Publications

1. Wahrenburg Z, Benesch E, Lowe C, et al. Transcriptional regulation of wound suberin deposition in potato cultivars with differential wound healing capacity. The Plant Journal. 2021;107(1):77-99. doi:10.1111/tpj.15275

2. Morales-Briones DF, Kadereit G, Tefarikis DT, et al. Disentangling Sources of Gene Tree Discordance in Phylogenomic Data Sets: Testing Ancient Hybridizations in Amaranthaceae s.l. Systematic Biology. 2021;70(2):219-235. doi:10.1093/sysbio/syaa066

3. Guo Q, Liu L, Yim WC, Cushman JC, Barkla BJ. Membrane Profiling by Free Flow Electrophoresis and SWATH-MS to Characterize Subcellular Compartment Proteomes in Mesembryanthemum crystallinum. International Journal of Molecular Sciences. 2021;22(9):5020. doi:10.3390/ijms22095020

4. Blair BB, Yim WC, Cushman JC. Characterization of a microbial consortium with potential for biological degradation of cactus pear biomass for biofuel production. Heliyon. 2021;7(8):e07854. doi:10.1016/j.heliyon.2021.e07854

5. Yuan G, Hassan MM, Liu D, et al. Biosystems Design to Accelerate C3-to-CAM Progression. BioDesign Research. 2020;2020. doi:10.34133/2020/3686791

6. Sheehan H, Feng T, Walker-Hale N, et al. Evolution of l-DOPA 4,5-dioxygenase activity allows for recurrent specialisation to betalain pigmentation in Caryophyllales. New Phytologist. 2020;227(3):914-929. doi:10.1111/nph.16089

7. Sharma A, Pham MN, Reyes JB, et al. Cas9-Mediated Gene-Editing in the Black-Legged Tick, Ixodes Scapularis, by Embryo Injection and ReMOT Control. Social Science Research Network; 2020. doi:10.2139/ssrn.3691041

8. Polle JEW, Calhoun S, McKie-Krisberg Z, et al. Genomic adaptations of the green alga Dunaliella salina to life under high salinity. Algal Research. 2020;50:101990. doi:10.1016/j.algal.2020.101990

9. Morales-Briones DF, Kadereit G, Tefarikis DT, et al. Disentangling Sources of Gene Tree Discordance in Phylogenomic Data Sets: Testing Ancient Hybridizations in Amaranthaceae s.l. Systematic Biology. 2020;(syaa066). doi:10.1093/sysbio/syaa066

10. Lim SD, Mayer JA, Yim WC, Cushman JC. Plant tissue succulence engineering improves water-use efficiency, water-deficit stress attenuation and salinity tolerance in Arabidopsis. The Plant Journal. 2020;103(3):1049-1072. doi:https://doi.org/10.1111/tpj.14783

11. Wone BWM, Yim WC, Schutz H, Meek TH, Garland T. Mitochondrial haplotypes are not associated with mice selectively bred for high voluntary wheel running. Mitochondrion. 2019;46:134-139. doi:10.1016/j.mito.2018.04.002

12. Lim SD, Lee S, Choi WG, Yim WC, Cushman JC. Laying the Foundation for Crassulacean Acid Metabolism (CAM) Biodesign: Expression of the C4 Metabolism Cycle Genes of CAM in Arabidopsis. Front Plant Sci. 2019;10. doi:10.3389/fpls.2019.00101

13. Felker P, Bunch R, Russo G, et al. Biology and chemistry of an Umbravirus like 2989 bp single stranded RNA as a possible causal agent for Opuntia stunting disease (engrosamiento de cladodios) - A Review. JPACD. 2019;(21):1-31.

