2016

  • Zhang, W., J. Xu, J. L. Bennetzen and J. Messing (2016) Teff, an orphan cereal in the Chloridoideae , provides insights into the evolution of storage proteins in grasses. Genome Biol. Evol. 6:1712-1721.
  • Rocha, D. M., C. G. T. de Jesus Andrade, R. Guyot, S. Chaluvadi, J. L. Bennetzen and A. L. Laforga Venzela (2016) Developmentally programmed cell death during asymmetric microsporogenesis in holocentric species of Rhynchospora (Cyperaceae). J. Exptl. Bot. 67:5391-5401.

2015

  • Brutnell, T. P., J. L. Bennetzen and J. P. Vogel (2015) Brachypodium distachyon and Setaria viridis: Model genetic systems for the grasses. Ann. Rev. Plant Biol. 66:505-530.
  • Ming, R., R. VanBuren, C. M. Wai, H. Tang, M. C. Schatz, J. E. Bowers, E. Lyons, M.-L. Wang, J. Chen, E. Biggers, J. Zhang, L. Huang, L. Zhang, W. Miao, J. Zhang, Z. Ye, C. Miao, Z. Lin, H. Wang, H. Zhou, W. C. Yim, H. P. Priest, C. Zheng, M. Woodhouse, P. P. Edger, R. Guyot, H.-B. Guo, H. Guo, G. Zheng, R. Singh, A. Sharma, X. Min, Y. Zheng, H. Lee, J. Gurtowski, F. J. Sadlazeck, A. Harkess, M. R. McKain, Z. Liao, J. Fang, J. Liu, X. Zhang, Q. Zhang, W. Hu, Y. Qin, K. Wang, L.-Y. Chen, N. Shirley, Y.-R. Lin, L.-Y. Liu, A. G. Hernandez, C. L. Wright, V. Bulone, G. A. Tuskan, K. Heath, F. Zee, P. H. Moore, R. Sunker, J. H. Leebens-Mack, T. Mockler, J. L. Bennetzen, M. Freeling, D. Sankoff, A. H. Paterson, X. Zhu, X. Yang, J. A. C. Smith, J. C. Cushman, R. E. Paull and Q. Yu (2015) The pineapple genome and the evolution of CAM photosynthesis. Nature Genet. doi: 10.1038/ng.3435.
  • Wang, X. and J. L. Bennetzen (2015) Current status and prospects for the study of Nicotiana genetics and nicotine biosynthesis genes. Mol. Gen. Genomics 290:11-21.
  • Urano, D., T. Dong, J. L. Bennetzen and A. M. Jones (2015) Adaptive evolution of signaling partners. Mol. Biol. Evol. doi: 10.1093/molbev/msu404.

2014

  • Bennetzen, J. L. and H. Wang (2014) The contributions of transposable elements to the structure, function, and evolution of plant genomes. Ann. Rev. Plant Biol. 65: 505-530.
  • Vaughn, J. N. and J. L. Bennetzen (2014) Natural insertions in rice commonly form tandem duplications indicative of patch-mediated double-strand break induction and repair. Proc. Natl. Acad. Sci. USA 111: 6684-6689.
  • Hawkins, J. S., V. Delgado, L. Feng, M. Carlise, H. K. Dooner and J. L. Bennetzen (2014) Variation in allelic expression associated with a recombination hotspot in Zea mays. Plant Journal 79: 375-384.
  • Vaughn, J. N., S. R. Chaluvadi, Tushar, L. Rangan and J. L. Bennetzen (2014) Whole plastome sequences from five ginger species facilitate marker development and define limits to barcode methodology. PloS One 9: e108581.
  • Chaluvadi, S. R., S. Khanam, M. A. M. Aly and J. L. Bennetzen (2014) Genetic diversity and population structure of native and introduced date palm (Phoenix dactylifera) germplasm in the United Arab Emirates. Trop Plant Biol. 7: 30-41.
  • Diao, X., J. Schnable, J. L. Bennetzen and J. Li (2014) Initiation of Setaria as a model plant. Front. Agr. Sci. Eng. 1:16-20.
  • Zhang, Q.-J., T. Zhu, E.-H. Xia, C. Shi, Y.-L. Liu, Y. Zhang, Y. Liu, W.-K Jiang, Y.-J. Zhao, S.-Y. Mao, L.-P. Zhang, H. Huang, J.-Y. Jiao, P.-Z. Xu, Q.-Y. Yao, F.-C. Zeng, L.-L. Yang, J. Gao, D.-Y. Tao, Y.-J. Wang, J. L. Bennetzen and L.-Z. Gao (2014) Rapid diversification of five Oryza AA genomes associated with rice adaptation. Proc. Natl. Acad. Sci. USA doi:10.1073/pnas.1418307111.
  • Wang, H., K. M. Devos and J. L. Bennetzen (2014) Recurrent loss of specific introns during angiosperm evolution. PLoS Genetics. doi:10.1371/journalpgen.1004843.

2013

  • Estep, M. C., J. D. DeBarry and J. L. Bennetzen (2013) The dynamics of LTR retrotransposon accumulation across 35 million years of panicoid grass evolution. Heredity 110:194-204.
  • Parvathaneni, R. K., V. Jakkula, F. K. Padi, S. Faure, N. Nethra, A. C. Pontaroli, X. Wu, J. L. Bennetzen and K. M. Devos (2013) Fine mapping and identification of a candidate gene underlying the d2 dwarfing phenotype in pearl millet, Cenchrus americanus (L.) Morrone. G3: Genes, Genomes and Genetics 3:567-572.
  • Wu, J. [and 59 other authors, including H. Wang and J. L. Bennetzen] (2013) The genome of the pear (Pyrus bretschneideri Rehd.). Genome Res. 23:396-408.
  • Zhu, Q., J. L. Bennetzen and S. M. Smith (2013) Isolation and diversity analysis of resistance gene homologues from switchgrass. G3: Genes, Genomes and Genetics 3:1031-1042.
  • Vitte, C., M. Estep, J. Leebens-Mack and J. L. Bennetzen (2013) Young, intact and nested retrotransposons are abundant in the onion and asparagus genomes. Annals Bot. 112:881-889.
  • Chao, M., H. Wang, D. Chung, J. L. Bennetzen and J. Westpheling (2013) Isolation and bioinformatics analysis of a novel transposable element, ISCbe4, from the hyperthermophilic bacterium, Caldicellulosiruptor bescii. J. Industrial Micro. Biotech., in press.
  • Wang, C., X. Shi, L. Liu, H. Li, J. S. S. Ammiraju, D. A. Kudrna, W. Xiong, H. Wang, Z. Dai, Y. Zheng, J. Lai, W. Jin, J. Messing, J. L. Bennetzen, R. A. Wing and M. Luo (2013) Genomic resources for gene discovery, functional genome annotation and evolutionary studies of maize and its close relatives. Genetics 195:723-737.
  • Fedoroff, N. V. and J. L. Bennetzen (2013) Transposons, genomic shock and genome evolution. In: N. V. Fedoroff, ed., Plant Transposons and Genome Dynamics in Evolution, John Wiley & Sons, pp. 181-201.

