John Cushman


Photo of John Cushman

Professor

Department of Biochemistry and Molecular Biology
University of Nevada/Mail Stop 330
1664 North Virginia Street
Reno,  Nevada   89557

Office: (775) 784-1918
Lab: 784-6258

Fax: 784-1419

Email: jcushman@unr.edu
Building: Howard Medical Science,  Office 210B

Download Electronic Business Card OR vCard

EDUCATION
B.S. 1982 Ursinus College
M.S. 1984 Rutgers University - New Brunswick
Ph.D. 1986 Rutgers University - New Brunswick

ACADEMIC & RESEARCH INTEREST

  • Functional Genomics of Crassulacean acid metabolism (CAM): CAM is water-conserving photosynthetic pathway that helps plants survive in seasonally arid climates or those with intermittent water supply (e.g. epiphytic habitats). Our research objectives are to understand how the expression of CAM is controlled by environmental stress (salinity, water deficit) and the circadian clock. Our approach is to conduct integrated transcriptome, proteome, and metabolome analyses using a model facultative CAM species called the common or crystalline ice plant (Mesembryanthemum crystallinum).

 

  • Evolutionary Origins of Crassulacean acid metabolism in Neotropical Orchids: Crassulacean acid metabolism (CAM) has evolved multiple times in 33 families and 328 genera comprising more than 6% of all vascular plant species making it the second most common mode of photosynthesis among vascular plants. Our goal is to understand the molecular mechanisms responsible for the evolution of this important photosynthetic adaptation. Our approach is to survey foliar carbon isotopic composition (delta13C) to map the occurrence of CAM in closely related species within the Oncidiinae, a subtribe within Orchidaceae, and then identify molecular genetic changes specific to plants that exhibit CAM.

 

  • Gene Discovery in Resurrection Species: The long-term goal of this integrated research-education-extension project is to use resurrection plants as models to develop and enhance course offerings in Plant Breeding and Biotechnology and related topics, to develop an integrated research and extension project using Sporobolus as a forage grass, and to gain a basic understanding of the unique gene and gene regulatory networks that are necessary and sufficient for vegetative tissues to withstand dehydration and then rapidly recover upon rehydration that will serve as a case study for advanced teaching modules for crop improvement strategies.

 

  • Improved Abiotic Stress Tolerance in Camelina: The long-term goal of this research program is to improve the drought tolerance and other production traits of Camelina so that is might serve as a biofuel crop within the northern Nevada and the Great Basin. The goals are to test different varieties of Camelina to determine which might be suitable for regional growing conditions, develop improved traits such as heat, drought, and salinity tolerance, herbicide resistance, and shatter resistance of pods, using various genetic approaches, create a transcriptome database for all tissues under abiotic stress conditions, and provide educational outreach to inform stakeholders about the utility of Camelina as a regional biodiesel feedstock.

 

  • Development of Opuntia (Prickly Pear Cactus) as a Low-water-input Oleogenic Biofuel and Biomass Feedstock: The long-term goals of this research program are to enhance existing transcriptome resources for Opuntia ficus-indica, generate oleogenic cactus that accumulates lipids within vegetative and fruit tissues, evaluate such cactus for increased accumulation of lipids and other feedstock characteristics, and provide educational outreach to inform stakeholders using an educatonal display on biofuels production.

 

  • Engineering CAM Photosynthetic Machinery into Bioenergy Crops for Biofuels Production in Marginal Environments: The long-term goal of this research program is to enhance water use efficiency (WUE) and adaptability to hotter/drier climates of C3 species by introducing Crassulacan acid metabolism (CAM) thereby developing new capabilities for biomass production on marginal or abandoned agricultural lands while minimizing water and nitrogen inputs. The specific goals are to define the genetic basis of a set of CAM modules in eudicot and monocot species using network modeling data derived from 'omics data sets, characterize the regulation of carboxylation, decarboxylation, and stomatal control modules using comparative genomic, network/molecular dynamics modeling, and loss-of-function testing, deploy advanced genetic engineering technologies to enable stacking of large numbers of transgenes to improve transgene persistance, and to transfer fully functional CAM modules, and analyze the effects of different CAM modules on stomatal control, CO2 assimilation and transpiration rates, water use efficiency, and biomass yields in Arabidopsis and Poplar.

