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Publications

2022 | 2021 | 2020  (* denotes CBC collaboration)

2022 Publications

Gent J, Higgins K, Swentowsky K, Fu F, Zeng Y, Kim D, Kelly Dawe R, Springer N, Anderson S. (2022, Oct) The maize gene maternal derepression of r1 encodes a DNA glycosylase that demethylates DNA and reduces siRNA expression in the endosperm. The Plant Cell, 34(10):  3685–3701.


Klein S, Anderson S. (2022) The evolution and function of transposons in epigenetic regulation in response to the environment. Current Opinion in Plant Biology, 69: 102277. 


Lindberg S, Bain C, Selfa T. (2023) Regulating gene editing in agriculture and food in the European Union: Disentangling expectations and path dependencies. Sociologia Ruralis, 1- 22. 


Pu Y, Bassham DC. (2023) Detection of Autophagy in Plants by Fluorescence Microscopy. Plant Proteostasis, Methods in Molecular Biology: 2581.


*Montes C, Wang P, Liao C-Y, Nolan TM, Song G, Clark NM, Elmore JM, Guo H, Bassham DC, Yin Y, Walley JW. (2022) Integration of multi-omics data reveals interplay between brassinosteroid and Target of Rapamycin Complex signaling in Arabidopsis. New Phytol, 236: 893-910. 


*Liao C-Y, Pu Y, Nolan TM, Montes C, Guo H, Walley JW, Yin Y, Bassham DC. (2023) Brassinosteroids modulate autophagy through phosphorylation of RAPTOR1B by the GSK3-like kinase BIN2 in Arabidopsis. Autophagy, 19(4): 1293-1310.


Bassham, DC. (2022) Plant autophagy and intracellular trafficking. FEBS Letters, 596: 2089-2092. 


Liao, C-Y, Wang, P, Yin, Y and Bassham, DC. (2022) Interactions between autophagy and phytohormone signaling pathways in plants. FEBS Letters, 596: 2198-2214. 


*Wang P, Clark NM, Nolan TM, Song G, Bartz PM, Liao C-Y, Montes-Serey C, Katz E, Polko JK, Kieber JJ, Kliebenstein DJ, Bassham DC, Walley JW, Yin Y, Guo H. (2022 July) Integrated omics reveal novel functions and underlying mechanisms of the receptor kinase FERONIA in Arabidopsis thaliana. The Plant Cell, 34(7): 2594–2614. 


Damián Balfagón D, Gómez-Cadenas A, Rambla JL, Granell A, de Ollas C, Bassham DC, Mittler R, Zandalinas SI. (2022 Apr) γ-Aminobutyric acid plays a key role in plant acclimation to a combination of high light and heat stress. Plant Physiology, 188(4): 2026–2038.


Mugume Y, Ding G, Dueñas ME, Liu M, Lee Y-J, Nikolau BJ, Bassham DC. (2022). Complex Changes in Membrane Lipids Associated with the Modification of Autophagy in Arabidopsis. Metabolites, 12(90). 


*Wang P, Clark NM, Nolan TM, Song G, Whitham OG, Liao C-Y, Montes-Serey C, Bassham DC, Walley JW, Yin Y and Guo H (2022). FERONIA functions through Target of Rapamycin (TOR) to negatively regulate autophagy. Plant Sci.. 13: 961096. 


Zhang L, Bassham DC and Pittendrigh BR. (2022). Plant ER Stress and the UPR Signaling Pathways. Plant Sci., 13: 968353. 


Tang J, Bassham DC. (2022) Autophagy during drought: function, regulation, and potential application. Plant J, 109: 390-401.


Verma A, Lin M, Smith D, Walker JC, Hewezi T, Davis EL et al. (2022) A novel sugar beet cyst nematode effector 2D01 targets the Arabidopsis HAESA receptor-like kinase. Molecular Plant Pathology, 23: 1765– 1782. 


Siddique S, Radakovic ZS, Hiltl C, Baum T et al. (2022) The genome and lifestage-specific transcriptomes of a plant-parasitic nematode and its host reveal susceptibility genes involved in trans-kingdom synthesis of vitamin B5. Nature Communications, 13: 6190.


Siddique S, Coomer A, Baum T, Moroz-Williamson V. (2022). Recognition and Response in Plant-Nematode interactions. Annual Review of Phytopathology, 60:1, 143-162


Bennett M, Piya S, Baum TJ, Hewezi T. (2022 Aug). miR778 mediates gene expression, histone modification, and DNA methylation during cyst nematode parasitism. Plant Physiology, 189(4): 2432–2453. 


Feng X, Yu D and Bhattacharyya MK. (2022). Novel technologies for soybean improvement. Plant Sci., 13: 1047739. 


Ratnaparkhe, M.B. et al. (2022). Genomic Design for Biotic Stresses in Soybean. Genomic Designing for Biotic Stress Resistant Oilseed Crops. Springer, Cham.


Wang F, Das P, Pal N, Bhawal R, Zhang S, Bhattacharyya MK. (2022 Jul). A Phosphoproteomics Study of the Soybean root necrosis 1 Mutant Revealed Type II Metacaspases Involved in Cell Death Pathway. Front Plant Sci., 19(13): 882561. 