2012

  • Xu, J.-H., J. L. Bennetzen and J. Messing (2012) Dynamic gene copy number variation in collinear regions of grass genomes. Mol. Biol. Evol. 29:861-871.
  • Bennetzen, J. L., J. Schmutz, H. Wang, R. Percifield, J. Hawkins, A. C. Pontaroli, M. Estep, L. Feng, J. N. Vaughn, J. Grimwood, J. Jenkins, K. Barry, E. Lindquist, U. Hellsten, S. Deshpande, X. Wang, X. Wu, T. Mitros, J. Triplett, X. Yang, C.-Y. Ye, M. Mauro-Herrera, L. Wang, P. Li, M. Sharma, R. Sharma, P. C. Ronald, O. Panaud, E. A. Kellogg, T. Brutnell, A. Doust, G. A. Tuskan, D. Rokhsar and K. M. Devos (2012) Full genome sequence analysis of the model plant Setaria. Nature Biotech. 30:555-561.
  • Smith, S. M., Y. Yuan, A. N. Doust and J. L. Bennetzen (2012) Haplotype analysis and linkage disequilibrium at five loci in Eragrostis tef. G3: Genes, Genomes, Genetics 2:407-419.
  • Estep, M. C., B. S. Gowda, K. Huang, M. P. Timko and J. L. Bennetzen (2012) Genomic characterization for parasitic weeds of the genus Striga by sample sequence analysis. Plant Genome 5:30-41.
  • Urano, D., J. C. Jones, H. Wang, M. Mathew, W. Bradford, J. L. Bennetzen and A. M. Jones (2012) G protein activation without a GEF in the plant kingdom. PLoS Genetics, doi:10.1371/journal.pgen.1002756.
  • Zhu, Q., S. M. Smith, M. Ayele, L. Yang, A. Jogi, S. Chaluvadi and J. L. Bennetzen (2012) High throughput discovery of mutations in tef semi-dwarfing genes by next generation sequence analysis. Genetics. 192:819-829.
  • Wang, H. and J. L. Bennetzen (2012) Centromere retention and loss during the descent of maize from a tetraploid ancestor. Proc. Natl. Acad. Sci. USA 109:21004-21009.
  • Khanam, S., A. Sham, J. L. Bennetzen and M. A. M. Aly (2012) Analysis of molecular marker-based characterization and genetic variation in date palm (Phoenix dactylifera L.). Australian J. Crop Sci. 6:1236-1244.

2011

  • Shulaev, V. et al. [66 authors, including H. Wang and J. L. Bennetzen] (2011) The genome of woodland strawberry (Fragaria vesca). Nature Genet. 43:109-116.
  • Banks, J. A. et al. [103 authors, including J. DeBarry, L. Feng, L. Yang, Q. Zhu and J. L. Bennetzen)] (2011) The compact Selaginella genome identifies changes in gene content associated with the evolution of vascular plants. Science 332:960-963.
  • Al-Dous, E. K., B. George, M. E. Al-Mahmoud, M. Y. Al-Jaber, H. Wang, Y. M. Salameh, E. K. Al-Azwani, S. Chaluvadi, A. C. Pontaroli, J. DeBarry, J. Ohlrogge, V. Arondel, I. J. Saie, K. M. Suliman-Elmeer, J. L. Bennetzen, R. R. Kruegger and J. A. Malek (2011) De novo genome sequencing and comparative genomics of the date palm (Phoenix dactylifera). Nature Biotech. 29:521-527.
  • Mann, D. G. J., Z. R. King, W. Liu, B. L. Joyce, R. J. Percifield, J. S. Hawkins, P. R. LaFayette, B. J. Artelt, J. N. Burris, M. Mazarei, J. L. Bennetzen, W. A. Parrott, and C. N. Stewart, Jr. (2011) Switchgrass (Panicum virgatum L.) ubiquitin gene (PvUbi1 and PvUbi2) promoters for use in plant transformation. BMC Biotech. 11:74 (doi: 10.1186/1472-6750-11-74).
  • Estep, M., T. A. Van Mourik, P. Muth, D. Guindo, H. K. Parzies, O. A. Koita, E. Weltzien, and J. L. Bennetzen (2011) Genetic diversity of a parasitic weed, Striga hermonthica, on sorghum and pearl millet in Mali. Tropical Plant Biol. 4:91-98.
  • Lisch, D. and J. L. Bennetzen (2011) Transposable element origins of epigenetic gene regulation. Curr. Opin. Plant Biol. 14:156-161.
  • Zhu, J.-K. and J. L. Bennetzen (2011) Epigenetics of the epigenome. Curr. Opin. Plant Biol. 14:113-115.
  • Galbrith, D. W., J. L. Bennetzen, E. A. Kellogg, J. C. Pires and P. S. Soltis (2011) The genomes of all angiosperms: a call for a coordinated global census. J. Bot. doi:10.1155/2011/646198).
  • Wusirika, R., K. Li, R. L. Phillips and J. L. Bennetzen (2011) Zea. In: C. Kole, ed., Wild Crop Relatives: Genomic and Breeding Resources. Vol 1. Wild Relatives of Cereals. Springer Verlag, Berlin, Heidelberg, pp. 457-488.
  • Deshpande, A., A. C. Pontaroli, S. R. Chaluvadi, F. Lu, and J. L. Bennetzen (2011) Plant genetics for study of the roles of root exudates and microbes in soil. In: A. Costa de Oliveira and R. K. Varshney, eds., Root Genomics, Springer, pp. 99-112.
  • Vitte, C., T. Peterson and J. L. Bennetzen (2011) Transposable elements and the evolving structure of the maize genome. In: J. L. Prioul, ed., Advances in Maize, Taylor and Francis, Soc. Exp. Biol., London, pp. 2-36.

2010

  • Davis, T. M., M. E. Shields, Q. Zhang, D. C. Tombolato, J. L. Bennetzen, A. C. Pontaroli, H. Wang, Q. Yao, P. SanMiguel and K. M. Folta. (2010) An examination of targeted gene neighborhoods in strawberry. BMC Plant Biol. 10:81, publ. online.
  • Jetty, S., C. Fan, Y. Yu, X. Song, K. Cranston, A. C. Pontaroli, F. Lu, A. Sanyal, N. Jiang, T. Rambo, J. Currie, K. Collura, J. Talag, J. L. Bennetzen, M. Chen, S. Jackson and R. A. Wing (2010) Spatio-temporal patterns of genome evolution in allotetraploid species of the genus Oryza. Plant J. 63:430-442.

2009

  • Baucom, R. S., J. C. Estill, J. Leebens-Mack and J. L. Bennetzen (2009) Natural selection on gene function drives the evolution of LTR retrotransposon families in the rice genome. Genome Res. 19:243-254.
  • Lu, F., J. S. S. Ammiraju, A. Sanyal, S. Zhang, R. Song, J. Chen, G. Li, Y. Sui, Z. Cheng, A. C. de Oliveira, J. L. Bennetzen, S. A. Jackson, R. A. Wing and M. Chen (2009) Comparative sequence analysis of MONOCULM1-orthologous regions in fourteen Oryza genomes. Proc. Natl. Acad. Sci. USA 106:2071-2076.
  • Pontaroli, A. C., R. L. Rogers, Q. Zhang, M. E. Shields, T. M. Davis, K. M. Folta, P. SanMiguel and J. L. Bennetzen (2009) Gene content and distribution in the nuclear genome of Fragaria vesca. Plant Genome 2:83-91.
  • Estill, J. C. and J. L. Bennetzen (2009) The DAWGPAWS pipeline for the annotation of genes and transposable elements in plant genomes. Plant Methods 5:8 (online).
  • Yang, L. and J. L. Bennetzen (2009) Structure-based discovery and description of plant and animal Helitrons. Proc. Natl. Acad. Sci. USA 106:12832-12837.
  • Yang, L. and J. L. Bennetzen (2009) Distribution, diversity, evolution and survival of Helitrons in the maize genome. Proc. Natl. Acad. Sci. USA 106:19922-19927.
  • Tian, Z., C. Rizzon, J. Du, B. S. Gaut, J. L. Bennetzen, S. A. Jackson and J. Ma (2009) Genetic recombination shapes the pattern of DNA acquisition and elimination mediated by LTR-retrotransposons in rice. Genome Res. 19:2221-2230.
  • Schnable., P. et al.: Maize Genome Sequencing Consortium [~160 authors; R. Baucom, J. Estill, L. Yang, J. L. Bennetzen included] (2009) The B73 maize genome: complexity, diversity and dynamics. Science 326:1112-1115.
  • Baucom, R. S., J. C. Estill, N. Upshaw, A. Jogi, C. Chapparro, J. M. Deragon, R. R. Westerman, P. J. SanMiguel, and J. L. Bennetzen (2009) Exceptional diversity, non-random distribution and rapid evolution of retroelements in the B73 maize genome. PLOS Genetics 5: e1000732. doi:10.1371/journal.pgen.1000732.
  • Wei, F., J. C. Stein, C. Liang, J. Zhang, R. S. Fulton, R. S. Baucom, E. de Paoli, S. Zhou, L. Yang, Y. Han, S. Paternak, A. Narechania, L. Zhang, C.-T. Yeh, K. Ying, D. H. Nagel, K. Collura, D. Kudrna, J. Currie, J. Lin, H. Kim, A. Angelove, G. Scara, M. Wissotski, W. Golser, L. Courtney, S. Kruchowski, T. Graves, S. Rock, S. Adams, L. Fulton, C. Fronick, W. Courtney, M. Kramer, L. Spiegel, L. Nascimento, A. Kalyanaraman, C. Chaparro, J.-M. Deragon, P. SanMiguel, N. Jiang, S. R. Wessler, P. J. Green, Y. Yu, D. C. Schwartz, B. C. Meyers, J. L. Bennetzen, R. Martienssen, W. R. McCombie, S. Aluru, S. W. Clifton, P. S. Schnable, D. Ware, R. K. Wilson and R. A. Wing (2009) Detailed analysis of a contiguous 22-Mb region of the maize genome. PLOS Genetics 5: e1000728.
  • Doust, A. N., E. A. Kellogg, K. M. Devos and J. L. Bennetzen (2009) Foxtail millet (Setaria italica): a sequence-driven grass model system. Plant Physiol. 149:137-141.
  • Bennetzen, J. L. (2009) Biology and the beasts: individual investigator-driven research in the megaprojects era. Trends Genet. 25:57-59 (Inaugural article, Science and Society section).
  • Bennetzen, J. L. (2009) Maize genome structure and evolution. In J. L. Bennetzen and S. Hake, eds., The Maize Handbook – Volume II: Genetics and Genomics. Springer, New York, pp. 179-200.
  • Bennetzen, J. L. (2009) The future of maize. In J. L. Bennetzen and S. Hake, eds., The Maize Handbook – Volume II: Genetics and Genomics. Springer, New York, pp. 771-780.
  • Bennetzen, J. L., S. M. Smith, Y. Yuan and D. Groth (2009) Comparative plant biology: Opening new avenues for the improvement of orphan crops in a time of rapid and potentially catastrophic change in worldwide agriculture. In: Z. Tadele, ed., New approaches to Plant Breeding of Orphan Crops in Africa: Proceedings of an International Conference. Uni. Bern, Stampfli AG, Bern, pp. 11-20.

