Schnable Lab Publications

Ezequiel S, A Ruiz, CS Sciarresi, K King, M Baum, A Ferela, GJN Danalatos, B Gambin, G Kalogeropoulos, A Thies, RA Ordóñez, S Trifunovic, J Narvel, DM Eudy, PS Schnable, C Topp, TJ Vyn, SV Archontoulis (2024) Historical increases in plant density increased vegetative maize biomass while breeding increased reproductive biomass and allocation to ear over stem. Field Crop Res, 322: 109704. doi:10.1016/j.fcr.2024.109704

[ Abstract | Full Text PDF | Supplemental Materials | Impact Factor: 5.6 | 12 December 2024 ]
Kusmec A, PS Schnable (2024) Phenological adaptation is insufficient to offset climate change-induced yield losses in US hybrid maize. Glob Change Biol , 30(10): e17539. doi:10.1111/gcb.17539

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 39434407 | Impact Factor: 10.8 | 21 October 2024 ]
Kusmec A, CT Yeh, The Genomes to Fields Initiative, PS Schnable (2024) Data-driven identification of environmental variables influencing phenotypic plasticity to facilitate breeding for future climates. New Phytol, 244(2): 618-634. doi:10.1111/nph.19937

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 39183371 | Impact Factor: 8.3 | 25 August 2024 ]
Li D, Q Wang, Y Tian, X Lyv, H Zhang, H Hong, H Gao, YF Li, C Zhao, J Wang, R Wang, J Yang, B Liu, PS Schnable, JC Schnable, YH Li, LJ Qiu (2024) TWAS facilitates gene-scale trait genetic dissection through gene expression, structural variations, and alternative splicing in soybean. Plant Commun, 5: 101010. doi:10.1016/j.xplc.2024.101010

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 38918950 | Impact Factor: 9.4 | 24 June 2024 ]
Peng Y*, Z Liang*, M Cai, J Wang, D Li, Q Chen, X Du, R Gu, G Wang, PS Schnable, J Wang, L Li (2024) ZmPTOX1, a plastid terminal oxidase, contributes to redox homeostasis during seed development and germination. Plant J, 119(1): 460-477. doi:10.1111/tpj.16776

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 38678554 | Impact Factor: 6.2 | 28 April 2024 ]
Mahal NK, FE Miguez, JE Sawyer, L Dong, PS Schnable, MJ Castellano (2024) Stalk sap nitrate test as a potential tool for nitrogen fertilizer recommendations for maize. Field Crop Res, 310: 109330. doi:10.1016/j.fcr.2024.109330

[ Abstract | Full Text PDF | Supplemental Materials | Impact Factor: 5.6 | 15 March 2024 ]
Panelo JS, Y Bao, L Tang, PS Schnable, MG Salas-Fernandez (2024) Genetics of canopy architecture dynamics in photoperiod-sensitive and photoperiod-insensitive sorghum. Plant Phenome J, 7(1): e20092. doi:10.1002/ppj2.20092

[ Abstract | Full Text PDF | Supplemental Materials | 27 January 2024 ]
Zhou Y, A Kusmec, PS Schnable (2024) Genetic regulation of self-organizing azimuthal canopy orientations and their impacts on light interception in maize. Plant Cell, 36(5): 1600-1621. doi:10.1093/plcell/koae007

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 38252634 | Impact Factor: 10.0 | 22 January 2024 ]
Tuggle CK, J Clarke, BM Murdoch, E Lyons, NM Scott, B Beneš, JD Campbell, H Chung, CL Daigle, S Das Choudhury, JCM Dekkers, JRR Dórea, D Ertl, M Feldman, BO Fragomeni, JE Fulton, CR Guadagno, DE Hagen, AS Hess, LM Kramer, CJ Lawrence-Dill, AE Lipka, T Lübberstedt, FM McCarthy, SD McKay, SC Murray, PK Briggs, TN Rowan, MJ Sheehan, JP Steibel, AM Thompson, KJ Thornton, CP Van Tassell, PS Schnable (2024) Current challenges and future of agricultural genomes to phenomes in the USA. Genome Biol, 25: 8. doi:10.1186/s13059-023-03155-w

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 38172911 | Impact Factor: 10.1 | 3 January 2024 ]

Elli EF, JW Edwards, J Yu, S Trifunovic, DM Eudy, KR Kosola, PS Schnable, KR Lamkey, SV Archontoulis (2023) Maize leaf angle genetic gain is slowing down in the last decades. Crop Sci, 63(6): 3520-3533. doi:10.1002/csc2.21111

[ Abstract | Full Text PDF | Supplemental Materials | Impact Factor: 2.0 | 29 September 2023 ]
Feng J, M Saadati, T Jubery, A Jignasu, A Balu, Y Li, L Attigala, PS Schnable, S Sarkar, B Ganapathysubramanian, A Krishnamurthy (2023) 3D reconstruction of plants using probabilistic voxel carving. Comput Electron Agric, 213: 108248. doi:10.1016/j.compag.2023.108248

[ Abstract | Full Text PDF | Supplemental Materials | Impact Factor: 7.7 | 28 September 2023 ]
Kusmec A, L Attigala, X Dai, S Srinivasan, CT Yeh, PS Schnable (2023) A genetic tradeoff for tolerance to moderate and severe heat stress in US hybrid maize. PLoS Genet, 19(7): e1010799. doi:10.1371/journal.pgen.1010799

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 37410701 | Impact Factor: 4.0 | 6 July 2023 ]
Ruiz A, S Trifunovic, DM Eudy, CS Sciarresi, M Baum, GJN Danalatos, EF Elli, G Kalogeropoulos, K King, CL dos Santos, A Thies, L Olmedo Pico, MJ Castellano, PS Schnable, C Topp, M Graham, KR Lamkey, TJ Vyn, SV Archontoulis (2023) Harvest index has increased over the last 50 years of maize breeding. Field Crop Res, 300: 108991. doi:10.1016/j.fcr.2023.108991

[ Abstract | Full Text PDF | Supplemental Materials | Impact Factor: 5.6 | 7 June 2023 ]
Guo X, Y Qiu, D Nettleton, PS Schnable (2023) High-throughput field plant phenotyping: a self-supervised sequential CNN method to segment overlapping plants. Plant Phenomics, 5: 0052. doi:10.34133/plantphenomics.0052

[ Abstract | Full Text PDF | PMID: 37213545 | Impact Factor: 7.6 | 26 April 2023 ]
Zheng Z, B Guo, S Dutta, V Roy, H Liu, PS Schnable (2023) The 2020 derecho revealed limited overlap between maize genes associated with root lodging and root system architecture. Plant Physiol, 192(3): 2394-2403. doi:10.1093/plphys/kiad194

[ Abstract | Full Text PDF | PMID: 36974884 | Impact Factor: 6.5 | 28 March 2023 ]
Xiang L, J Gai, Y Bao, J Yu, PS Schnable, L Tang (2023) Field-based robotic leaf angle detection and characterization of maize plants using stereo vision and deep convolutional neural networks. J Field Robotics. doi:10.1002/rob.22166

[ Abstract | Supplemental Materials | Impact Factor: 4.2 | 27 February 2023 ]
Ni Z, S Moeinizade, A Kusmec, G Hu, L Wang, PS Schnable (2023) New insights into trait introgression with the look-ahead intercrossing strategy. G3 (Bethesda), 13(4): jkad042. doi:10.1093/g3journal/jkad042

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 36821776 | Impact Factor: 2.1 | 23 February 2023 ]

Ibrahim H*, S Moru*, PS Schnable, L Dong (2022) Wearable plant sensor for in situ monitoring of volatile organic compound emissions from crops. ACS Sens, 7: 2293-2302. doi:10.1021/acssensors.2c00834

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 35939805 | Impact Factor: 8.2 | 8 August 2022 ]
Lawrence-Dill CJ, RL Allscheid, A Boaitey, T Bauman, ES Buckler, J Clarke, C Cullis, JCM Dekkers, CJ Dorius, SF Dorius, D Ertl, M Homann, G Hu, ME Losch, E Lyons, BM Murdoch, ZK Navabi, S Punnuri, F Rafiq, JM Reecy, PS Schnable, NM Scott, MJ Sheehan, X Sirault, M Staton, CK Tuggle, A Van Eenennaam, R Voas (2022) Ten simple rules to ruin a collaborative environment. PLoS Comput Biol, 18(4): e1009957. doi:10.1371/journal.pcbi.1009957

[ Abstract | Full Text PDF | PMID: 35421080 | Impact Factor: 3.8 | 14 April 2022 ]
dos Santos CL, LJ Abendroth, JA Coulter, ED Nafziger, A Suyker, J Yu, PS Schnable, SV Archontoulis (2022) Maize leaf appearance rates: A synthesis from the united states corn belt. Front Plant Sci, 13: 872738. doi:10.3389/fpls.2022.872738

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 35481150 | Impact Factor: 4.1 | 5 April 2022 ]
Tuggle CK, J Clarke, JCM Dekkers, D Ertl, CJ Lawrence-Dill, E Lyons, BM Murdoch, NM Scott, PS Schnable (2022) The Agricultural Genome to Phenome Initiative (AG2PI): creating a shared vision across crop and livestock research communities. Genome Biol, 23: 3. doi:10.1186/s13059-021-02570-1

[ Abstract | Full Text PDF (External) | Supplemental Materials | PMID: 34980221 | Impact Factor: 10.1 | 3 January 2022 ]

Sander-Frigau M, T Zhang, CY Lim, H Zhang, AE Kamal, AK Somani, S Hey, PS Schnable (2021) A measurement study of TVWS wireless channels in crop farms. IEEE MASS 2021, October 4-7, 2021. doi:10.1109/MASS52906.2021.00051

[ Abstract | Full Text PDF | Supplemental Materials | 4 October 2021 ]
Guo X, Y Qiu, D Nettleton, CT Yeh, Z Zheng, S Hey, PS Schnable (2021) KAT4IA: K-means assisted training for image analysis of field-grown plant phenotypes. Plant Phenomics, 2021: 9805489. doi:10.34133/2021/9805489

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 34405144 | Impact Factor: 7.6 | 3 August 2021 ]
Zhou Y, M Kamruzzaman, PS Schnable, B Krishnamoorthy, A Kalyanaraman, B Wang (2021) Pheno-mapper: An interactive toolbox for the visual exploration of phenomics data. ACM BCB 2021, August 2021(20): 1-10. doi:10.1145/3459930.3469511

[ 1 August 2021 ]
Boatwright JL, CT Yeh, HC Hu, A Susanna, DE Soltis, PS Soltis, PS Schnable, WB Barbazuk (2021) Trajectories of homoeolog-specific expression in allotetraploid Tragopogon castellanus populations of independent origins. Front Plant Sci, 12: 1165. doi:10.3389/fpls.2021.679047

[ Abstract | Supplemental Materials | PMID: 34249049 | Impact Factor: 4.1 | 23 June 2021 ]
Lin G*, C He*, J Zheng*, DH Koo, H Le, H Zheng, TM Tamang, J Lin, Y Liu, M Zhao, Y Hao, F McFarland, B Wang, Y Qin, H Tang, DR McCarty, H Wei, MJ Cho, S Park, H Kaeppler, SM Kaeppler, Y Liu, NM Springer, PS Schnable, G Wang, FF White, S Liu (2021) Chromosome-level genome assembly of a regenerable maize inbred line A188. Genome Biol, 22(1): 175. doi:10.1186/s13059-021-02396-x

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 34108023 | Impact Factor: 10.1 | 9 June 2021 ]
Mural RV, M Grzybowski, C Miao, A Damke, S Sapkota, RE Boyles, MG Salas-Fernandez, PS Schnable, B Sigmon, S Kresovich, JC Schnable (2021) Meta-analysis identifies pleiotropic loci controlling phenotypic trade-offs in sorghum. Genetics, 218(3): iyab087. doi:10.1093/genetics/iyab087

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 34100945 | Impact Factor: 3.3 | 8 June 2021 ]
Zhou Y*, A Kusmec*, SV Mirnezami*, L Attigala, S Srinivasan, T Jubery, JC Schnable, MG Salas-Fernandez, B Ganapathysubramanian, PS Schnable (2021) Identification and utilization of genetic determinants of trait measurement errors in image-based, high-throughput phenotyping. Plant Cell, 33(8): 2562-2582. doi:10.1093/plcell/koab134

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 34015121 | Impact Factor: 10.0 | 20 May 2021 ]
Yin S, H Ibrahim, PS Schnable, MJ Castellano, L Dong (2021) A field-deployable, wearable leaf sensor for continuous monitoring of vapor-pressure deficit. Adv Mater Technol, 6(6): 2001246. doi:10.1002/admt.202001246

[ Abstract | Full Text PDF | Supplemental Materials | Impact Factor: 6.4 | 6 May 2021 ]
Li D, Q Liu, PS Schnable (2021) TWAS results are complementary to and less affected by linkage disequilibrium than GWAS. Plant Physiol, 186(4): 1800-1811. doi:10.1093/plphys/kiab161

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 33823025 | Impact Factor: 6.5 | 6 April 2021 ]
Kusmec A, Z Zheng, SV Archontoulis, B Ganapathysubramanian, G Hu, L Wang, J Yu, PS Schnable (2021) Interdisciplinary strategies to enable data-driven plant breeding in a changing climate. One Earth, 4(3): 372-383. doi:10.1016/j.oneear.2021.02.005

[ Abstract | Full Text PDF | Impact Factor: 15.1 | 19 March 2021 ]
Li X*, T Guo*, J Wang, WA Bekele, S Sukumaran, AE Vanous, JP McNellie, L Tibbs Cortes, MS Lopez, KR Lamkey, ME Westgate, JK McKay, SV Archontoulis, MP Reynolds, NA Tinker, PS Schnable, J Yu (2021) An Integrated framework reinstating the environmental dimension for GWAS and genomic selection in crops. Mol Plant, 14(6): 874-887. doi:10.1016/j.molp.2021.03.010

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 33713844 | Impact Factor: 17.1 | 9 March 2021 ]
Jarquín D, N de Leon, MC Romay, MO Bohn, ES Buckler, IA Ciampitti, JW Edwards, D Ertl, S Flint-Garcia, MA Gore, C Graham, CN Hirsch, JB Holland, DC Hooker, SM Kaeppler, J Knoll, EC Lee, CJ Lawrence-Dill, JP Lynch, SP Moose, SC Murray, R Nelson, TR Rocheford, JC Schnable, PS Schnable, M Smith, NM Springer, P Thomison, MR Tuinstra, RJ Wisser, W Xu, J Yu, AJ Lorenz (2021) Utility of climatic information via combining ability models to improve genomic prediction for yield within the genomes to fields maize project. Front Genet, 11: 592769. doi:10.3389/fgene.2020.592769

