Publications

2022

Li, C., Gent J.I., Xu H., Fu H., Russell S.D. and Sundaresan V. 2022.  Resetting of the 24-nt siRNA landscape in rice zygotes. Genome Res 32(2): 309-323.

2021

Swentowsky, K. W., Bell H. S. , Wills D. M. and Dawe R. K. 2021.  QTL Map of Early- and Late-Stage Perennial Regrowth in Zea diploperennis. Front Plant Sci 12: 707839.

Chougule, M., Ou, S., Liu, J., Ricci, W.A., Guo, T., Olson, A., Qiu, Y., Coletta, R.D., Tittes, S., Hudson, A.I., Marand, A.P., Wei, S., Lu, Z., Wang, B., Tello-Ruiz, M.K., Piri, R.D., Wang, N., Kim, D.w., Zeng, Y., O’Connor, C.H., Li, X., Gilbert, A.M., Baggs, E., Krasileva, K.V., Portwood II, J.L., Cannon, E.K.S., Andorf, C.M., Manchanda, N., Snodgrass, S.J., Hufnagel, D.E., Jiang, Q., Pedersen, S., Syring, M. L., Kudrna, D.A., Llaca, V., Fengler, K., Schmitz, R.J., Ross-Ibarra, J., Yu, J., Gent, J. I., C. N. Hirsch, C.N., Ware, D., and Dawe, R. K. 2021.  De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes. Science 373: 655-662.

Wang, N., Liu, J., Ricci, W.A., Gent, J.I., and Dawe, R.K. 2021.  Maize centromeric chromatin scales with changes in genome size. Genetics 217(4).

Wang, N., Gent, J.I., and Dawe, R.K. 2021.  Haploid induction by a maize cenh3 null mutant. Science Advances  7:eabe2299.

2020

Liu, J., Seetharam, A.S., Chougule, K., Ou, S., Swentowsky, K.W., Gent, J.I., Llaca, V., Woodhouse, M., Manchanda, N., Presting, G.G., Kudrna, D., Alabady, M., Hirsch, C., Fengler, K., Ware, D., Michael, T., Hufford, M., and Dawe, R.K. 2020.  Gapless assembly of maize chromosomes using long read technologies. Genome Biology 21:121.

Swentowsky, K.W., Gent, J.I., Lowry, E.G., Schubert, V., Ran X., Tseng, K.F., Harkess, A.E., Qiu, W., and Dawe, R.K. 2020. Distinct kinesin motors drive two types of maize neocentromeres. Genes and Development 34:1239-1251.

Li, C., Xu, H., Fu, F.F., Russell, S.D., Sundaresan, V., and Gent, J.I. Genome-wide redistribution of 24-nt siRNAs in rice gametes. Genome Research 30:173-184.

Ou, S., Liu, J., Chougule, K.M., Fungtammasan, A., Seetharam, A.S., Stein, J.C., Llaca, V., Manchanda, N., Gilbert, A.M., Wei, S., Chin, C.S., Hufnagel, D.E., Pedersen, S., Snodgrass, S.J., Fengler, K., Woodhouse, M., Walenz, B.P., Koren, S., Phillippy, A.M., Hannigan, B.T., Dawe, R.K., Hirsch, C.N., Hufford, M.B., and Ware, D.  Effect of sequence depth and length in long-read assembly of the maize inbred NC358. Nature Communications 11:2288.

Dawe, R.K. 2020.  Charting the path to fully synthetic plant chromosomes. Experimental Cell Research 390(1):111951.

2019

Liu, J., Nannas, N.J., Fu, F.F., Shi, J., Aspinwall, B., Parrott, W.A., and Dawe, R.K. 2019.  Genome-Scale Sequence Disruption Following Biolistic Transformation in Rice and Maize. Plant Cell 31(2):368-383.

2018

Dawe, R.K., Lowry, E.G., Gent, J.I., Stitzer, M.C., Swentowsky, K.W., Higgins, D.M., Ross-Ibarra, J., Wallace, J.G., Kanizay, L.B., Alabady, M., Qiu, W., Tseng, K-F., Wang, N., Gao, Z., Birchler, J.A., Harkess, A.E., Hodges A.L., and Hiatt, E.N. 2018.  A Kinesin-14 Motor Activates Neocentromeres to Promote Meiotic Drive in Maize. Cell 173(4):839-850.