2008

  • Bennetzen, J. L. and M. Chen (2008) Grass genomic synteny illuminates plant genome function and evolution. RICE 1:109-118.
  • Ammiraju, J. S. S., F. Lu, A. Sanyal, Y. Yu, X. Song, N. Jiang, A. C. Pontaroli , T. Rambo, J. Currie, K. Collura, J. Talag, C. Fan, J. L. Goicoechea, A. Zuccolo, J. L. Bennetzen, M. Chen, S. Jackson and R. A. Wing (2008) Dynamic evolution of Oryza genomes revealed by comparative genomic analysis of a genus-wide vertical dataset. Plant Cell 20:3191-3209.
  • Devos, K. M., A. Costa de Oliveira, X. Xu, J. Estill, M. Estep, A. Jogi, M. Morales, J. Pinheiro, P. SanMiguel and J. L. Bennetzen (2008) Structure and organization of the wheat genome - the number of genes in the hexaploid wheat genome. In: R. Appels, R. Eastwood, E. Lagudah, P. Langridge, M. Mackay, L. McIntyre, and P. Sharp, eds., Proc. 11th International Wheat Genet. Symp. Sydney University Press, Sydney, pp. 1-5.
  • Nelson, W. M., M. Luo, J. Ma, M. Estep, J. Estill, R. He, J. Talag, N. Cisneros, D. Kudrna, H. Kim, J. S. S. Ammiraju, K. Collura, A. K. Bharti, J. Messing, R. A. Wing, P. SanMiguel, J. L. Bennetzen and C. Soderlund (2008) Methylation-sensitive linking libraries enhance gene-enriched sequencing of complex genomes and map DNA methylation domains. BMC Genomics 9:621.
  • Rensing, S. A., D. Lang, A. Zimmer, A. Terry, A. Salamov, H. Shapiro, T. Nishiyama, P.-F. Perroud, E. Lindquist,Y. Kamisugi, T. Tanahashi, K. Sakakibara, T. Fujita, K. Oishi, T. Shin, Y. Kuroki, A. Toyoda, Y. Suzuki, S. Hashimoto, K. Yamaguchi, S. Sugano, Y. Kohara, A. Fujiyama, A. Anterola, S. Aoki, N. Ashton, W. B. Barbazuk, E. Barker, J. L. Bennetzen, R. Blankenship, S. H. Cho, S. Dutcher, M. Estelle, J. A. Fawcett, H. Gundlach, K. Hanada, A. Heyl, K. A. Hicks, J. Hughes, M. Lohr, K. Mayer, A. Melkozernov, T. Murata, D. Nelson, B. Pils, M. Prigge, B. Reiss, T. Renner, S. Rombauts, P. Rushton, A. Sanderfoot, G. Schween, S.-H. Shiu, K. Stueber, F. L. Theodoulou, H. Tu, Y. Van de Peer, P. J. Verrier, E. Waters, A. Wood, L. Yang, D. Cove, A. C. Cuming, M. Hasebe, S. Lucas, B. D. Mishler, R. Reski, I. Grigoriev, R. S. Quatrano and J. L. Boore (2008) The genome of the moss Physcomitrella patens reveals evolutionary insights into the conquest of land by plants. Science 319:64-69.
  • DeBarry, J., R. Liu, and J. L. Bennetzen (2008) Discovery and assembly of repeat family pseudomolecules from sparse genomic sequence data using the Assisted Automated Assembler of Repeat Families (AAARF) algorithm. BMC Bioinformatics 9:235 (online).
  • Messing, J. and J. L. Bennetzen (2008) Grass genome structure and evolution. In J.-N. Volff, ed., Genome Dynamics Vol. 4: Plant Genomes. Karger Publishers, Basel, Switzerland, pp. 41-65.
  • Conner, J. A., S. Goel, G. Gunawan, M.-M. Cordonnier-Pratt, V. E. Johnson, C. Liang, H. Wang, L. H. Pratt, J. E. Mullet, J. DeBarry, L. Yang, J. L. Bennetzen, P. E. Klein and P. Ozias-Akins (2008) Sequence analysis of BAC clones from the apospory-specific genomic regions (ASGR) of Pennisetum and Cenchrus. Plant Physiol. 147:1396-1411.
  • Liu, R. and J. L. Bennetzen (2008) Enchilada redux: How complete is your genome sequence? New Phytol. 179:249-250.
  • Dida, M. M., N. Wanyera, M. L. Harrison Dunn, J. L. Bennetzen and K. M. Devos (2008) Population structure and diversity in finger millet (Eleusine coracana) germplasm. Tropical Plant Biol. 1:131-141.
  • Nagy, E. D. and J. L. Bennetzen (2008) Pathogen corruption and site-directed recombination at a plant disease resistance gene cluster. Genome Res., 18:1918-1923.

2007

  • Wicker, T., F. Sabot, A. Hua-Van, J. L. Bennetzen, P. Capy, B. Chaloub, A. Flavell , P. Leroy, M. Morgante, O. Panaud, E. Paux, P. SanMiguel, and A. Schulman (2007) A unified classification system for eukaryotic transposable elements. Nat. Rev. Genet. 8:973-982.
  • Ma, J., R. A. Wing, J. L. Bennetzen and S. A. Jackson (2007) Evolutionary history and positional shift of a rice centromere. Genetics 177:1217-1220.
  • Nagy, E. D., T. C. Lee, W. Ramakrishna, Z. Xu, P. E. Klein, P. SanMiguel, C. P. Cheng, J. Li, K. M. Devos, K. Schertz, L. Dunkle, J. L. Bennetzen (2007) Fine mapping of the Pc locus of Sorghum bicolor, a gene controlling the reaction to a fungal pathogen and its host-selective toxin. Theor. Appl. Genet. 114:961-70. Pub Med Link
  • Bennetzen, J. L. (2007) Patterns in grass genome evolution. Curr. Opin. Plant Biol. 10:176-181. Pub Med Link
  • Ma, J., R. A. Wing, J. L. Bennetzen, S. A. Jackson (2007) Plant centromere organization: a dynamic structure with conserved functions. Trends Genet. 23:134-139. Pub Med Link
  • Gorantla, M., P. R. Babu, V. B. Lachagari, A. M. Reddy, R. Wusirika, J. L. Bennetzen, A. R. Reddy (2007) Identification of stress-responsive genes in an indica rice (Oryza sativa L.) using ESTs generated from drought-stressed seedlings. J. Exp. Bot. 58:253-265. Pub Med Link
  • Dida, M. M., Srinivasachary, S. Ramakrishnan, J. L. Bennetzen, M. D. Gale, K. M. Devos (2007) The genetic map of finger millet, Eleusine coracana. Theor. Appl. Genet. 114:321-332. Pub Med Link
  • Corby-Harris, V., A. C. Pontaroli, L. J. Shimkets, J. L. Bennetzen, K. E. Habel, D. E. Promislow (2007) The geographical distribution and diversity of bacteria associated with natural populations of Drosophila melanogaster. Appl. Environ Microbiol. [epub ahead of print] Pub Med Link
  • Liu, R., C. Vitte, J. Ma, A. A. Mahama, T. Dhliwayo, M. Lee, J. L. Bennetzen (2007) A GeneTrek analysis of the maize genome. Proc. Natl. Acad. Sci. USA 104: 11844-11849. Pub Med Link