Our research is funded by the Department of Energy (DOE) and the Nevada Agricultural Experiment Station (NAES).

Students and postdoctoral research associates with broad interests in plant molecular genetics and plant biochemistry related to abiotic stress tolerance and bioenergy production systems are welcomed to pursue training opportunities in this laboratory.

COURSES & TEACHING RESPONSIBILITIES

 

  • BCH 703 - Grant Writing for Molecular Biosciences
  • BCH 705 - Molecular Genetics
  • BCH 706 - Functional Genomics
  • BCH 718 - Plant Molecular Biology and Biotechnology
  • BCH 794 - Biofuels/biomass Colloquium
  • Biochemistry Graduate Program Director

AWARDS, HONORS, & PROFESSIONAL RECOGNITION

2017 Regents' Researcher Award

2013 Outstanding UNR Researcher Award

2011-2013 Foundation Professor

2003 Outstanding CABNR Researcher Award
 

COMMUNITY SERVICE

Editor: The Plant Journal

Board of Reviewers: Journal of Experimental Botany, Journal of Plant Physiology

REPRESENTATIVE PUBLICATIONS

Book Chapter(s)
Diversifying Agriculture with Novel Crop Introductions to Abandoned Lands with Suboptimal Conditions Sarah C. Davis, Jacqueline E. Kloepfer, Jesse A. Mayer, John C. Cushman 2018, Climate Change and Crop Production: Foundations for Agroecosystem Resilience, CRC Press
CAM Plants Cushman, JC 2017, Encyclopedia of Applied Plant Sciences, Vol 1, Waltham, MA: Academic Press, 2017, pp. 60–77.
Strain Selection Strategies for Improvement of Algal Biofuel Feedstocks. Hathwaik L, Cushman JC 2017, In: Biofuels and Bioenergy. Eds: John Bryant, Clive Butler, and John Love. Wiley-Blackwell, UK. pp. 173-189.
Understanding vegetative desiccation tolerance using integrated functional genomics approaches within a comparative evolutionary framework. Cushman JC, Oliver MJ. 2011, Ecological Studies: Desiccation Tolerance in Plants. Eds: Ulrich Luttge, Erwin Beck, and Dorothea Bartels. Springer, Heidelberg. 215: 307-338.
Transcriptomics analysis methods: microarray data processing, analysis and visualization using the Affymetrix GeneChip® Vitis vinifera genome array Schlauch KA, Grimplet J, Cushman JC, Cramer GR. 2011, Methods and Results in Grapevine Research. Delrot S, Medrano H, Or E, Bavaresco L, Grando S (Eds.). Springer, Chap 22, pp. 317-334.
Vitis functional genomics: Open systems for transcriptome analysis. Tillett RL, Cushman JC 2010, Genetics, Genomics and Breeding of Grapes. Eds: José M. Martinez-Zapater and Anne-Francoise Adam Blondon. Science Publishers, Enfield, New Hampshire. Chapter 10, pp. 235-269.
Transcriptomics: methods for microarray data analysis and visualization using the Affymetrix GeneChip® Vitis vinifera genome array. Schlauch KA, Grimplet J, Cushman JC, Cramer GR. 2009, In: Methods in Grapevine Research. Eds: Serge Delrot.
Journals
Crassulacean Acid Metabolism Abiotic Stress-Responsive Transcription Factors: a Potential Genetic Engineering Approach for Improving Crop Tolerance to Abiotic Stress Amin AB, Rathnayake KN, Yim WC, Garcia TM, Wone B, Cushman JC, Wone BWM 2019, Front Plant Sci. 2019; 10: 129.
The bracteatus pineapple genome and domestication of clonally propagated crops. Chen L-Y, VanBuren R, Paris M, Zhou H, Zhang X, Wai CM, Yan H, Chen S, Along M, Ramakrishnan S, Liao Z, Liu J, Lin J, Yue J, Fatima M, Lin Z, Zhang J, Juang L, Wang H, Hwa T-Y, Kao S-M, Choi JY, Sharma A, Song J, Wang H, Yim WC, Cushman JC, Paull RE, Matsumoto T, Qin Y, Wu Q, Wang J, Yu Q, Wu J, Zhang S, Boches P, Tung C-W, Wang M-L, d’Eckenbrugge GC, Sanewski GM, Purrugganan MD, Schatz MC, Bennetzen JL, Lexer C, Ming R. 2019, Nature Genetics. 51: 1549–1558