14. Chen LY, VanBuren R, Paris M, et al. The bracteatus pineapple genome and domestication of clonally propagated crops. Nature Genetics. 2019;51(10):1549-1558. doi:10.1038/s41588-019-0506-8

15. Amin AB, Rathnayake KN, Yim WC, et al. Crassulacean Acid Metabolism Abiotic Stress-Responsive Transcription Factors: a Potential Genetic Engineering Approach for Improving Crop Tolerance to Abiotic Stress. Front Plant Sci. 2019;10:129. doi:10.3389/fpls.2019.00129

16. Lim SD, Yim WC, Liu D, Hu R, Yang X, Cushman JC. A Vitis vinifera basic helix-loop-helix transcription factor enhances plant cell size, vegetative biomass and reproductive yield. Plant Biotechnol J. Published online March 9, 2018. doi:10.1111/pbi.12898

17. Busta L, Yim WC, LaBrant EW, et al. Identification of Genes Encoding Enzymes Catalyzing the Early Steps of Carrot Polyacetylene Biosynthesis. Plant Physiol. 2018;178(4):1507-1521. doi:10.1104/pp.18.01195

18. Yobi A, Schlauch KA, Tillett RL, et al. Sporobolus stapfianus: Insights into desiccation tolerance in the resurrection grasses from linking transcriptomics to metabolomics. BMC Plant Biology. 2017;17:67. doi:10.1186/s12870-017-1013-7

19. Yim WC, Cushman JC. Divide and Conquer (DC) BLAST: fast and easy BLAST execution within HPC environments. PeerJ. 2017;5:e3486. doi:10.7717/peerj.3486

20. Yerramsetty P, Agar EM, Yim WC, Cushman JC, Berry JO. An rbcL mRNA-binding protein is associated with C3 to C4 evolution and light-induced production of Rubisco in Flaveria. J Exp Bot. Published online 2017. doi:10.1093/jxb/erx264

21. Yang X, Hu R, Yin H, et al. The Kalanchoë genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism. Nature Communications. 2017;8(1):1899. doi:10.1038/s41467-017-01491-7

22. Wai CM, VanBuren R, Zhang J, et al. Temporal and spatial transcriptomic and microRNA dynamics of CAM photosynthesis in pineapple. Plant J. Published online July 3, 2017. doi:10.1111/tpj.13630

23. Song K, Yim WC, Lee and BM. Expression of Heat Shock Proteins by Heat Stress in Soybean. Plant Breeding and Biotechnology. 2017;5(4):344-353. doi:10.9787/PBB.2017.5.4.344

24. Polle JEW, Barry K, Cushman J, et al. Draft Nuclear Genome Sequence of the Halophilic and Beta-Carotene-Accumulating Green Alga Dunaliella salina Strain CCAP19/18. Genome Announc. 2017;5(43). doi:10.1128/genomeA.01105-17

25. Chiang CP, Yim WC, Sun YH, et al. Identification of Ice Plant (Mesembryanthemum crystallinum L.) MicroRNAs Using RNA-Seq and Their Putative Roles in High Salinity Responses in Seedlings. Front Plant Sci. 2016;7:1143. doi:10.3389/fpls.2016.01143

26. Yang X, Cushman JC, Borland AM, et al. A roadmap for research on crassulacean acid metabolism (CAM) to enhance sustainable food and bioenergy production in a hotter, drier world. New Phytol. 2015;207(3):491-504. doi:10.1111/nph.13393

27. Song K, Kim JH, Yoon GY, et al. Distribution of Genetic Variants in Korean Soybeans. The Korean Journal of Crop Science. 2015;60(2):224-230. doi:10.7740/kjcs.2015.60.2.224

28. Ming R, VanBuren R, Wai CM, et al. The pineapple genome and the evolution of CAM photosynthesis. Nat Genet. 2015;advance online publication. doi:10.1038/ng.3435

29. Moon JC, Yim WC, Lim SD, Song K, Lee BM. Differentially expressed genes and in silico analysis in response to ozone (O 3 ) stress of soybean leaves. Australian Journal of Crop Science. Published online 2014. Accessed June 8, 2016. https://www.researchgate.net/publication/280570154_Differentially_expressed_genes_and_in_silico_analysis_in_response_to_ozone_O_3_stress_of_soybean_leaves

30. Yim WC, Yu Y, Song K, Jang CS, Lee BM. PLANEX: the plant co-expression database. BMC Plant Biology. 2013;13:83. doi:10.1186/1471-2229-13-83

31. Song K, Yim WC, Jung GH, Kim SL, Kwon YU, Lee BM. Relationship of Transformation Efficiency and Metabolites Induced in Korean Soybean Cotyledons Treated with Sonication. KOREAN JOURNAL OF CROP SCIENCE. 2013;58(2):119-127. doi:10.7740/kjcs.2013.58.2.119

