SELECTED PUBLICATIONS

* Equal contribution or  corresponding author from Dassanayake lab;  Lab members in bold 

P. PanthaD-H. Oh, David Longstreth, M. Dassanayake† (2021), Living with high potassium: an asset or a hindrance. Preprint available on bioRxiv. DOI: doi: https://doi.org/10.1101/2021.07.01.450778

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G. Eshel, N. Duppen, G. Wang, D-H. Oh, Y. Kazachkova, P. Herzyk, A. Amtmann, M. Gordon, V. Chalifa-Caspi, M. Arland Oscar, S. Bar-David, A. Marshall-Colon, M. Dassanayake, S. Barak (2021), Positive selection and heat-response transcriptomes reveal adaptive features of the Arabidopsis desert relative, Anastatica hierochunticaPreprint available on bioRxiv. DOI: https://doi.org/10.1101/2021.05.23.445339

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D-H. Oh†, K.P. Kowalski, Q.N. Quach, C.Wijesinghege, P.Tanford, M. Dassanayake† and K.Clay (2021), Novel genome characteristics contribute to the invasiveness of Phragmites australis (common reed). Preprint available on bioRxiv. DOI: https://doi.org/10.1101/2021.04.19.440155

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G. Wang,  S. F. DiTusa, D-H. Oh, A. D. Herrmann, D.  G. Mendoza-Cozatl, M. A. O'Neill, A. P. Smith, M. Dassanayake† (2021), Cross species multi-omics reveals cell wall sequestration and elevated global transcription as mechanisms of boron tolerance in plants. New Phytologist. DOI: https://doi.org/10.1111/nph.17295

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P. Pantha, S. Chalivendra, D-H. Oh, B. D. Elderd, M. Dassanayake† (2021), A tale of two transcriptomic responses in agricultural pests via host defenses and viral replication. International Journal of Molecular Sciences. DOI: https://doi.org/10.3390/ijms22073568

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L. Santiago-Rosario, K. Harms, B. Elderd, P. Hart, M Dassanayake (2021), No escape: the influence of substrate sodium on plant growth and tissue sodium responses. Preprint available on Authorea. DOI: 10.22541/au.162081817.72637329/v1

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Y. Sun, D-H. Oh*, L Duan, P. Ramachandran, A. Ramirez, A. Bartlett, M. Dassanayake, J. R Dinneny (2020), Divergence in a stress-associated gene regulatory network underlies differential growth control in the Brassicaceae family. Preprint available 0n bioRxiv DOI: https://doi.org/10.1101/2020.11.18.349449

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P. Pantha, M. Dassanayake† (2020), Living with salt. The Innovation. DOI:https://doi.org/10.1016/j.xinn.2020.100050

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P. S Young, J.-H. Choi, D.-H. Oh, J. C. Johnson, M. Dassanayake, D.-H. Jeong, and M.-H. Oh (2020) Genome-wide analysis of brassinosteroid responsive small RNAs in Arabidopsis thaliana. Genes & Genomics. DOI: https://doi.org/10.1007/s13258-020-00964-2

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G. Wang, D-H. Oh, M. Dassanayake† (2020), GOMCL: a toolkit to cluster, evaluate, and extract non-redundant associations of Gene Ontology-based functions. BMC Bioinformatics. DOI: https://doi.org/10.1186/s12859-020-3447-4

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M.V. Cruz, G.M. Mori, D-H. OhM. Dassanayake, M.I. Zucchi, R.S. Oliveira, A.P. Souza# (2020), Molecular responses to freshwater limitation in the mangrove tree Avicennia germinans (Acanthaceae). Molecular Ecology, 29:344-362, DOI: 10.1111/mec.15330.

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M. Foroozani, S. Zahraeifard, D-H. Oh, G. Wang, M. Dassanayake, A. P. Smith (2020), Low-Phosphate Chromatin Dynamics Predict a Cell Wall Remodeling Network in Rice Shoots. Plant Physiology, 182:1494-1509, DOI: https://doi.org/10.1104/pp.19.01153.

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M.V. Cruz, G.M. Mori, C.S. Müller, C.C. Silva, D-H. OhM. Dassanayake, M.I. Zucchi, R.S. Oliveira, A.P.  Souza (2019), Local adaptation of a dominant coastal tree to freshwater availability and solar radiation suggested by genomic and ecophysiological approaches. Scientific Reports, 9.1:1-15. doi.org/10.1038/s41598-019-56469-w.

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M. Vithanage, P. Kumarathilaka, C. Oze, S. Karunatilake, M. Seneviratne, Z. Hseu, V. Gunarathne, M. Dassanayake, Y. Ok, J. Rinklebe (2019), Occurrence and cycling of trace elements in ultramafic soils and their impacts on human health: A critical review. Environment International, 131:104974-104993; doi.org/10.1016/j.envint.2019.104974

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G. Wang, P. Pantha, K-N. Tran, D-H. Oh, and M. Dassanayake (2019), Plant Growth and Agrobacterium Mediated Floral-dip Transformation of the Extremophyte Schrenkiella parvula. J. Vis. Exp. (143), e58544, doi:10.3791/58544.

