Publications

* indicates corresponding author

2009
2002 2001 2000-

2009 Top

Schreiber, AW, T Sutton, RA Caldo, E Kalashyan, B Lovell, G Mayo, GJ Muehlbauer, A Druka, R Waugh, RP Wise, P Langridge, and U Baumann. 2009. Comparative transcriptomics in the Triticeae. BMC Genomics 10: 285. [Full Text]

Wise, RP*, N Lauter, L Szabo, and P Schweizer. 2009. Genomics of Biotic Interactions in the Triticeae. In Triticeae Genomics Handbook (Feuillet, C. and Muehlbauer, G. eds), Chapter 19. New York: Springer.

Hu, P, Y Meng, and RP Wise*. 2009. Functional contribution of chorismate synthase, anthranilate synthase, and chorismate mutase to penetration resistance in barley-powdery mildew interactions. Molecular Plant-Microbe Interactions 22(3): 311-320. [Full Text]

Meng, Y, MJ Moscou, and RP Wise*. 2009. Blufensin1 negatively impacts basal defense in response to barley powdery mildew. Plant Physiology 149: 271-285. [Full Text]

Schulte, D, TJ Close, A Graner, P Langridge, T Matsumoto, G. Muehlbauer, K Sato, AH Schulman, R Waugh, RP Wise, and N Stein*. 2009. The international barley sequencing consortium—at the threshold of efficient access to the barley genome. Plant Physiology 149: 142-147. [Full Text]

2008 Top

Druka, A, I Druka, AG Centeno, H Li, Z Sun, W Thomas, N Bonar, BJ Steffenson, SE Ullrich, A Kleinhofs, RP Wise, TJ Close, E Potokina, Z Luo, C Wagner, GF Schweizer, DF Marshall, MJ Kearsey, RW Williams, and R Waugh. 2008. Towards systems genetic analyses in barley: Integration of phenotypic, expression and genotype data into GeneNetwork. BMC Genetics 9:73. [Full Text]

Moscou, M, RA Caldo, N Lauter, and RP Wise*. 2008. Construction of coexpression networks to explore barley-powdery mildew interactions. In Plant-Microbe Interactions: Molecular and Genetic Perspectives St. Paul, MN: International Society of Molecular Plant-Microbe Interactions.

Druka, A, E Potokina, ZW Luo, N Bonar, I Druka, L Zhang, DF Marshall, B Steffenson, T Close, RP Wise, A Kleinhofs, RW Williams, MJ Kearsey, and R Waugh. 2008. Exploiting regulatory variation to identify genes underlying loci of quantitative resistance to the wheat stem rust pathogen Puccinia graminis f. sp. tritici in barley. Theoretical and Applied Genetics 117: 261-272. [Full Text]

Potokina, E, A Druka, Z Luo, M Moscou, R Wise, R Waugh, and M Kearsey. 2008. Tissue-dependent limited pleiotropy affects gene expression in barley. Plant Journal 56(2): 287-296. [Full Text]

Hu, P and RP Wise*. 2008. Diversification of Lrk/Tak kinase gene clusters is associated with subfunctionalization and cultivar-specific transcript accumulation in barley. Functional & Integrative Genomics 8(3): 199-209. [Full Text]

Kronmiller, BA and RP Wise*. 2008. TEnest: Automated chronological annotation and visualization of nested plant transposable elements. Plant Physiology 146: 45-59. [Full Text] [Cover Picture]

Potokina, E, A Druka, Z Luo, R Wise, R Waugh, and M Kearsey. 2008. Gene expression quantitative trait locus analysis of 16,000 barley genes reveals a complex pattern of genome-wide transcriptional regulation. The Plant Journal 53(1): 90-101. [Full Text]

2007 Top

Wise, RP*, RA Caldo, L Hong, L Shen, EK Cannon, and JA Dickerson. 2007. BarleyBase/PLEXdb: A unified expression profiling database for plants and plant pathogens. In Methods in Molecular Biology, Vol. 406, Plant Bioinformatics - Methods and Protocols (Edwards, D. ed. Totowa, NJ: Humana Press, pp. 347-363.

Wise RP*, MJ Moscou, AJ Bogdanove, and SA Whitham. 2007. Transcript profiling in host-pathogen interactions. Annual Review of Phytopathology 45: 329-369. [Full Text]

Luo ZW, E Potokina, A Druka, R Wise, R Waugh, and MJ Kearsey. 2007. SFP genotyping from Affymetrix arrays is robust but largely detects cis-acting expression regulators. Genetics 176: 789-800. [Full Text]

2006 Top

Caldo, RA, D Nettleton, and RP Wise*. 2006. Interplay of gene-specific disease resistance, basal defense, and the suppression of host-responses to barley powdery mildew. In Biology of Plant-Microbe Interactions (Frederico Sanchez, C.Q., Isabel Lopez-Lara, Otto Geiger. ed. St. Paul, MN: International Society of Molecular Plant-Microbe Interactions, pp. 620-624.