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 33763106 | Impact Factor: 2.8 | 8 March 2021 ]
Mirnezami SV, S Srinivasan, Y Zhou, PS Schnable, B Ganapathysubramanian (2021) Detection of the progression of anthesis in field-grown maize tassels: a case study. Plant Phenomics, 2021: 4238701. doi:10.34133/2021/4238701

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 33728412 | Impact Factor: 7.6 | 3 March 2021 ]
Li J*, D Li*, C Zavala Espinosa, V Trejo Pastor, A Rasheed, N Palacios Rojas, J Wang, A Santacruz Varela, NC de Almeida Silva, PS Schnable, DE Costich, H Li (2021) Genome-wide analyses reveal footprints of divergent selection and popping-related traits in CIMMYT's maize inbred lines. J Exp Bot, 72(4): 1307-1320. doi:10.1093/jxb/eraa480

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 33070191 | Impact Factor: 5.6 | 24 February 2021 ]
Rogers AR, JC Dunne, MC Romay, MO Bohn, ES Buckler, IA Ciampitti, JW Edwards, D Ertl, S Flint-Garcia, MA Gore, C Graham, CN Hirsch, E Hood, DC Hooker, J Knoll, EC Lee, AJ Lorenz, JP Lynch, JK McKay, SP Moose, SC Murray, R Nelson, TR Rocheford, JC Schnable, PS Schnable, R Sekhon, M Singh, M Smith, NM Springer, K Thelen, P Thomison, AM Thompson, MR Tuinstra, J Wallace, RJ Wisser, W Xu, AR Gilmour, SM Kaeppler, N de Leon, JB Holland (2021) The importance of dominance and genotype-by-environment interactions on grain yield variation in a large-scale public cooperative maize experiment. G3 (Bethesda), 11(2): jkaa050. doi:10.1093/g3journal/jkaa050

[ Abstract | Full Text PDF | PMID: 33585867 | Impact Factor: 2.1 | 4 January 2021 ]

Mantilla-Perez MB, Y Bao, L Tang, PS Schnable, MG Salas-Fernandez (2020) Towards "smart canopy" sorghum: discovery of the genetic control of leaf angle across layers. Plant Physiol, 184(4): 1927-1940. doi:10.1104/pp.20.00632

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 33093232 | Impact Factor: 6.5 | 4 December 2020 ]
Emeriewen OF, K Richter, T Berner, J Keilwagen, PS Schnable, M Malnoy, A Peil (2020) Construction of a dense genetic map of the Malus fusca fire blight resistant accession MAL0045 using tunable genotyping-by-sequencing SNPs and microsatellites. Sci Rep, 10(1): 16358. doi:10.1038/s41598-020-73393-6

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 33005026 | Impact Factor: 3.8 | 1 October 2020 ]
Kenchanmane Raju SK*, M Adkins, A Enersen*, D Santana de Carvalho, AJ Studer, B Ganapathysubramanian, PS Schnable, JC Schnable (2020) Leaf Angle eXtractor: A high-throughput image processing framework for leaf angle measurements in maize and sorghum. Appl Plant Sci, 8(8): e11385. doi:10.1002/aps3.11385

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 32999772 | Impact Factor: 2.7 | 10 September 2020 ]
Moeinizade S, A Kusmec, G Hu, L Wang, PS Schnable (2020) Multi-trait genomic selection methods for crop improvement. Genetics, 215(4): 931-945. doi:10.1534/genetics.120.303305

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 32482640 | Impact Factor: 3.3 | 5 August 2020 ]
Miao C, Y Xu, S Liu, PS Schnable, JC Schnable (2020) Increased power and accuracy of causal locus identification in time series genome-wide association in sorghum. Plant Physiol, 183(4): 1898-1909. doi:10.1104/pp.20.00277

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 32461303 | Impact Factor: 6.5 | 3 August 2020 ]
Li Z, SB Tirado, DC Kadam, L Coffey, ND Miller, EP Spalding, AJ Lorenz, N de Leon, SM Kaeppler, PS Schnable, NM Springer, CN Hirsch (2020) Characterizing introgression-by-environment interactions using maize near isogenic lines. Theor Appl Genet, 133(10): 2761-2773. doi:10.1007/s00122-020-03630-z

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 32572549 | Impact Factor: 4.4 | 15 June 2020 ]
Yu X, S Leiboff, X Li, T Guo, N Ronning, X Zhang, GJ Muehlbauer, MCP Timmermans, PS Schnable, MJ Scanlon, J Yu (2020) Genomic prediction of maize microphenotypes provides insights for optimizing selection and mining diversity. Plant Biotechnol J, 18(12): 2456-2465. doi:10.1111/pbi.13420

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 32452105 | Impact Factor: 13.8 | 13 May 2020 ]
McFarland BA*, N Alkhalifah*, MO Bohn, J Bubert, ES Buckler, IA Ciampitti, JW Edwards, D Ertl, JL Gage, CM Falcon, S Flint-Garcia, MA Gore, C Graham, CN Hirsch, JB Holland, E Hood, DC Hooker, D Jarquín, SM Kaeppler, J Knoll, G Kruger, N Lauter, EC Lee, DC Lima, AJ Lorenz, JP Lynch, JK McKay, ND Miller, SP Moose, SC Murray, R Nelson, C Poudyal, TR Rocheford, O Rodriguez, MC Romay, JC Schnable, PS Schnable, B Scully, R Sekhon, K Silverstein, M Singh, M Smith, EP Spalding, NM Springer, K Thelen, P Thomison, MR Tuinstra, J Wallace, R Walls, D Wills, RJ Wisser, W Xu, CT Yeh, N de Leon « view remaining 4 authors » (2020) Maize genomes to fields (G2F): 2014-2017 field seasons: genotype, phenotype, climatic, soil, and inbred ear image datasets. BMC Res Notes, 13(1): 71. doi:10.1186/s13104-020-4922-8

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 32051026 | Impact Factor: 1.6 | 12 February 2020 ]
Falcon CM, SM Kaeppler, EP Spalding, ND Miller, N Alkhalifah, MO Bohn, ES Buckler, IA Ciampitti, JW Edwards, D Ertl, S Flint-Garcia, MA Gore, C Graham, CN Hirsch, JB Holland, D Jarquín, J Knoll, N Lauter, EC Lee, CJ Lawrence-Dill, AJ Lorenz, JP Lynch, SC Murray, R Nelson, TR Rocheford, PS Schnable, M Smith, NM Springer, MR Tuinstra, R Walton, RJ Wisser, W Xu, N de Leon (2020) Relative utility of agronomic, phenological, and morphological traits for assessing genotype-by-environment interaction in maize inbreds. Crop Sci, 60(1): 62-81. doi:10.1002/csc2.20035 (One of Crop Science's top ten outstanding papers of the year in crop breeding and genetics)

[ Abstract | Full Text PDF | Supplemental Materials | Impact Factor: 2.0 | 27 December 2019 ]
Zheng Z, S Hey, T Jubery, H Liu, Y Yang, L Coffey, C Miao, B Sigmon, JC Schnable, F Hochholdinger, B Ganapathysubramanian, PS Schnable (2020) Shared genetic control of root system architecture between Zea mays and Sorghum bicolor. Plant Physiol, 182(2): 977-991. doi:10.1104/pp.19.00752

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 31740504 | Impact Factor: 6.5 | 3 November 2019 ]
Li YH, D Li, YQ Jiao, JC Schnable, YF Li, H Li, HZ Chen, H Hong, T Zhang, B Liu, ZX Liu, QB You, Y Tian, Y Guo, RX Guan, LJ Zhang, RZ Chang, Z Zhang, J Reif, XA Zhou, PS Schnable, LJ Qiu (2020) Identification of loci controlling adaptation in Chinese soya bean landraces via a combination of conventional and bioclimatic GWAS. Plant Biotechnol J, 18(2): 389-401. doi:10.1111/pbi.13206

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 31278885 | Impact Factor: 13.8 | 6 July 2019 ]

Knauer S*, M Javelle*, L Li, X Li, X Ma, K Wimalanathan, S Kumari, R Johnston, S Leiboff, RB Meeley, PS Schnable, D Ware, CJ Lawrence-Dill, J Yu, GJ Muehlbauer, MJ Scanlon, MCP Timmermans (2019) A high-resolution gene expression atlas links dedicated meristem genes to key architectural traits. Genome Res, 29(12): 1962-1973. doi:10.1101/gr.250878.119

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 31744902 | Impact Factor: 6.2 | 19 November 2019 ]
Li M*, L Cao*, M Mwimba, Y Zhou, L Li, M Zhou, PS Schnable, JA O'Rourke, X Dong, W Wang (2019) Comprehensive mapping of abiotic stress inputs into the soybean circadian clock. PNAS, 116(47): 23840-23849. doi:10.1073/pnas.1708508116

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 31676549 | Impact Factor: 9.4 | 19 November 2019 ]
Kamruzzaman M, A Kalyanaraman, B Krishnamoorthy, S Hey, PS Schnable (2019) Hyppo-x: a scalable exploratory framework for analyzing complex phenomics data. IEEE/ACM Trans Comput Biol Bioinform. doi:10.1109/TCBB.2019.2947500

[ Abstract | Full Text PDF | PMID: 31647442 | Impact Factor: 3.6 | 23 October 2019 ]
Breitzman MW, Y Bao, L Tang, PS Schnable, MG Salas-Fernandez (2019) Linkage disequilibrium mapping of high-throughput image-derived descriptors of plant architecture traits under field conditions. Field Crop Res, 244: 107619. doi:10.1016/j.fcr.2019.107619

[ Abstract | Full Text PDF | Supplemental Materials | Impact Factor: 5.6 | 3 October 2019 ]
Jiao Y, X Wang, Y Chen, MJ Castellano, JC Schnable, PS Schnable, L Dong (2019) In-planta nitrate detection using insertable plant microsensor. IEEE Transducers & Eurosensors. doi:10.1109/transducers.2019.8808527 (2019 20th International Conference on Solid-State Sensors, Actuators and Microsystems & Eurosensors XXXIII)

[ Abstract | Full Text PDF | Supplemental Materials | 22 August 2019 ]
Ali MA, X Wang, Y Chen, Y Jiao, MJ Castellano, JC Schnable, PS Schnable, L Dong (2019) Novel all-solid-state soil nutrient sensor using nanocomposite of poly(3-octyl-thiophene) and molybdenum sulfate. IEEE Transducers & Eurosensors. doi:10.1109/transducers.2019.8808341 (2019 20th International Conference on Solid-State Sensors, Actuators and Microsystems & Eurosensors XXXIII)

[ Abstract | Full Text PDF | Supplemental Materials | 22 August 2019 ]
Ali MA*, X Wang*, Y Chen, Y Jiao, NK Mahal, S Moru, MJ Castellano, JC Schnable, PS Schnable, L Dong (2019) Continuous monitoring of soil nitrate using a miniature sensor with poly(3-octyl-thiophene) and molybdenum disulfide nanocomposite. ACS Appl Mater Interfaces, 11(32): 29195-29206. doi:10.1021/acsami.9b07120

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 31318522 | Impact Factor: 8.3 | 18 July 2019 ]
Li J*, GB Chen*, A Rasheed, D Li, K Sonder, C Zavala Espinosa, J Wang, DE Costich, PS Schnable, SJ Hearne, H Li (2019) Identifying loci with breeding potential across temperate and tropical adaptation via EigenGWAS and EnvGWAS. Mol Ecol, 28(15): 3544-3560. doi:10.1111/mec.15169

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 31287919 | Impact Factor: 4.5 | 9 July 2019 ]
Moeinizade S, G Hu, L Wang, PS Schnable (2019) Optimizing selection and mating in genomic selection with a look-ahead approach: an operations research framework. G3 (Bethesda), 9(7): 2123-2133. doi:10.1534/g3.118.200842

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 31109922 | Impact Factor: 2.1 | 1 July 2019 ]
Lawrence-Dill CJ, PS Schnable, NM Springer (2019) Idea factory: the maize genomes to fields initiative. Crop Sci, 59(4): 1406-1410. doi:10.2135/cropsci2019.02.0071

[ Abstract | Full Text PDF | Impact Factor: 2.0 | 27 June 2019 ]
Moehs CP, WJ Austill, AP Holm, TAG Large, DP Loeffler, JC Mullenberg, PS Schnable, W Skinner, J van Boxtel, L Wu, C McGuire (2019) Development of decreased-gluten wheat enabled by determination of the genetic basis of lys3a barley. Plant Physiol, 179(4): 1692-1703. doi:10.1104/pp.18.00771

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 30696748 | Impact Factor: 6.5 | 1 April 2019 ]
Li L*, Y Du*, C He, CR Dietrich, J Li, X Ma, R Wang, Q Liu, S Liu, G Wang, PS Schnable, J Zheng (2019) Maize glossy6 is involved in cuticular wax deposition and drought tolerance. J Exp Bot, 70(12): 3089-3099. doi:10.1093/jxb/erz131

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 30919902 | Impact Factor: 5.6 | 28 March 2019 ]
Zou C, L Li, D Miki, D Li, Q Tang, L Xiao, S Rajput, P Deng, L Peng, W Jia, R Huang, M Zhang, Y Sun, J Hu, X Fu, PS Schnable, Y Chang, F Li, H Zhang, B Feng, X Zhu, R Liu, JC Schnable, JK Zhu, H Zhang (2019) The genome of broomcorn millet. Nat Commun, 10(1): 436. doi:10.1038/s41467-019-08409-5

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 30683860 | Impact Factor: 14.7 | 25 January 2019 ]
Zhou Y, S Srinivasan, SV Mirnezami, A Kusmec, Q Fu, L Attigala, MG Salas-Fernandez, B Ganapathysubramanian, PS Schnable (2019) Semiautomated feature extraction from RGB images for sorghum panicle architecture GWAS. Plant Physiol, 179(1): 24-37. doi:10.1104/pp.18.00974

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 30389784 | Impact Factor: 6.5 | 4 January 2019 ]
Bao Y, L Tang, S Srinivasan, PS Schnable (2019) Field-based architectural traits characterisation of maize plant using time-of-flight 3D imaging. Biosyst Eng, 178: 86-101. doi:10.1016/j.biosystemseng.2018.11.005