2006

  • Ma, J. and J. L. Bennetzen (2006) Recombination, rearrangement, reshuffling, and divergence in a centromeric region of rice. Proc. Natl. Acad. Sci. USA 103:383-8. Pub Med Link
  • Chan, A. P., G. Pertea, F. Cheung, D. Lee, L. Zheng, C. Whitelaw, A. C. Pontaroli, P. SanMiguel, Y. Yuan, J. Bennetzen, W. B. Barbazuk, J. Quackenbush, P. D. Rabinowicz (2006) The TIGR Maize Database. Nucl. Acids Res. 34:D771-6. Pub Med Link
  • Rabinowicz, P. D. and J. L. Bennetzen (2006) The maize genome as a model for efficient sequence analysis of large plant genomes. Curr. Opin. Plant Biol. 9:149-156. Pub Med Link
  • Chu, Z., B. Fu, H. Yang, C. Xu, Z. Li, A. Sanchez, Y. J. Park, J. L. Bennetzen, Q. Zhang, S. Wang (2006) Targeting xa13, a recessive gene for bacterial blight resistance in rice. Theor. Appl. Genet. 112:455-461. Pub Med Link
  • Bruggmann, R., A. K. Bharti, H. Gundlach, J. Lai, S. Young, A. C. Pontaroli, F. Wei, G. Haberer, G. Fuks, C. Du, C. Raymond, M. C. Estep, R. Liu, J. L. Bennetzen, A. P. Chan, P. D. Rabinowicz, J. Quackenbush, W. B. Barbazuk, R. A. Wing, B. Birren, C. Nusbaum, S. Rounsley, K. F. Mayer, J. Messing (2006) Uneven chromosome contraction and expansion in the maize genome. Genome Res. 16:1241-1251. Pub Med Link
  • Chu, Z., M. Yuan, J. Yao, X. Ge, B. Yuan, C. Xu, X. Li, B. Fu, Z. Li, J. L. Bennetzen, Q. Zhang, S. Wang (2006) Promoter mutations of an essential gene for pollen development result in disease resistance in rice. Genes Dev. 20:1250-1255. Pub Med Link
  • Vitte, C. and J. L. Bennetzen (2006) Analysis of retrotransposon structural diversity uncovers properties and propensities in angiosperm genome evolution. Proc. Natl. Acad. Sci. USA 103:17638-17643. Pub Med Link

2005

  • Bennetzen, J. L., J. Ma and K. M. Devos (2005) Mechanisms of recent genome size variation in flowering plants. Ann. Bot. 95:127-132. Pub Med link
  • Swigonova, Z., J. L. Bennetzen and J. Messing (2005) Structure and evolution of the r/b chromosomal regions in rice, maize, and sorghum. Genetics 169:891-906. Pub Med link
  • Devos, K. M., J. Ma, A. C. Pontaroli, L. H. Pratt and J. L. Bennetzen (2005) Analysis and mapping of randomly chosen bacterial artificial chromosome clones from hexaploid bread wheat. Proc. Natl. Acad. Sci. USA 102:19243-19248. Pub Med link
  • Bennetzen, J. L. (2005) Transposable elements, gene creation and genome rearrangement in flowering plants. Curr. Opin. Genet. Dev. 15:621-627. Pub Med link
  • Emberton, J., J. Ma, Y. Yuan, P. SanMiguel and J. L. Bennetzen (2005) Gene enrichment in maize with hypomethylated partial restriction (HMPR) libraries. Genome Res. 15:1441-1446. Pub Med link
  • Ma, J., P. SanMiguel, J. Lai, J. Messing and J. L. Bennetzen (2005) DNA rearrangement in orthologous orp regions of the maize, rice and sorghum genomes. Genetics 170:1209-1220. Pub Med Link
  • Bennetzen, J. L., R. Liu, J. Ma and A. Pontaroli (2005) Maize genome structure and rearrangement. Maydica (50th Anniversary issue) 50:387-392.
  • Bennetzen, J. L. (2005) Modes, rates and mechanisms of local genomic change in flowering plants: tempest in a pea plot. In F. T. Bakker, L. W. Chatrou, B. Gravendeel and P. B. Pelser, eds., Plant Species-level Systematics: new perspectives on pattern & process. Koeltz Scientific Books, Koenigstein, Germany, pp. 305-316.

2004

  • Muthukumar, B. and J. L. Bennetzen (2004) Isolation and characterization of genomic and transcribed retrotransposon sequences from sorghum. Mol. Genet. Genomics 271: 308-316. Pub Med link
  • Ma, J., K. M. Devos and J. L. Bennetzen (2004) Analyses of LTR-retrotransposon structures reveal recent and rapid genomic DNA loss in rice. Genome Res. 14: 860-869. Pub Med link
  • Yan, L., A. Loukoianov, A. Blechl, G. Tranquilli, W. Ramakishna, P. SanMiguel, J. L. Bennetzen, V. Echenique and J. Dubcovsky (2004) The wheat Vrn2 gene is a flowering repressor downregulated by vernalization. Science 303:1640-1644. Pub Med link
  • Ma, Jianxin and J. L. Bennetzen (2004) Rapid recent growth and divergence of rice nuclear genomes. Proc. Natl. Acad. Sci. USA 101:12404-12410. Pub Med link
  • Kellogg, E. A. and J. L. Bennetzen (2004) The evolution and phylogenetic relevance of nuclear genome structure in plants. Amer. J. Bot.
  • Swigonova, Z., J. Lai, J. Ma, W. Ramakrishna, V. Llaca, J. L. Bennetzen and J. Messing (2004) Close split of sorghum and maize genome progenitors. Genome Res. 14: 1916-1923. Pub Med link
  • Lai, J., J. Ma, Z. Swigonova, W. Ramakrishna, E. Linton, V. Llaca, B. Tanyolac, Y. Park, O. Jeong, J. L. Bennetzen and J. Messing (2004) Gene loss and movement in the maize genome. Genome Res. 14:1924-1931. Pub Med link
  • Bennetzen, J. L., C. Coleman, R. Liu, J. Ma, and W. Ramakrishna (2004) Consistent over-estimation of gene number in complex plant genomes. Curr. Opin. Plant Biol. 7:732-736. Pub Med link
  • Gill, B. S., R. Appels, A. M. Botha-Oberholster, C. R. Buell, J. L. Bennetzen, B. Chalhoub, F. Chumley, J. Dvorak, M. Iwanaga, B. Keller, W. Li, W. R. McCombie, Y. Ogihara, F. Quetier, T. Sasaki (2004) A workshop report on wheat genome sequencing: International Genome Research on Wheat Consortium. Genetics 168:1087-1096. Pub Med link