Biology and chemistry of an Umbravirus-like 2989 bp single-stranded RNA as a possible causal agent for Opuntia stunting disease (engrosamiente de cladidios) – A review Felker P, Bunch R, Russo G, Preston K, Tine JA, Suter B, Mo X, Cushman JC, Yim WC 2019, Journal of the Professional Association for Cactus Development. 21: 1–31.
New perspectives on Crassulacean acid metabolism Hultine K, Cushman JC, Williams DG. 2019, Journal of Experimental Botany. 70: in press.
Laying the foundation for crassulacean acid metabolism (CAM) biodesign: Characterization of individual C4 metabolism genes from the common ice plant in Arabidopsis Lim SD, Lee S, Choi W-G, Yim WC, and Cushman 2019, Frontiers in Plant Science. 10: 101
Nutritional and mineral content of prickly pear cactus: A highly water-use efficient forage, fodder, and food species Mayer JA, Cushman JC 2019, Journal of Agronomy and Crop Science 00:1-10
Understanding trait diversity associated with crassulacean acid metabolism (CAM) Niechayev NA, Pereira PN, Cushman JC 2019, Current Opinion in Plant Biology 49: 74-85
Exploring the relationship between crassulacean acid metabolism (CAM) and mineral nutrition with a special focus on nitrogen Pereira PN, Cushman JC. 2019, International Journal of Molecular Sciences. 20: 4363. DOI: 10.3390/ijms20184363.
Evolution of l-DOPA 4,5-dioxygenase activity allows for recurrent specialisation to betalain pigmentation in Caryophyllales
The evolution of l-DOPA 4,5-dioxygenase activity, encoded by the gene DODA, was a key step in the origin of betalain biosynthesis in Caryophyllales. We previously proposed that l-DOPA 4,5-dioxygenase activity evolved via a single Caryophyllales-specific neofunctionalisation event within the DODA gene lineage. However, this neofunctionalisation event has not been confirmed and the DODA gene lineage exhibits numerous gene duplication events, whose evolutionary significance is unclear. To address this, we functionally characterised 23 distinct DODA proteins for l-DOPA 4,5-dioxygenase activity, from four betalain-pigmented and five anthocyanin-pigmented species, representing key evolutionary transitions across Caryophyllales. By mapping these functional data to an updated DODA phylogeny, we then explored the evolution of l-DOPA 4,5-dioxygenase activity. We find that low l-DOPA 4,5-dioxygenase activity is distributed across the DODA gene lineage. In this context, repeated gene duplication events within the DODA gene lineage give rise to polyphyletic occurrences of elevated l-DOPA 4,5-dioxygenase activity, accompanied by convergent shifts in key functional residues and distinct genomic patterns of micro-synteny. In the context of an updated organismal phylogeny and newly inferred pigment reconstructions, we argue that repeated convergent acquisition of elevated l-DOPA 4,5-dioxygenase activity is consistent with recurrent specialisation to betalain synthesis in Caryophyllales.
Sheehan H, Feng T, Walker-Hale N, Lopez-Nieves S, Pucker B, Guo R, Yim WC, Badgami R, Timoneda A, Zhao L, Tiley H, Copetti D, Sanderson MJ, Cushman JC, Moore MJ, Smith SA, Brockington SF 2019, New Phytologist 01 August 2019 https://doi.org/10.1111/nph.16089
Ion accumulation and expression of ion homeostasis-related genes associated with halophytism, NaCl-promoted growth in a halophyte, Mesembryanthemum crystallinum L. Tran DQ, Konishi A, Cushman JC, Morokuma M, Toyota M, Agarie S. 2019, Protein Production Science. DOI: 10.1080/1343943X.2019.1647788.
