016 Jul 18.


Corrigendum: The Type II Secreted Lipase/Esterase LesA is a Key Virulence Factor Required for Xylella fastidiosa Pathogenesis in Grapevines.

Nascimento R, Gouran H, Chakraborty S, Gillespie HW, Almeida-Souza HO, Tu A, Rao BJ, Feldstein PA, Bruening G, Goulart LR, Dandekar AM.

Sci Rep. 2016 Feb 25;6:21575. doi: 10.1038/srep21575. No abstract available.


Deep RNA-Seq profile reveals biodiversity, plant-microbe interactions and a large family of NBS-LRR resistance genes in walnut (Juglans regia) tissues.

Chakraborty S, Britton M, Martínez-García PJ, Dandekar AM.

AMB Express. 2016 Mar;6(1):12. doi: 10.1186/s13568-016-0182-3. Epub 2016 Feb 17.


YeATS - a tool suite for analyzing RNA-seq derived transcriptome identifies a highly transcribed putative extensin in heartwood/sapwood transition zone in black walnut.

Chakraborty S, Britton M, Wegrzyn J, Butterfield T, Martínez-García PJ, Reagan RL, Rao BJ, Leslie CA, Aradhaya M, Neale D, Woeste K, Dandekar AM.

Version 2. F1000Res. 2015 Jun 17 [revised 2015 Jan 1];4:155. doi: 10.12688/f1000research.6617.2. eCollection 2015.


The Type II Secreted Lipase/Esterase LesA is a Key Virulence Factor Required for Xylella fastidiosa Pathogenesis in Grapevines.

Nascimento R, Gouran H, Chakraborty S, Gillespie HW, Almeida-Souza HO, Tu A, Rao BJ, Feldstein PA, Bruening G, Goulart LR, Dandekar AM.

Sci Rep. 2016 Jan 12;6:18598. doi: 10.1038/srep18598. Erratum in: Sci Rep. 2016;6:21575.


Complete Genome Sequence of Xanthomonas arboricola pv. juglandis 417, a Copper-Resistant Strain Isolated from Juglans regia L.

Pereira UP, Gouran H, Nascimento R, Adaskaveg JE, Goulart LR, Dandekar AM.

Genome Announc. 2015 Oct 1;3(5). pii: e01126-15. doi: 10.1128/genomeA.01126-15.


Synteny analysis in Rosids with a walnut physical map reveals slow genome evolution in long-lived woody perennials.

Luo MC, You FM, Li P, Wang JR, Zhu T, Dandekar AM, Leslie CA, Aradhya M, McGuire PE, Dvorak J.

BMC Genomics. 2015 Sep 17;16:707. doi: 10.1186/s12864-015-1906-5.


Suppressing Sorbitol Synthesis Substantially Alters the Global Expression Profile of Stress Response Genes in Apple (Malus domestica) Leaves.

Wu T, Wang Y, Zheng Y, Fei Z, Dandekar AM, Xu K, Han Z, Cheng L.

Plant Cell Physiol. 2015 Sep;56(9):1748-61. doi: 10.1093/pcp/pcv092. Epub 2015 Jun 15.


Discovery of non-climacteric and suppressed climacteric bud sport mutations originating from a climacteric Japanese plum cultivar (Prunus salicina Lindl.).

Minas IS, Font I Forcada C, Dangl GS, Gradziel TM, Dandekar AM, Crisosto CH.

Front Plant Sci. 2015 May 12;6:316. doi: 10.3389/fpls.2015.00316. eCollection 2015.


Effect of leaf incubation temperature profiles on Agrobacterium tumefaciens-mediated transient expression.

Jung SK, McDonald KA, Dandekar AM.

Biotechnol Prog. 2015 May-Jun;31(3):783-90. doi: 10.1002/btpr.2077. Epub 2015 Apr 18.


A red fluorescent protein (DsRED) from Discosoma sp. as a reporter for gene expression in walnut somatic embryos.

Zhang Q, Walawage SL, Tricoli DM, Dandekar AM, Leslie CA.

Plant Cell Rep. 2015 May;34(5):861-9. doi: 10.1007/s00299-015-1749-1. Epub 2015 Jan 28.