2003

  • Yuan, Y., P. J. SanMiguel and J. L. Bennetzen (2003) High Cot sequence analysis of the maize genome. Plant J. 34:249-255. Pub Med link
  • Sanz-Alferez, S., P. SanMiguel , Y.-K. Jin, P. S. Springer and J. L. Bennetzen (2003) Structure and evolution of the Cinful retrotransposon family of maize. Genome 46: 745-752. Pub Med link
  • Ilic , K., P. J. SanMiguel and J. L. Bennetzen (2003) A complex history of rearrangement in an orthologous region of the maize, sorghum and rice genomes. Proc. Natl. Acad. Sci. USA 100:12265-12270. Pub Med link
  • Whitelaw, C. A., W. B. Barbazuk, G. Pertea, A. P. Chan, F. Cheung, Y. Lee, L. Zheng, S. van Heeringen, S. Karamycheva, J. L. Bennetzen, P. SanMiguel, N. Lakey, J. Bedell, Y. Yuan, M. A. Budiman, A. Resnick, S. Van Aken, T. Utterback, S. Riedmuller, M. Williams, T. Feldblyum, K. Schubert, R. Beachy, C. M. Fraser, J. Quackenbush (2003) Enrichment of gene-coding sequences in maize by genome filtration. Science 302: 2118-2120. Pub Med link
  • Bennetzen, J. L. (2003) Higher throughput comparative genomics of wheat and related cereals. Proceedings of the Tenth International Wheat Genetics Symposium 1:215-220.
  • Bennetzen, J. L. and J. Ma (2003) The genetic colinearity of rice and other cereals based on genomic sequence analysis. Curr. Opin. Plant Biol. 6:128-133. Pub Med link
  • Ramakrishna, W. and J. L. Bennetzen (2003) Genomic colinearity as a tool for plant gene isolation. Methods Mol. Biol. 236:109-122. Pub Med link
  • Ramakrishna, W. and J. L. Bennetzen (2003) Genomic colinearity as a tool for plant gene isolation. In E. Grotewold, ed., Plant Functional Genomics. Humana Press, Totowa, NJ, pp 109-122.

2002

  • Reddy, A. R., W. Ramakrishna, A. C. Sekhar , N. Ithal , P. R. Babu , M. F. Bonaldo , M. B. Soares , andJ. L. Bennetzen (2002) Novel genes are enriched in normalized cDNA libraries from drought stressed seedlings of indica rice (Oryza sativa L. cv. Nagina 22). Genome 45:204-211. Pub Med link
  • SanMiguel , P. J., W. Ramakrishna, J. L. Bennetzen, C. S. Busso and J. Dubcovsky (2002) Transposable elements, genes and recombination in a 215-kb contig from wheat chromosome 5Am. Functional and Integrative Genomics 2:51-59. Pub Med link
  • Rostoks , N., Y.-J. Park, W. Ramakrishna, J. Ma, A. Druka , B. A. Shiloff , P. J. SanMiguel , Z. Jiang, R. Brueggeman , D. Sandhu , K. Gill, J. L. Bennetzen and A. Kleinhofs (2002) Genomic sequencing reveals gene content, genomic organization, and recombination relationships in barley. Functional and Integrative Genomics 2:70-80. Pub Med link
  • Ghebru, B., Schmidt, R. J. and J. L. Bennetzen (2002) Genetic diversity of Eritrean sorghum landraces assessed with Simple Sequence Repeat (SSR) markers. Theor. Appl. Genet. 105:229-236. Pub Med link
  • Devos, K. M., J. K. M. Brown and J. L. Bennetzen (2002) Genome size reduction through illegitimate recombination counteracts genome expansion in Arabidopsis. Genome Res. 12:1075-1079. Pub Med link
  • Yuan, Y., P. J. SanMiguel and J. L. Bennetzen (2002) Methylation-spanning linker libraries link gene-rich regions and identify epigenetic boundaries in Zea mays. Genome Res. 12:1345-1349. Pub Med link
  • Ramakrishna, W., J. Emberton, M. Ogden, P. SanMiguel and J. L. Bennetzen (2002) Structural analyses of the maize Rp1 complex reveals numerous sites and unexpected mechanisms of local rearrangement. Plant Cell 14:3213-3223. Pub Med link
  • Yan, L., V. Echenique , C. Busso, W. Ramakrishna, P. SanMiguel, J. L. Bennetzen, S. Harrington and J. Dubcovsky (2002) Cereal genes from the SNF2 family are members of a new subfamily that includes human and mouse genes. Mol. Genetics and Genomics 268:488-499. Pub Med link
  • Stam, M., C. Belele, W. Ramakrishna, J. Dorweiler, J. L. Bennetzen and V. L. Chandler (2002) The regulatory regions required for B' paramutation and expression are located far upstream of the maize b1 transcribed sequences. Genetics 162:917-930. Pub Med link
  • Ramakrishna, W., J. Dubcovsky, Y.-J. Park, C. Busso, J. Emberton, P. SanMiguel and J. L. Bennetzen (2002) Different types and rates of genome evolution detected by comparative sequence analysis of orthologous segments from four cereal genomes. Genetics 162:1389-1400. Pub Med link
  • Ramakrishna, W., J. Emberton, P. SanMiguel, M. Ogden, V. Llaca, J. Messing and J. L. Bennetzen (2002) Comparative sequence analysis of the sorghum rph region and the maize rp1 resistance gene complex. Plant Physiol. 130:1728-1738. Pub Med link
  • Ramakrishna, W., J. X. Ma, P. SanMiguel, J. Emberton, J. Dubcovsky, B. A. Shiloff, Z. Y. Jiang, N. Rostoks, C. S. Busso, M. Ogden, E. Linton, A. Kleinhofs, K. M. Devos, J. Messing and J. L. Bennetzen (2002) Frequent genic rearrangements in two regions of grass genomes identified by comparative sequence analysis. Compar. Funct. Genom. 3:165-166.
  • Beachy, R., J. L. Bennetzen, B. M. Chassy, M. Chrispeels, J. Chory, J. R. Ecker, J. P. Noel, S. A. Kay, C. Dean, C. Lamb, J. Jones, C. R. Santerre, J. I. Schroeder, J. Umen, M. Yanofsky, S. Wessler, Y. Zhao, and W. Parrott (2002) Divergent perspectives on GM food. Nature Biotech. 20:1195-1196. Pub Med link
  • Bennetzen, J. L. and K. M. Devos (2002) Plant synteny, colinearity and genome evolution. Encycl. Life Sci., http://www.els.net. London: Nature Publishing Group.
  • Bennetzen, J. L. (2002) Functional genomics in plants. Encyl. Life Sci., http://www.els.net. London: Nature Publishing Group.
  • Bennetzen, J. L., and W. Ramakrishna (2002) Numerous small rearrangements of gene content, order and orientation differentiate grass genomes. Plant Mol. Biol., 48:821-827. Pub Med link
  • Bennetzen, J. L. (2002) The rice genome. Opening the door to comparative plant biology. Science 296:60-63. Pub Med link
  • Bennetzen, J. L. (2002) Mechanisms and rates of genome expansion and contraction in flowering plants. Genetica 115:29-36. Pub Med link
  • Bennetzen, J. L. and W. Ramakrishna (2002) Exceptional haplotype variation in maize. Proc. Natl. Acad. Sci. USA 99:9093-9095. Pub Med link