Rossi C, A Cuesta-Marcos, I Vales, L Gomez-Pando, G Orjeda, R Wise, K Sato, K Hori, F Capettini, H Vivar, X Chen, and P Hayes. 2006. Mapping multiple disease resistance genes using a barley mapping population evaluated in Peru, Mexico, and the USA. Molecular Breeding 18(4): 355-366. [Full Text]

Nettleton D, JTG Hwang, RA Caldo, and RP Wise. 2006. Estimating the number of true null hypotheses from a histogram of p-values. Journal of Agricultural, Biological, and Environmental Statistics 11(3): 337-356. [Full Text]

Kirst M, R Caldo, P Casati, G Tanimoto, V Walbot, RP Wise, and ES Buckler. 2006. Genetic diversity contribution to errors in short oligonucleotide microarray analysis. Plant Biotechnology Journal 4: 489-498. [Full Text]

Caldo RA, D Nettleton, J Peng, and RP Wise*. 2006. Stage-specific suppression of basal defense discriminates barley plants containing fast- and delayed-acting Mla powdery mildew resistance alleles. Molecular Plant-Microbe Interactions 19(9): 939-947. [Full Text]

Druka A, G Muehlbauer, I Druka, R Caldo, U Baumann, N Rostoks, A Schreiber, RP Wise, T Close, A Kleinhofs, A Graner, A Schulman, P Langridge, K Sato, P Hayes, J McNicol, D Marshall, and R Waugh. 2006. An atlas of gene expression from seed to seed through barley development. Functional & Integrative Genomics 6: 202-211. [Full Text]

Halterman, DA and RP Wise*. 2006. Upstream open reading frames of the barley Mla13 powdery mildew resistance gene function co-operatively to down-regulate translation. Molecular Plant Pathology 7(3): 167-176. [Full Text]

2005 Top

Shen, L, J Gong, RA Caldo, D Nettleton, D Cook, RP Wise, and JA Dickerson*. 2005. BarleyBase-an expression profiling database for plant genomics. Nucleic Acids Research 33: D614-D618. [Full Text]

2004 Top

Caldo, RA, D Nettleton and RP Wise*. 2004. Interaction-dependent gene expression in Mla-specified response to barley powdery mildew. Plant Cell 16: 2514-2528. [Abstract] [In this issue:TPC 16:2249-2251]

Close, TJ, S Wanamaker, R Caldo, SM Turner, DA Ashlock, JA Dickerson, RA Wing, GJ Muehlbauer, A Kleinhofs and RP Wise*. 2004. A new resource for cereal genomics: 22K barley GeneChip comes of age. Plant Physiology 134: 960-968. [Abstract]

Halterman, D and RP Wise*. 2004. A single amino acid substitution in the sixth leucine-rich repeat of barley MLA6 and MLA13 alleviates dependence on RAR1 for disease resistance signaling. Plant Journal 38: 215-226. [Abstract] [Cover Picture]

2003 Top

Halterman, D, F Wei, and RP Wise*. 2003. Powdery mildew induced Mla mRNAs are alternatively spliced and contain multiple upstream open reading frames. Plant Physiology 131: 558-567. [Abstract]

Cui, XQ, A-P Hsia, F Liu, DA Ashlock, RP Wise, and PS Schnable*. 2003. Alternative transcription initiation sites and polyadenylation sites are recruited during Mu suppression at the rf2a locus in maize. Genetics 163:685-698.[Abstract]

2002 Top

Wei, F, R Wing, and RP Wise*. 2002. Genome dynamics and evolution of the Mla (powdery mildew) resistance locus in barley. Plant Cell 14:1903-1917. [Abstract] [Animation]

Wise, RP*, DR Pring. 2002. Nuclear-mediated mitochondrial gene regulation and male fertility in higher plants: Light at the end of the tunnel? PNAS 99:10240-10242.