Moore VM, Schlautman B, Fei SZ, Roberts LM, Wolfe M, Ryan MR, Wells S, Lorenz AJ. (2022 Mar) Plant Breeding for Intercropping in Temperate Field Crop Systems: A Review. Front Plant Sci., 31(13): 843065. 


Bartel CA, Moore KJ, Fei S-Z, Lenssen AW, Hintz RL, Kling SM. (2022). Evaluating Strip and No-Till Maintenance of Perennial Groundcovers for Annual Grain Production. Crops, 2: 268–286. 


Bartel CA, Moore KJ, Fei S-Z, Lenssen, AW, Hintz RL, Kling SM. (2022) Evaluating Chemical Suppression Treatments to Alter the Red: Far-Red Ratio in Perennial Groundcovers for Maize Production. Agronomy, 12: 1854. 


Chen A, Fei S-Z, Lenssen AW, Moore KJ. (2022). Evaluating cool-season grass species as potential perennial groundcover for maize production. Agronomy Journal, 114: 2415– 2429. 


*Hao J, Ma C, Yin Y, Fei S-Z. (2022) A novel method of generating RNAi libraries for high-throughput gene function analysis of creeping bentgrass. Int Turfgrass Soc Res J. 14: 622– 631. 


Chen, A. A., Fei, S.-Z., Lenssen, A. W., & Moore, K. J. (2022). Photothermal controls of vegetative dormancy in Poa secunda. Grassland Research, 1( 1): 43– 52. 


*Xu N, Kang M, Zobrist JD, Wang K and Fei S-Z (2022). Genetic Transformation of Recalcitrant Upland Switchgrass Using Morphogenic Genes. Front. Plant Sci. 12:781565. 


Xiong J, Yang F, Yao X, Zhao Y, Wen Y, Lin H, Guo H, Yin Y, Zhang D (2022 Nov). The deubiquitinating enzymes UBP12 and UBP13 positively regulate recovery after carbon starvation by modulating BES1 stability in Arabidopsis thaliana. The Plant Cell, 34(11): 4516–4530. 


*Miller K, Thorpe C, Eggenberger AL, Lee K, Kang M, Liu F, Wang K, Jiang S. (2022). Identifying Factors that Determine Effectiveness of Delivery Agents in Biolistic Delivery Using a Library of Amine-Containing Molecules. ACS Applied Bio Materials, 5(10): 4972-4980. 


Austin AR, Etter SK, Valverde FJ, Kelley DR. (2022). Metabolomic analysis of maize pollen during storage. Cryobiology, 109: 51.


Draves MA, Muench RL, Lang MG, Kelley DR. (2022). Maize seedling growth and hormone response assays using the rolled towel method. Current Protocols, 2: e562. 


Cowling CL, Kelley DR. (2022). An unknown protein influences maize yield via sugar and auxin. New Phytol, 234: 337-339. 


*McReynolds M, Dash L, Montes C, Draves M, Lang M, Walley J, Kelley D. (2022). Temporal and spatial auxin responsive networks in maize primary roots. Quantitative Plant Biology, 3: E21. 


Sintanaparadee P, Dermail A, Lübberstedt T, Lertrat K, Chankaew S, Ruanjaichon V, Phakamas N, Suriharn K (2022). Seasonal Variation of Tropical Savanna Altered Agronomic Adaptation of Stock-6-Derived Inducer Lines. Plants, 11: 2902. 


McMillen MS, Mahama AA, Sibiya J, Lübberstedt T, Suza WP (2022). Improving drought tolerance in maize: Tools and techniques. Front. Genet., 13: 1001001. 


Tonello Zuffo L, Oliveira DeLima R, Thomas Lübberstedt T. (2022 Sept) Combining datasets for maize root seedling traits increases the power of GWAS and genomic prediction accuracies. Journal of Experimental Botany, 73(16): 5460–5473. 


Long Y, Liang T, Ma L, Liu P, Yang Y, Zhang X, Zou C, Zhang M, Ge F, Yuan G, Lübberstedt T, Pan G, Shen Y. (2022) Combined QTL Mapping across Multiple Environments and Co-Expression Network Analysis Identified Key Genes for Embryogenic Callus Induction from Immature Maize Embryos. Int. J. Mol. Sci., 23: 8786. 


Uliana Trentin H, Batîru G, Frei UK, Dutta S, Lübberstedt T. (2022). Investigating the Effect of the Interaction of Maize Inducer and Donor Backgrounds on Haploid Induction Rates. Plants, 11: 1527.


 *Santos IG, Verzegnazzi AL, Edwards J. et al. (2022). Usefulness of temperate-adapted maize lines developed by doubled haploid and single-seed descent methods. Theoretical and Applied Genetics, 135: 1829–1841. 


Ma L, Wang C, Hu Y et al. (2022). GWAS and transcriptome analysis reveal MADS26 involved in seed germination ability in maize. Theoretical and Applied Genetics, 135: 1717–1730. 


*Aboobucker, SI et al. (2022). Protocols for In Vivo Doubled Haploid (DH) Technology in Maize Breeding: From Haploid Inducer Development to Haploid Genome Doubling. Lambing, C. (eds) Plant Gametogenesis. Methods in Molecular Biology, 2484. 


