Recent Student Publications

  • Simms CL, Yan LL, Zaher HS (2017) Ribosome collision is critical for quality control during no-go decay.  Mol Cell (in press)
  • Phillips AZ, Berry JC, Wilson MC, Vijayaraghavan A, Burke J, Bunn JI, Allen TW, Wheeler T, Bart R (2017) Genomics-enabled analysis of the emergent disease cotton bacterial blight.  PLoS Genetics (in press)
  • Frick EM, Strader LC (2017) Roles for IBA-derived auxin in plant development.  J Exp Bot (in press)
  • Majumder EL, Wolf BM, Liu H, Berg RH, Timlin JA, Chen M, Blankenship RE (2017) Subcellular pigment distribution is altered under far-red light acclimation in cyanobacteria that contrain chlorophyll f.  Photosynth Res (in press)
  • Bao Z, Clancy MA, Carvalho RF, Elliott K, Folta KM (2017) Identification of novel growth regulators in plant populations expressing random peptides.  Plant Physiol (in press)
  • Murton J, Nagarajan A, Nguyen AY, Liberton M, Hancock HA, Pakrasi HB, Timlin JA (2017) Population-level coordination of pigment response in individual cyanobacterial cells under altered nitrogen conditions. Photosynth Res (in press)
  • Wolf BM, Niedzwiedzki DM, Magdaong NCM, Roth R, Goodenough U, Blankenship RE (2017) Characterization of a newly isolated freshwater Eustigmatophyte alga capable of utilizing far-red light as its sole light source.  Photosynth Res (in press)
  • Liu H, Lu Y, Wolf B, Saer R, King JD, Blankenship RE (2017) Photoactivation and relaxation studies on the cyanobacterial orange carotenoid protein in the presence of copper ion.  Phytosynth Res (in press)
  • Holland CK, Jez JM (2017) Structural biology of jasmonic acid metabolism and responses in plants.  In Plant Structural Biology: Hormonal Regulators (Hejatko J and Takoshima T, eds) Springer-Verlag, NY (in press)
  • Enders TAFrick EM, Strader LC (2017) An Arabidopsis kinase cascade influences auxin-responsive cell expansion.  Plant J 92, 68-81
  • Schenck CA*, Holland CK*Schneider MR, Men Y, Lee SG, Jez JM, Maeda HA (2017) Molecular basis of the evolution of alternative tyrosine biosynthesis pathways in plants.  Nature Chem Biol 13, 1029-35 (*equal contribution)
  • Vincent TR, Avramova M, Canham J, Higgins P, Bilkey N, Mugford ST, Pitino M, Toyota M, Gilroy S, Miller TJ, Hogenhout S, Sanders D (2017) Interplay of plasma membrane and vacuolar ion channels, together with BAK1, elicits rapid cytosolic calcium elevations in Arabidopsis during aphid feeding.  Plant Cell 29, 1460-79
  • Hamilton ES, Haswell ES (2017) The tension-sensitive ion transport activity of MSL8 is critical for its function in pollen hydration and germination.  Plant Cell Physiol 58, 1222-37
  • Immethun CM, DeLorenzo DM, Focht CM, Gupta D, Johnson CB, Moon TS  (2017) Physical, chemical, and metabolic state sensors expand the synthetic biology toolbox for Synechocystis sp. PCC 6803.  Biotechnol Bioeng 114, 1561-9
  • Diani-Moore S, Shoots J, Singh R, Zuk JB, Rifkind AB (2017) NAD+ loss, a new player in AhR biology: prevention of thymus atrophy and hepatosteatosis by NAD+ repletion.  Sci Rep 7, 2268
  • Willbur JF, Ding S, Marks ME, Lucas H, Grau CR, Groves CL, Kabbage M, Smith DL (2017) Comprehensive Sclerotinia stem rot screening of soybean germplasm requires multiple isolates of Sclerotinia sclerotiorumPlant Disease 101, 344-53