Springer, N.M., … 14 other authors … Dawe, R.K., … 37 other authors … Brutnell, T.P. 2018.  The maize W22 genome provides a foundation for functional genomics and transposon biology. Nature Genetics 50(9):1282-1288.

Fu, F.F., Dawe, R.K., and Gent, J.I. 2018.  Loss of RNA-Directed DNA Methylation in Maize Chromomethylase and DDM1-Type Nucleosome Remodeler Mutants. Plant Cell 30(7)1617-1627.

Gicking, A.M., Swentowsky, K.W., Dawe, R.K., and Qiu, W. 2018.  Functional diversification of the kinesin-14 family in land plants. FEBS Letters 592(12):1918-1928.

Wang, N and Dawe, R.K. 2018.  Centromere Size and Its Relationship to Haploid Formation in Plants. Molecular Plant 11(3):398-406.

Hall, D.W., and Dawe, R.K. 2018.  Modeling the Evolution of Female Meiotic Drive in Maize. G3: Genes|Genomes|Genetics 8(1):123-130.

Higgins, D.M., Lowry, E.G., Kanizay, L.B., Becraft, P.W., Hall, D.W., and Dawe, R.K. 2018.  Fitness Costs and Variation in Transmission Distortion Associated with the Abnormal Chromosome 10 Meiotic Drive System in Maize. Genetics 208(1):297-305.

Udall, J.A. and Dawe, R.K. 2018.  Is It Ordered Correctly? Validating Genome Assemblies by Optical Mapping. Plant Cell 30(1):7-14

2017

Gent, J.I., Wang, N., and Dawe, R.K. 2017.  Stable centromere positioning in diverse sequence contexts of complex and satellite centromeres of maize and wild relatives. Genome Biology 18:121

Jiao, Y., Peluso, P., Shi, J., … 21 other authors… Dawe, R.K., Hastie, A., Rank, D.R., Ware, D.  2017. Improved maize reference genome with single-molecule technologies. Nature 546:524-52

2016

Nannas, N.J. and, Dawe, R.K. 2016. Live cell imaging of meiotic spindle and chromosome dynamics in maize (Zea mays). Current Protocols in Plant Biology 1:546-565

D. M. Higgins, N. J. Nannas, R. K. Dawe (2016). The maize Divergent spindle-1 (dv1) gene encodes a kinesin-14A motor protein required for meiotic spindle pole organization. Frontiers in Plant Science. 7: 1277.

T. Wolfgruber, M. Nakashima, K. Schneider, A. Sharma, Z. Xie, P. Albert, R. Xu, P. Bilinski, R. K. Dawe, J. Ross-Ibarra, J. Birchler, G. Presting (2016). High quality maize centromere 10 sequence reveals evidence of frequent recombination events. Frontiers in Plant Science. 7: 308.

H. Zhao, X. Zhu, K. Wang, J. Gent, W. Zhang, R. K. Dawe, J. Jiang (2016). Gene Expression and Chromatin Modifications Associated with Maize Centromeres. G3: Genes|Genomes|Genetics 6(1): 183-192.

2015

N. Ellis, R. Douglas, C. Jackson, J. Birchler, R. K. Dawe (2015). Generation of a Maize B Centromere Minimal Map Containing the Central Core Domain. G3: Genes|Genomes|Genetics 5(12): 2857-2864.

Q. Li, J. I Gent, G. Zynda, J. Song, I. Makarevitch, C. Hirsch, C. Hirsch, R. K. Dawe, T. Madzima, K. McGinnis, D. Lisch, R. Schmitz, M. Vaughn, N. Springer (2015). RNA-directed DNA methylation enforces boundaries between heterochromatin and euchromatin in the maize genome. PNAS 112(47): 14728-14733.

J. Gent, K. Wang, J. Jiang, R. K. Dawe (2015). Stable patterns of CENH3 occupancy through maize lineages containing genetically similar centromeres. Genetics 200(4): 1105-1116.

N. Nannas, R. K. Dawe (2015). Genetic and Genomic Toolbox of Zea mays. Genetics 199(3): 655-669.

P. Bilinski, K. Distor, J. Gutierrez-Lopez, G. Mendoza, J. Shi, R.K. Dawe, and J. Ross-Ibarra (2015). Diversity and evolution of centromere repeates in the maize genome. Chromosoma 124: 57.