[ Abstract | Full Text PDF | Impact Factor: 4.4 | 23 November 2018 ]
Zheng J*, C He*, Y Qin, G Lin, WD Park, M Sun, J Li, X Lu, C Zhang, CT Yeh, CJ Gunasekara, E Zeng, H Wei, PS Schnable, G Wang, S Liu (2019) Co-expression analysis aids in the identification of genes in the cuticular wax pathway in maize. Plant J, 97: 530-542. doi:10.1111/tpj.14140

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 30375131 | Impact Factor: 6.2 | 29 October 2018 ]
Bao Y, L Tang, MW Breitzman, MG Salas-Fernandez, PS Schnable (2019) Field-based robotic phenotyping of sorghum plant architecture using stereo vision. J Field Robotics, 35: 397-415. doi:10.1002/rob.21830

[ Abstract | Full Text PDF | Impact Factor: 4.2 | 27 October 2018 ]
Liang Y*, Q Liu*, X Wang*, C Huang, G Xu, S Hey, HY Lin, C Li, D Xu, L Wu, C Wang, W Wu, J Xia, X Han, S Lu, J Lai, W Song, PS Schnable, F Tian (2019) ZmMADS69 functions as a flowering activator through the ZmRap2.7-ZCN8 regulatory module and contributes to maize flowering time adaptation. New Phytol, 221(4): 2335-2347. doi:10.1111/nph.15512

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 30288760 | Impact Factor: 8.3 | 4 October 2018 ]

Hey S, L Coffey, T Jubery, B Ganapathysubramanian, PS Schnable (2018) Time lapse photography for high-throughput phenotyping of corn. Iowa State University Research and Demonstration Farms Progress Reports. (This article was not peer-reviewed)

[ Abstract | Full Text PDF | 26 April 2019 ]
Shete S, S Srinivasan, SV Mirnezami, B Ganapathysubramanian, PS Schnable, T Gonsalves (2018) An automated tassel detection and trait extraction pipeline to support high-throughput field imaging of maize. ICVGIP 2018. (December 18-22, 2018. Hyderabad, India)

[ 16 November 2018 ]
Yang J, CT Yeh, RK Ramamurthy, X Qi, RL Fernando, JCM Dekkers, DJ Garrick, D Nettleton, PS Schnable (2018) Empirical comparisons of different statistical models to identify and validate kernel row number-associated variants from structured multi-parent mapping populations of maize. G3 (Bethesda), 8(11): 3567-3575. doi:10.1534/g3.118.200636

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 30213868 | Impact Factor: 2.1 | 1 November 2018 ]
Guo H, TM Nolan, G Song, S Liu, Z Xie, J Chen, PS Schnable, JW Walley, Y Yin (2018) FERONIA receptor kinase contributes to plant immunity by suppressing jasmonic acid signaling in Arabidopsis thaliana. Curr Biol, 28(20): 3316-3324. doi:10.1016/j.cub.2018.07.078

[ Abstract | Full Text PDF | PMID: 30270181 | Cited 58 Times | Impact Factor: 8.1 | 22 October 2018 ]
Kusmec A, N de Leon, PS Schnable (2018) Harnessing phenotypic plasticity to improve maize yields. Front Plant Sci, 9: 1377. doi:10.3389/fpls.2018.01377

[ Abstract | Full Text PDF | PMID: 30283485 | Impact Factor: 4.1 | 14 September 2018 ]
Ott A, JC Schnable, CT Yeh, L Wu, C Liu, HC Hu, CL Dalgard, S Sarkar, PS Schnable (2018) Linked read technology for assembling large complex and polyploid genomes. BMC Genomics, 19(1): 651. doi:10.1186/s12864-018-5040-z

[ Abstract | Full Text PDF | PMID: 30180802 | Impact Factor: 3.5 | 4 September 2018 ]
Liu S*, JC Schnable*, A Ott*, CT Yeh, NM Springer, J Yu, GJ Muehlbauer, MCP Timmermans, MJ Scanlon, PS Schnable (2018) Intragenic meiotic crossovers generate novel alleles with transgressive expression levels. Mol Biol Evol, 35(11): 2762-2772. doi:10.1093/molbev/msy174

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 30184112 | Impact Factor: 11.0 | 4 September 2018 ]
Sun S*, Y Zhou*, J Chen*, J Shi*, H Zhao*, H Zhao, W Song, M Zhang, Y Cui, X Dong, H Liu, X Ma, Y Jiao, B Wang, X Wei, JC Stein, JC Glaubitz, F Lu, G Yu, C Liang, K Fengler, B Li, A Rafalski, PS Schnable, D Ware, ES Buckler, J Lai (2018) Extensive intraspecific gene order and gene structural variations between Mo17 and other maize genomes. Nat Genet, 50: 1289-1295. doi:10.1038/s41588-018-0182-0

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 30061735 | Cited 198 Times | Impact Factor: 31.7 | 30 July 2018 ]
Alkhalifah N*, DA Campbell*, CM Falcon*, J Gardiner*, ND Miller*, MC Romay*, R Walls*, R Walton*, CT Yeh*, MO Bohn, J Bubert, ES Buckler, IA Ciampitti, S Flint-Garcia, MA Gore, C Graham, CN Hirsch, JB Holland, DC Hooker, SM Kaeppler, J Knoll, N Lauter, EC Lee, AJ Lorenz, JP Lynch, SP Moose, SC Murray, R Nelson, TR Rocheford, O Rodriguez, JC Schnable, B Scully, M Smith, NM Springer, P Thomison, MR Tuinstra, RJ Wisser, W Xu, D Ertl, PS Schnable, N de Leon, EP Spalding, JW Edwards, CJ Lawrence-Dill (2018) Maize genomes to fields: 2014 and 2015 field season genotype, phenotype, environment, and inbred ear image datasets. BMC Res Notes, 11(1): 452. doi:10.1186/s13104-018-3508-1

[ Abstract | Full Text PDF | PMID: 29986751 | Impact Factor: 1.6 | 9 July 2018 ]
Liang Z, SK Gupta, CT Yeh, Y Zhang, DW Ngu, R Kumar, HT Patil, KD Mungra, DV Yadav, A Rathore, RK Srivastava, R Gupta, J Yang, RK Varshney, PS Schnable, JC Schnable (2018) Phenotypic data from inbred parents can improve genomic prediction in pearl millet hybrids. G3 (Bethesda), 8(7): 2513-2522. doi:10.1534/g3.118.200242 (Selected as the outstanding scientific article of 2018 by ICRISAT's research program in Asia)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 29794163 | Impact Factor: 2.1 | 1 July 2018 ]
Ali J, UM Aslam, R Tariq, V Murugaiyan, PS Schnable, D Li, CM Marfori-Nazarea, JE Hernandez, M Arif, J Xu, Z Li (2018) Exploiting the genomic diversity of rice (Oryza sativa L.): SNP-typing in 11 early-backcross introgression-breeding populations. Front Plant Sci, 9: 849. doi:10.3389/fpls.2018.00849

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 29988489 | Impact Factor: 4.1 | 22 June 2018 ]
Lawrence-Dill CJ, TJ Heindel, PS Schnable, SJ Strong, J Wittrock, ME Losch, JA Dickerson (2018) Transdisciplinary graduate training in predictive plant phenomics. Agronomy, 8(73). doi:10.3390/agronomy8050073

[ Abstract | Full Text PDF | Impact Factor: 3.3 | 4 May 2018 ]
Kusmec A, PS Schnable (2018) FarmCPUpp: Efficient large-scale genomewide association studies. Plant Direct, 2(4): e00053. doi:10.1002/pld3.53

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 31245719 | Impact Factor: 2.3 | 7 March 2018 ]
Li Z, L Coffey, J Garfin, ND Miller, MR White, EP Spalding, N de Leon, SM Kaeppler, PS Schnable, NM Springer, CN Hirsch (2018) Genotype-by-Environment interactions affecting heterosis in maize. PLoS One, 13(1): e0191321. doi:10.1371/journal.pone.0191321

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 29342221 | Impact Factor: 2.9 | 17 January 2018 ]
Chen L*, P Zhang*, Y Fan*, Q Lu, Q Li, J Yan, GJ Muehlbauer, PS Schnable, M Dai, L Li (2018) Circular RNAs mediated by transposons are associated with transcriptomic and phenotypic variation in maize. New Phytol, 217(3): 1292-1306. doi:10.1111/nph.14901

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 29155438 | Cited 61 Times | Impact Factor: 8.3 | 20 November 2017 ]

Oren S, H Ceylan, PS Schnable, L Dong (2017) High-resolution patterning and transferring of graphene-based nanomaterials onto tape toward roll-to-roll production of tape-based wearable sensors. Adv Mater Technol, 2(12): 1700223. doi:10.1002/admt.201700223 (Cover image ; Selected by Editors as "Best of Advanced Materials Technologies 2017" virtual issue)

[ Abstract | Full Text PDF | Supplemental Materials | Impact Factor: 6.4 | 17 November 2017 ]
Gage JL, D Jarquín, MC Romay, AJ Lorenz, ES Buckler, SM Kaeppler, N Alkhalifah, MO Bohn, DA Campbell, JW Edwards, D Ertl, S Flint-Garcia, J Gardiner, B Good, CN Hirsch, JB Holland, DC Hooker, J Knoll, J Kolkman, G Kruger, N Lauter, CJ Lawrence-Dill, EC Lee, JP Lynch, SC Murray, R Nelson, J Petzoldt, TR Rocheford, JC Schnable, PS Schnable, B Scully, M Smith, NM Springer, S Srinivasan, R Walton, T Weldekidan, RJ Wisser, W Xu, J Yu, N de Leon (2017) The effect of artificial selection on phenotypic plasticity in maize. Nat Commun, 8(1): 1348. doi:10.1038/s41467-017-01450-2 (Epub 7 Nov 2017)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 29116144 | Cited 60 Times | Impact Factor: 14.7 | 7 November 2017 ]
Lin HY, Q Liu, X Li, J Yang, S Liu, Y Huang, MJ Scanlon, D Nettleton, PS Schnable (2017) Substantial contribution of genetic variation in the expression of transcription factors to phenotypic variation revealed by eRD-GWAS. Genome Biol, 18(1): 192. doi:10.1186/s13059-017-1328-6 (Epub 2017 Oct 10)

[ Abstract | Full Text PDF | PMID: 29041960 | Impact Factor: 10.1 | 17 October 2017 ]
Ott A*, S Liu*, JC Schnable, CT Yeh, KS Wang, PS Schnable (2017) tGBS® genotyping-by-sequencing enables reliable genotyping of heterozygous loci. Nucleic Acids Res, 45(21): e178. doi:10.1093/nar/gkx853

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 29036322 | Impact Factor: 16.6 | 25 September 2017 ]
Kusmec A, S Srinivasan, D Nettleton, PS Schnable (2017) Distinct genetic architectures for phenotype means and plasticities in Zea mays. Nat Plants, 3(9): 715-723. doi:10.1038/s41477-017-0007-7 (Selected by journal editors for a commentary written by Bruce Walsh (https://www.nature.com/articles/s41477-017-0012-x; Selected as an Editors' Choice by MaizeGDB, 10/2017 ; Epub 4 Sep 2017)

[ Abstract | Full Text PDF (External) | Supplemental Materials | PMID: 29150689 | Cited 51 Times | Impact Factor: 15.8 | 25 July 2017 ]
Salas-Fernandez MG, Y Bao, L Tang, PS Schnable (2017) A high-throughput, field-based phenotyping technology for tall biomass crops. Plant Physiol, 174(4): 2008-2022. doi:10.1104/pp.17.00707

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 28620124 | Cited 93 Times | Impact Factor: 6.5 | 13 June 2017 ]
Goiffon M, A Kusmec, L Wang, G Hu, PS Schnable (2017) Improving response in genomic selection with a population-based selection strategy: optimal population value selection. Genetics, 206(3): 1675-1682. doi:10.1534/genetics.116.197103 (Selected by journal editors as an "Issue Highlight")

[ Abstract | Full Text PDF | PMID: 28526698 | Impact Factor: 3.3 | 15 May 2017 ]
Mei W, S Liu, JC Schnable, CT Yeh, NM Springer, PS Schnable, WB Barbazuk (2017) A comprehensive analysis of alternative splicing in paleopolyploid maize. Front Plant Sci, 8: 694. doi:10.3389/fpls.2017.00694

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 28539927 | Impact Factor: 4.1 | 18 April 2017 ]
Ye H, S Liu, B Tang, J Chen, Z Xie, TM Nolan, H Jiang, H Guo, HY Lin, L Li, Y Wang, H Tong, M Zhang, C Chu, Z Li, M Aluru, S Aluru, PS Schnable, Y Yin (2017) RD26 mediates crosstalk between drought and brassinosteroid signalling pathways. Nat Commun, 8: 14573. doi:10.1038/ncomms14573

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 28233777 | Cited 109 Times | Impact Factor: 14.7 | 24 February 2017 ]
Nolan TM, S Liu, H Guo, L Li, PS Schnable, Y Yin (2017) Identification of brassinosteroid target genes by chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq) and RNA-sequencing. Methods Mol Biol, 1564: 63-79. doi:10.1007/978-1-4939-6813-8_7

[ Abstract | Full Text PDF | PMID: 28124247 | 26 January 2017 ]

Li L, R Briskine, R Schaefer, PS Schnable, CL Myers, LE Flagel, NM Springer, GJ Muehlbauer (2016) Co-expression network analysis of duplicate genes in maize (Zea mays L.) reveals no subgenome bias. BMC Genomics, 17(1): 875. doi:10.1186/s12864-016-3194-0 (Epub 2016 Nov 4)

[ Abstract | Full Text PDF | PMID: 27814670 | Impact Factor: 3.5 | 20 October 2016 ]
Li L*, S Hey*, S Liu, Q Liu, C McNinch, HC Hu, TJ Wen, C Marcon, A Paschold, W Bruce, PS Schnable, F Hochholdinger (2016) Characterization of maize roothairless6 which encodes a D-type cellulose synthase and controls the switch from bulge formation to tip growth. Sci Rep, 6: 34395. doi:10.1038/srep34395 (Selected as an Editors' Choice by MaizeGDB, 11/2016)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 27708345 | Impact Factor: 3.8 | 6 October 2016 ]
Yu X, X Li, T Guo, C Zhu, Y Wu, SE Mitchell, KL Roozeboom, D Wang, ML Wang, GA Pederson, TT Tesso, PS Schnable, R Bernardo, J Yu (2016) Genomic prediction contributing to a promising global strategy to turbocharge gene banks. Nat Plants, 2: 16150. doi:10.1038/nplants.2016.150 (Epub 2016 Oct 3)