Identification of Genes Encoding Enzymes Catalyzing the Early Steps of Carrot Polyacetylene Biosynthesis Busta L, Yim WC, LaBrant EW, Wang P, Grimes L, Malyszka K, Cushman JC, Santos P, Kosma DK, Cahoon EB 2018, Plant Physiology December 2018
Fast pyrolysis of Opuntia ficus-indica and Grindelia squarrosa. Cross P, Mukarakate C, Nimlos M, Carpenter D, Donohoe B, Mayer JA, Cushman JC, Neupane B, Miller G, Adhikari S. 2018, Sustainable Chemistry & Engineering. 32: 3510–3518.
Biology and chemistry of an umbravirus-like 2989 bp single-stranded RNA as a causal agent for Opuntia stunting disease (engrossamiento de cladodios) – A review Felker P, Bunch R, Russo G, Preston K, Tine JA, Suter B, Mo X, Cushman JC, and Yim WC 2018, Journal of the Professional Association for Cactus Development. 20: in press.
Simultaneous chloroplast, mitochondria isolation and mitochondrial protein preparation for two-dimensional electrophoresis analysis of ice plant leaves under well-watered and water-deficit stressed treatments Hong HTK, Phuong TTB, Thuy NTT, Wheatley MD, and Cushman JC 2018, Protein Expression and Purification. 155: 86–94
A Vitis vinifera basic helix–loop–helix transcription factor enhances plant cell size, vegetative biomass and reproductive yield Lim SD, Yim WC, Liu D, Hu R, Yang X, Cushman JC 2018, Plant Biotechnology Journal 09 March 2018
Quantitative ROS bioreporters: A robust toolkit for studying biological roles of ROS in response to abiotic and biotic stresses. Lim, S. D., Kim, S.-H., Gilroy, S., Cushman, J. C., Choi, W.-G. 2018, Physiologia plantarum, 165(2), 356-368.
Draft nuclear genome sequence of the halophilic and beta-carotene-accumulating green alga Dunaliella salina strain CCAP19/18. Polle JE, Barry K, Cushman J, Schmutz J, Tran D, Hathwaik LT, Yim WC, Jenkins J, McKie-Krisberg Z, Prochnik S, Lindquist E. 2017, Genome Announcements. 5:e01105-17.
MYB and HD-ZIP IV homologs related to trichome formation are involved in epidermal bladder cell development in the halophyte Mesembryanthemum crystallinum L. Roeurn S, Hoshino N, Soejima K, Inoue Y, Cushman JC, Agarie S. 2017, Plant Production Science 20 (1): 72-82.
Leaf carbohydrates influence transcriptional and post-transcriptional regulation of nocturnal carboxylation and starch degradation in the facultative CAM plant, Mesembryanthemum crystallinum. Taybi T, Cushman JC, Borland AM. 2017, Journal of Plant Physiology. 218: 144-154.
Temporal and spatial transcriptomic and microRNA dynamics of CAM photosynthesis in pineapple. Wai CM, VanBuren R, Zhang J, Huang L, Miao W, Edger PP, Yim WC, Priest HD, Meyers BC, Mockler T, Smith JA, Cushman JC, Ming R. 2017, The Plant Journal. 92: 19-30
The Kalanchoë genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism. Yang X, Hu R, Yin H, Jenkins J, Shu S, Tang H, Liu D, Weighill DA, Yim WC, Ha J, Heyduk K, Goodstein DM, Guo H-B, Moseley RC, Fitzek E, Jawdy S, Zhang Z, Xie M, Hartwell JA, Grimwood J, Abraham PE, Mewalal R, Beltrán JD, Boxall SF, Dever LD, Palla KJ, Albion R, Garcia T, Mayer JA, Lim SD, Wai CM, Peluso P, Van Buren R, De Paoli HC, Borland AM, Guo H, Chen J-G, Muchero W, Yin Y, Jacobson DA, Tschaplinski TJ, Hettich RL, Ming R, Winter K, Leebens-Mack JC, Smith JAC, Cushman JC, Schmutz J, Tuskan G 2017, Nature Communications. 18:1899.
An rbcL mRNA binding protein is associated with C3 to C4 evolution and light-induced production of Rubisco in Flaveria. Yerramsetty PK, Agar EM, Yim WC, Cushman JC, Berry JO 2017, Journal of Experimental Botany DOI:10.1093/jxb/erx264
Divide and Conquer (DC) BLAST: Fast and easy BLAST execution within HPC environments. Yim WC, Cushman JC 2017, PeerJ. 5: e3486.