*Trampe B, Batîru G, Pereira da Silva A, Frei UK, Lübberstedt T. (2022). QTL Mapping for Haploid Inducibility Using Genotyping by Sequencing in Maize. Plants, 11: 878. 


Han Q, Zh Q, Shen Y, Lee M, Lübberstedt, T, Zhao G. (2022). QTL Mapping Low-Temperature Germination Ability in the Maize IBM Syn10 DH Population. Plants, 11: 214. 


*Lappe RR, Elmore MG, Lozier ZR et al. (2022). Metagenomic identification of novel viruses of maize and teosinte in North America. BMC Genomics, 23: 767. 


Ilbağı H, Masonbrink R, Miller WA. (2022). The Complete Nucleotide Sequence of Barley Yellow Dwarf Virus-PAV from Wheat in Turkey. Microbiology Resource Announcements, 11(10). 


Miller WA, Lozier Z. (2022). Yellow Dwarf Viruses of Cereals: Taxonomy and Molecular Mechanisms. Annual Review of Phytopathology, 60:1, 121-141.


 Desmedt W, Kudjordjie EN, Chavan SN, Zhang J, Li R, Yang B, Nicolaisen M, Mori M, Peters RJ, Vanholme B, Vestergård M, Kyndt T. (2022). Rice diterpenoid phytoalexins are involved in defence against parasitic nematodes and shape rhizosphere nematode communities. New Phytol, 235: 1231-1245. 


Nett RS, Bender KS, Peters RJ. (2022). Production of the plant hormone gibberellin by rhizobia increases host legume nodule size. ISME J, 16: 1809–1817. 


Lemke C, Roach K, Ortega T, Tantillo DJ, Siegel JB, Peters RJ. (2022 Jun). Investigation of Acid–Base Catalysis in Halimadienyl Diphosphate Synthase Involved in Mycobacterium tuberculosis Virulence. ACS Bio & Med Chem Au, 2(5): 490-498. 


Wang J, Mao Y, Ma Y, Yang J, Jin B, Lin H, Tang J, Zeng W, Zhao Y, Gao W, Peters RJ, Guo J, Cui G, Huang L. (2022 May). Diterpene synthases from Leonurus japonicus elucidate epoxy-bridge formation of spiro-labdane diterpenoids. Plant Physiology, 189(1): 99–111. 


Jia Q, Brown R, Kollner TG, Fu J, Chen X, Ka-Shu Wong G, Gershenzon J, Peters RJ, Chen F. (2022). Origin and early evolution of the plant terpene synthase family. Proc. Natl. Acad. Sci. USA, 119(15): e2100361119. 


Liang J, Merrill AT, Laconsay CJ, Hou A, Po Q, Dickschat JS, Tantillo FJ, Qang Q, Peters RJ. (2022). Deceptive Complexity in Formation of Cleistantha-8,12-diene. Organic Letters, 24(14): 2646-2649. 


Wang Z, Peters RJ. (2022). Tanshinones: Leading the way into Lamiaceae labdane-related diterpenoid biosynthesis. Current Opinion in Plant Biology, 66: 102189. 


*Li R, Zhang J, Li Z, Peters RJ, Yang B. (2022). Dissecting the labdane-related diterpenoid biosynthetic gene clusters in rice reveals directional cross-cluster phytotoxicity. New Phytol, 233: 878-889. 


Ortiz D, Salas-Fernandez MG. (2022 May). Dissecting the genetic control of natural variation in sorghum photosynthetic response to drought stress. Journal of Experimental Botany, 73(10): 3251–3267.


Salas-Fernandez MG, Kemp J. (2022). Registration of IA100RPS and IA101RPS sorghum inbred lines for photoperiod-sensitive biomass hybrids. Journal of Plant Registrations, 16: 465– 472. 


Natukunda MI, Mantilla-Perez MB, Graham MA et al. (2022). Dissection of canopy layer-specific genetic control of leaf angle in Sorghum bicolor by RNA sequencing. BMC Genomics, 23: 95. 


*Bredow M, Natukunda MI, Beernink BM, Chicowski AS, Salas-Fernandez MG, Whitham, S.A. (2022). Characterization of a foxtail mosaic virus vector for gene silencing and analysis of innate immune responses in Sorghum bicolor. Molecular Plant Pathology, 24, 71– 79. 


Nguyen GT, Dhingra Y, Sashital DG. (2022). Miniature CRISPR-Cas12 endonucleases – Programmed DNA targeting in a smaller package. Current Opinion in Structural Biology, 77: 102466. 


Dhingra Y, Suresh SK, Juneja P, Sashital DG. (2022). PAM binding ensures orientational integration during Cas4-Cas1-Cas2-mediated CRISPR adaptation. Molecular Cell, 82(22): 4353-4367.e4356. 


Lee H, Sashital DG. (2022). Creating memories: molecular mechanisms of CRISPR adaptation. Trends in Biochemical Sciences, 47(6): 464-476.


Strable J, Unger-Wallace E, Raygoza AA, Briggs S, Vollbrecht E. (2022). Interspecies transfer of RAMOSA1 orthologs and promoter cis sequences impacts maize inflorescence architecture. Plant Physiology, 191(2): 1084–1101.