  • Guzman MS, McGinley B, Santiago-Merced N, Gupta D, Bose A (2017) Draft genome sequences of three closely related isolates of the purple nonsulfur bacterium Rhodovulum sulfidophilum.  Genome Announc 5, e00029-17
  • Aanderud ZT, Schoolmaster DR, Rigby D, Bybee J, Campbell TRoundy BA (2017) Soils mediate the impact of fine woody debris on invasive and native grasses as whole trees are mechanically shredded into firebreaks in piñon-juniper woodlands.  J Arid Environ  137, 60-8
  • Chairs M, Gupta D, Joshee N, Cooper KK, Basu C (2017) RNA-seq analysis of the salt stress-induced transcripts in fast-growing bioenergy tree, Paulownia elongataPlant Environ Interact 12, 128-36
  • Souza CA, Li S, Lin AZ, Boutrot F, Grossman G, Zipfel C, Somerville SC (2017) Cellulose-derived oligomers act as damage-associated molecular patterns and trigger defense-like responses.  Plant Physiol 173, 2383-98
  • Burns TJ, Frei AP, Gherardini PF, Bava FA, Batchelder JE, Yoshiyasu Y, Yu JM, Groziak AR, Kimmey SC, Gonzalez VD, Fantl WJ, Nolan GP (2017) High-throughput precision measurement of subcellular localization in single cells.  Cytometry A 91, 180-9
  • Augustin MM, Shukla AK, Starks CM, O'Neil-Johnson M, Han L, Holland CK, Kutchan TM (2017) Biosynthesis of Veratrum californicum specialty chemicals in Camelina sativa seed.  Plant Biotech Rep 11, 29-41
  • Nguyen AY, Bricker WP, Zhang H, Weisz DA, Gross ML, Pakrasi HB (2017) The proteolysis adaptor, NblA, binds to the N-terminus of beta-phycocyanin: implications for the mechanism of phycobilisome degradation.  Photosynth Res 132, 95-106
  • Mendez DL, Babbitt SE, King JD, D'Alessandro J, Watson MB, Blankenship RE, Mirica TM, Kranz RG (2017) Engineered holocytochrome c synthases that biosynthesize new cytochromes c.  Proc Natl Acad Sci USA 114, 2235-40
  • Simms CL, Thomas EN, Zaher HS (2017) Ribosome-based quality control of mRNA and nascent peptides.  Wiley Interdiscip Rev RNA 8, e1366
  • Lee CP, Maksaev G, Jensen GS, Murcha MW, Wilson ME, Fricker M, Hell R, Haswell ES, Millar AH, Sweetlove L (2016) MSL1 is a mechanosensitive ion channel that dissipates mitochondrial membrane potential and maintains redox homeostasis in mitochondria during abiotic stress.  Plant J 88, 809-25
  • Lu Y, Liu H, Saer RG, Zhang H, Meyer CM, Li VL, Shi L, King JD, Gross ML, Blankenship RE (2016) Native mass spectrometry analysis of oligomerization states of fluorescence recovery protein and orange carotenoid protein:  two proteins involved in the cyanobacterial photoprotection cycle. Biochemistry 20, 160-6
  • Holland CK, Cascella B, Jez JM (2016) Dissonance striks a chord in stilbene synthesizers.  Cell Chem Biol 23, 1440-1
  • Westfall CS*, Sherp AM*, Zubieta C, Alvarez S, Schraft E, Marcellin R, Ramirez L, Jez JM (2016) Arabidopsis thaliana GH3.5 acyl acid amido synthetase mediates metabolic crosstalk in auxin and salicylic acid homeostasis.  Proc Natl Acad Sci USA 113, 13917-22 (*equal contribution)
  • Jez JM, Lee SG, Sherp AM (2016) The next green movement:  plant biology for the environment and sustainability.  Science 353, 1241-4