Sporobolus stapfianus: Insights into desiccation tolerance in the resurrection grasses from linking transcriptomics to metabolomics. Yobi A, Tillett RL, Yim WC, Espinoza C, Wone BWM, Schlauch KA, Cushman JC, Oliver MJ. 2017, BMC Plant Biology. 17: 67.
Transcript, protein and metabolite temporal dynamics in the CAM plant Agave Abraham PE, Yin H, Borland AM, Weighill D, Lim SD, De Paoli HC, Engle N, Jones PC, Agh R, Weston DJ, Wullschleger SD, schaplinski T, Jacobson D, Cushman JC, Hettich RL, Tuskan GA, Yang, Y 2016, Nature Plants 2: 16178
Orchestration of carbohydrate processing for crassulacean acid metabolism. Borland AM, Guo H-B, Yang X, Cushman JC. 2016, Current Opinion in Plant Biology. 31: 118–124.
Identification of ice plant (Mesembryanthemum crystallinum L.) microRNAs using RNA-Seq and analysis of their potential functional roles in high salinity responses in seedlings. Chiang C-P, Yim WC, Sun Y-H, Ohnishi M, Mimura T, Cushman JC, Yen HE. 2016, Frontiers in Plant Biology. 7: 1143.
Suppression subtractive hybridization library construction and identification of epidermal bladder cell-related genes in the common ice plant, Mesembryanthemum crystallinum L. Roeurn S, Hoshino N, Soejima K, Inoue Y, Cushman JC, Agarie S 2016, Plant Product. Sci. 19: 552-561.
Development and use of bioenergy feedstocks for semi-arid and arid lands. Cushman JC, Davis SC, Yang X, Borland AM 2015, Journal of Experimental Botany. 66: 4177-4193.
Transgressive, reiterative selection of Dunaliella salina with enhanced lipid and starch production using continuous buoyant density gradient centrifugation. Hathwaik LT, Redelman D, Samburova V, Zielinska B, Shintani DK, Harper JF, Cushman JC. 2015, Algal Research. 9:194-203.
Evaluation of diverse microalgal species as potential biofuel feedstocks grown using municipal wastewater. Hiibel SR, Lemos MS, Kelly BP, Cushman JC. 2015, Frontiers in Energy Research. 3 (20): 1-8.
The pineapple genome and the evolution of CAM photosynthesis. Ming R, Van Buren R, Wai CM, Tang H, Schatz MC, Bowers, JE, Lyons E, Wang M-L, Chen J, Biggers E, Zhang J, Huang L, Zhang L, Miao W, Zhang J, Ye Z, Miao C, Lin Z, Wang H, Zhou H, Yim WC, Priest HD, Zheng C, Woodhouse M, Edger PP, Guyot R, Guo H-B, Guo H, Zheng G, Singh R, Sharma A, Min X, Zheng Y, Lee H, Gurtowski J, Sedlazeck F, Harkess A, McKain MR, Liao Z, Fang J, Liu J, Zhang X, Zhang Q, Hu W, Yuan Q, Wang K, Chen L-Y, Shirley N, Lin Y-R, Liu L-Y, Hernandez AG, Wright CL, Bulone V, Tuskan GA 2015, Nature Genetics. 47: 1435–1442.
Biomass characterization of Agave and Opuntia as potential biofuel feedstocks. Yang L, Carl S, Lu M, Mayer JA, Cushman JC, Tian E, Lin H. 2015, Biomass and Bioenergy. 76: 43-53. DOI: 10.1016/j.biombioe.2015.03.004
A roadmap for research on crassulacean acid metabolism to enhance sustainable food and bioenergy production in a hotter, drier world. Yang X, Cushman JC, Borland AM, Edwards EJ, Wullschleger SD, Tuskan GA, Owen NA, Griffiths H, Smith JAC, De Paoli HC, Weston DJ, Cottingham R, Hartwell J, Davis SC, Silvera K, Ming R, Schlauch KA, Abraham P, Stewart JR, Guo H-B, Albion RA, Ha J, Lim SD, Wone BWM, Yim WC, Garcia T, Mayer JA, Petereit J, Nair SS, Casey E, Hettich RL, Ceusters J, Ranjan P, Palla KJ, Yin H, Reyes-García C, Andrade JL, Freschi L, Beltran JD, Dever LV, Boxall SF, Waller J, Davies J, Bupphada P, Kadu N, Winter K, Sage 2015, New Phytologist. 207: 491–504.