Mehta D, Ahkami AH, Walley J et al. (2022). The incongruity of validating quantitative proteomics using western blots. Nat. Plants, 8: 1320–1321.


Clark NM, Elmore JM, Walley JW. (2022 Feb). To the proteome and beyond: advances in single-cell omics profiling for plant systems. Plant Physiology, 188(2): 726–737. 


Woodhouse MR, Sen S, Schott D, Portwood II JL, Freeling M, Walley JW, Andorf CM, Schnable JC. (2022 Jan). qTeller: a tool for comparative multi-genomic gene expression analysis. Bioinformatics, 38(1): 236–242. 


*Aliu E, Lee K, Wang K. (2022). CRISPR RNA-guided integrase enables high-efficiency targeted genome engineering in Agrobacterium tumefaciens. Plant Biotechnol J, 20: 1916-1927. 


*Aliu E, Lee K, Wang, K. (2022 Aug). CRISPR RNA-guided Integrase System for Agrobacterium Genome Editing. Vitro Cellular and Developmental Biology – Plant, 58(4): 692. 


Puchta H, Jiang J, Wang K, Zhao Y. (2022 Apr). Updates on gene editing and its applications. Plant Physiology, 188(4): 1725-1730. 


*Kang M, Lee K, Wang K. (2022). Efficient Protoplast Isolation and DNA Transfection for Winter Oilseed Crops, Pennycress (Thlaspi arvense) and Camelina (Camelina sativa). Protoplast Technology, Methods in Molecular Biology, 2464. 


Syombua ED, Tripathi JN, Obiero GO, Nguu EK, Yang B, Wang K, & Tripathi, L. (2022). Potential applications of the CRISPR/Cas technology for genetic improvement of yam (Dioscorea spp.). Food and Energy Security, 11:  e330. 


*Kang M, Lee K, Finley T, Chappell H, Veena V, Wang K. (2022 May). An Improved Agrobacterium-Mediated Transformation and Genome-Editing Method for Maize Inbred B104 Using a Ternary Vector System and Immature Embryos. Front Plant Sci, 4(13): 860971. 


Liu D, Zhao H, Xiao Y, Zhang G, Cao S, Yin W, Qian Y, Yin Y, Zhang J, Chen S, Chu C. (2022). A cryptic inhibitor of cytokinin phosphorelay controls rice grain size. Molecular Plant, 15(2): 293-307.


Tibbs-Cortes LE, Guo T, Li X, Tanaka R, Vanous AE, Peters D, Gardner C, Magallanes-Lundback M, Deason N, DellaPenna D, Gore MA, Yu J. (2022). Genomic prediction of tocochromanols in exotic-derived maize. The Plant Genome, 00: e20286. 


Tanaka R, Wu D, Li X, Tibbs-Cortes LE, Wood JC, Magallanes-Lundback M, Bornowski, N, Hamilton JP, Vaillancourt B, Li X, Deason NT, Schoenbaum GR, Buell CR, DellaPenna D, Yu J, Gore MA. (2022).Leveraging prior biological knowledge improves prediction of tocochromanols in maize grain. The Plant Genome, 00: e20276. 


Wu D, Li X, Tanaka R, Wood JC, Tibbs-Cortes LE, Magallanes-Lundback M, Bornowski N, Hamilton JP, Vaillancourt B, Diepenbrock CH, Li X, Deason NT, Schoenbaum GR, Yu J, Buell CR, DellaPenna D, Gore MA. (2022 Aug). Combining GWAS and TWAS to identify candidate causal genes for tocochromanol levels in maize grain. Genetics, 221(4): iyac091. 


Li X, Guo T, Bai G, Zhang Z, See D, Marshall J, Garland-Campbell KA, Yu J. (2022 Feb). Genetics-inspired data-driven approaches explain and predict crop performance fluctuations attributed to changing climatic conditions. Molecular Plant, 15: 203–206. 


Mu Q, Guo T, Li X, Yu J. (2022) Phenotypic plasticity in plant height shaped by interaction between genetic loci and diurnal temperature range. New Phytol, 233: 1768-1779. 


Swaminathan S, Lionetti V, Zabotina OA. (2022) Plant Cell Wall Integrity Perturbations and Priming for Defense. Plants, 11: 3539. 


Julian JD, Zabotina OA. (2022) Xyloglucan Biosynthesis: From Genes to Proteins and Their Functions. Front. Plant Sci., 13: 920494. 


Zhang N, Zabotina OA. (2022) Critical Determinants in ER-Golgi Trafficking of Enzymes Involved in Glycosylation. Plants, 11: 428. 


Elmore MG, Groves CL, Hajimorad MR, Stewart TP, Gaskill MA, Wise KA, Sikora E, Kleczewski NK, Smith DL, Mueller DS, Whitham SA. (2022) Detection and discovery of plant viruses in soybean by metagenomic sequencing. Virology J., 19: 149. 


Beernink BM, Lappe RL, Bredow M, Whitham SA. (2022) Impacts of RNA mobility signals on virus induced somatic and heritable gene editing. Front. Genome Ed., 4: 925088. 