Walnut (Juglans).

Leslie CA, Walawage SL, Uratsu SL, McGranahan G, Dandekar AM.

Methods Mol Biol. 2015;1224:229-41. doi: 10.1007/978-1-4939-1658-0_19.


Agrobacterium tumefaciens mediated transient expression of plant cell wall-degrading enzymes in detached sunflower leaves.

Jung SK, Lindenmuth BE, McDonald KA, Hwang H, Bui MQ, Falk BW, Uratsu SL, Phu ML, Dandekar AM.

Biotechnol Prog. 2014 Jul-Aug;30(4):905-15.


Distinct roles for mitogen-activated protein kinase signaling and CALMODULIN-BINDING TRANSCRIPTIONAL ACTIVATOR3 in regulating the peak time and amplitude of the plant general stress response.

Bjornson M, Benn G, Song X, Comai L, Franz AK, Dandekar AM, Drakakaki G, Dehesh K.

Plant Physiol. 2014 Oct;166(2):988-96. doi: 10.1104/pp.114.245944. Epub 2014 Aug 25.


A bulk segregant gene expression analysis of a peach population reveals components of the underlying mechanism of the fruit cold response.

Pons C, Martí C, Forment J, Crisosto CH, Dandekar AM, Granell A.

PLoS One. 2014 Mar 5;9(3):e90706. doi: 10.1371/journal.pone.0090706. eCollection 2014.


Protein structure quality assessment based on the distance profiles of consecutive backbone Cα atoms.

Chakraborty S, Venkatramani R, Rao BJ, Asgeirsson B, Dandekar AM.

Version 3. F1000Res. 2013 Oct 10 [revised 2013 Jan 1];2:211. doi: 10.12688/f1000research.2-211.v3. eCollection 2013.


Detection of Huanglongbing disease using differential mobility spectrometry.

Aksenov AA, Pasamontes A, Peirano DJ, Zhao W, Dandekar AM, Fiehn O, Ehsani R, Davis CE.

Anal Chem. 2014 Mar 4;86(5):2481-8. doi: 10.1021/ac403469y. Epub 2014 Feb 12.


Transcriptome and metabolome analysis of citrus fruit to elucidate puffing disorder.

Ibáñez AM, Martinelli F, Reagan RL, Uratsu SL, Vo A, Tinoco MA, Phu ML, Chen Y, Rocke DM, Dandekar AM.

Plant Sci. 2014 Mar;217-218:87-98. doi: 10.1016/j.plantsci.2013.12.003. Epub 2013 Dec 14.


Novel roles for the polyphenol oxidase enzyme in secondary metabolism and the regulation of cell death in walnut.

Araji S, Grammer TA, Gertzen R, Anderson SD, Mikulic-Petkovsek M, Veberic R, Phu ML, Solar A, Leslie CA, Dandekar AM, Escobar MA.

Plant Physiol. 2014 Mar;164(3):1191-203. doi: 10.1104/pp.113.228593. Epub 2014 Jan 21.


The PDB database is a rich source of alpha-helical anti-microbial peptides to combat disease causing pathogens.

Chakraborty S, Phu M, de Morais TP, Nascimento R, Goulart LR, Rao BJ, Asgeirsson B, Dandekar AM.

Version 2. F1000Res. 2014 Dec 5 [revised 2015 Jan 1];3:295. doi: 10.12688/f1000research.5802.2. eCollection 2014.


Sucrose induces expression of the sorbitol-6-phosphate dehydrogenase gene in source leaves of loquat.

Suzuki Y, Dandekar AM.

Physiol Plant. 2014 Mar;150(3):355-62. doi: 10.1111/ppl.12106. Epub 2013 Oct 16.


Gene regulatory networks elucidating huanglongbing disease mechanisms.

Martinelli F, Reagan RL, Uratsu SL, Phu ML, Albrecht U, Zhao W, Davis CE, Bowman KD, Dandekar AM.

PLoS One. 2013 Sep 25;8(9):e74256. doi: 10.1371/journal.pone.0074256. eCollection 2013.

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