[ Abstract | Full Text PDF (External) | Supplemental Materials | PMID: 27694945 | Cited 118 Times | Impact Factor: 15.8 | 27 August 2016 ]
Yáñez JM, S Naswa, ME López, L Bassini, K Correa, J Gilbey, L Bernatchez, A Norris, R Neira, JP Lhorente, PS Schnable, S Newman, A Mileham, N Deeb, A Di Genova, A Maass (2016) Genomewide single nucleotide polymorphism discovery in Atlantic salmon (Salmo salar): validation in wild and farmed American and European populations. Mol Ecol Resour, 16(4): 1002-1011. doi:10.1111/1755-0998.12503

[ Abstract | Full Text PDF | PMID: 26849107 | Impact Factor: 5.5 | 1 March 2016 ]

Leiboff S, X Li, HC Hu, N Todt, J Yang, X Li, X Yu, GJ Muehlbauer, MCP Timmermans, J Yu, PS Schnable, MJ Scanlon (2015) Genetic control of morphometric diversity in the maize shoot apical meristem. Nat Commun, 6: 8974. doi:10.1038/ncomms9974 (Epub 2015 Nov 20; Selected as an Editors' Choice by MaizeGDB, 01/2016)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 26584889 | Cited 53 Times | Impact Factor: 14.7 | 20 November 2015 ]
Yang J*, H Jiang*, CT Yeh, J Yu, JA Jeddeloh, D Nettleton, PS Schnable (2015) Extreme-phenotype genome-wide association study (XP-GWAS): a method for identifying trait-associated variants by sequencing pools of individuals selected from a diversity panel. Plant J, 84(3): 587-596. doi:10.1111/tpj.13029 (Selected as an Editors' Choice by MaizeGDB, 11/2015)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 26386250 | Cited 63 Times | Impact Factor: 6.2 | 23 October 2015 ]
Mester DI, YI Ronin, PS Schnable, S Aluru, AB Korol (2015) Fast and accurate construction of ultra-dense consensus genetic maps using evolution strategy optimization. PLoS One, 10(4): e0122485. doi:10.1371/journal.pone.0122485

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 25867943 | Impact Factor: 2.9 | 13 April 2015 ]
Thompson AM, J Yu, MCP Timmermans, PS Schnable, JE Crants, MJ Scanlon, GJ Muehlbauer (2015) Diversity of maize shoot apical meristem architecture and its relationship to plant morphology. G3 (Bethesda), 5(5): 819-827. doi:10.1534/g3.115.017541 (Early Online March 5, 2015)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 25748433 | Impact Factor: 2.1 | 5 March 2015 ]
Tang H, X Zhang, C Miao, J Zhang, R Ming, JC Schnable, PS Schnable, E Lyons, J Lu (2015) ALLMAPS: robust scaffold ordering based on multiple maps. Genome Biol, 16(3). doi:10.1186/s13059-014-0573-1

[ Abstract | Full Text PDF | PMID: 25583564 | Cited 225 Times | Impact Factor: 10.1 | 13 January 2015 ]
Li L*, S Hill-Skinner*, S Liu, D Beuchle, HM Tang, CT Yeh, D Nettleton, PS Schnable (2015) The maize brown midrib4 (bm4) gene encodes a functional folylpolyglutamate synthase. Plant J, 81(3): 493-504. doi:10.1111/tpj.12745

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 25495051 | Impact Factor: 6.2 | 9 January 2015 ]

Paschold A, NB Larson, C Marcon, JC Schnable, CT Yeh, C Lanz, D Nettleton, HP Piepho, PS Schnable, F Hochholdinger (2014) Nonsyntenic genes drive highly dynamic complementation of gene expression in maize hybrids. Plant Cell, 26(10): 3939-3948. doi:10.1105/tpc.114.130948

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 25315323 | Cited 50 Times | Impact Factor: 10.0 | 14 October 2014 ]
Zhang Y, A Paschold, C Marcon, S Liu, H Tai, J Nestler, CT Yeh, N Opitz, C Lanz, PS Schnable, F Hochholdinger (2014) The Aux/IAA gene rum1 involved in seminal and lateral root formation controls vascular patterning in maize (Zea mays L.) primary roots. J Exp Bot, 65(17): 4919-4930. doi:10.1093/jxb/eru249

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 24928984 | Impact Factor: 5.6 | 13 June 2014 ]
Nestler J*, S Liu*, TJ Wen, A Paschold, C Marcon, HM Tang, D Li, L Li, RB Meeley, H Sakai, W Bruce, PS Schnable, F Hochholdinger (2014) Roothairless5, which functions in maize (Zea mays L.) root hair initiation and elongation encodes a monocot-specific NADPH oxidase. Plant J, 79(5): 729-740. doi:10.1111/tpj.12578 (Selected as an Editors' Choice by MaizeGDB, 07/2014)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 24902980 | Impact Factor: 6.2 | 28 May 2014 ]
Thompson AM, JE Crants, PS Schnable, J Yu, MCP Timmermans, NM Springer, MJ Scanlon, GJ Muehlbauer (2014) Genetic control of maize shoot apical meristem architecture. G3 (Bethesda), 4(7): 1327-1337. doi:10.1534/g3.114.011940

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 24855316 | Impact Factor: 2.1 | 22 May 2014 ]
Wang X, J Chen, Z Xie, S Liu, TM Nolan, H Ye, M Zhang, H Guo, PS Schnable, Z Li, Y Yin (2014) Histone lysine methyltransferase SDG8 is involved in brassinosteroid-regulated gene expression in Arabidopsis thaliana. Mol Plant, 7(8): 1303-1315. doi:10.1093/mp/ssu056

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 24838002 | Cited 51 Times | Impact Factor: 17.1 | 29 April 2014 ]
Li L, SR Eichten, R Shimizu, KA Petsch, CT Yeh, W Wu, AM Chettoor, SA Givan, RA Cole, JE Fowler, MMS Evans, MJ Scanlon, J Yu, PS Schnable, MCP Timmermans, NM Springer, GJ Muehlbauer (2014) Genome-wide discovery and characterization of maize long non-coding RNAs. Genome Biol, 15(2): R40. doi:10.1186/gb-2014-15-2-r40 (Selected as an Editors' Choice by MaizeGDB, 07/2014)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 24576388 | Cited 330 Times | Impact Factor: 10.1 | 27 February 2014 ]
Cai W, C Wang, Y Li, C Yao, L Shen, S Liu, X Bao, PS Schnable, J Girton, J Johansen, KM Johansen (2014) Genome-wide analysis of regulation of gene expression and H3K9me2 distribution by JIL-1 kinase mediated histone H3S10 phosphorylation in Drosophila. Nucleic Acids Res, 42(9): 5456-5467. doi:10.1093/nar/gku173 (Epub 2014 Mar 5)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 24598257 | Impact Factor: 16.6 | 11 February 2014 ]
Tang HM*, S Liu*, S Hill-Skinner, W Wu, D Reed, CT Yeh, D Nettleton, PS Schnable (2014) The maize brown midrib2 (bm2) gene encodes a methylenetetrahydrofolate reductase that contributes to lignin accumulation. Plant J, 77(3): 380-392. doi:10.1111/tpj.12394

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 24286468 | Impact Factor: 6.2 | 10 January 2014 ]

Li L*, D Li*, S Liu, X Ma, CR Dietrich, HC Hu, G Zhang, Z Liu, J Zheng, G Wang, PS Schnable (2013) The maize glossy13 gene, cloned via BSR-Seq and Seq-Walking encodes a putative ABC transporter required for the normal accumulation of epicuticular waxes. PLoS One, 8(12): e82333. doi:10.1371/journal.pone.0082333

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 24324772 | Cited 66 Times | Impact Factor: 2.9 | 6 December 2013 ]
Soltis DE, MA Gitzendanner, G Stull, M Chester, A Chanderbali, S Chamala, IE Jordon-Thaden, PS Soltis, PS Schnable, WB Barbazuk (2013) The potential of genomics in plant systematics. Taxon, 62(2): 886-898. doi:10.12705/625.13

[ Abstract | Full Text PDF | Cited 62 Times | 22 October 2013 ]
Liu S, AP Hsia, PS Schnable (2013) Digestion-ligation-amplification (DLA): a simple genome walking method to amplify unknown sequences flanking mutator (Mu) transposons and thereby facilitate gene cloning. Methods Mol Biol, 1057: 167-176. doi:10.1007/978-1-62703-568-2_12

[ Abstract | Full Text PDF (External) | PMID: 23918428 | 10 September 2013 ]
Muthreich N, C Majer, M Beatty, A Paschold, A Schützenmeister, Y Fu, WA Malik, PS Schnable, HP Piepho, H Sakai, F Hochholdinger (2013) Comparative transcriptome profiling of maize coleoptilar nodes during shoot-borne root initiation. Plant Physiol, 163(1): 419-430. doi:10.1104/pp.113.221481

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 23843603 | Impact Factor: 6.5 | 10 July 2013 ]
Schnable PS, NM Springer (2013) Progress toward understanding heterosis in crop plants. Annu Rev Plant Biol, 64: 71-88. doi:10.1146/annurev-arplant-042110-103827

[ Abstract | Full Text PDF (External) | PMID: 23394499 | Cited 331 Times | Impact Factor: 21.3 | 6 February 2013 ]
Li L, KA Petsch, R Shimizu, S Liu, WW Xu, K Ying, J Yu, MJ Scanlon, PS Schnable, MCP Timmermans, NM Springer, GJ Muehlbauer (2013) Mendelian and non-mendelian regulation of gene expression in maize. PLoS Genet, 9(1): e1003202. doi: 10.1371/journal.pgen.1003202 (Epub: 2013 Jan 17; Selected as an Editors' Choice by MaizeGDB, 02/2013; "Recommended" by the Faculty of 1000 Biology)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 23341782 | Cited 79 Times | Impact Factor: 4.0 | 17 January 2013 ]

Eichten SR, NA Ellis, I Makarevitch, CT Yeh, JI Gent, L Guo, KM McGinnis, X Zhang, PS Schnable, MW Vaughn, RK Dawe, NM Springer (2012) Spreading of heterochromatin is limited to specific families of maize retrotransposons. PLoS Genet, 8(12): e1003127. doi:10.1371/journal.pgen.1003127 ("Recommended" by the Faculty of 1000 Biology)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 23271981 | Cited 144 Times | Impact Factor: 4.0 | 13 December 2012 ]
Paschold A*, Y Jia*, C Marcon, S Lund, NB Larson, CT Yeh, S Ossowski, C Lanz, D Nettleton, PS Schnable, F Hochholdinger (2012) Complementation contributes to transcriptome complexity in maize (Zea mays L.) hybrids relative to their inbred parents. Genome Res, 22(12): 2445-2454. doi:10.1101/gr.138461.112

[ Abstract | Full Text PDF | Supplemental Materials | Press Release | PMID: 23086286 | Cited 123 Times | Impact Factor: 6.2 | 19 October 2012 ]
Liu S, K Ying, CT Yeh, J Yang, RA Swanson-Wagner, W Wu, T Richmond, DJ Gerhardt, J Lai, NM Springer, D Nettleton, JA Jeddeloh, PS Schnable (2012) Changes in genome content generated via segregation of non-allelic homologs. Plant J, 72(3): 390-399. doi:10.1111/j.1365-313X.2012.05087.x ("Recommended" by the Faculty of 1000 Biology)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 22731681 | Impact Factor: 6.2 | 30 August 2012 ]
Takacs EM, J Li, C Du, L Ponnala, D Janick-Buckner, J Yu, GJ Muehlbauer, PS Schnable, MCP Timmermans, Q Sun, D Nettleton, MJ Scanlon (2012) Ontogeny of the maize shoot apical meristem. Plant Cell, 24(8): 3219-3234. doi:10.1105/tpc.112.099614 (Selected as an Editors' Choice by MaizeGDB, 10/2012; Selected by journal editors for "in brief" highlight; "Recommended" by the Faculty of 1000 Biology)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 22911570 | Cited 71 Times | Impact Factor: 10.0 | 28 August 2012 ]
Li X, C Zhu, CT Yeh, W Wu, EM Takacs, KA Petsch, F Tian, G Bai, ES Buckler, GJ Muehlbauer, MCP Timmermans, MJ Scanlon, PS Schnable, J Yu (2012) Genic and nongenic contributions to natural variation of quantitative traits in maize. Genome Res, 22(12): 2436-2444. doi:10.1101/gr.140277.112 (Selected as an Editors' Choice by MaizeGDB, 08/2012)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 22701078 | Cited 106 Times | Impact Factor: 6.2 | 7 June 2012 ]
Zhang X*, RN Douglas*, J Strable, M Lee, B Buckner, D Janick-Buckner, PS Schnable, MCP Timmermans, MJ Scanlon (2012) PUNCTATE VASCULAR EXPRESSION1 is a novel maize gene required for leaf pattern formation that functions downstream of the trans-acting small interfering RNA pathway. Plant Physiol, 159(4): 1453-1462. doi:10.1104/pp.111.192419 (Selected as an Editors' Choice by MaizeGDB, 07/2012)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 22669891 | Impact Factor: 6.5 | 21 May 2012 ]
Lin Z, X Li, LM Shannon, CT Yeh, ML Wang, G Bai, Z Peng, J Li, HN Trick, TE Clemente, J Doebley, PS Schnable, MR Tuinstra, TT Tesso, FF White, J Yu (2012) Parallel domestication of the Shattering1 genes in cereals. Nat Genet, 44(6): 720-724. doi:10.1038/ng.2281 (Epub: 13 May 2012; Selected as an Editors' Choice by MaizeGDB, 07/2012; "Recommended" by the Faculty of 1000 Biology)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 22581231 | Cited 314 Times | Impact Factor: 31.7 | 13 May 2012 ]
Liu S, CT Yeh, HM Tang, D Nettleton, PS Schnable (2012) Gene mapping via Bulked Segregant RNA-Seq (BSR-Seq). PLoS One, 7(5): e36406. doi:10.1371/journal.pone.0036406 (Selected as an Editors' Choice by MaizeGDB, 06/2012; Among the top 10% most cited PLOS ONE articles)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 22586469 | Cited 243 Times | Impact Factor: 2.9 | 7 May 2012 ]
Ronin YI, DI Mester, D Minkov, R Belotserkovski, BN Jackson, PS Schnable, S Aluru, AB Korol (2012) Two-phase analysis in consensus genetic mapping. G3 (Bethesda), 2(5): 537-549. doi:10.1534/g3.112.002428