Chung SH, Zhang S, Song H, Whitham SA, Jander G. (2022) Maize resistance to insect herbivory is enhanced by silencing expression of genes for jasmonate-isoleucine degradation using sugarcane mosaic virus. Plant Direct.


Bueno TV, Fontes PP, Abe VY, Satiko AU, Senra RL, Oliveira LS, dos Santos AB, Capote Ferreira EG, Darben LM, de Oliveira AB, Abdelnoor RV, Whitham SA, Fietto LG, Marcelino-Guimarães FC. (2022) A Phakopsora pachyrhizi effector suppresses PAMP-triggered immunity and interacts with a soybean glucan endo-1,3- β -glucosidase to promote virulence. Mol. Plant Microbe Interact.  


Yu H, Ruan H, Xia X, Sartor Chicowski A, Whitham SA, Li Z, Wang G, Liu W. (2022) Maize FERONIA-like receptor genes are involved in the response of multiple disease resistance in maize. Mol. Plant Pathol


Xu R, Gao M, Li M, Whitham SA, Zhang S, Xu Y. (2022) Identification of MdGRF genes and the necessary role of MdGRF02 in apple root growth regulation. Scientia Horticulturae, 295: 110866. 

 

2021 Publications

*Li R, Zhang J, Li Z, Peters RJ, Yang B. (2021 Jan). Dissecting the labdane-related diterpenoid biosynthetic gene clusters in rice reveals directional cross-cluster phytotoxicityNew Phytol, 233(2): 878-889.


Li R, Char SN, Liu B, Liu H, Li X, Yang B. High-efficiency plastome base editing in rice with TAL cytosine deaminaseMol Plant. 2021 Sep 6; 14(9):1412-1414. 


Liu Q, Wang S, Long J, Chen Z, Yang B, Lin F. (2021 Aug). Functional Identification of the Xanthomonas oryzae pv. oryzae Type I-C CRISPR-Cas system and its potential in gene editing applicationFront Microbiology, 12: 686715.  


*Luo D, Huguet-Tapia JC, Raborn RT, White FF, Brendel VP, Yang B. (2021 Jan). The Xa7 resistance gene guards the rice susceptibility gene SWEET14 against exploitation by the bacterial blight pathogen. Plant Communications, 2: 100164.  


*Syombua ED, Zhang Z, Tripathi JN, Ntui VO, Kang M, George OO, Edward NK, Wang K, Yang B, Tripathi L. (2021 Apr). A CRISPR/Cas9-based genome-editing system for yam (Dioscorea spp.). Plant Biotechnology Journal, 19(4):645-647.  


Stitzer MC, Anderson SN, Springer NM, Ross-Ibarra J. (2021). The genomic ecosystem of transposable elements in maize. PLoS Genet, 17(10): e1009768. 


Qiu Y, O’Connor CH, Della Coletta R, Renk JS, Monnahan PJ, Noshay JM, Liang Z, Gilbert A, Anderson SA, McGaugh SE, Springer NM, Hirsch CN. (2021 Oct). Whole-genome variation of transposable element insertions in a maize diversity panel. G3 Genes|Genomes|Genetics, 11(10): jkab238. 


Liang Z, Anderson SN, Noshay JM, Crisp PA, Enders TA, Springer NM. (2021 May). Genetic and epigenetic variation in transposable element expression responses to abiotic stress in maize. Plant Physiology, 186(1): 420–433.


Anderson SN, Zhou P, Higgins K, Brandvain Y, Springer NM. (2021). Widespread imprinting of transposable elements and variable genes in the maize endosperm. PLoS Genet 17(4): e1009491. 


Hickey CM, Breckel C, Zhang M, Theune WC, Hochstrasser M. (2021 Jan). Protein quality control degron-containing substrates are differentially targeted in the cytoplasm and nucleus by ubiquitin ligases. Genetics, 217(1): iyaa031.


 Selfa T, Lindberg S, Bain C. (2021 Jan). Governing gene editing in agriculture and food in the United States: Tensions, contestations, and realignments. Elementa: Science of the Anthropocene, 9(1): 00153. 


Angeles Aroca, Inmaculada Yruela, Cecilia Gotor, and Diane C. Bassham. Persulfidation of ATG18a regulates autophagy under ER stress in Arabidopsis. Proc. Natl. Acad. Sci. USA. 2021; 118: e2023604118


*Wang P, Nolan TM, Clark NM, Jiang H, Montes-Serey C, Guo H, Bassham DC, Walley JW, Yin Y. (2021 Nov). The F-box E3 ubiquitin ligase BAF1 mediates the degradation of the brassinosteroid-activated transcription factor BES1 through selective autophagy. Arabidopsis, The Plant Cell, 33(11): 3532–3554.


*Li Z, Tang J, Bassham DC, Howell SH. (2021 Jun). Daily temperature cycles promote alternative splicing of RNAs encoding SR45a, a splicing regulator in maize.Plant Physiology, 186(2): 1318–1335.


Vieira P, Myers RY, Pellegrin C, Wram C, Hesse C, Maier TR, Shao J, et al. (2021). Targeted transcriptomics reveals signatures of large-scale independent origins and concerted regulation of effector genes in Radopholus similis. PLoS Pathogens, 111): e1010036.