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D-H. Oh† and M Dassanayake† (2018), Landscape of gene transposition-duplication within the Brassicaceae family. DNA Research. doi: 10.1093/dnares/dsy035

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Y. Kazachkova, G. Eshel, PPantha, J. Cheeseman, M. Dassanayake†, S. Barak (2018), Halophytism: What Have We Learnt From Arabidopsis Relative Model Systems?. Plant physiology, pp-00863. doi: 10.1104/pp.18.00863

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B. Barkla, T. Rhodes, K-N. Tran, C. Wijesinghege, J. Larkin, M. Dassanayake (2018), Making epidermal bladder cells bigger: Developmental- and salinity-induced endopolyploidy in a model halophyte. Plant Physiology, pp.00033.2018; doi: 10.1104/pp.18.00033

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L. Fan, G. Wang*, W. Hu, P. Pantha, K-N. Tran, H Zhang, L. An, M. Dassanayake†, Q. Qiu (2018), Transcriptomic view of survival during early seedling growth of the extremophyte Haloxylon ammodendron. Plant Physiology and Biochemistry. 132, pp475-489. doi.org/10.1016/j.plaphy.2018.09.024

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S. Zahraeifard, M. Foroozani, A. Sepehri, D-H. Oh, G. WangV. Mangu, B. Chen, N. Baisakh, M. Dassanayake, A. Smith (2018), Rice H2A.Z negatively regulates genes responsive to nutrient starvation but promotes expression of key housekeeping genes. Journal of Experimental Botany, pp-4907–4919, doi: 10.1093/jxb/ery244

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Q. Zhang, D-H. Oh, S. DiTusa, M. Ramana Rao, N. Baisakh, M. Dassanayake†, A. Smith (2018), Rice nucleosome patterns undergo remodeling coincident with stress-induced gene expression. BMC Genomics. 19:97. do:10.1186/s12864-017-4397-8 Link

 

S. Shrestha, D-H. Oh, J. McKowen, M. Dassanayake, C. Hart (2018), 4C-seq characterization of Drosophila BEAF binding regions provides evidence for highly variable long-distance interactions between active chromatin. PLoS ONE, doi: 10.1371/journal.pone.0203843

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A. Gupta, R. Bedre, S. Thapa, A. Sabrin, G. Wang, M. Dassanayake, and A. Grove (2017),

Global Awakening of Cryptic Biosynthetic Gene Clusters in Burkholderia thailandensis. ACS Chemical Biology. doi: 10.1021/acschembio.7b00681

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M. Dassanayake† and J. Larkin (2017), Making plants break a sweat: the structure, function, and evolution of plant salt glands. Frontiers in Plant Science. 8:406. doi: 10.3389/fpls.2017.00406.

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J. Park, D. Oh, M. Dassanayake, K. T. Nguyen, J. Ogas, G. Choi, T. P. Sun TP (2017), Gibberellin signaling requires chromatin remodeler PICKLE to promote vegetative growth and phase transitions. Plant Physiology. pp.01471. doi: 10.1104/pp.16.01471.

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B. Lambert, M. Dassanayake†, D. Oh, S. Garrett, S.Y. Lee, and G. S. Pettis (2016), A novel phase variant of the cholera pathogen shows stress-adaptive cryptic transcriptomic signatures. BMC Genomics. 17:914 doi: 10.1186/s12864-016-3233-x

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R. DiMario, J. Quebedeaux, D. Longstreth, M. Dassanayake, M. Hartman, and J. Moroney (2016),The cytoplasmic carbonic anhydrases βCA2 and βCA4 are required for optimal plant growth at low CO2. Plant Physiology, 171(1):280-93. doi: 10. 1104/ pp. 15. 01990

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N. Kumar, H. Harashima, S. Kalve, B. Sizani, K. Wang, R. Dale, J. Bramsiepe, L. Bertrand, M. Johnson, C. Faulk, L. Simmons, M. Churchman, K. Sugimoto, N. Kato, M. Dassanayake, G. Beemster, A. Schnittger, and J. Larkin (2015), Functional conservation in the SIAMESE-RELATED family of cyclin-dependent kinase inhibitors in land plants. Plant Cell, 27: 11 3065-3080. doi: http: 10.1105/tpc.15.00489

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D-H. Oh, Barkla BJ, R Vera-estrella, O Pantoja, SY Lee, HJ Bohnert, M. Dassanayake† (2015) Cell type-specific responses to salinity – the epidermal bladder cell transcriptome of Mesembryanthemum crystallinum. New Phytologist 207: 627–644. doi: 10.1111/nph.13414

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Q. Wang, C. Nowak, A. Korde, D-H. Oh, M. Dassanayake, and D. Donze (2014), Compromised RNA Polymerase III complex assembly leads to local alterations of intergenic RNA Polymerase II transcription in Saccharomyces cerevisiae, BMC Biology, 12:89. doi:10.1186/s12915-014-0089-x

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D-H. Oh*, H. Hong*, D. Yun, S.Y. Lee, H. Bohnert, M. Dassanayake(2014), Genome structures and transcriptomes signify niche adaptation for the multi-ion tolerant extremophyte Schrenkiella parvula, Plant Physiology 164-4. doi: 10. 1104/ pp. 113. 233551.