2001 Top

Halterman, D, F Zhou, F Wei, RP Wise*, and P Schulze-Lefert. 2001. The MLA6 coiled-coil, NBS-LRR protein confers AvrMla6-dependent resistance specificity to Blumeria graminis f. sp. hordei in barley and wheat. Plant Journal 25:335-348. [Abstract]

Zhou, F, J Kurth, F Wei, C Elliott, G Valè, N Yahiaoui, B Keller, S Somerville, R Wise, and P Schulze-Lefert*. 2001. Cell-autonomous expression of barley Mla1 confers race-specific resistance to the powdery mildew fungus via a Rar1 independent signaling pathway. Plant Cell 13:337-350. [Abstract]

Yu, GX, Braun, E, and RP Wise*. 2001. Rds and Rih mediate hypersensitive cell death independent of gene-for-gene resistance to the oat crown rust pathogen, Puccinia coronata f. sp. avenae. Molecular Plant Microbe Interactions 14:1376-1383. [Abstract] [Cover Picture]

2000- Top

Yu, GX and RP Wise*. 2000. An anchored AFLP and retrotransposon-based map of diploid Avena. Genome 43:736-749. [Abstract]

Wise, RP*. 2000. Disease resistance: What’s brewing in barley genomics. Plant Disease 84:1160-1170.

Yu, Y, JP Tomkins, R Waugh, DA Frisch, D Kudrna, A Kleinhofs, RS Brueggeman, GJ Muehlbauer, RP Wise,·and RA Wing*. 2000. A bacterial artificial chromosome library for barley (Hordeum vulgare L.) and the identification of clones containing putative resistance genes. Theoretical & Applied Genetics 7:1093-1099. [Abstract]

Wise, RP*, F Wei, and R Wing. 2000. Sequence Analysis of the 270-kb Mla-Spanning Region Reveals Coupled Defense Gene Families. Proceedings of the 8th International Barley Genetics Symposium. Vol. II, pp. 208-210. Adelaide, Australia.

Gobelman-Werner, K and RP Wise*. 2000. RAPD-derived markers flanking the Mla resistance gene cluster in barley. Journal of Agricultural Genomics. Online at http://www.cabi-publishing.org/gateways/jag/papers00/paper400/indexpage400.html.

Kianian SF*, SL Fox , S Groh, N Tinker, LS O’Donoughue , PJ Rayapati , RP Wise, M Lee, ME Sorrells, SD Tanksley, G Fedak, SJ Molnar, HW Rines and RL Phillips. 2000. Molecular marker linkage maps in diploid and hexaploid oat (Avena sp.). DNA-based markers in plants’, 2nd edition. R.L. Phillips and I.K. Vasil. Chapter 25 pp.443-462.

Wise, RP*, K Gobelman-Werner, P Deqing, CL Dill, and PS Schnable. 1999. Mitochondrial transcript processing and restoration of male fertility in T-cytoplasm maize. Presented at the 1998 American Genetics Association Symposium "Plant Mitochondrial Genetics and Molecular Biology" for the Journal of Heredity 90:380-385. [Abstract]

Wise, RP, CR Bronson, PS Schnable, and HT Horner*. 1999. The genetics, pathology and molecular biology of T-cytoplasm male sterility in maize. Advances in Agronomy 65: 79-130.

Wei, F, K Gobelman-Werner, SM Morroll, J Kurth, L Mao, R Wing, D Leister, P Schulze-Lefert, and RP Wise*. 1999. The Mla (powdery mildew) resistance cluster is associated with three NBS-LRR gene families and suppressed recombination within a 240-kb DNA interval on chromosome 5S (1HS) of barley. Genetics 153:1929-1948. [Abstract]

Bush, AL and RP Wise*. 1998. High resolution mapping adjacent to the Pc71 crown-rust resistance locus in hexaploid oat. Molecular Breeding 4:13-21. [Abstract]

Schnable, PS* and RP Wise*. 1998. The molecular basis of cytoplasmic male sterility and fertility restoration. Trends in Plant Science 3:175-180.

Dill, CL, RP Wise*, and 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 147:1367-1379. [Abstract]

Bush, AL and RP Wise*. 1996. Crown rust resistance loci on linkage groups 4 and 13 in cultivated oat. Journal of Heredity 87:427-432. [Abstract]

Wise, RP*, M Lee, and PJ Rayapati. 1996. Recombination within a 5-cM region in diploid Avena reveals multiple specificities conferring resistance to Puccinia coronata. Phytopathology 86:340-346. [Abstract]

Yu, GX, AL Bush, and RP Wise*. 1996. Comparative mapping of homoeologous group 1 regions and genes for resistance to obligate biotrophs in Avena, Hordeum, and Zea mays. Genome 39:155-164. [Abstract]

DeScenzo, RD and RP Wise*. 1996. Variation in the ratio of physical to genetic distance in intervals adjacent to the Mla locus on barley chromosome 1H. Molecular & General Genetics 251:472-482. [Abstract]

Wise, RP*, CL Dill, and 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 143:1383-1394. [Abstract]

Cui, XQ, RP Wise, and PS Schnable*. 1996. The rf2 nuclear restorer gene of male-sterile, T-cytoplasm maize. Science 272:1334-1336. [Abstract]

 

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