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 22670224 | Impact Factor: 2.1 | 1 May 2012 ]
Buggs RJA, S Chamala, W Wu, JA Tate, PS Schnable, DE Soltis, PS Soltis, WB Barbazuk (2012) Rapid, repeated, and clustered loss of duplicate genes in allopolyploid plant populations of independent origin. Curr Biol, 22(3): 248-252. doi:10.1016/j.cub.2011.12.027

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 22264605 | Cited 141 Times | Impact Factor: 8.1 | 7 February 2012 ]
Buggs RJA, S Renny-Byfield, M Chester, IE Jordon-Thaden, LF Viccini, S Chamala, AR Leitch, PS Schnable, WB Barbazuk, PS Soltis, DE Soltis (2012) Next-generation sequencing and genome evolution in allopolyploids. Am J Bot, 99(2): 372-382. doi:10.3732/ajb.1100395

[ Abstract | Full Text PDF | PMID: 22268220 | Cited 58 Times | Impact Factor: 2.4 | 1 February 2012 ]

Waters AJ*, I Makarevitch*, SR Eichten*, RA Swanson-Wagner, CT Yeh, WW Xu, PS Schnable, MW Vaughn, M Gehring, NM Springer (2011) Parent-of-origin effects on gene expression and DNA methylation in the Maize endosperm. Plant Cell, 23(12): 4221-4233. doi:10.1105/tpc.111.092668

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 22198147 | Cited 184 Times | Impact Factor: 10.0 | 23 December 2011 ]
Eichten SR*, RA Swanson-Wagner*, JC Schnable, AJ Waters, PJ Hermanson, S Liu, CT Yeh, Y Jia, K Gendler, M Freeling, PS Schnable, MW Vaughn, NM Springer (2011) Heritable epigenetic variation among maize inbreds. PLoS Genet, 7(11): e1002372. doi:10.1371/journal.pgen.1002372 (Selected as an Editors' Choice by MaizeGDB, 01/2012; "Recommended" by the Faculty of 1000 Biology)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 22125494 | Cited 149 Times | Impact Factor: 4.0 | 17 November 2011 ]
Eichten SR, JM Foerster, N de Leon, K Ying, CT Yeh, S Liu, JA Jeddeloh, PS Schnable, SM Kaeppler, NM Springer (2011) B73-Mo17 near-isogenic lines demonstrate dispersed structural variation in maize. Plant Physiol, 156(4): 1679-1690. doi:10.1104/pp.111.174748 (Selected as an Editors' Choice by MaizeGDB, 09/2011)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 21705654 | Cited 84 Times | Impact Factor: 6.5 | 1 August 2011 ]
Koesterke L, D Stanzione, MW Vaughn, SM Welch, W Kusnierczyk, J Yang, CT Yeh, D Nettleton, PS Schnable (2011) An efficient and scalable implementation of SNP-pair interaction testing for genetic association studies. IEEE International Workshop on High Performance Computational Biology. doi:10.1109/IPDPS.2011.190 (2011 IEEE International Symposium)

[ Abstract | Full Text PDF | 16 May 2011 ]
Buggs RJA, L Zhang, N Miles, JA Tate, L Gao, W Wu, PS Schnable, WB Barbazuk, PS Soltis, DE Soltis (2011) Transcriptomic shock generates evolutionary novelty in a newly formed, natural allopolyploid plant. Curr Biol, 21(7): 551-556. doi:10.1016/j.cub.2011.02.016

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 21419627 | Cited 170 Times | Impact Factor: 8.1 | 17 March 2011 ]
Barbazuk WB, PS Schnable (2011) SNP discovery by transcriptome pyrosequencing. Methods Mol Biol, 729: 225-246. doi:10.1007/978-1-61779-065-2_15

[ Abstract | Full Text PDF | PMID: 21365494 | 2 March 2011 ]
Feuillet C, JE Leach, J Rogers, PS Schnable, K Eversole (2011) Crop genome sequencing: lessons and rationales. Trends Plant Sci, 16(2): 77-88. doi:10.1016/j.tplants.2010.10.005

[ Abstract | Full Text PDF | PMID: 21081278 | Cited 263 Times | Impact Factor: 17.3 | 17 November 2010 ]

Fu Y*, NM Springer*, K Ying*, CT Yeh, AL Iniguez, T Richmond, W Wu, WB Barbazuk, D Nettleton, JA Jeddeloh, PS Schnable (2010) High-resolution genotyping via whole genome hybridizations to microarrays containing long oligonucleotide probes. PLoS One, 5(12): e14178. doi:10.1371/journal.pone.0014178

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 21152036 | Impact Factor: 2.9 | 2 December 2010 ]
Lai J*, R Li*, X Xu*, W Jin*, M Xu*, H Zhao, Z Xiang, W Song, K Ying, M Zhang, Y Jiao, P Ni, J Zhang, D Li, X Guo, K Ye, M Jian, B Wang, H Zheng, H Liang, X Zhang, S Wang, S Chen, J Li, Y Fu, NM Springer, H Yang, J Wang, J Dai, PS Schnable, J Wang (2010) Genome-wide patterns of genetic variation among elite maize inbred lines. Nat Genet, 42(11): 1027-1030. doi:10.1038/ng.684 (Cover image; "Recommended" by the Faculty of 1000 Biology)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 20972441 | Cited 466 Times | Impact Factor: 31.7 | 24 October 2010 ]
Jackson BG, M Regennitter, X Yang, PS Schnable, S Aluru (2010) Parallel de novo assembly of large genomes from high-throughput short reads. IEEE International Symposium on Parallel & Distributed Processing (IPDPS), Atlanta, GA, 2010, pp:1-10. doi:10.1109/IPDPS.2010.5470397

[ Abstract | Full Text PDF | Cited 55 Times | 19 April 2010 ]
Vogel JP, DF Garvin, TC Mockler, J Schmutz, D Rokhsar, MW Bevan, K Barry, S Lucas, M Harmon-Smith, K Lail, H Tice, J Grimwood, N McKenzie, N Huo, YQ Gu, GR Lazo, OD Anderson, FM You, MC Luo, J Dvorak, J Wright, M Febrer, D Idziak, R Hasterok, E Lindquist, M Wang, SE Fox, HD Priest, SA Filichkin, SA Givan, DW Bryant, JH Chang, H Wu, W Wu, AP Hsia, PS Schnable, A Kalyanaraman, WB Barbazuk, TP Michael, SP Hazen, JN Bragg, D Laudencia-Chingcuanco, Y Weng, G Haberer, M Spannagl, K Mayer, T Rattei, T Mitros, SJ Lee, JKC Rose, LA Mueller, TL York, T Wicker, JP Buchmann, J Tanskanen, AH Schulman, H Gundlach, A Costa de Oliveira, L da C. Maia, W Belknap, N Jiang, J Lai, L Zhu, J Ma, C Sun, E Pritham, J Salse, F Murat, M Abrouk, R Bruggmann, J Messing, N Fahlgren, CM Sullivan, JC Carrington, EJ Chapman, GD May, J Zhai, M Ganssmann, SGR Gurazada, M German, BC Meyers, PJ Green, L Tyler, J Wu, J Thomson, S Chen, HV Scheller, J Harholt, P Ulvskov, JA Kimbrel, LE Bartley, P Cao, KH Jung, MK Sharma, M Vega-Sanchez, P Ronald, CD Dardick, S Bodt, W Verelst, D Inze, M Heese, A Schnittger, X Yang, UC Kalluri, GA Tuskan, Z Hua, RD Vierstra, Y Cui, S Ouyang, Q Sun, Z Liu, A Yilmaz, E Grotewold, R Sibout, K Hematy, G Mouille, H Höfte, J Pelloux, D O'Connor, JC Schnable, S Rowe, F Harmon, CL Cass, JC Sedbrook, ME Byrne, S Walsh, J Higgins, P Li, TP Brutnell, T Unver, H Budak, H Belcram, M Charles, B Chalhoub, I Baxter « view remaining 85 authors » (2010) Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature, 463(7282): 763-768. doi:10.1038/nature08747

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 20148030 | Cited 1,217 Times | Impact Factor: 50.5 | 11 February 2010 ]
Fu Y, NM Springer, DJ Gerhardt, K Ying, CT Yeh, W Wu, RA Swanson-Wagner, M D'Ascenzo, T Millard, L Freeberg, N Aoyama, J Kitzman, D Burgess, T Richmond, TJ Albert, WB Barbazuk, JA Jeddeloh, PS Schnable (2010) Repeat subtraction-mediated sequence capture from a complex genome. Plant J, 62(5): 898-909. doi:10.1111/j.1365-313X.2010.04196.x (Epub: 4 Mar 2010; Cover image; Selected by journal editors as a "Featured Article"; Selected as an Editors' Choice by MaizeGDB, 09/2010)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 20230488 | Cited 96 Times | Impact Factor: 6.2 | 9 February 2010 ]
Travers SE, Z Tang, D Caragea, KA Garrett, SH Hulbert, JE Leach, J Bai, A Saleh, AK Knapp, PA Fay, J Nippert, PS Schnable, MD Smith (2010) Variation in gene expression of Andropogon gerardii in response to altered environmental conditions associated with climate change. J Ecol, 98: 374-383. doi:10.1111/j.1365-2745.2009.01618.x

[ Abstract | Full Text PDF | Impact Factor: 5.3 | 24 December 2009 ]
Liu S, HD Chen, I Makarevitch, R Shirmer, SJ Emrich, CR Dietrich, WB Barbazuk, NM Springer, PS Schnable (2010) High-throughput genetic mapping of mutants via quantitative single nucleotide polymorphism typing. Genetics, 184(1): 19-26. doi:10.1534/genetics.109.107557 (Selected as an Editors' Choice by MaizeGDB, 04/2010)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 19884313 | Cited 78 Times | Impact Factor: 3.3 | 24 October 2009 ]
Buggs RJA, S Chamala, W Wu, L Gao, GD May, PS Schnable, DE Soltis, PS Soltis, WB Barbazuk (2010) Characterization of duplicate gene evolution in the recent natural allopolyploid Tragopogon miscellus by next-generation sequencing and Sequenom iPLEX MassARRAY genotyping. Mol Ecol, 19(s1): 132-146. doi:10.1111/j.1365-294X.2009.04469.x

[ Abstract | Full Text PDF | PMID: 20331776 | Cited 106 Times | Impact Factor: 4.5 | 6 August 2009 ]

Liu S, CR Dietrich, PS Schnable (2009) DLA-based strategies for cloning insertion mutants: cloning the gl4 locus of maize using Mu transposon tagged alleles. Genetics, 183(4): 1215-1225. doi:10.1534/genetics.109.108936 (Selected as an Editors' Choice by MaizeGDB, 11/2009)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 19805815 | Impact Factor: 3.3 | 1 December 2009 ]
Liu S, CT Yeh, T Ji, K Ying, H Wu, HM Tang, Y Fu, D Nettleton, PS Schnable (2009) Mu transposon insertion sites and meiotic recombination events co-localize with epigenetic marks for open chromatin across the maize genome. PLoS Genet, 5(11): e1000733. doi:10.1371/journal.pgen.1000733 (Selected as an Editors' Choice by MaizeGDB, 12/2009)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 19936291 | Cited 197 Times | Impact Factor: 4.0 | 20 November 2009 ]
Wei F*, J Zhang*, S Zhou, R He, M Schaeffer, K Collura, D Kudrna, BP Faga, M Wissotski, W Golser, SM Rock, TA Graves, RS Fulton, E Coe, PS Schnable, DC Schwartz, D Ware, SW Clifton, RK Wilson, RA Wing (2009) The physical and genetic framework of the maize B73 genome. PLoS Genet, 5(11): e1000715. doi:10.1371/journal.pgen.1000715 (Selected as an Editors' Choice by MaizeGDB, 12/2009)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 19936061 | Cited 117 Times | Impact Factor: 4.0 | 20 November 2009 ]
Springer NM*, K Ying*, Y Fu, T Ji, CT Yeh, Y Jia, W Wu, T Richmond, J Kitzman, H Rosenbaum, AL Iniguez, WB Barbazuk, JA Jeddeloh, D Nettleton, PS Schnable (2009) Maize inbreds exhibit high levels of copy number variation (CNV) and presence/absence variation (PAV) in genome content. PLoS Genet, 5(11): e1000734. doi:10.1371/journal.pgen.1000734 (Selected as an Editors' Choice by MaizeGDB, 12/2009)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 19956538 | Cited 489 Times | Impact Factor: 4.0 | 20 November 2009 ]
Swanson-Wagner RA, R DeCook, Y Jia, T Bancroft, T Ji, X Zhao, D Nettleton, PS Schnable (2009) Paternal dominance of trans-eQTL influences gene expression patterns in maize hybrids. Science, 326(5956): 1118-1120. doi:10.1126/science.1178294 (A commentary on this manuscript solicited by the editors of Science and written by C. Feuillet and K. Eversole was provided in 326: 1071-1072; Selected as an Editors' Choice by MaizeGDB, 12/2009; "Recommended" by the Faculty of 1000 Biology)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 19965432 | Cited 113 Times | Impact Factor: 44.7 | 20 November 2009 ]
Wei F, JC Stein, C Liang, J Zhang, RS Fulton, RS Baucom, E De Paoli, S Zhou, L Yang, Y Han, S Pasternak, A Narechania, L Zhang, CT Yeh, K Ying, DH Nagel, K Collura, D Kudrna, J Currie, J Lin, H Kim, A Angelova, G Scara, M Wissotski, W Golser, L Courtney, SS Kruchowski, TA Graves, SM Rock, S Adams, LA Fulton, C Fronick, W Courtney, M Kramer, L Spiegel, L Nascimento, A Kalyanaraman, C Chaparro, JM Deragon, P San Miguel, N Jiang, SR Wessler, PJ Green, Y Yu, DC Schwartz, BC Meyers, JL Bennetzen, RA Martienssen, WR McCombie, S Aluru, SW Clifton, PS Schnable, D Ware, RK Wilson, RA Wing « view remaining 5 authors » (2009) Detailed analysis of a contiguous 22-Mb region of the maize genome. PLoS Genet, 5(11): e1000728. doi:10.1371/journal.pgen.1000728 (Selected as an Editors' Choice by MaizeGDB, 12/2009)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 19936048 | Cited 51 Times | Impact Factor: 4.0 | 20 November 2009 ]
Jia Y, DR Lisch, K Ohtsu, MJ Scanlon, D Nettleton, PS Schnable (2009) Loss of RNA-dependent RNA Polymerase 2 (RDR2) function causes widespread and unexpected changes in the expression of transposons, genes, and 24-nt small RNAs. PLoS Genet, 5(11): e1000737. doi:10.1371/journal.pgen.1000737 (Selected as an Editors' Choice by MaizeGDB, 12/2009)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 19936292 | Cited 131 Times | Impact Factor: 4.0 | 20 November 2009 ]
Schnable PS*, D Ware*, RS Fulton, JC Stein, F Wei, S Pasternak, C Liang, J Zhang, LA Fulton, TA Graves, P Minx, AD Reily, L Courtney, SS Kruchowski, C Tomlinson, C Strong, K Delehaunty, C Fronick, W Courtney, SM Rock, E Belter, F Du, K Kim, RM Abbott, M Cotton, A Levy, P Marchetto, K Ochoa, SM Jackson, B Gillam, W Chen, L Yan, J Higginbotham, M Cardenas, J Waligorski, E Applebaum, L Phelps, J Falcone, K Kanchi, T Thane, A Scimone, N Thane, J Henke, T Wang, J Ruppert, N Shah, K Rotter, J Hodges, E Ingenthron, M Cordes, S Kohlberg, J Sgro, B Delgado, K Mead, A Chinwalla, S Leonard, K Crouse, K Collura, D Kudrna, J Currie, R He, A Angelova, S Rajasekar, T Mueller, R Lomeli, G Scara, A Ko, K Delaney, M Wissotski, G Lopez, D Campos, M Braidotti, E Ashley, W Golser, H Kim, S Lee, J Lin, Z Dujmic, W Kim, J Talag, A Zuccolo, C Fan, A Sebastian, M Kramer, L Spiegel, L Nascimento, T Zutavern, B Miller, C Ambroise, S Muller, W Spooner, A Narechania, L Ren, S Wei, S Kumari, BP Faga, MJ Levy, L McMahan, P Van Buren, MW Vaughn, K Ying, CT Yeh, SJ Emrich, Y Jia, A Kalyanaraman, AP Hsia, WB Barbazuk, RS Baucom, TP Brutnell, NC Carpita, C Chaparro, JM Chia, JM Deragon, JC Estill, Y Fu, JA Jeddeloh, Y Han, H Lee, P Li, DR Lisch, S Liu, Z Liu, DH Nagel, MC McCann, P San Miguel, AM Myers, D Nettleton, J Nguyen, BW Penning, L Ponnala, KL Schneider, DC Schwartz, A Sharma, C Soderlund, NM Springer, Q Sun, H Wang, M Waterman, R Westerman, TK Wolfgruber, L Yang, Y Yu, L Zhang, S Zhou, Q Zhu, JL Bennetzen, RK Dawe, J Jiang, N Jiang, GG Presting, SR Wessler, S Aluru, RA Martienssen, SW Clifton, WR McCombie, RA Wing, RK Wilson « view remaining 107 authors » (2009) The B73 maize genome: complexity, diversity, and dynamics. Science, 326(5956): 1112-1115. doi:10.1126/science.1178534 (Cover image; a commentary on this manuscript solicited by journal editors and written by C. Feuillet and K. Eversole was provided in 326: 1071-1072; cited in Wikipedia: http://en.wikipedia.org/wiki/Maize; selected as an Editors' Choice by MaizeGDB, 12/2009; selected as a "must read" by the Faculty of 1000 Biology)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 19965430 | Cited 3,695 Times | Impact Factor: 44.7 | 20 November 2009 ]
Chou HH, A Trisiriroj, S Park, YI Hsing, PC Ronald, PS Schnable (2009) Direct calibration of PICKY-designed microarrays. BMC Bioinformatics, 10: 347. doi:10.1186/1471-2105-10-347