Engineering Crassulacean acid metabolism to improve water-use efficiency. Borland AM, Hartwell J, Weston D, Schlauch KA, Tschaplinski TJ, Tuskan GA, Yang X, Cushman JC. 2014, Trends Plant Sci. 19: 327-338. dx.doi.org/10.1016/j.tplants.2014.01.006. Video abstract for this article is available at: http://www.cell.com/trends/plant-science/home
Climate-resilient agroforestry: Physiological responses to climate change and engineering of crassulacean acid metabolism (CAM) as a mitigation strategy. Borland AM, Wullschleger SD, Wilson DJ, Tuskan GA, Hartwell J, Yang X, Cushman JC. 2014, Plant, Cell and Environment. 38: 1833-1849.
Interview with John C. Cushman. Cushman JC. 2014, Trends Plant Sci. 19: 274-275. dx.doi.org/10.1016/j.tplants.2014.03.003
Synthetic biology as it relates to CAM photosynthesis: Challenges and opportunities. DePaoli HC, Borland AM, Tuskan GA, Cushman JC, Yang X. 2014, J. Exp. Bot. 65:3381-3393.
Multiple isoforms of phophoenolpyruvate carboxylase in the Orchidacea (subtribe Oncidiinae): implications for the evolution of crassulacean acid metabolism. Silvera K, Winter K, Rodgriguez BL, Albion, RL, Cushman JC. 2014, J. Exp. Bot. 65:3623-3636. doi: 10.1093/jxb/eru234
Metabolic rates associated with membrane fatty acids in mice selected for increased maximal metabolic rate. Wone BW, Donovan ER, Cushman JC, Hayes JP. 2013, Comp. Biochem. Physiol. A Mol. Integr. Physiol. 165: 70-78. Doi: 10.1016/j.cbpa.2013.02.010.
Biomass production, nutritional, and mineral content of desiccation-sensitive and desiccation-tolerant species of Sporobolus under multiple irrigation regimes. Yobi A, Schlauch KA, Perryman B, Oliver MJ, Cushman JC. 2013, J. Agron. Crop Science. 199: 309-320.
Metabolomic profiling in Selaginella lepidophylla provides new insights in the mechanistic basis of desiccation tolerance. Yobi A, Wone BWM, Guo L, Alexander DC, Ryals JA, Oliver M, Cushman JC. 2013, Molec. Plant. 6: 369-385. DOI: 10.1093/mp/sss155.
A CAM- and starch-deficient mutant of the facultative CAM species Mesembryanthemum crystallinum reconciles sink demands by repartitioning carbon during acclimation to salinity Haider MS, Barnes JD, Cushman JC, and Borland AM 2012, Journal of Experimental Botany. 63: 1985-1996.
Generic recircumscriptions of Oncidiinae (Orchidaceae: Cymbidieae) based on maximum likelihood analysis of combined DNA datasets. Neubig KM, Whitten WM, Williams NH, Blanco MA, Endara L, Burleigh G, Silvera K, Cushman JC, Chase MW 2012, Botanical Journal of the Linnean Society. 168: 117-146.
Analysis of triacylglycerols and free fatty acids in algae using ultra-high-pressure liquid chromatography mass spectrometry. Samburova V, Lemos MS, Hiibel SR, Hoekman SK, Cushman JC, Zielinska B. 2012, J. Am. Oil Chem. Soc. 90: 53-64. DOI 10.1007/s11746-012-2138-3.
The Vitis vinifera C-repeat binding protein 4 (VvCBF4) transcriptional factor enhances freezing tolerance in wine grape. Tillett RL, Wheatley MD, Tattersall EAR, Schlauch KA, Cramer, GR, Cushman JC 2012, Plant Biotechnology Journal. 10:105-124
Untargeted global metabolomic profiling reveals novel biochemical differences critical for desiccation tolerance within a sister group comparison of Selaginella species. Yobi A, Wone BWM, Guo L, Alexander DC, Ryals JA, Oliver M, Cushman JC. 2012, The Plant J. 72: 983-999.
Calcium-dependent protein kinases from Arabidopsis show substrate specificity differences in an analysis of 102 substrates. Curran A, Chang I-F, Chang C-L, Garg S, Rodriguez Milla M, Barron YD, Li Y, Romanowsky SD, Cushman JC, Gribskov M, Peck SC, Harmon AC, Harper JF. 2011, Frontiers in Plant Biology. 2: 1-15.