32. Moon JC, Lim SD, Yim WC, Song K, Lee and BM. Characterization of Expressed Genes Under Ozone Stress in Soybean. Plant Breeding and Biotechnology. 2013;1(3):270-276. doi:10.9787/PBB.2013.1.3.270

33. Yim WC, Lee BM, Kwon Y. Cross-experimental analysis of microarray gene expression datasets for in silico risk assessment of TiO2 nano-particles. Mol Cell Toxicol. 2012;8(3):229-239. doi:10.1007/s13273-012-0028-2

34. Moon JC, Yim WC, Lee JE, Kwon YU, Song K, Lee BM. Transcriptome analysis in response to UV-B stress in soybean [Glycine max (L.) Merr.]. Australian Journal of Crop Science. Published online July 1, 2012. Accessed June 8, 2016. https://www.researchgate.net/publication/236892562_Transcriptome_analysis_in_response_to_UV-B_stress_in_soybean_Glycine_max_L_Merr

35. Kim DS, Lee KJ, Yim WC, et al. Transcriptional network analysis of the tryptophan-accumulating rice mutant during grain filling. Mol Genet Genomics. 2012;287(9):699-709. doi:10.1007/s00438-012-0712-x

36. Yim WC, Min K, Jung D, Lee BM, Kwon Y. Cross experimental analysis of microarray gene expression data from volatile organic compounds treated targets. Mol Cell Toxicol. 2011;7(3):233-241. doi:10.1007/s13273-011-0029-6

37. Yim WC, Keum C, Kim S, Jang CS, Lee BM. Identification of the Housekeeping Genes Using Cross Experiments via in silico Analysis. Korean Journal of Crop Science. Published online 2010. Accessed June 8, 2016. https://www.researchgate.net/publication/280570270_Identification_of_the_Housekeeping_Genes_Using_Cross_Experiments_via_in_silico_Analysis

38. Yim WC, Keum C, Kim S, Cho Y, Lee BM, Kwon Y. Identification of novel 17\-estradiol (E2) target genes using cross-experiment gene expression datasets. Toxicol Environ Health Sci. 2010;2(1):25-38. doi:10.1007/BF03216511

39. Wang HW, Kwon HJ, Yim WC, et al. Expressional diversity of wheat nsLTP genes: evidence of subfunctionalization via cis-regulatory divergence. Genetica. 2010;138(8):843-852. doi:10.1007/s10709-010-9467-7

40. Yim WC, Lee BM, Jang CS. Expression diversity and evolutionary dynamics of rice duplicate genes. Mol Genet Genomics. 2009;281(5):483-493. doi:10.1007/s00438-009-0425-y

41. Yim WC, Kim DS, Moon JC, Jang CS, Lee BM. A Genome-wide Approach for Functional Analysis Using Rice Mutant. Korean Journal of Crop Science. Published online 2009. Accessed June 8, 2016. https://www.researchgate.net/publication/236892554_A_Genome-wide_Approach_for_Functional_Analysis_Using_Rice_Mutant

42. Lim SD, Yim WC, Moon JC, Kim DS, Lee BM, Jang CS. A gene family encoding RING finger proteins in rice: their expansion, expression diversity, and co-expressed genes. Plant Mol Biol. 2009;72(4-5):369-380. doi:10.1007/s11103-009-9576-9

43. Jang CS, Yim WC, Moon JC, et al. Evolution of non-specific lipid transfer protein (nsLTP) genes in the Poaceae family: their duplication and diversity. Mol Genet Genomics. 2008;279(5):481-497. doi:10.1007/s00438-008-0327-4

44. Yim WC, Kang MS, Kwon YU, et al. Evaluation of genetic diversity among Korean wheat using RAPD and ISSR analysis /. Korean Journal of Breeding Science. 2007;39(3):309-315.

45. Yim WC, Jang CS. Discovery of gene regulatory networks via in silico analysis and their application in abiotic stress responses. Korean Journal of Breeding Science. Published online 2007. Accessed June 8, 2016. http://agris.fao.org/agris-search/search.do?recordID=KR2008001028

46. Jang CS, Jung JH, Yim WC, Lee BM, Kim YWS and W. Divergence of Genes Encoding Non-specific Lipid Transfer Proteins in the Poaceae Family. Molecules and Cells. 2007;24(2):215-223.