[ Abstract | Full Text PDF | PMID: 19849862 | Impact Factor: 2.9 | 23 October 2009 ]
Soltis DE, RJA Buggs, WB Barbazuk, PS Schnable, PS Soltis (2009) On the origins of species: does evolution repeat itself in polyploid populations of independent origin?. Cold Spring Harb Symp Quant Biol, 74: 215-223. doi:10.1101/sqb.2009.74.007

[ Abstract | Full Text PDF | PMID: 19687140 | Impact Factor: 0.9 | 17 August 2009 ]
Scanlon MJ, K Ohtsu, MCP Timmermans, PS Schnable (2009) Laser microdissection-mediated isolation and in vitro transcriptional amplification of plant RNA. Curr Protoc Mol Biol, Chapter 25(Unit 25A.3). doi:10.1002/0471142727.mb25a03s87

[ Abstract | Full Text PDF | PMID: 19575479 | 1 July 2009 ]
Brooks III L*, J Strable*, X Zhang, K Ohtsu, R Zhou, A Sarkar, S Hargreaves, RJ Elshire, DM Eudy, T Pawlowska, D Ware, D Janick-Buckner, B Buckner, MCP Timmermans, PS Schnable, D Nettleton, MJ Scanlon (2009) Microdissection of shoot meristem functional domains. PLoS Genet, 5(5): e1000476. doi:10.1371/journal.pgen.1000476 (Epub: 8 May 2009)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 19424435 | Cited 78 Times | Impact Factor: 4.0 | 8 May 2009 ]
Wei Y, M Lin, DJ Oliver, PS Schnable (2009) The roles of aldehyde dehydrogenases (ALDHs) in the PDH bypass of arabidopsis. BMC Biochem, 10: 7. doi:10.1186/1471-2091-10-7

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 19320993 | Cited 84 Times | Impact Factor: 4.5 | 25 March 2009 ]
Nogueira FTS*, DH Chitwood*, S Madi, K Ohtsu, PS Schnable, MJ Scanlon, MCP Timmermans (2009) Regulation of small RNA accumulation in the maize shoot apex. PLoS Genet, 5(1): e1000320. doi:10.1371/journal.pgen.1000320 (Selected as an Editors' Choice by MaizeGDB, 06/2009)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 19119413 | Cited 144 Times | Impact Factor: 4.0 | 26 February 2009 ]
Shimizu R*, J Ji*, E Kelsey, K Ohtsu, PS Schnable, MJ Scanlon (2009) Tissue specificity and evolution of meristematic WOX3 function. Plant Physiol, 149(2): 841-850. doi:10.1104/pp.108.130765 ("Recommended" by the Faculty of 1000 Biology)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 19073779 | Cited 106 Times | Impact Factor: 6.5 | 1 February 2009 ]
Jackson BN, PS Schnable, S Aluru (2009) Parallel short sequence assembly of transcriptomes. BMC Bioinformatics, 10(Suppl 1): S14. doi:10.1186/1471-2105-10-S1-S14

[ Abstract | Full Text PDF | PMID: 19208113 | Cited 50 Times | Impact Factor: 2.9 | 30 January 2009 ]

Skibbe DS, X Wang, LA Borsuk, DA Ashlock, D Nettleton, PS Schnable (2008) Floret-specific differences in gene expression and support for the hypothesis that tapetal degeneration of Zea mays L. occurs via programmed cell death. J Genet Genomics, 35(10): 603-616. doi:10.1016/S1673-8527(08)60081-8

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 18937917 | Impact Factor: 6.6 | 18 October 2008 ]
Jung KH, CD Dardick, LE Bartley, P Cao, J Phetsom, P Canlas, YS Seo, M Shultz, S Ouyang, Q Yuan, BC Frank, E Ly, L Zheng, Y Jia, AP Hsia, K An, HH Chou, DM Rocke, GC Lee, PS Schnable, G An, CR Buell, PC Ronald (2008) Refinement of light-responsive transcript lists using rice oligonucleotide arrays: evaluation of gene-redundancy. PLoS One, 3(10): e3337. doi:10.1371/journal.pone.0003337

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 18836531 | Cited 121 Times | Impact Factor: 2.9 | 6 October 2008 ]
Strable J, LA Borsuk, D Nettleton, PS Schnable, EE Irish (2008) Microarray analysis of vegetative phase change in maize. Plant J, 56(6): 1045-1057. doi:10.1111/j.1365-313X.2008.03661.x

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 18764925 | Impact Factor: 6.2 | 19 September 2008 ]
Lu R, GC Lee, M Shultz, CD Dardick, KH Jung, J Phetsom, Y Jia, RH Rice, Z Goldberg, PS Schnable, PC Ronald, DM Rocke (2008) Assessing probe-specific dye and slide biases in two-color microarray data. BMC Bioinformatics, 9: 314. doi:10.1186/1471-2105-9-314

[ Abstract | Full Text PDF | PMID: 18638416 | Impact Factor: 2.9 | 19 July 2008 ]
Buckner B, KA Swaggart, CC Wong, HA Smith, KM Aurand, MJ Scanlon, PS Schnable, D Janick-Buckner (2008) Expression and nucleotide diversity of the maize RIK gene. J Hered, 99(4): 407-416. doi:10.1093/jhered/esn013 (Epub: 28 Feb 2008)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 18310068 | Impact Factor: 3.0 | 28 February 2008 ]
Hochholdinger F*, TJ Wen*, R Zimmermann, P Chimot-Marolle, O da Costa e Silva, W Bruce, KR Lamkey, U Wienand, PS Schnable (2008) The maize (Zea mays L.) roothairless3 gene encodes a putative GPI-anchored, monocot-specific, COBRA-like protein that significantly affects grain yield. Plant J, 54(5): 888-898. doi:10.1111/j.1365-313X.2008.03459.x (Selected as an Editors' Choice by MaizeGDB, 06/2008)

[ Abstract | Full Text PDF | PMID: 18298667 | Cited 84 Times | Impact Factor: 6.2 | 7 February 2008 ]
Li J, TJ Wen, PS Schnable (2008) Role of RAD51 in the repair of MuDR-induced double-strand breaks in maize (Zea mays L.). Genetics, 178(1): 57-66. doi:10.1534/genetics.107.080374 (Selected as an Editors' Choice by MaizeGDB, 02/2008)

[ Abstract | Full Text PDF | PMID: 18202358 | Impact Factor: 3.3 | 28 October 2007 ]
Jackson BN, PS Schnable, S Aluru (2008) Consensus genetic maps as median orders from inconsistent sources. IEEE/ACM Trans Comput Biol Bioinform, 5(2): 161-171. doi:10.1109/TCBB.2007.70221

[ Abstract | Full Text PDF | PMID: 18451426 | Cited 52 Times | Impact Factor: 3.6 | 8 June 2007 ]

Dembinsky D*, K Woll*, M Saleem, Y Liu, Y Fu, LA Borsuk, T Lamkemeyer, C Fladerer, J Madlung, WB Barbazuk, A Nordheim, D Nettleton, PS Schnable, F Hochholdinger (2007) Transcriptomic and proteomic analyses of pericycle cells of the maize primary root. Plant Physiol, 145(3): 575-588. doi:10.1104/pp.107.106203

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 17766395 | Cited 143 Times | Impact Factor: 6.5 | 31 August 2007 ]
Ohtsu K, MB Smith, SJ Emrich, LA Borsuk, R Zhou, T Chen, X Zhang, MCP Timmermans, J Beck, B Buckner, D Janick-Buckner, D Nettleton, MJ Scanlon, PS Schnable (2007) Global gene expression analysis of the shoot apical meristem of maize (Zea Mays L.). Plant J, 52(3): 391-404. doi:10.1111/j.1365-313X.2007.03244.x ("Recommended" by the Faculty of 1000 Biology; selected as an Editors' Choice by MaizeGDB, 10/2007)

[ Abstract | Full Text PDF | PMID: 17764504 | Cited 139 Times | Impact Factor: 6.2 | 30 August 2007 ]
Barbazuk WB*, SJ Emrich*, HD Chen, L Li, PS Schnable (2007) SNP discovery via 454 transcriptome sequencing. Plant J, 51(5): 910-918. doi:10.1111/j.1365-313X.2007.03193.x (Cited in Wikipedia: http://en.wikipedia.org/wiki/RNA-Seq)

[ Abstract | Full Text PDF | PMID: 17662031 | Cited 496 Times | Impact Factor: 6.2 | 27 July 2007 ]
Zhang X, S Madi, LA Borsuk, D Nettleton, RJ Elshire, B Buckner, D Janick-Buckner, J Beck, MCP Timmermans, PS Schnable, MJ Scanlon (2007) Laser microdissection of narrow sheath mutant maize uncovers novel gene expression in the shoot apical meristem. PLoS Genet, 3(6): e101. doi:10.1371/journal.pgen.0030101 (Selected an Editors' Choice by MaizeGDB, 07/2007)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 17571927 | Cited 70 Times | Impact Factor: 4.0 | 15 June 2007 ]
Li J, LC Harper, I Golubovskaya, CR Wang, D Weber, RB Meeley, J McElver, B Bowen, WZ Cande, PS Schnable (2007) Functional analysis of maize RAD51 in meiosis and double-strand break repair. Genetics, 176(3): 1469-1482. doi:10.1534/genetics.106.062604 (Selected by editors of Genetics as an "Issue Highlight"; selected as an Editors'Choice by MaizeGDB, 08/2007)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 17507687 | Cited 95 Times | Impact Factor: 3.3 | 8 May 2007 ]
Buckner B, J Beck, K Browning, A Fritz, L Grantham, E Hoxha, Z Kamvar, A Lough, O Nikolova, PS Schnable, MJ Scanlon, D Janick-Buckner (2007) Involving undergraduates in the annotation and analysis of global gene expression studies: creation of a maize shoot apical meristem expression database. Genetics, 176(2): 741-747. doi:10.1534/genetics.106.066472

[ Abstract | Full Text PDF | PMID: 17409087 | Impact Factor: 3.3 | 13 March 2007 ]
Li J, AP Hsia, PS Schnable (2007) Recent advances in plant recombination. Curr Opin Plant Biol, 10(2): 131-135. doi:10.1016/j.pbi.2007.01.007 (Epub: 8 Feb 2007)

[ Abstract | Full Text PDF | PMID: 17291826 | Impact Factor: 8.3 | 8 February 2007 ]
Travers SE, MD Smith, J Bai, SH Hulbert, JE Leach, PS Schnable, AK Knapp, GA Milliken, PA Fay, A Saleh, KA Garrett (2007) Ecological genomics: making the leap from model systems in the lab to native populations in the field. Front Ecol Environ, 5(1): 19-24. doi:10.1890/1540-9295(2007)5[19:EGMTLF]2.0.CO;2

[ Abstract | Full Text PDF | Cited 57 Times | Impact Factor: 10.0 | 1 February 2007 ]
Ohtsu K, H Takahashi, PS Schnable, M Nakazono (2007) Cell type-specific gene expression profiling in plants by using a combination of laser microdissection and high-throughput technologies. Plant Cell Physiol, 48(1): 3-7. doi:10.1093/pcp/pcl049 (Epub: 5 Dec 2006)