Vieira P, Myer RY, Pellegrin C, Wram C, Hesse C, Zasada IA, Maier T, et al. (2021). Targeted transcriptomics reveal signatures of large-scale birth and concerted regulation of effector genes in Radopholus similis. PHYTOPATHOLOGY, 111(10): 103-104.


Maier TR, Masonbrink RE, Vijayapalani P, Gardner M, Howland AD, et al. (2021). Esophageal Gland RNA-Seq Resource of a Virulent and Avirulent Population of the Soybean Cyst Nematode Heterodera glycines. Molecular Plant-Microbe Interactions, 34(9): 1084-1087.


Masonbrink RE, Maier TR, M Hudson M, A Severin A, T Baum T. (2021). A chromosomal assembly of the soybean cyst nematode genome. Molecular Ecology Resources, 21(7): 2407-2422.


Kranse O, Beasley H, Adams S, Pires-daSilva A, Bell C, Lilley CJ, et al. (2021). Toward genetic modification of plant-parasitic nematodes: delivery of macromolecules to adults and expression of exogenous mRNA in second stage juveniles. G3 Genes|Genomes|Genetics, 11(2): jkaa058.


KM Kwon, RE Masonbrink, TR Maier, AJ Severin, TJ Baum, MG Mitchum. (2021). Genes related to vitamin B and plant defense suppression may contribute to virulence of Heterodera Glycines on resistant soybean. Journal of Nematology, 53, 19-19.


Verma A, Lin M, Walker JC, Hewezi T, Baum TJ, Mitchum MG. (2021). A cyst nematode effector targets the arabidopsis haeca leucine-rich repeat receptor-like kinase. Journal of Nematology, 53, 37-37.


Wang J, Dhroso A, Liu X, Baum TJ, Hussey RS, Davis EL, Wang X, et al. (2021). Phytonematode peptide effectors exploit a host post‐translational trafficking mechanism to the ER using a novel translocation signal. New Phytologist, 229(1): 563-574.


Kambakam S, Ngaki MN, Sahu BB, Kandel DR, Singh P, Sumit R, Swaminathan S, Muliyar-Krishna R, Bhattacharyya MK. (2021). Arabidopsis non-host resistance PSS30 gene enhances broad-spectrum disease resistance in the soybean cultivar Williams 82. Plant J, 107: 1432-1446. 


Sahoo DK, Das A, Huang X. et al. (2021). Tightly linked Rps12 and Rps13 genes provide broad-spectrum Phytophthora resistance in soybean. Sci Rep, 11: 16907. 


Ngaki MN, Sahoo DK, Wang B. and Bhattacharyya MK. (2021). Overexpression of a plasma membrane protein generated broad-spectrum immunity in soybean. Plant Biotechnology Journal.


Li S, Hanlon R, Wise H, Pal N, Brar H, Liao C, Gao H, Perez E, Zhou L, Tyler BM, Bhattacharyya MK. (2021). Interaction of Phytophthora sojae Effector Avr1b With E3 Ubiquitin Ligase GmPUB1 Is Required for Recognition by Soybeans Carrying Phytophthora Resistance Rps1-b and Rps1-k Genes. Frontiers in Plant Science, 12. 


Zhou H, Tang K, Li G, et al. (2021 Jun). A Robust and Rapid Candidate Gene Mapping Pipeline Based on M2 Populations. Frontiers in Plant Science, 12: 681816. 


Jez JM, Topp CN, Schlautman B, Bartel C, Diaz-Garcia L, Fei S, Flynn S, Haramoto E, Moore K, Raman DR. (2021 May). Perennial groundcovers: an emerging technology for soil conservation and the sustainable intensification of agriculture. Emerg Top Life Sci, 5 (2): 337–347.


Xu N, Kang M, Zobrist JD, Wang K and Fei SZ. (2022). Genetic Transformation of Recalcitrant Upland Switchgrass Using Morphogenic Genes. Frontiers in Plant Science, 12: 781565.


SH Howell. (2021). Evolution of the unfolded protein response in plants. Plant, Cell & Environment, 44(8): 2625-2635.


Z Li, SH Howell. (2021). The two faces of IRE1 and their role in protecting plants from stress. Plant Science, 303: 110758.


Z Li, SH Howell. (2021 Jan). Heat stress responses and thermotolerance in Maize. International Journal of Molecular Sciences, 22(2): 948.


*Miller K, Eggenberger AL, Lee K, et al. (2021). An improved biolistic delivery and analysis method for evaluation of DNA and CRISPR-Cas delivery efficacy in plant tissue. Sci Rep, 11: 7695.


*Dash L, McEwan RE, Montes C, et al. (2021). slim shady is a novel allele of PHYTOCHROME B present in the T-DNA line SALK_015201. Plant Direct, 5: e00326.  


*Li X, Guo T, Wang J, Bekele WA, Sukumaran S, Vanous AE, McNellie JP, Tibbs-Cortes LE, Lopes MS, Lamkey KR, Westgate ME, McKay JK, Archontoulis SV, Reynolds MP, Tinker NA, Schnable PS, Yu J. (2021 Jun). An integrated framework reinstating the environmental dimension for GWAS and genomic selection in crops. Molecular Plant, 14: 874-887.