2001

  • Tikhonov, A. P., L. Lavie, C. Tatout, J. L. Bennetzen, Z. Avramova and J. M. Deragon (2001) Target sites for SINE integration in Brassica genomes display nuclear matrix binding activity. Chrom. Res. 9:325-337. Pub Med link
  • Dubcovsky, J., W. Ramakrishna, P. SanMiguel, C. S. Busso, L. Yan, B. A. Shiloff and J. L. Bennetzen (2001) Comparative sequence analysis of colinear barley and rice BACs. Plant Physiol. 125:1342-1353. Pub Med link
  • Bennetzen, J., E. Buckler, V. Chandler, J. Doebley, J. Dorweiler, B. Gaut, M. Freeling, S. Hake, E. Kellogg, R. S. Poethig, V. Walbot and S. Wessler (2001) Genetic evidence and the origin of maize. Latin American Antiquity 12:84-86.
  • Bennetzen, J. L. (2001) Arabidopsis arrives. Nature Genet. 27:3-5. Pub Med link
  • Bennetzen, J. L., V. L. Chandler and P. Schnable (2001) National Science Foundation-sponsored workshop report. Maize genome sequencing project. Plant Physiol. 127:1572-1578. Pub Med link
  • Bennetzen, J. L., V. Subramanian, J. Xu , S. S. Salimath, S. Subramanian, D. Bhattramakki, and G. E. Hart (2001) A framework genetic map of sorghum containing RFLP, SSR and morphological markers. In R. L. Phillips and I. K. Vasil , eds., DNA-Based Markers in Plants (2nd Ed.). Kluwer Academic, Dordrecht, pp. 347-356.
  • Paterson, A. H., and J. L. Bennetzen (2001) Comparative mapping of plant chromosomes. In R. L. Phillips and I. K. Vasil, eds., DNA-Based Markers in Plants (2nd Ed.). Kluwer Academic, Dordrecht, pp. 101-114.
  • Devos, K. M. and J. L. Bennetzen (2001) Genome relationships: Maize and the grass model. In S. Brenner and J. H. Miller, eds., Encyclopedia of Genetics, Academic Press, New York , pp 863-865.
  • Bennetzen, J. L. (2001) Studies of genome structure and evolution in the cereals using comparative genomic sequencing. In KAST, eds., The Second Hallim International Symposium on Recent Advances in Life Science and Biotechnology, KAST Press, Seoul, Korea, pp. 27-47.
  • Bennetzen, J. L. and M. Ayele (2001) Genetic characterization of tef in the context of overall studies of grass genome content, organization, evolution and function. In H. Tefera, G. Belay and M. Sorrells, eds., Narrowing the Rift: Tef Research and Development, EARO Press, Addis Ababa, Ethiopia, pp.121-130.

2000

  • Tikhonov, A. P., J. L. Bennetzen and Z. Avramova (2000) Structural domains and matrix attachment regions along colinear chromosomal segments of maize and sorghum. Plant Cell 12:249-264. Pub Med link
  • Bennetzen, J. L. (2000) Transposable element contributions to plant gene and genome evolution. Plant Mol. Biol. 42:251-269.Pub Med link
  • Bennetzen, J. L. (2000) The many hues of plant heterochromatin. Genome Biol. 1:107.1-107.4. Pub Med link
  • Bennetzen, J. L. (2000) Comparative sequence analysis of plant nuclear genomes: microcolinearity and its many exceptions. Plant Cell 12:1021-1029. Pub Med link
  • Bennetzen, J. L., F. Gong, J. Xu, C. Newton and A. C. de Oliveira (2000) The study and engineering of resistance to the parasitic weed striga in rice, sorghum and maize. In B. I. G. Haussmann, D. E. Hess, M. L. Koyama, L. Grivet, H. F. W. Rattunde and H. H. Geiger, eds., Breeding for Striga Resistance in Cereals. Margraf Verlag , Weikersheim , Germany , pp. 197-206.
  • Kumar, A. and J. L. Bennetzen (2000) Retrotransposons: central players in the structure, evolution and function of plant genomes. Trends Plant Sci. 5:509-510.

1999

  • Tikhonov, A. P., P. J. SanMiguel , Y. Nakajima, N. D. Gorenstein, J. L. Bennetzen and Z. Avramova (1999) Colinearity and its exceptions in orthologous adh regions of maize and sorghum. Proc. Natl. Acad. Sci. USA 96:7409-7414. Pub Med link
  • Bennetzen, J. L. (1999) Plant genomics takes root, branches out. Trends Genet. 15:85-87. Pub Med link
  • Kumar, A. and J. L. Bennetzen (1999) Plant retrotransposons. Ann. Rev. Genet. 33:479-532. Pub Med link

1998

  • Chen, M., P. SanMiguel and J. L. Bennetzen (1998) Sequence organization and conservation in sh2/a1-homologous regions of sorghum and rice. Genetics 148:435-443. Pub Med link
  • Avramova, Z., A. Tikhonov, M. Chen and J. L. Bennetzen (1998) Matrix-attachment regions and structural colinearity in the genomes of two grass species. Nucl. Acids Res. 26:761-767. Pub Med link
  • SanMiguel, P. and J. L. Bennetzen (1998) Evidence that a recent increase in maize genome size was caused by the massive amplification of intergene retrotransposons. Annals Bot. 82:37-44.
  • SanMiguel, P., B. S. Gaut, A. Tikhonov, Y. Nakajima and J. L. Bennetzen (1998) The paleontology of intergene retrotransposons of maize. Nature Genet. 20:43-45. Pub Med link
  • Bennetzen, J. L., E. A. Kellogg, M. Lee and J. Messing (1998) A plant genome initiative. Plant Cell 10:488-493.
  • Bennetzen, J. L., P. SanMiguel, M. Chen, A. Tikhonov, M. Francki and Z. Avramova (1998) Grass genomes. Proc. Natl. Acad. Sci. USA 95:1975-1978. Pub Med link
  • Bennetzen, J. L. (1998) The structure and evolution of angiosperm nuclear genomes. Curr. Opin. Plant Biol. 1:103-108. Pub Med link
  • Bennetzen, J. L. (1998) The potential of biotechnology for the improvement of sorghum and pearl millet. Proc. 1996 Int'l Conf. on Genetic Improvement of Sorghum and Pearl Millet. INTSORMIL/ICRISAT Press, pp. 13-20.
  • Bennetzen, J. L. (1998) The evolution of grass genome organisation and function. In A. Greenland, E. M. Meyerowitz and M. Steer, eds., Control of Plant Development: Genes and Signals. Company of Biologists, Ltd., Cambridge, pp. 123-126. Pub Med link
  • Bennetzen, J. L. (1998) The grasses as a single genetic system. In I. K. Vasil, ed., Molecular Improvement of Cereal Crops. Kluwer Academic, Dordrecht, pp. 387-394.

1997

  • Chen, M., P. SanMiguel, A. C. de Oliveira, S.-S. Woo, H. Zhang, R. A. Wing, and J. L. Bennetzen (1997) Microcolinearity in the sh2-homologous regions of the maize, rice and sorghum genomes. Proc. Natl. Acad. Sci. USA 94:3431-3435. Pub Med link
  • Frederick, R. D., J. Chiu, J. L. Bennetzen and A. K. Handa (1997) Identification of a pathogenicity locus, rpfA, in Erwinia caratovora subsp. carotovora that encodes a two component sensor/regulator protein. Mol. Plant Microbe Interact. 10:407-415. Pub Med link
  • Bennetzen, J.L. and M. Freeling (1997) The unified grass genome: synergy in synteny. Genome Res. 7:301-307. Pub Med link
  • Bennetzen, J. L. and E. A. Kellogg (1997) Do plants have a one way ticket to genomic obesity? Plant Cell 9:1509-1514. Pub Med link
  • Bennetzen, J. L. and E. A. Kellogg (1997) Reply to "Slow but steady: Reduction of genome size through biased mutation" letter from Dmitri Petrov. Plant Cell 9:1901-1902. Pub Med link