[ Abstract | Full Text PDF | PMID: 17148694 | Cited 62 Times | Impact Factor: 3.9 | 5 December 2006 ]
Emrich SJ*, L Li*, TJ Wen, MD Yandeau-Nelson, Y Fu, L Guo, HH Chou, S Aluru, DA Ashlock, PS Schnable (2007) Nearly identical paralogs: implications for maize (Zea mays L.) genome evolution. Genetics, 175(1): 429-439. doi:10.1534/genetics.106.064006 (Featured in Science (315:302) as in Editor's Choice: Highlights of the recent literature; Selected as an Editors' Choice by MaizeGDB, 12/2006)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 17110490 | Cited 73 Times | Impact Factor: 3.3 | 19 October 2006 ]
Emrich SJ*, WB Barbazuk*, L Li, PS Schnable (2007) Gene discovery and annotation using LCM-454 transcriptome sequencing. Genome Res, 17(1): 69-73. doi:10.1101/gr.5145806 (Epub: 9 Nov 2006)

[ Abstract | Full Text PDF | PMID: 17095711 | Cited 405 Times | Impact Factor: 6.2 | 24 August 2006 ]
Kalyanaraman A, SJ Emrich, PS Schnable, S Aluru (2007) Assembling genomes on large-scale parallel computers. J Parallel Distr Com, 67: 1240-1255. doi:10.1109/IPDPS.2006.1639259 (Special issue devoted to IPDPS best papers)

[ Abstract | Full Text PDF | Impact Factor: 3.4 | 25 April 2006 ]

Fu Y, TJ Wen, YI Ronin, HD Chen, L Guo, DI Mester, Y Yang, M Lee, AB Korol, DA Ashlock, PS Schnable (2006) Genetic dissection of intermated recombinant inbred lines using a new genetic map of maize. Genetics, 174(3): 1671-1683. doi:10.1534/genetics.106.060376 (Epub: 1 Sep 2006)

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 16951074 | Cited 102 Times | Impact Factor: 3.3 | 21 August 2006 ]
Kalyanaraman A, S Aluru, PS Schnable (2006) Turning repeats to advantage: scaffolding genomic contigs using LTR retrotransposons. Proc IEEE Comput Syst Bioinform Conf, 5: 167-178. (Conference Website)

[ Abstract | Full Text PDF | PMID: 17369635 | 14 August 2006 ]
Yandeau-Nelson MD, BJ Nikolau, PS Schnable (2006) Effects of trans-acting genetic modifiers on meiotic recombination across the a1-sh2 interval of maize. Genetics, 174(1): 101-112. doi:10.1534/genetics.105.049270 (Epub: 2 Jul 2006; "Recommended" by the Faculty of 1000 Biology)

[ Abstract | Full Text PDF | PMID: 16816431 | Impact Factor: 3.3 | 26 June 2006 ]
Yandeau-Nelson MD, Y Xia, J Li, MG Neuffer, PS Schnable (2006) Unequal sister chromatid and homolog recombination at a tandem duplication of the a1 locus in maize. Genetics, 173(4): 2211-2226. doi:10.1534/genetics.105.052712 (Epub: 4 Jun 2006)

[ Abstract | Full Text PDF | PMID: 16751673 | Impact Factor: 3.3 | 31 May 2006 ]
Skibbe DS, X Wang, X Zhao, LA Borsuk, D Nettleton, PS Schnable (2006) Scanning microarrays at multiple intensities enhances discovery of differentially expressed genes. Bioinformatics, 22(15): 1863-1870. doi:10.1093/bioinformatics/btl270 (Epub: 26 May 2006)

[ Abstract | Full Text PDF | PMID: 16731695 | Impact Factor: 4.4 | 26 May 2006 ]
Swanson-Wagner RA*, Y Jia*, R DeCook, LA Borsuk, D Nettleton, PS Schnable (2006) All possible modes of gene action are observed in a global comparison of gene expression in a maize F₁ hybrid and its inbred parents. PNAS, 103(18): 6805-6810. doi:10.1073/pnas.0510430103 (Epub: 25 Apr 2006; "Recommended" by the Faculty of 1000 Biology; Identified by Thomson Reuters Scientific's Essential Science Indicators as the most highly cited paper in the research front map "On Applying Genome-Wide Selection"; podcast solicited by ScienceWatch.com: Download MP3 (5.7 MB) | WMA (2.5 MB))

[ Abstract | Full Text PDF | PMID: 16641103 | Cited 408 Times | Impact Factor: 9.4 | 2 May 2006 ]
Maher PM, HH Chou, E Hahn, TJ Wen, PS Schnable (2006) GRAMA: genetic mapping analysis of temperature gradient capillary electrophoresis data. Theor Appl Genet, 113(1): 156-162. doi:10.1007/s00122-006-0282-6 (Epub: 20 Apr 2006)

[ Abstract | Full Text PDF | PMID: 16783596 | Impact Factor: 4.4 | 20 April 2006 ]

Ashlock DA, RA Swanson-Wagner, PS Schnable (2005) Selection of genetically diverse recombinant inbreds with an ordered gene evolutionary algorithm. CIBCB'05. doi:10.1109/CIBCB.2005.1594923

[ Abstract | Full Text PDF | 14 November 2005 ]
Hochholdinger F, K Woll, L Guo, PS Schnable (2005) The accumulation of abundant soluble proteins changes early in the development of the primary roots of maize (Zea mays L.). Proteomics, 5(18): 4885-4893. doi:10.1002/pmic.200402034 (An image from this manuscript was selected for inclusion on the cover)

[ Abstract | Full Text PDF | PMID: 16247731 | Impact Factor: 3.4 | 24 October 2005 ]
Woll K, LA Borsuk, H Stransky, D Nettleton, PS Schnable, F Hochholdinger (2005) Isolation, characterization, and pericycle-specific transcriptome analyses of the novel maize lateral and seminal root initiation mutant rum1. Plant Physiol, 139(3): 1255-1267. doi:10.1104/pp.105.067330

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 16215225 | Cited 174 Times | Impact Factor: 6.5 | 7 October 2005 ]
Fu Y*, SJ Emrich*, L Guo, TJ Wen, DA Ashlock, S Aluru, PS Schnable (2005) Quality assessment of maize assembled genomic islands (MAGIs) and large-scale experimental verification of predicted genes. PNAS, 102(34): 12282-12287. doi:10.1073/pnas.0503394102

[ Abstract | Full Text PDF | PMID: 16103354 | Cited 85 Times | Impact Factor: 9.4 | 23 August 2005 ]
Jackson BN, S Aluru, PS Schnable (2005) Consensus genetic maps: a graph theoretic approach. Proc IEEE Comput Syst Bioinform Conf. doi:10.1109/CSB.2005.26

[ Abstract | Full Text PDF | PMID: 16447960 | 8 August 2005 ]
Wen TJ*, F Hochholdinger*, M Sauer, W Bruce, PS Schnable (2005) The roothairless1 gene of maize encodes a homolog of sec3, which is involved in polar exocytosis. Plant Physiol, 138(3): 1637-1643. doi:10.1104/pp.105.062174 (Epub: 24 Jun 2005; Selected as an Editors' Choice by MaizeGDB, 04/2007)

[ Abstract | Full Text PDF | PMID: 15980192 | Cited 188 Times | Impact Factor: 6.5 | 24 June 2005 ]
Hsia AP, TJ Wen, HD Chen, Z Liu, MD Yandeau-Nelson, Y Wei, L Guo, PS Schnable (2005) Temperature gradient capillary electrophoresis (TGCE)--A tool for the high-throughput discovery and mapping of SNPs and IDPs. Theor Appl Genet, 111(2): 218-225. doi:10.1007/s00122-005-1997-5

[ Abstract | Full Text PDF | PMID: 15912345 | Impact Factor: 4.4 | 23 May 2005 ]
Ding J, K Viswanathan, D Berleant, L Hughes, ES Wurtele, DA Ashlock, JA Dickerson, A Fulmer, PS Schnable (2005) Using the biological taxonomy to access biological literature with PathBinderH. Bioinformatics, 21(10): 2560-2562. doi:10.1093/bioinformatics/bti381

[ Abstract | Full Text PDF | PMID: 15769838 | Impact Factor: 4.4 | 15 May 2005 ]
Dietrich CR, MA Perera, MD Yandeau-Nelson, RB Meeley, BJ Nikolau, PS Schnable (2005) Characterization of two gl8 paralogs reveals that the 3-ketoacyl reductase component of fatty acid elongase is essential for maize (Zea mays L.) development. Plant J, 42(6): 844-861. doi:10.1111/j.1365-313X.2005.02418.x

[ Abstract | Full Text PDF | PMID: 15941398 | Cited 73 Times | Impact Factor: 6.2 | 5 May 2005 ]
Yao H, PS Schnable (2005) Cis-effects on meiotic recombination across distinct a1-sh2 intervals in a common Zea genetic background. Genetics, 170(4): 1929-1944. doi:10.1534/genetics.104.034454

[ Abstract | Full Text PDF | PMID: 15937141 | Impact Factor: 3.3 | 22 April 2005 ]
Yao H, L Guo*, Y Fu*, LA Borsuk, TJ Wen, DS Skibbe, X Cui, BE Scheffler, J Cao, SJ Emrich, DA Ashlock, PS Schnable (2005) Evaluation of five ab initio gene prediction programs for the discovery of maize genes. Plant Mol Biol, 57(3): 445-460. doi:10.1007/s11103-005-0271-1

[ Abstract | Full Text PDF | PMID: 15830133 | Impact Factor: 3.9 | 19 April 2005 ]
Yandeau-Nelson MD, Q Zhou, H Yao, X Xu, BJ Nikolau, PS Schnable (2005) MuDR transposase increases the frequency of meiotic crossovers in the vicinity of a Mu insertion in the maize a1 gene. Genetics, 169(2): 917-929. doi:10.1534/genetics.104.035089

[ Abstract | Full Text PDF | PMID: 15489518 | Impact Factor: 3.3 | 19 October 2004 ]
Skibbe DS, PS Schnable (2005) Male sterility in maize. Maydica, 50: 367-376.

[ Abstract | Full Text PDF | Impact Factor: 0.4 ]

Hochholdinger F, L Guo, PS Schnable (2004) Lateral roots affect the proteome of the primary root of maize (Zea mays L.). Plant Mol Biol, 56(3): 397-412. doi:10.1007/s11103-004-3476-9

[ Abstract | Full Text PDF | PMID: 15604752 | Cited 59 Times | Impact Factor: 3.9 | 3 January 2005 ]
Ashlock DA, SJ Emrich, KM Bryden, SM Corns, TJ Wen, PS Schnable (2004) A comparison of evolved finite state classifiers and interpolated Markov models for Improving PCR primer design. CIBCB'04. doi:10.1109/CIBCB.2004.1393953

[ Abstract | Full Text PDF | 7 October 2004 ]
Fu Y, AP Hsia, L Guo, PS Schnable (2004) Types and frequencies of sequencing errors in methyl-filtered and high C₀t maize genome survey sequences. Plant Physiol, 135(4): 2040-2045. doi:10.1104/pp.104.041640

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 15299135 | Impact Factor: 6.5 | 6 August 2004 ]
Kirch HH, D Bartels, Y Wei, PS Schnable, AJ Wood (2004) The ALDH gene superfamily of Arabidopsis. Trends Plant Sci, 9(8): 371-377. doi:10.1016/j.tplants.2004.06.004

[ Abstract | Full Text PDF | PMID: 15358267 | Cited 256 Times | Impact Factor: 17.3 | 15 July 2004 ]
Chou HH, AP Hsia, DL Mooney, PS Schnable (2004) Picky: oligo microarray design for large genomes. Bioinformatics, 20(17): 2893-2902. doi:10.1093/bioinformatics/bth347

[ Abstract | Full Text PDF | PMID: 15180932 | Cited 128 Times | Impact Factor: 4.4 | 4 June 2004 ]
da Costa e Silva O*, R Lorbiecke*, P Garg, L Müller, M Waßmann, P Lauert, MJ Scanlon, AP Hsia, PS Schnable, K Krupinska, U Wienand (2004) The Etched1 gene of Zea mays (L.) encodes a zinc ribbon protein that belongs to the transcriptionally active chromosome (TAC) of plastids and is similar to the transcription factor TFIIS. Plant J, 38(6): 923-939. doi:10.1111/j.1365-313X.2004.02094.x

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 15165185 | Impact Factor: 6.2 | 29 April 2004 ]
Hochholdinger F, L Guo, PS Schnable (2004) Cytoplasmic regulation of the accumulation of nuclear-encoded proteins in the mitochondrial proteome of maize. Plant J, 37(2): 199-208. doi:10.1046/j.1365-313X.2003.01955.x

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 14690504 | Cited 67 Times | Impact Factor: 6.2 | 3 December 2003 ]
Schnable PS, F Hochholdinger, M Nakazono (2004) Global expression profiling applied to plant development. Curr Opin Plant Biol, 7(1): 50-56. doi:10.1016/j.pbi.2003.11.001

[ Abstract | Full Text PDF | PMID: 14732441 | Cited 85 Times | Impact Factor: 8.3 | 19 November 2003 ]
Emrich SJ, S Aluru, Y Fu, TJ Wen, M Narayanan, L Guo, DA Ashlock, PS Schnable (2004) A strategy for assembling the maize (Zea mays L.) genome. Bioinformatics, 20(2): 140-147. doi:10.1093/bioinformatics/bth017

[ Abstract | Full Text PDF | PMID: 14734303 | Cited 72 Times | Impact Factor: 4.4 | 11 November 2003 ]

Qiu F*, L Guo*, TJ Wen, F Liu, DA Ashlock, PS Schnable (2003) DNA sequence-based "bar codes" for tracking the origins of expressed sequence tags from a maize cDNA library constructed using multiple mRNA sources. Plant Physiol, 133(2): 475-481. doi:10.1104/pp.103.025015

[ Abstract | Full Text PDF | PMID: 14555776 | Cited 74 Times | Impact Factor: 6.5 | 29 June 2003 ]
Nakazono M*, F Qiu*, LA Borsuk, PS Schnable (2003) Laser-capture microdissection, a tool for the global analysis of gene expression in specific plant cell types: identification of genes expressed differentially in epidermal cells or vascular tissues of maize. Plant Cell, 15(3): 583-596. doi:10.1105/tpc.008102 (Selected as a "must read" by the Faculty of 1000 Biology)