2014

J. Gent, T. Madzima, R. Bader, M. Kent, X. Zhang, M. Stam, K. McGinnis and R. K. Dawe (2014). Accessible DNA and Relative Depletion of H3K9me2 at Maize Loci Undergoing RNA-Directed DNA Methylation. Plant Cell 26(12): 4903-4917.

K. Wang, Y. Wu, W. Zhang, R.K. Dawe and J. Jiang (2014). Maize centromeres expand and adopt a uniform size in the genetic background of oat. Genome Research 24(1): 107-116.

2013

 

L.B. Kanizay, P.S. Albert, J.A. Birchler and R.K. Dawe (2013). Intragenomic Conflict Between the Two Major Knob Repeats of Maize. Genetics 194(1): 81-89.

 

L.B. Kanizay, T. Pyhäjärvi, E.G. Lowry, M.B. Hufford, D.G. Peterson, J. Ross-Ibarra and R.K. Dawe (2013). Diversity and abundance of the Abnormal chromosome 10 meiotic drive complex in Zea mays. Heredity 110: 570-577.

 

Gent, J.I., N.I. Ellis, L. Guo, A.E. Harkess, Y. Yao, X. Zhang and R.K. Dawe (2013). CHH islands: de novo DNA methylation in near-gene chromatin regulation in maize. Genome Res. 23: 628-637

 

2012

 

Ghaffari, R., E.K. Cannon, L.B. Kanizay, C.J. Lawrence and R.K. Dawe (2012). Maize chromosomal knobs are located in gene-dense areas and suppress local recombination. Chromosoma 122(1-2): 67-75.

 

Eichten, S.R., N.A. Ellis, I. Makarevitch, C.T. Yeh, J.I. Gent, L. Guo, K.M. McGinnis, X. Zhang, P.S. Schnable, M.W. Vaughn, R.K. Dawe and N.M. Springer (2012). Spreading of heterochromatin is limited to specific families of maize retrotransposons. PLoS Genet 8(12): e1003127.

 

Burgos-Rivera, B. and R.K. Dawe (2012). An Arabidopsis tissue-specific RNAi method for studying genes essential to mitosis. PLoS One 7(12): e51388.

 

Zhang, H., B.H. Phan, K. Wang, B.J. Artelt, J. Jiang, W.A. Parrott and R.K. Dawe (2012). Stable integration of an engineered megabase repeat array into the maize genome. Plant J 70(2): 357-365.

 

Zhang, H. and R.K. Dawe (2012). Total centromere size and genome size are strongly correlated in ten grass species. Chromosome Res 20(4): 403-412.

 

Gent, J.I., Y. Dong, J. Jiang and R.K. Dawe (2012). Strong epigenetic similarity between maize centromeric and pericentromeric regions at the level of small RNAs, DNA methylation and H3 chromatin modifications. Nucleic Acids Res 40(4): 1550-1560.

 

Gent, J.I. and R.K. Dawe (2012). RNA as a Structural and Regulatory Component of the Centromere. Annu Rev Genet 46: 443-453.

 

Fang, Z., T. Pyhajarvi, A.L. Weber, R.K. Dawe, J.C. Glaubitz, J. Gonzalez Jde, C. Ross-Ibarra, J. Doebley, P.L. Morrell and J. Ross-Ibarra (2012). Megabase-scale inversion polymorphism in the wild ancestor of maize. Genetics 191(3): 883-894.

 

Li, X., Topp, C.N., and R.K. Dawe (2012). Maize Antibody Procedures: Immunlocalization and Chromatin Immunoprecipitation. Plant Cytogenetics. 271-286.

 

M.J. Sheehan, R.K. Dawe and W.P. Pawlowski (2012). Live Imaging of Chromosome Dynamics. Plant Meiosis. 79-92.

 

2011

Zhang, H. and R.K. Dawe (2011). Mechanisms of plant spindle formation. Chromosome Res 19(3): 335-344.

 

Gent, J.I., K.L. Schneider, C.N. Topp, C. Rodriguez, G.G. Presting and R.K. Dawe (2011). Distinct influences of tandem repeats and retrotransposons on CENH3 nucleosome positioning. Epigenetics Chromatin 4: 3.