Water deficit increases stilbene metabolism in Cabernet Sauvignon berries. Deluc LG, Decendit A, Papastomoulis Y, Mérillon J-M, Cushman JC, Cramer GR. 2011, J. Agric. Food Chem. 59: 289-297.
A sister group metabolomic contrast using untargeted global metabolomic analysis delineates the biochemical regulation underlying desiccation tolerance in Sporobolus stapfianus. Oliver MJ, Guo L, Alexander DC, Ryals JA, Wone BWM, Cushman JC. 2011, The Plant Cell. 23: 1231-1248.
The unicellular green alga Dunaliella salina Teod. as a model for abiotic stress tolerance: Genetic advances and future prospects. Ramos AA, Polle J, Tran D, Cushman JC, Jin ES, Varela JC. 2011, Algae. 26:3-20.
mRNA expression profiling of abiotic stress responses in leaf and berry tissue of wine grape (Vitis vinifera) using expressed sequence tags. Tillett RL, Albion RL, Schlauch KA, Cramer GR, and Cushman JC. 2011, BMC Plant Biology. 11:86.
The microbial opsin family of optogenetic tools. Zhang F, Vierock J, Yizhar O, Fenno LE, Tsunoda S, Kianianmomeni A, Prigge M, Berndt A, Cushman JC, Polle J, Magnuson J, Hegemann P, Deisseroth K. 2011, Cell. 147:1446-1457.
Expressed Sequence Tag (EST) profiling in salinity shocked Dunaliella salina reveals high expression of protein synthetic apparatus components. Alkayal MF, Albion RL, Tillett RL, Mark S. Lemos, Hernandez-Gomez L, Cushman JC. 2010, Plant Science. 179:437-449.
Dehydration Tolerance in Plants. Oliver MJ, Cushman JC, Koster KL 2010, Methods in Molecular Biology: Plant Stress Tolerance. 639: 3-24.
Evolution along the Crassulacan acid metabolism continuum. Silvera K, Neubig KM, Whitten WM, Williams NH, Winter K, Cushman JC. 2010, Functional Plant Biology (Cover article) 37: 995-1010
Incidence of Crassulacean acid metabolism in the Orchidaceae derived from carbon isotope ratios: a checklist of the flora of Panama and Costa Rica. Silvera K, Santiago LS, Cushman JC, Winter K 2010, Botanical Journal of the Linnean Society. 163: 194-222.
The Dunaliella salina organelle genomes: large sequences, inflated with intronic and intergenic DNA. Smith DR, Lee RW, Cushman JC, Magnuson JK, Tran D, Polle JEW 2010, BMC Plant Biology. 10:83.
Crassulacean acid metabolism alleviates reactive oxygen species in the facultative CAM plant, the common ice plant, Mesembryanthemum crystallinum. Sunagawa H, Agarie S, Cushman JC. 2010, Plant Production Science. 13: 256-260.
Proteomic profiling of tandem affinity purified 14-3-3 protein complexes in Arabidopsis thaliana. Chang IF, Curran A, Woolsey R, Quilici D, Cushman JC, Mittler R, Harmon A, Harper J. 2009, Proteomics 9:2967-2985.
Water deficit alters differentially metabolic pathways affecting important flavor and quality traits in grape berries of Cabernet Sauvignon and Chardonnay. Deluc LG, Quilici DR, Decendit A, Grimplet J, Wheatley MD, Schlauch KA, Mérillon J-M, Cushman JC, Cramer GR. 2009, BMC Genomics. 10:212.
Proteomic and selected metabololite analysis of grape berry tissues under well-watered and water-deficit stress conditions. Grimplet J, Ben Jouira H, Wheatley M, Deluc L, Cramer GR, Cushman JC. 2009, Proteomics. 9:2503-2528.
Crassulacean acid metabolism and epiphytism linked to adaptive radiations in the Orchidaceae. Silvera K, Santiago LS, Cushman JC, Winter K. 2009, Plant Physiol. 149:1838-1847.
Identification of proteins that interact with catalytically active calcium-dependent protein kinases from Arabidopsis. Uno Y, Rodriguez Milla MA, Maher E, Cushman JC. 2009, Mol. Gen. Genet. 281:375-390.
Lay or Popular Publications
Water in arid climates – economic opportunities for agriculture. Cushman JC. 2012, Reno Gazette-Journal (Business). March 19, 2012.