1996

  • Oliveira, A. C., T. Richter and J. L. Bennetzen (1996) Regional and racial specificities in sorghum germplasm assessed with DNA markers. Genome 39:579-587. Pub Med link
  • Buckner, B., P. SanMiguel, D. Janick -Buckner and J. L. Bennetzen (1996) The Y1 gene of maize codes for phytoene synthase. Genetics 143:479-488. Pub Med link
  • Edwards, K. J., J. Veuskens, H. Rawles , A. Daly and J. L. Bennetzen (1996) Characterization of four dispersed repetitive DNA sequences in Zea mays and their use in constructing contiguous DNA fragments using YAC clones. Genome 39: 811-817.
  • SanMiguel, P., A. Tikhonov, Y.-K. Jin, N. Motchoulskaia, D. Zakharov, A. Melake-Berhan, P. S. Springer, K. J. Edwards, M. Lee, Z. Avramova and J. L. Bennetzen (1996) Nested retrotransposons in the intergenic regions of the maize genome. Science 274:765-768. Pub Med link
  • Yang, W., A. C. Oliveira, I. D. Godwin, K. Schertz and J. L. Bennetzen (1996) Comparison of DNA marker technologies in characterizing plant genome diversity: variability in Chinese sorghums. Crop Sci. 36:1669-1676.
  • Avramova, Z., A. Tikhonov, P. SanMiguel, Y.-K. Jin, C. Liu, S.-S. Woo, R. A. Wing and J. L. Bennetzen (1996) Gene identification in a complex chromosomal continuum by local genomic cross-referencing. Plant J. 10:1163-1168. Pub Med link
  • Chen, M., and J. L. Bennetzen (1996) Sequence organization in the Sh2/A1-homologous region of rice. Plant Mol. Biol. 32:999-1001. Pub Med link
  • Bennetzen, J. L. (1996) The contributions of retroelements to plant genome organization, function and evolution. Trends Micro. 4:347-353. Pub Med link
  • Bennetzen, J. L., P. SanMiguel, C.-N. Liu, M. Chen, A. Tikhonov, A. C. Oliveira, Y.-K. Jin, Z. Avramova, S.-S. Woo, H. Zhang, and R. A. Wing (1996) Microcollinearity and segmental duplication in the evolution of grass nuclear genomes. In: J.S. Heslop -Harrison, ed., Unifying Plant Genomes, Company of Biologists, Ltd., Cambridge, pp. 1-3. Pub Med link
  • Bennetzen, J. L. (1996) The Mutator transposable element system of maize. In H. Saedler and A. Gierl, eds., Transposable Elements, Springer-Verlag, Berlin, pp. 195-229. Pub Med link
  • Bennetzen, J. L. (1996) The use of comparative genome mapping in the identification, cloning and manipulation of important plant genes. In B. W. S. Sobral, ed., The Impact of Plant Molecular Genetics. Birkhauser, Boston, pp. 71-86.
  • Bennetzen, J. L., C.-N. Liu, P. SanMiguel, P. S. Springer, Y.-K. Jin, C. A. Zanta and Z. Avramova (1996) Commonalites and contrasts in the organization of the maize and sorghum nuclear genomes. In J. P. Gustafson and R. B. Flavell, eds., Genomes of Plants and Animals, Plenum, New York, pp. 103-114.

1995

  • Cresse, A. D., S. H. Hulbert, W. E. Brown, J. R. Lucas and J. L. Bennetzen (1995) Mu1-related transposable elements of maize preferentially insert into low copy number DNA. Genetics 140:315-324. Pub Med link
  • Sanz-Alferez, S., T. E. Richter, S. H. Hulbert and J. L. Bennetzen (1995) The Rp3 disease resistance gene of maize: mapping and characterization of introgressed alleles. Theor. Appl. Genet. 91:25-32.
  • Richter, T. E., A. J. Pryor, J. L. Bennetzen and S. H. Hulbert (1995) New rust resistance specificities associated with recombination in the Rp1 complex in maize. Genetics 141:373-381. Pub Med link
  • Salimath, S. S., A. C. de Oliveira, I. D. Godwin and J. L. Bennetzen (1995) Assessment of genome origins in the genus Eleusine with DNA markers. Genome 38:757-76. Pub Med link
  • Avramova, Z., P. SanMiguel, E. Georgieva and J. L. Bennetzen (1995) Matrix attachment regions and transcribed sequences within a long chromosomal continuum containing maize Adh1. Plant Cell 7:1667-1680. Pub Med link
  • Kantety, R. V., X. Zeng, J. L. Bennetzen and B. E. Zehr (1995) Assessment of genetic diversity in dent and popcorn (Zea mays L.) inbred lines using inter-simple sequence repeat (ISSR) amplification. Molecular Breeding 1:365-373.
  • Bennetzen, J. L. (1995) Biotechnology for sorghum improvement. African Crop Sci . J. 3:161-170.

1994

  • Zanta, C. A., X. Yang, J. D. Axtell and J. L. Bennetzen (1994) The candystripe locus, y-cs , determines mutable pigmentation of the sorghum leaf, flower, and pericarp . J. Hered. 85:23-29.
  • Springer, P. S., K. J. Edwards and J. L. Bennetzen (1994) DNA class organization on maize Adh1 yeast artificial chromosomes. Proc. Natl. Acad. Sci . USA 91:863-867. Pub Med link
  • Bennetzen, J. L. and P. S. Springer (1994) The generation of Mutator transposable element subfamilies in maize. Theor. Appl. Genet. 87:657-667.
  • Thomas, C. M., D. A. Jones, J. J. English, B. J. Carroll, J. L. Bennetzen, K. Harrison, A. Burbidge, G. J. Bishop and J. D. G. Jones (1994) Analysis of the chromosomal distribution of transposon-carrying T- DNAs in tomato using the inverse polymerase chain reaction. Mol. Gen. Genet. 242:573-585. Pub Med link
  • Jin, Y.-K. and J. L. Bennetzen (1994) Integration and nonrandom mutation of a plasma membrane proton ATPase gene fragment within the Bs1 retroelement of maize. Plant Cell 6:1177-1186. Pub Med link
  • Brown, W. E., P. S. Springer and J. L. Bennetzen (1994) Progressive modification of Mu transposable elements during development. Maydica 39:119-126.
  • Bennetzen, J. L., K. Schrick, P. S. Springer, W. E. Brown and P. SanMiguel (1994) Active maize genes are unmodified and flanked by diverse classes of modified, highly repetitive DNA. Genome 37:565-576. Pub Med link
  • Bennetzen, J. L. (1994) Inactivation and reactivation of mutability at a Mutator-derived bronze1 allele in maize. Maydica 39:309-317.
  • Bennetzen, J. L., S. Sanz-Alferez, K. S. Hong, T. E. Richter, R. D. Frederick, P. SanMiguel, and S. H. Hulbert (1994) Molecular genetic analysis of rust resistance genes in maize. In A. Bianchi, E. Luppotto and M. Motto, eds., Eucarpia, Breeding and Molecular Biology: Accomplishments and Future Promises. Bergamo, pp. 258-264.
  • Bennetzen, J. L. and A. Melake-Berhan (1994) Generation of a genetic map for Sorghum bicolor. In R. L. Phillips and I. K. Vasil, eds., DNA-Based Markers in Plants. Kluwer, Dordrecht, pp. 291-298.
  • Brown, W. E. and J. L. Bennetzen (1994) Transposon tagging technologies in maize. In Y. T. S. Bajaj, ed., Biotechnology in Agriculture and Forestry: Biotechnology in Maize Issue. Springer Verlag, New York, pp. 385-401.
  • Bennetzen, J. L., T. Richter, G. Hu, P. SanMiguel, K. Hong, R. Frederick and S. Hulbert (1994) Organization and hyperevolution of rust resistance genes in maize. In M. J. Daniels, J. A. Downie and A. E. Osbourn, eds., Advances in the Molecular Genetics of Plant-Microbe Interactions. Kluwer, Dordrecht, pp. 261-266.

1993

  • Sudupak, M. A., J. L. Bennetzen and S. H. Hulbert (1993) Unequal exchange and meiotic instability of Rp1 region disease resistance genes in maize. Genetics 133:119-125. Pub Med link
  • Hong, K. S., T. E. Richter, J. L. Bennetzen and S. H. Hulbert (1993) Complex duplications in maize lines. Mol. Gen. Genet. 239:115-121. Pub Med link
  • Melake-Berhan, A., S. H. Hulbert, L. G. Butler and J. L. Bennetzen (1993) Structure and evolution of the genomes of Sorghum bicolor and Zea mays. Theor. Appl. Genet. 86:598-604.
  • Avramova, Z. and J. L. Bennetzen (1993) Isolation of matrices from maize leaf nuclei and identification of a matrix-binding site adjacent to the Adh1 gene. Plant Mol. Biol. 22:1135-1143. Pub Med link
  • Simcox, K. D. and J. L. Bennetzen (1993) The use of molecular markers to study Setosphaeria turcica resistance in maize. Phytopath. 83:1326-1330.
  • Bennetzen, J. L., P. A. Springer, A. D. Cresse and M. Hendrickx (1993) Regulation and specificity of the Mutator transposable element system in maize. In B. V. Conger, ed., Crit. Rev. in Plant Sci. 12:57-95.
  • Bennetzen, J. L. and M. Freeling (1993) Grasses as a single genetic system: genome composition, collinearity and complementarity. Trends Genet. 9:259-261. Pub Med link

1992

  • Bennetzen, J. L. and S. H. Hulbert (1992) Organization, instability, and evolution of plant disease resistance genes. Plant Mol. Biol. 20:575-578. Pub Med link
  • Ingels, S. C., J. L. Bennetzen, S. H. Hulbert, M.-M. Qin and A. H. Ellingboe (1992) Mutator transposable elements that occur in clusters in the maize genome. J. Hered. 83:114-118.
  • Bennetzen, J. L. and J. D. G. Jones (1992) Approaches and progress in the molecular cloning of plant disease resistance genes. In J. K. Setlow, ed., Genetic Engineering, Principles and Methods. Vol. 14. Plenum Press, New York, pp. 99-124.