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G. Batelli, D-H. Oh, M.P. D’Urzo, F. Orsini, M. Dassanayake, J.K. Zhu, H.J. Bohnert, R.A. Bressan, A. Maggio, (2014). Using Arabidopsis-related model species (ARMS): growth, genetic transformation, and comparative genomics. Methods in Molecular Biology, 1062, 27–51. doi:10.1007/978-1-62703-580-4_2

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D-H. Oh, M. Dassanayake, H. Hong, S. George, S. Paeng, A. Kropornika, S. Lee, R. A. Bressan, D. J. Yun, J. M. Cheeseman, H. J. Bohnert (2013), “Genomics of Plant Abiotic Stress Tolerance” in: Plant Abiotic Stress, 2nd edition, eds. M. Jenks, P. M. Hasegawa. ISBN: 978-1-118-41217-6.

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R. A. Bressan, H. C. Park, F. Orsini, D-H. Oh, M. Dassanayake, G. Inan, D. Yun, H. J. Bohnert, A. Maggio (2013), "Biotechnology for mechanisms that counteract salt stress in extremophile species: a genome-based view", Plant Biotechnology Reports, 7-1, pp 27-37

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Published before 2013 when Dassanayake was in the labs of Drs. Hans Bohnert or John Cheeseman 

 

H. Wu*, Z. Zhang*, J. Wang*, D-H. Oh*, M. Dassanayake*, B. Liu*, Q. Huang*, H. Sun, R. Xia, Y. Wu, Y. Wang, Z. Yang, Y. Liu, W. Zhang, H. Zhang, J. Chu, C. Yan, S. Fang, J. Zhang, Y. Wang, F. Zhan, G. Wang, S. Lee, J. Cheeseman, B. Yang,B. Li, J. Min, L. Yang, J. Wang, C. Chu, S. Chen, H. Bohnert, J. Zhu, X. Wang, Q. Xie, (2012), Gene Complement and Small RNA Complexity Support the Abiotic Stress Tolerance Phenotype of Thellungiella salsuginea – a Genome-based View. Proceedings of the National Academy of Sciences, 109(30), pp12219-24.
 
D-H. Oh*, M. Dassanayake*, H. J. Bohnert, and J. M. Cheeseman. (2012) Life in the extreme: Lessons from the Genome. Genome Biology, 13(3), pp241-249.
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M. Dassanayake*, D-H. Oh*, J. Haas, A. Hernandez, H. Hong, S. Ali, D. Yun, R. Bressan, J. Zhu, J. M. Cheeseman, and H. J. Bohnert. (2011), The Genome of an extremophile Arabidopsis-relative: Thellungiella parvula. Nature Genetics, 43, pp913–918.\

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M. Dassanayake, D-H. Oh, D. Yun, R. Bressan, J. M. Cheeseman, H. J. Bohnert. (2011) “The Scope of Things to come - new Paradigms in Biotechnology” in: Plant Biotechnology and Agriculture: Prospects for the 21st Century, eds. A. Altman and M. Hasegawa, Elsevier. ISBN: 978-0-12-381466-1.

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M. Dassanayake, D-H. Oh, H. Hong, H. J. Bohnert, and J. M. Cheeseman (2011), Transcription strength and halophytic lifestyle, Trends in plant science, 16(1), pp1-3.
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D-H. Oh*, M. Dassanayake*, J. Haas, A. Kropornika, C. Wright, M. Urzo, H. Hong, S. Ali, A. Hernandez, G. Lambert, G. Inan, D. Galbraith, R. Bressan, D. Yun, J. Zhu, J. Cheeseman, H. Bohnert. (2010), Genome Structures and Halophyte-Specific Gene Expression of the Extremophile Thellungiella parvula in Comparison with Thellungiella salsuginea (Thellungiella halophila) and Arabidopsis, Plant Physiology, 154, pp1040-1052.

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M. Dassanayake, J. Haas, H. J. Bohnert, J. M. Cheeseman (2010), Comparative Transcriptomics for Mangrove Species: An Expanding Resource, Functional and Integrative Genomics, 10(4), pp523-32.

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M. Dassanayake, J. Haas, H. J. Bohnert, J. M. Cheeseman (2009), Shedding Light on an Extremophile Lifestyle through Transcriptomics, New Phytologist, 183(3), pp764-775.

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