  • Ooi LC, Low ET, Abdullah MO, Nookiah R, Ting NC, Nagappan J, Manaf MA, Chan KL, Halim MA, Azizi N, Omar W, Murad AJ, Lakey N, Ordway JM, Favello A, Budiman MA, Van Brunt A, Beil M, Leininger MT, Jiang N, Smith SW, Brown CR, Kuek AC, Bahrain S, Hoynes-O'Connor A, Nguyen AY, Chaudhari HG, Shah SA, Choo YM, Sambanthamurthi R, Singh R (2016) Non-tenera contamination and the economic impact of SHELL genetic testing in the Malaysian independent oil palm industry.  Front Plant Sci 7, 771
  • Yoneda A, Wittmann BJ, King JD, Blankenship RE, Dantas G (2016) Transcriptomic analysis illuminates genes involved in chlorophyll synthesis after nitrogen starvation in Acaryochloris sp. CCMEE 5410.  Photosynth Res 129, 171-82
  • Kilgore MBHolland CK, Jez JM, Kutchan TM (2016) Identificaiton of a noroxomartidine reductase with Amaryllidaceae alkaloid biosynthesis related activities.  J Biol Chem 291, 16740-52
  • Bronnimann MP, Calton CM, Chiquette SF, Li S, Lu M, Chapman JA, Bratton KN, Schlegel AM, Campos SK (2016) Furin cleavage of L2 during papillomavirus infection: minimal dependence on cyclophilins.  J Virol 90, 6224-34
  • Liberton M, Saha R, Jacobs JM, Nguyen AY, Gritsenko MA, Smith RD, Koppenaal DW, Pakrasi HB (2016) Global proteomic analysis reveals an exclusive role of thylakoid membranes in bioenergetics of a model cyanobacterium.  Mol Cell Proteomics 15, 2021-32
  • Kilgore MB, Kutchan TM (2016) The Amaryllidaceae alkaloids: biosynthesis and methods for enzyme discorvery.  Phytochem Rev 3, 317-37
  • Prigge M, Greenham K, Zhang Y, Santner A, Castillejo C, Mutka AM, O'Malley RC, Ecker JR, Kunkel BN, Estelle M (2016) The Arabidopsis auxin receptor F-box proteins AFB4 and AFB5 are required for response to the synthetic auxin picloram.  G3 6, 1583-90
  • Kilgore MB, Augustin MM, May GD, Crow JA, Kutchan TM (2016) CYP96T1 of Narcissus sp. aff. pseudonarcissus catalyzes formation of the para-para' C-C phenol couple in the Amaryllidaceae  alkaloids.  Front Plant Sci 7, 225
  • Liu H, Zhang H, Org GS, Lu Y, Jiang J, King JD, Wolf NR, Gross ML, Blankenship RE (2016) Dramatic domain rearrangements of the cyanobacterial orange carotenoid protein upon photoactivation.  Biochemistry 55, 1003-9
  • Powers SK, Strader LC (2016) Up in the air: untethered factors of auxin response.  F1000Res 3, 5
  • Shi W, Zeng Q, Kunkel BN, Running MP (2016) Arabidopsis Rab geranylgeranyltransferases demonstrate redundancy and broad substrate specificity in vitro.  J Biol Chem 291, 1298-410
  • Wilson ME, Mixdorf M, Berg RH, Haswell ES (2016) Plastid osmotic stress influences cell differentiation at the plant shoot apex.  Development 143, 3382
  • Korasick DA, Jez JM (2016) Protein domains:  structure, function, and methods.  In Encyclopedia of Cell Biology, Vol. 1 (Bradshaw RA and Stahl P, Eds.), pp.91-7, Academic Press, Waltham, MA
  • Gupta D, Ip T, Summers ML, Basu C (2015) 2-Methyl-3-buten-2-ol (MBO) synthase expression in Nostoc punctiforme leads to over production of phytols.  Bioengineered 6, 33-41
  • Xiong W, Lee TC, Rommelfanger S, Gjersing E, Cano M, Maness PC, Ghirardi M, Yu J (2015) Phosphoketolase pathway contributes to carbon metabolism in cyanobacteria.  Nature Plants 2, 15187