 

2010

 

Shi, J., S.E. Wolf, J.M. Burke, G.G. Presting, J. Ross-Ibarra and R.K. Dawe (2010). Widespread gene conversion in centromere cores. PLoS Biol 8(3): e1000327. (and associated commentary article by Talbert and Henikoff and Nature Highlight)

 

Du, Y., C.N. Topp and R.K. Dawe (2010). DNA binding of Centromere Protein C (CENPC) is stabilized by single stranded RNA. PLoS Genet 6(2): e1000835.

 

2009

 

Wolfgruber, T.K., A. Sharma, K.L. Schneider, P.S. Albert, D.H. Koo, J. Shi, Z. Gao, F. Han, H. Lee, R. Xu, J. Allison, J.A. Birchler, J. Jiang, R.K. Dawe and G.G. Presting (2009). Maize centromere structure and evolution: sequence analysis of centromeres 2 and 5 reveals dynamic Loci shaped primarily by retrotransposons. PLoS Genet 5(11): e1000743.

 

Topp, C.N., R.J. Okagaki, J.R. Melo, R.G. Kynast, R.L. Phillips and R.K. Dawe (2009). Identification of a maize neocentromere in an oat-maize addition line. Cytogenet Genome Res 124(3-4): 228-238.

 

Schnable, P.S., … 155 other authors including R.K. Dawe … R.K. Wilson (2009). The B73 maize genome: complexity, diversity and dynamics. Science 326(5956): 1112-1115.

 

Li, X. and R.K. Dawe (2009). Fused sister kinetochores initiate the reductional division in meiosis I. Nat Cell Biol 11(9): 1103-1108.

 

Kanizay, L. and R.K. Dawe (2009). Centromeres: long intergenic spaces with adaptive features. Funct Integr Genomics 9(3): 287-292.

 

Dawe, R.K. (2009). Maize Centromeres and Knobs (neocentromeres). Handbook of Maize Genetics and Genomics. J. L. Bennetzen and S. Hake. New York, Springer. II: 239-250.

 

2008

 

Houben, A., R.K. Dawe, J. Jiang and I. Schubert (2008). Engineered plant minichromosomes: a bottom-up success? Plant Cell 20(1): 8-10.

 

2007

 

Phan, B.H., W. Jin, C.N. Topp, C.X. Zhong, J. Jiang, R.K. Dawe and W.A. Parrott (2007). Transformation of rice with long DNA-segments consisting of random genomic DNA or centromere-specific DNA. Transgenic Res 16(3): 341-351.

 

Du, Y. and R.K. Dawe (2007). Maize NDC80 is a constitutive feature of the central kinetochore. Chromosome Res 15(6): 767-775.

 

2006

 

Topp, C.N. and R.K. Dawe (2006). Reinterpreting pericentromeric heterochromatin. Curr Opin Plant Biol 9(6): 647-653.

 

Shi, J. and R.K. Dawe (2006). Partitioning of the maize epigenome by the number of methyl groups on histone H3 lysines 9 and 27. Genetics 173(3): 1571-1583.

 

Mroczek, R.J., J.R. Melo, A.C. Luce, E.N. Hiatt and R.K. Dawe (2006). The maize Ab10 meiotic drive system maps to supernumerary sequences in a large complex haplotype. Genetics 174(1): 145-154.

 

Luce, A.C., A. Sharma, O.S. Mollere, T.K. Wolfgruber, K. Nagaki, J. Jiang, G.G. Presting and R.K. Dawe (2006). Precise centromere mapping using a combination of repeat junction markers and chromatin immunoprecipitation-polymerase chain reaction. . Genetics 174(2): 1057-1061.

 

Dawe, R.K. and S. Henikoff (2006). Centromeres put epigenetics in the driver’s seat. Trends Biochem Sci 31(12): 662-669.

 

2005

 

Zhang, X., X. Li, J.B. Marshall, C.X. Zhong and R.K. Dawe (2005). Phosphoserines on maize CENTROMERIC HISTONE H3 and histone H3 demarcate the centromere and pericentromere during chromosome segregation. Plant Cell 17(2): 572-583.