Dermail A, Fuengtee A, Lertrat K, Suwarno WB, Lübberstedt T, Suriharn K. (2021). Simultaneous Selection of Sweet-Waxy Corn Ideotypes Appealing to Hybrid Seed Producers, Growers, and Consumers in Thailand. Agronomy, 12(87).


Dermail A, Chankaew S, Lertrat K, Lübberstedt T, Suriharn K. (2021). Selection Gain of Maize Haploid Inducers for the Tropical Savanna Environments. Plants, 10: 2812. 


Ma L, Zhang M, Chen J et al. (2021). GWAS and WGCNA uncover hub genes controlling salt tolerance in maize (Zea mays L.) seedlings. Theor Appl Genet, 134: 3305–3318. 


Sukto S, Lomthaisong K, Sanitchon J, Chankaew S, Falab S, Lübberstedt T, Lertrat K, Suriharn K. (2021). Breeding for Prolificacy, Total Carotenoids and Resistance to Downy Mildew in Small-Ear Waxy Corn by Modified Mass Selection. Agronomy, 11: 1793. 


Hou F, Zhou X, Liu Ped et al. (2021). Genetic dissection of maize seedling traits in an IBM Syn10 DH population under the combined stress of lead and cadmium. Mol Genet Genomics, 296: 1057–1070.


Cropano C, Place I, Manzanares C, Do Canto J, Lübberstedt T, Studer B, Thorogood D. (2021 Jun). Characterization and practical use of self-compatibility in outcrossing grass species. Annals of Botany, 127(7): 841-852.  


Verzegnazzi AL, dos Santos IG, Krause MD et al. (2021). Major locus for spontaneous haploid genome doubling detected by a case–control GWAS in exotic maize germplasm. Theor Appl Genet, 134: 1423-1434.


Aboobucker SI, Showman LJ, Lübberstedt T, Suza WP. (2021 Nov). Maize Zmcyp710a8 Mutant as a Tool to Decipher the Function of Stigmasterol in Plant Metabolism. Frontiers in Plant Science, 12: 732216. 


Cropano C, Manzanares C, Yates S, et al. (2021 Oct). Identification of Candidate Genes for Self-Compatibility in Perennial Ryegrass (Lolium perenne L.). Frontiers in Plant Science. 12: 707901. 


P Kanodia, WA Miller. (2021). Effects of the noncoding subgenomic RNA of red clover necrotic mosaic virus in virus infection. Journal of Virology, 96. 


Liang J, Shen Q, Wang L, Liu J, Fu J, Zhao L, Xu M, Peters RJ, Wang Q. (2021). Rice contains a biosynthetic gene cluster associated with production of the casbane-type diterpenoid phytoalexin ent-10-oxodepressin. New Phytol, 231: 85-93.


*Zhang J, Li R, Xu M, Hoffmann RI, Zhang Y, Liu B, Zhang M, Yang B, Li Z, Peters RJ. (2021). A (conditional) role for labdane-related diterpenoid natural products in rice stomatal closure. New Phytol, 230: 698-709. 


*Kitaoka N, Zhang J, Oyagbenro RK, Brown B, Wu Y, Yang B, Li Z, Peters RJ. (2021 Feb). Interdependent evolution of biosynthetic gene clusters for momilactone production in rice.The Plant Cell, 33(2): 290-305. 


Ma Y, Cui G, Chen T, et al. (2021). Expansion within the CYP71D subfamily drives the heterocyclization of tanshinones synthesis in Salvia miltiorrhiza.Nat Commun, 12(685).


*Mural RV, Grzybowski M, Miao C, Damke A, Sapkota S, Boyles RE, Salas Fernandez MG, Schnable PS, Sigmon B, Kresovich S, Schnable JC. (2021 Jul). Meta-analysis identifies pleiotropic loci controlling phenotypic trade-offs in sorghum. Genetics, 218(3): iyab087. 


Ortiz D, Salas-Fernandez MG. (2021). Dissecting the genetic control of natural variation in sorghum photosynthetic response to drought stress. Journal of Experimental Botany


Murugan K, Suresh SK, Seetharam AS, Severin AJ, Sashital DG. (2021 Apr). Systematic in vitro specificity profiling reveals nicking defects in natural and engineered CRISPR–Cas9 variants. Nucleic Acids Research, 49(7): 4037-4053. 


Elmore JM, Griffin BD, Walley JW. (2021). Advances in functional proteomics to study plant-pathogen interactions. Current Opinion in Plant Biology, 63: 102061.


*Clark NM, Nolan TM, Wang P et al. (2021). Integrated omics networks reveal the temporal signaling events of brassinosteroid response in Arabidopsis.Nature Communications, 12(5858).


Zhang Y, Song G, Lal NK, Nagalakshmi U, Li Y, Zheng W, Huang PJ, Branon TC, Ting AY, Walley JW, Dinesh-Kumar SP. (2021 Oct). TurboID-based proximity labeling reveals that UBR7 is a regulator of N NLR immune receptor-mediated immunity. Nature Communications, 10: 3252.