  • Shoots J, Fraccalvieri D, Franks DG, Denison MS, Hahn ME, Bonati L, Powell WH (2015) An aryl hydrocarbon receptor from the salamander Ambystoma mexicanum exhibits low sensitivity to 2,3,7,8-tetrachlorodibenzo-p-dioxin.  Environ Sci Technol 49, 6993-7001
  • Babbitt SE, Sutherland MC, San Francisco B, Mendez DL, Kranz RG (2015) Mitochondrial cytochrome c biogenesis: no longer an enigma.  Trends Biochem Sci 40, 446-55
  • Hamilton ES, Jensen GS, Maksaev G, Katims A, Sherp AM, Haswell ES (2015) Mechanosensitive channel MSL8 regulates osmotic forces during pollen hydration and germination.  Science 350, 438-41
  • Brady SM, Burow M, Busch W, Carlborg Ö, Denby KJ, Glazebrook J, Hamilton ES, Harmer SL, Haswell ES, Maloof JN, Springer NM, Kliebenstein DJ (2015) Reassess the t test: interact with all your data via ANOVA.  Plant Cell 27, 2088-94
  • Enders TA, Oh S, Yang Z, Montgomery BL, Strader LC (2015) Genome sequencing of Arabidopsis abp1-5 reveals second-site mutations that may affect phenotypes.  Plant Cell 27, 1820-6
  • Zhu C, Ganguly A, Baskin TI, McClosky DD, Anderson CT, Foster C, Meunier KA, Okamoto R, Berg H, Dixit R (2015). The FRA1 kinesin contributes to cortical microtubule-mediated trafficking of cell wall components.  Plant Physiol 167, 780-92
  • Cahoon RE, Lutke WK, Cameron JC, Chen S, Lee SG, Rivard RS, Rea PA, Jez JM (2015) Adaptive engineering of phytochelatin-based heavy metal tolerance.  J Biol Chem 290, 17321-30
  • Korasick DA, Jez JM, Strader LC (2015) Refining the nuclear auxin response pathway through structural biology.  Curr Opin Plant Biol 27, 22-8
  • Korasick DA, Chatterjee S, Tonelli M, Dashti H, Lee SG, Westfall CS, Fulton DB, Andreotti AH, Amarashinghe G, Strader LC, Jez JM (2015) Defining a two-pronged structural model for PB1 domain interaction in plant auxin responses.  J Biol Chem 290, 12868-78
  • Hamilton ESSchlegel AM, Haswell ES (2015) United in diversity: mechanosensitive ion channels in plants.  Annu Rev Plant Biol 66, 113-37
  • Michniewicz M, Frick EM, Strader LC (2015) Gateway-compatible tissue-specific vectors for plant transformation.  BMC Res Notes 8, 1010
  • Enders TA, Strader LC (2015) Auxin activity: past, present, and future.  Am J Bot 102, 1–17
  • Luesse DR, Wilson ME, Haswell ES (2015) RNA sequencing analysis of the msl2msl3, crl, and ggps1 mutants indicates that diverse sources of plastid dysfunction do not alter leaf morphology through a common signaling pathway.  Front Plant Sci 6, 114
  • Gupta D, Eldakak M, Rohila JS, Basu C (2014) Biochemical analysis of 'kerosene tree' Hymenaea courbaril L. under heat stress.  Plant Signal Behav 9, e972851
  • Gupta D, Summers ML, Basu C (2014) Engineering an isoprenoid pathway in Escherichia coli for production of 2-methyl-3-buten-2-ol: a potential biofuel.  Mol Biotechnol 56, 516-23
  • Lee SG, Jez JM (2014) Nematode phospholipid metabolism: an example of closing the genome-structure-function circle.  Trends Parasitol 30, 241-50
  • Michniewicz M, Powers SP, Strader LC (2014) IBA transport by PDR proteins.  In Plant ABC Transporters (M. Geisler, Ed), pp. 313-31, Springer Publishing, Switzerland