1991

  • Hulbert, S. H. and J. L. Bennetzen (1991) Recombination at the Rp1 locus of maize. Mol. Gen. Genet. 226:377-382. Pub Med link
  • Hulbert, S. H., P. C. Lyons and J. L. Bennetzen (1991) Reactions in maize lines carrying Rp resistance genes to isolates of the common rust pathogen, Puccinia sorghi. Plant Disease 75:1130-1133.
  • Lyznik, L. A., J. D. McGee, P.-Y. Tung, J. L. Bennetzen and T. K. Hodges (1991) Homologous recombination between plasmid DNA molecules in maize protoplasts. Mol. Gen. Genet. 230:209-218. Pub Med link
  • Bennetzen, J. L., S. H. Hulbert and P. C. Lyons (1991) Fine structure analysis of a maize disease resistance gene. In S. S. Patil, D. Mills and C. Vance, eds., Molecular Strategies of Pathogens and Host Plants. Springer Verlag, New York, pp. 177-188.

1990

  • Hulbert, S. H., T. E. Richter, J. D. Axtell and J. L. Bennetzen (1990) Genetic mapping and characterization of sorghum and related crops by means of maize DNA probes. Proc. Natl. Acad. Sci. USA 87:4251-4255. Pub Med link

1989

  • Brown, W. E., D. S. Robertson and J. L. Bennetzen (1989) Molecular analysis of multiple Mutator-derived mutations at the Bronze locus in maize. Genetics 122:439-445.
  • Eckdahl, T. T., J. L. Bennetzen and J. N. Anderson (1989) DNA structures associated with autonomously replicating sequences from plants. Plant Mol. Biol. 12:507-516.
  • Jin, Y.-K. and J. L. Bennetzen (1989) Structure and coding properties of the maize retrotransposon Bs1. Proc. Natl. Acad. Sci. USA 86:6235-6239.Pub Med link
  • Springer, P. S., E. A. Zimmer and J. L. Bennetzen (1989) Genomic organization of the ribosomal DNA of sorghum and its close relatives. Theor. Appl. Genet. 77:844-850.
  • Handa, A. K., J. Chiu, H. Rozycki and J. L. Bennetzen (1989) Evidence for global regulation of the expression of pathogenicity genes in soft rot Erwinias. Proceedings of the 7th Int'l. Conf. on Plant Path. Bacteria, Hungarian Acad. Sci., Budapest, 707-712.

1988

  • Bennetzen, J. L., M.-M. Qin, S. Ingels and A. H. Ellingboe (1988) Allele-specific and Mutator-associated instability at the Rp1 disease resistance locus of maize. Nature 332:369-370.
  • Bennetzen, J. L., W. E. Blevins and A. H. Ellingboe (1988) Cell-autonomous recognition of the rust pathogen determines Rp1-specified resistance in maize. Science 241:208-210.
  • Bennetzen, J.L., W. E. Brown and P. S. Springer (1988) DNA modification within and flanking maize transposable elements. In O. E. Nelson, Jr., ed., Plant Transposable Elements. Plenum Press, New York, pp. 237-250.
  • Bennetzen, J.L., S. H. Hulbert, P. J. San Miguel, C. Carter-Peek, J. Chiu and A. K. Handa (1988) Microbial interactions with maize. In D. P. Verma and R. Palacios, eds., Molecular Genetics of Plant-Microbe Interactions. APS Press, St. Paul, pp. 268-270.

1987

  • Bennetzen, J.L. (1987) Covalent DNA modification and the regulation of Mutator element transposition in maize. Mol. Gen. Genet. 208:45-51.
  • Bennetzen, J.L., R. P. Fracasso, D. W. Morris, D. S. Robertson, and M. J. Skogen-Hagenson (1987) Concomitant regulation of Mu1 transposition and Mutator activity in maize. Mol. Gen. Genet. 208:57-62.
  • Lee, L., C. Fenoll , and J. L. Bennetzen (1987) Construction and homologous expression of a maize Adh1 based NcoI cassette vector. Plant Physiol. 85:327-330.
  • Handa , A. K., R. A. Bressan , L. Lee, D. J. Charles, R. K. Jayaswal , J. Chiu, and J. L. Bennetzen (1987) Characterization of pathogenicity genes of Erwinia carotovora. In D. P. S. Verma and N. Brisson, eds., Molecular Genetics of Plant-Microbe Interactions. Martinus Nijhof, Dordrecht, Netherlands, p. 67-72.
  • Bennetzen, J.L., A. Cresse, W. E. Brown, and L. Lee (1987) Molecular cloning of maize genes by transposon tagging with Mutator. UCLA Symp. Mol. Cell. Biol., 62:183-204.

1986-1980

  • Bennetzen, J. L. (1985) The regulation of Mutator function and Mu1 transposition. UCLA Symp. Mol. Cell. Biol. 35:343-354.
  • Dennis, E. S., W. L. Gerlach, A. J. Pryor, J. L. Bennetzen, A. Inglis, D. Llewellyn, M. Sachs, R. J. Ferl and W. J. Peacock (1984) The Adh1 gene of maize. Nucl. Acids Res. 12:3983-4000. Pub Med link
  • Bennetzen, J. L., J. Swanson, W. C. Taylor and M. Freeling (1984) DNA insertion in the first intron of maize Adh1 affects transcript levels: Cloning of progenitor and mutant alleles. Proc. Natl. Acad. Sci. USA 81:4125-4128. Pub Med link
  • Barker, R. F., D. V. Thompson, D. R. Talbot, J. Swanson and J. L. Bennetzen (1984) Nucleotide sequence of the maize transposable element Mu1. Nucl. Acids Res. 12:5955-5967. Pub Med link
  • Bennetzen, J. L. (1984) Transposable element Mu1 is found in multiple copies only in Robertson's Mutator maize lines. J. Mol. Appl. Genet. 2:519-524. Pub Med link
  • Bennetzen, J. L. and T. L. Adams (1984) Selection and characterization of cadmium-resistant suspension cultures of the wild tomato Lycopersicon peruvianum. Plant Cell Rep. 3:258-261.
  • Bennetzen, J. L. (1984) Genetic engineering for improved crop disease resistance. In G. B. Collins and J. F. Petolino, eds., Applications of Genetic Engineering to Crop Improvement. Martinus Nijhof/Dr. W. Junk, Dordrecht, Netherlands, pp. 491-524.
  • Bennetzen, J. L. and B. D. Hall (1982) The primary structure of the Saccharomyces cerevisiae gene for alcohol dehydrogenase I. J. Biol. Chem. 257:3018-3025. Pub Med link
  • Bennetzen, J. L. and B. D. Hall (1982) Codon selection in yeast. J. Biol. Chem. 257:3026-3031. Pub Med link
  • Strommer, J. N., S. Hake, J. Bennetzen, W. C. Taylor and M. Freeling (1982) Regulatory mutants of the Adh1 gene in maize caused by DNA insertions. Nature 300:542-544.
  • Lescure, B., J. Bennetzen and A. Sentenac (1981) In vitro transcription of the yeast alcohol dehydrogenase I gene by homologous RNA polymerase B. (II) Selective initiation and discontinuous elongation on a supercoiled template. J. Biol. Chem. 256:1018-1024. Pub Med link
  • Nagamine, Y., J. Bennetzen, A. Sentenac and P. Fromageot (1981) Single-stranded DNA transcription by yeast RNA polymerase B. Biochim. Biophys. Acta 656:220-227. Pub Med link
  • Williamson, V. M., J. Bennetzen, E. T. Young, K. Nasmyth and B. D. Hall (1980) Isolation of the structural gene for alcohol dehydrogenase by genetic complementation in yeast. Nature 283:214-216. Pub Med link