Antony VE, Chapman J, Elmore M, McReynolds M, Walley JW, Wise RP. (2022). SGT1-Specific Domain Mutations Impair Interactions with the Barley MLA6 Immune Receptor in Association with Loss of NLR Protein. Molecular Plant-Microbe Interactions, 35(3): 274-289.


*Zobrist JD, Martin-Ortigosa S, Lee K, Azanu MK, Ji Q, Wang K. (2021). Transformation of Teosinte (Zea mays ssp. parviglumis) via Biolistic Bombardment of Seedling-Derived Callus Tissues. Frontiers in Plant Science, 12: 773419.


Cable J, Ronald PC, Voytas D, Zhang F, Levy AA, Takatsuka A, Arimura S, et al. (2021).  Plant genome engineering from lab to field—a Keystone Symposia report. Annals of the New York Academy of Sciences, 1506(1): 35-54.


O Omolehin, Y Raruang, D Hu, ZQ Han, Q Wei, K Wang, K Rajasekaran, et al. (2021). Resistance to Aflatoxin Accumulation in Maize Mediated by Host-Induced Silencing of the Aspergillus flavus Alkaline Protease (alk) Gene. Journal of Fungi, 7(11): 904.


AP Kausch, K Wang, HF Kaeppler, W Gordon-Kamm (2021). Maize transformation: history, progress, and perspectives. Molecular Breeding, 41(6): 1-36.


M Kang, A Masters, M Mccaw, J Zobrist, W Gordon-Kamm, T Jones, et al. (2021) Immature Embryo Transformation of Recalcitrant Maize Inbreds Using WUS/BBM. IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY-ANIMAL 57 (SUPPL 1), S25-S25


*JD Zobrist, M McCaw, M Kang, AL Eggenberger, K Lee, K Wang. (2021). Genome editing of maize. In Genome Editing for Precision Crop Breeding, 341-375.


Banakar R, Schubert M, Kurgan G, et al. (2021). Efficiency, Specificity and Temperature Sensitivity of Cas9 and Cas12a RNPs for DNA-free Genome Editing in Plants. Frontiers in Genome Editing, 3: 760820.


*ME McCaw, K Lee, M Kang, JD Zobrist, MK Azanu, JA Birchler, K Wang. (2021). Development of a transformable fast-flowering mini-maize as a tool for maize gene editing.Frontiers in Genome Editing, 2.


McCaghey M, Shao D, Kurcezewski J, Lindstrom A, Ranjan A, Whitham SA, Conley SP, Williams B, Smith DL, Kabbage M. (2021). Host-induced gene silencing of a Sclerotinia sclerotiorum oxaloacetate acetylhydrolase using bean pod mottle virus as a vehicle reduces disease on soybean. Front. Plant Sci. 12: 677631. 


Gerber M, Pillay N, Holan K, Whitham SA, Berger DK. (2021). Automated Hyper-Parameter Tuning of a Mask R-CNN for Quantifying Common Rust Severity in Maize. International Joint Conference on Neural Networks (IJCNN). 2021: 1-7.


Pillay N, Gerber M, Holan K, Whitham SA, Berger DK. (2021). Quantifying the Severity of Common Rust in Maize Using Mask R-CNN. Artificial Intelligence and Soft Computing. ICAISC 2021. Lecture Notes in Computer Science, 12854. 


O'Conner S, Zheng W, Qi M, Kandel Y, Fuller R, Whitham SA, Li L. (2021). GmNF-YC4-2 Increases Protein, Exhibits Broad Disease Resistance and Expedites Maturity.Int. J. Mol. Sci., 22: 3586.


Chung SH, Bigham M, Lappe R, Chan B, Nagalakshmi U, Whitham SA, Dinesh-Kumar S, Jander G. (2021). A sugarcane mosaic virus vector for rapid in planta screening of proteins that inhibit the growth of insect herbivores. Plant Biotechnol. J, 19(9): 1713-1724.


Beernink BM, Holan KL, Lappe RR, Whitham SA. (2021). Direct Agroinoculation of Maize Seedlings by Injection with Recombinant Foxtail Mosaic Virus and Sugarcane Mosaic Virus Infectious Clones. J. Vis. Exp. 168: e62277. 


Varshney RK, Bohra A, Yu J, Graner A, Zhang Q, Sorrells ME. (2021). Designing Future Crops: Genomics-Assisted Breeding Comes of Age. Trends in Plant Science, 26: 631-649. 


Ehrlich JJ, Weerts RM, Shome S, Culbertson AT, Honzatko RB, Jernigan RL, Zabotina OA. (2021). Xyloglucan Xylosyltransferase 1 Displays Promiscuity Toward Donor Substrates During in Vitro Reactions. Plant and Cell Physiology, 62(12): 1890-1901. 


Zabotina OA, Zhang N, Weerts R. (2021). Polysaccharide Biosynthesis: Glycosyltransferases and Their Complexes. Frontiers in Plant Science, 12. 


Swaminathan S, Reem NT, Lionetti V, Zabotina OA. (2021). Coexpression of Fungal Cell Wall-Modifying Enzymes Reveals Their Additive Impact on Arabidopsis Resistance to the Fungal Pathogen, Botrytis cinerea. Biology, 10: 1070

2020 Publications