  • McCue AD, Panda K, Nuthikattu S, Choudury SG, Thomas EN, Slotkin RK (2014) ARGONAUTE 6 bridges transposable element mRNA-derived siRNAs to the establishment of DNA methylation. EMBO J 34, 20-35
  • Smith JM, Leslie ME, Robinson SJ, Korasick DA, Zhang T, Backues SK, Cornish PV, Koo AJ, Bednarek SY, Heese A (2014) Loss of Arabidopsis thaliana dynamin-related protein 2B reveals separation of innate immune signaling pathways.  PLoS Pathog 10, e1004578
  • King JD, Liu H, He G, Orf GS, Blankenship RE (2014) Chemical activation of the cyanobacterial orange carotenoid protein.  FEBS Lett 588, 4561-5
  • King JD, Harrington L, Lada BM, He G, Cooley JW, Blankenship RE (2014) Site-directed mutagenesis of the highly perturbed copper site of auracyanin D. Arch Biochem Biophys 564, 237-43
  • Liu H, Zhang H, King JD, Wolf NR, Prado M, Gross ML, Blankenship RE (2014) Mass spectrometry footprinting reveals the structural rearrangements of cyanobacterial orange carotenoid protein upon light activation.  Biochim Biophys Acta 1837, 1955-63
  • Guo J*, Nguyen AY*, Dai Z, Su D, Gaffrey MJ, Moore RJ, Jacobs JM, Monroe ME, Smith RD, Koppenaal DW, Pakrasi HB, Qian WJ (2014) Proteome-wide Light/Dark Modulation  of Thiol Oxidation in Cyanobacteria Revealed by Quantitative Site-Specific Redox Proteomics.  Mol Cell Proteomics 13, 3270-85 (*equal contribution)
  • Veley KM, Maksaev G, Frick EM, January E, Kloepper SC, Haswell ES (2014) Arabidopsis MSL10 has a regulated cell death signaling activity that is separable from its mechanosensitive ion channel activity.  Plant Cell 26, 3115-31
  • Babbitt SE, San Francisco B, Bretsnyder EC, Kranz RG (2014) Conserved residues of the human mitochondrial holocytochrome C synthase mediate interactions with heme.  Biochemistry 53, 5261-71
  • He G, Zhang H, King JD, Blankenship RE (2014) Structural analysis of the homodimeric reaction center complex from the photosynthetic green sulfur bacterium Chlorobaculum tepidum. Biochemistry 53, 4924-30 
  • Kilgore MB, Augustin MM, Starks CM, O'Neil-Johnson M, May GD, Crow JA, Kutchan TM (2014) Cloning and Characterization of a Norbelladine 4'-O-Methyltransferase Involved in the Biosynthesis of the Alzheimer's Drug Galanthamine in Narcissus sp. aff. pseudonarcissus.  PLoS One 9, e103223
  • Wilson ME, Basu MR, Bhaskara GB, Verslues PE, Haswell ES (2014) Plastid osmotic stress activates cellular stress responses in Arabidopsis.  Plant Physiol 165, 119-28
  • Korasick DA, Westfall CS, Lee SG, Nanao MH, Dumas R, Hagen G, Guilfoyle TJ, Jez JM, Strader LC (2014) Molecular basis for AUXIN RESPONSE FACTOR protein interaction and the control of auxin response repression.  Proc Natl Acad Sci USA 111, 5427-32  
  • San Francisco B, Sutherland MC, Kranz RG (2014) The CcmFH complex is the system I holocytochrome c synthetase: engineering cytochrome c maturation independent of CcmABCDE. Mol Microbiol 91, 996-1008
  • Preuss ML, Cameron JC, Berg RH, Jez JM (2014) Immunolocalization of glutathione biosynthesis enzymes in Arabidopsis thaliana.  Plant Physiol Biochem 75, 9-13
  • San Francisco B, Kranz RG (2014) Interaction of holoCcmE with CcmF in heme trafficking and cytochrome c biosynthesis.  J Mol Biol 426, 570-85
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