[ Abstract | Full Text PDF | PMID: 12615934 | Cited 378 Times | Impact Factor: 10.0 | 21 February 2003 ]
Cui X, AP Hsia, F Liu, DA Ashlock, RP Wise, PS Schnable (2003) Alternative transcription initiation sites and polyadenylation sites are recruited during Mu suppression at the rf2a locus of maize. Genetics, 163(2): 685-698. doi:10.1093/genetics/163.2.685

[ Abstract | Full Text PDF | PMID: 12618406 | Impact Factor: 3.3 | 4 November 2002 ]

Xu X, CR Dietrich, R Lessire, BJ Nikolau, PS Schnable (2002) The endoplasmic reticulum-associated maize GL8 protein is a component of the acyl-coenzyme A elongase involved in the production of cuticular waxes. Plant Physiol, 128(3): 924-934. doi:10.1104/pp.010621

[ Abstract | Full Text PDF | PMID: 11891248 | Cited 91 Times | Impact Factor: 6.5 | 24 December 2002 ]
Liu F, PS Schnable (2002) Functional specialization of maize mitochondrial aldehyde dehydrogenases. Plant Physiol, 130(4): 1657-1674. doi:10.1104/pp.012336

[ Abstract | Full Text PDF | PMID: 12481049 | Cited 108 Times | Impact Factor: 6.5 | 1 December 2002 ]
Dietrich CR, F Cui, ML Packila, J Li, DA Ashlock, BJ Nikolau, PS Schnable (2002) Maize Mu transposons are targeted to the 5' untranslated region of the gl8 gene and sequences flanking Mu target-site duplications exhibit nonrandom nucleotide composition throughout the genome. Genetics, 160(2): 697-716. doi:10.1093/genetics/160.2.697

[ Abstract | Full Text PDF | Supplemental Materials | PMID: 11861572 | Cited 100 Times | Impact Factor: 3.3 | 8 November 2001 ]
Yao H, Q Zhou, J Li, H Smith, MD Yandeau-Nelson, BJ Nikolau, PS Schnable (2002) Molecular characterization of meiotic recombination across the 140-kb multigenic a1-sh2 interval of maize. PNAS, 99(9): 6157-6162. doi:10.1073/pnas.082562199 (A commentary on this manuscript solicited by journal editors and written by Cliff Weil was provided in 99:5763-5765; selected as a "must read" by the Faculty of 1000 Biology)

[ Abstract | Full Text PDF | PMID: 11959909 | Cited 131 Times | Impact Factor: 9.4 | 22 October 2001 ]
Skibbe DS*, F Liu*, TJ Wen*, MD Yandeau-Nelson, X Cui, J Cao, CR Simmons, PS Schnable (2002) Characterization of the aldehyde dehydrogenase gene families of Zea mays and Arabidopsis. Plant Mol Biol, 48(5): 751-764. doi:10.1023/A:1014870429630

[ Abstract | Full Text PDF | PMID: 11999848 | Cited 87 Times | Impact Factor: 3.9 | 22 July 2001 ]

Bennetzen JL, VL Chandler, PS Schnable (2001) National Science Foundation-sponsored workshop report. Maize genome sequencing project. Plant Physiol, 127(4): 1572-1578. doi:10.1104/pp.010817

[ Abstract | Full Text PDF | PMID: 11743101 | Cited 70 Times | Impact Factor: 6.5 | 1 December 2001 ]
Liu F*, X Cui*, HT Horner, H Weiner, PS Schnable (2001) Mitochondrial aldehyde dehydrogenase activity is required for male fertility in maize. Plant Cell, 13(5): 1063-1078. doi:10.1105/tpc.13.5.1063 (An image from this manuscript was selected for inclusion on the cover)

[ Abstract | Full Text PDF | PMID: 11340182 | Cited 280 Times | Impact Factor: 10.0 | 1 May 2001 ]

Nikolau BJ, DJ Oliver, PS Schnable, ES Wurtele (2000) Molecular biology of acetyl-CoA metabolism. Biochem Soc Trans, 28(6): 591-593.

[ Abstract | Full Text PDF | PMID: 11171136 | Impact Factor: 3.8 | 3 July 2000 ]
Frame BR, H Zhang, SM Cocciolone, LV Sidorenko, CR Dietrich, SE Pegg, S Zhen, PS Schnable, K Wang (2000) Production of transgenic maize from bombarded type II callus: effect of gold particle size and callus morphology on transformation efficiency. In Vitro Cell Dev Biol-Plant, 36(1): 21-29. doi:10.1007/s11627-000-0007-5

[ Abstract | Full Text PDF | Cited 207 Times | Impact Factor: 2.2 | 2 November 1999 ]

Wise RP, CR Bronson, PS Schnable, HT Horner (1999) The genetics, pathology, and the molecular biology of T-cytoplasm male sterility in maize. Adv Agron, 65: 79-130. doi:10.1016/S0065-2113(08)60911-6

[ Abstract | Full Text PDF | Cited 70 Times | Impact Factor: 9.3 | 1 January 1999 ]
Wise RP, K Gobelman-Werner, D Pei, CL Dill, PS Schnable (1999) Mitochondrial transcript processing and restoration of male fertility in T-cytoplasm maize. J Hered, 90(3): 380-385. doi:10.1093/jhered/90.3.380

[ Abstract | Full Text PDF | PMID: 10355122 | Cited 89 Times | Impact Factor: 3.0 | 1 January 1999 ]
Rothschild MF, PS Schnable (1999) Animal and Plant Genomics: Driving the Golden Spike. AgBioTechNet.

[ Abstract ]

Schnable PS, RP Wise (1998) The molecular basis of cytoplasmic male sterility and fertility restoration. Trends Plant Sci, 3(5): 175-180. doi:10.1016/S1360-1385(98)01235-7

[ Abstract | Full Text PDF | Cited 910 Times | Impact Factor: 17.3 | 1 May 1998 ]
Schnable PS, AP Hsia, BJ Nikolau (1998) Genetic recombination in plants. Curr Opin Plant Biol, 1(2): 123-129. doi:10.1016/S1369-5266(98)80013-7

[ Abstract | Full Text PDF | PMID: 10066571 | Cited 117 Times | Impact Factor: 8.3 | 1 April 1998 ]

Xia Y, BJ Nikolau, PS Schnable (1997) Developmental and hormonal regulation of the arabidopsis CER2 gene that codes for a nuclear-localized protein required for the normal accumulation of cuticular waxes. Plant Physiol, 115(3): 925-937. doi:10.1104/pp.115.3.925

[ Abstract | Full Text PDF | PMID: 9390429 | Cited 88 Times | Impact Factor: 6.5 | 1 November 1997 ]
Xu X, CR Dietrich, M Delledonne, Y Xia, TJ Wen, DS Robertson, BJ Nikolau, PS Schnable (1997) Sequence analysis of the cloned glossy8 gene of maize suggests that it may code for a beta-ketoacyl reductase required for the biosynthesis of cuticular waxes. Plant Physiol, 115(2): 501-510. doi:10.1104/pp.115.2.501

[ Abstract | Full Text PDF | PMID: 9342868 | Cited 121 Times | Impact Factor: 6.5 | 1 October 1997 ]
Dill CL, RP Wise, PS Schnable (1997) Rf8 and rf* mediate unique T-urf13-transcript accumulation, revealing a conserved motif associated with RNA processing and restoration of pollen fertility in T-cytoplasm maize. Genetics, 147(3): 1367-1379. doi:10.1093/genetics/147.3.1367

[ Abstract | Full Text PDF | PMID: 9383077 | Cited 99 Times | Impact Factor: 3.3 | 30 June 1997 ]
Hansen JD, J Pyee, Y Xia, TJ Wen, DS Robertson, PE Kolattukudy, BJ Nikolau, PS Schnable (1997) The glossy1 locus of maize and an epidermis-specific cDNA from Kleinia odora define a class of receptor-like proteins required for the normal accumulation of cuticular waxes. Plant Physiol, 113(4): 1091-1100. doi:10.1104/pp.113.4.1091

[ Abstract | Full Text PDF | PMID: 9112770 | Cited 83 Times | Impact Factor: 6.5 | 1 April 1997 ]

Xia Y, BJ Nikolau, PS Schnable (1996) Cloning and characterization of CER2, an arabidopsis gene that affects cuticular wax accumulation. Plant Cell, 8(8): 1291-1304. doi:10.1105/tpc.8.8.1291

[ Abstract | Full Text PDF | PMID: 8776898 | Cited 141 Times | Impact Factor: 10.0 | 1 August 1996 ]
Wise RP, CL Dill, PS Schnable (1996) Mutator-induced mutations of the rf1 nuclear fertility restorer of T-cytoplasm maize alter the accumulation of T-urf13 mitochondrial transcripts. Genetics, 143(3): 1383-1394. doi:10.1093/genetics/143.3.1383

[ Abstract | Full Text PDF | PMID: 8807309 | Cited 68 Times | Impact Factor: 3.3 | 1 July 1996 ]
Cui X, RP Wise, PS Schnable (1996) The rf2 nuclear restorer gene of male-sterile T-cytoplasm maize. Science, 272(5266): 1334-1336. doi:10.1126/science.272.5266.1334

[ Abstract | Full Text PDF | PMID: 8650543 | Cited 453 Times | Impact Factor: 44.7 | 31 May 1996 ]
Hsia AP, PS Schnable (1996) DNA sequence analyses support the role of interrupted gap repair in the origin of internal deletions of the maize transposon, MuDR. Genetics, 142(2): 603-618. doi:10.1093/genetics/142.2.603

[ Abstract | Full Text PDF | PMID: 8852857 | Cited 66 Times | Impact Factor: 3.3 | 1 February 1996 ]

Xu X, AP Hsia, L Zhang, BJ Nikolau, PS Schnable (1995) Meiotic recombination break points resolve at high rates at the 5' end of a maize coding sequence. Plant Cell, 7(12): 2151-2161. doi:10.1105/tpc.7.12.2151

[ Abstract | Full Text PDF | PMID: 8718625 | Cited 103 Times | Impact Factor: 10.0 | 1 December 1996 ]
Bensen RJ, GS Johal, VC Crane, JT Tossberg, PS Schnable, RB Meeley, SP Briggs (1995) Cloning and Characterization of the Maize An1 Gene. Plant Cell, 7(1): 75-84. doi:10.1105/tpc.7.1.75

[ Abstract | Full Text PDF | PMID: 7696880 | Cited 562 Times | Impact Factor: 10.0 | 1 January 1996 ]
Han CD, RJ Derby, PS Schnable, RA Martienssen (1995) Characterization of the plastids affected by Class-II albino mutations of maize at the morphological and transcript levels. Maydica (Coe issue), 40: 13-22.

[ Impact Factor: 0.4 ]
Kasemsuwan T, JL Jane, PS Schnable, PS Stinard, DS Robertson (1995) Characterization of the dominant mutant amylose-extender (Ae1-5180) maize starch. Cereal Chem, 72: 457-464.

[ Cited 180 Times | Impact Factor: 2.2 ]

Civardi L, Y Xia, KJ Edwards, PS Schnable, BJ Nikolau (1994) The relationship between genetic and physical distances in the cloned a1-sh2 interval of the Zea mays L. genome. PNAS, 91(17): 8268-8272. doi:10.1073/pnas.91.17.8268

[ Abstract | Full Text PDF | PMID: 8058793 | Cited 212 Times | Impact Factor: 9.4 | 16 August 1994 ]
Schnable PS*, RP Wise* (1994) Recovery of heritable, transposon-induced, mutant alleles of the rf 2 nuclear restorer of T-cytoplasm maize. Genetics, 136(3): 1171-1185. doi:10.1093/genetics/136.3.1171

[ Abstract | Full Text PDF | PMID: 7911770 | Cited 61 Times | Impact Factor: 3.3 | 1 March 1994 ]
Wise RP*, PS Schnable* (1994) Mapping complementary genes in maize: positioning the rf1 and rf2 nuclear-fertility restorer loci of Texas (T) cytoplasm relative to RFLP and visible markers. Theor Appl Genet, 88(6): 785-795. doi:10.1007/BF01253987

[ Abstract | Full Text PDF | PMID: 24186179 | Impact Factor: 4.4 | 7 December 1993 ]
Schnable PS, PS Stinard, TJ Wen, S Heinen, D Weber, L Zhang, JD Hansen, BJ Nikolau (1994) The genetics of cuticular wax biosynthesis. Maydica (Robertson issue), 39: 279-287.

[ Cited 50 Times | Impact Factor: 0.4 ]
Wen TJ, PS Schnable (1994) Analyses of mutants of three genes that Influence root hair development in Zea mays (Gramineae) suggest that root hairs are dispensable. Am J Bot, 81: 833-842.

[ Abstract | Full Text PDF | Cited 107 Times | Impact Factor: 2.4 ]

Stinard PS, DS Robertson, PS Schnable (1993) Genetic Isolation, cloning, and analysis of a mutator-induced, dominant antimorph of the maize amylose extender1 Locus. Plant Cell, 5(11): 1555-1566. doi:10.1105/tpc.5.11.1555

[ Abstract | Full Text PDF | PMID: 12271046 | Cited 154 Times | Impact Factor: 10.0 | 1 November 1993 ]

Menssen A, S Höhmann, W Martin, PS Schnable, PA Peterson, H Saedler, A Gierl (1990) The En/Spm transposable element of Zea mays contains splice sites at the termini generating a novel intron from a dSpm element in the A2 gene. Embo J, 9(10): 3051-3057.

[ Abstract | Full Text PDF | PMID: 2170105 | Cited 221 Times | Impact Factor: 9.4 | 1 October 1990 ]

Schnable PS, PA Peterson (1989) Genetic evidence of a relationship between two maize transposable element systems: Cy and Mutator. Mol Gen Genet, 215(2): 317-321. doi:10.1007/BF00339735

[ Abstract | Full Text PDF | Supplemental Materials | Impact Factor: 2.7 | 12 August 1989 ]
Schnable PS, PA Peterson, H Saedler (1989) The bz-rcy allele of the Cy transposable element system of Zea mays contains a Mu-like element insertion. Mol Gen Genet, 217(2): 459-463.

[ PMID: 2549381 | Cited 61 Times | Impact Factor: 2.7 ]

Schnable PS, PA Peterson (1988) The Mutator-related Cy transposable element of Zea mays L. behaves as a near-Mendelian factor. Genetics, 120(2): 587-596. doi:10.1093/genetics/120.2.587

[ Abstract | Full Text PDF | PMID: 17246483 | Impact Factor: 3.3 | 1 October 1988 ]

Schnable PS, PA Peterson (1986) Distribution of genetically active Cy elements among diverse maize lines. Maydica (McClintock issue), 31: 59-81.

[ Impact Factor: 0.4 ]

Publications (1986 ~ 2024)