 

Jin, W., J.C. Lamb, J.M. Vega, R.K. Dawe, J.A. Birchler and J. Jiang (2005). Molecular and functional dissection of the maize B chromosome centromere. Plant Cell 17(5): 1412-1423.

 

Dawe, R.K., E.A. Richardson and X. Zhang (2005). The simple ultrastructure of the maize kinetochore fits a two-domain model. Cytogenet Genome Res 109(1-3): 128-133.

 

Dawe, R.K. (2005). . Centromere renewal and replacement in the plant kingdom. Proc Natl Acad Sci U S A 102(33): 11573-11574.

 

2004

 

Topp, C.N., C.X. Zhong and R.K. Dawe (2004). Centromere-encoded RNAs are integral components of the maize kinetochore. Proc Natl Acad Sci U S A 101(45): 15986-15991.

 

Lawrence, C.J., C.M. Zmasek, R.K. Dawe and R.L. Malmberg (2004). LumberJack: a heuristic tool for sequence alignment exploration and phylogenetic inference. Bioinformatics 20(12): 1977-1979.

 

Lawrence, C.J., R.K. Dawe, K.R. Christie, D.W. Cleveland, S.C. Dawson, S.A. Endow, L.S. Goldstein, H.V. Goodson, N. Hirokawa, J. Howard, R.L. Malmberg, J.R. McIntosh, H. Miki, T.J. Mitchison, Y. Okada, A.S. Reddy, W.M. Saxton, M. Schliwa, J.M. Scholey, R.D. Vale, C.E. Walczak and L. Wordeman (2004). A standardized kinesin nomenclature. J Cell Biol 167(1): 19-22.

 

Jin, W., J.R. Melo, K. Nagaki, P.B. Talbert, S. Henikoff, R.K. Dawe and J. Jiang (2004). Maize centromeres: organization and functional adaptation in the genetic background of oat. Plant Cell 16(3): 571-581.

 

Dawe, R.K. and E.N. Hiatt (2004). Plant neocentromeres: fast, focused, and driven. Chromosome Res 12(6): 655-669.

 

Dawe, R.K. (2004). RNA interference on chromosomes. Nat Genet 36(11): 1141-1142.

 

2003

 

Nagaki, K., P.B. Talbert, C.X. Zhong, R.K. Dawe, S. Henikoff and J. Jiang (2003). Chromatin immunoprecipitation reveals that the 180-bp satellite repeat is the key functional DNA element of Arabidopsis thaliana centromeres. Genetics 163(3): 1221-1225.

 

Nagaki, K., J. Song, R.M. Stupar, A.S. Parokonny, Q. Yuan, S. Ouyang, J. Liu, J. Hsiao, K.M. Jones, R.K. Dawe, C.R. Buell and J. Jiang (2003). Molecular and cytological analyses of large tracks of centromeric DNA reveal the structure and evolutionary dynamics of maize centromeres. Genetics 163(2): 759-770.

 

Mroczek, R.J. and R.K. Dawe (2003). Distribution of retroelements in centromeres and neocentromeres of maize. Genetics 165(2): 809-819.

 

Jiang, J., J.A. Birchler, W.A. Parrott and R.K. Dawe (2003). A molecular view of plant centromeres. Trends Plant Sci 8(12): 570-575.

 

Hiatt, E.N. and R.K. Dawe (2003). The meiotic drive system on maize abnormal chromosome 10 contains few essential genes. Genetica 117(1): 67-76.

 

Hiatt, E.N. and R.K. Dawe (2003). Four loci on abnormal chromosome 10 contribute to meiotic drive in maize. Genetics 164(2): 699-709.

 

Dawe, R.K. (2003). RNA interference, transposons, and the centromere. Plant Cell 15(2): 297-301.

 

Birchler, J.A., R.K. Dawe and J.F. Doebley (2003). Marcus Rhoades, preferential segregation and meiotic drive. Genetics 164(3): 835-841.

 

2002

 

Zhong, C.X., J.B. Marshall, C. Topp, R. Mroczek, A. Kato, K. Nagaki, J.A. Birchler, J. Jiang and R.K. Dawe (2002). Centromeric retroelements and satellites interact with maize kinetochore protein CENH3. Plant Cell 14(11): 2825-2836.

 

Lawrence, C.J., R.L. Malmberg, M.G. Muszynski and R.K. Dawe (2002). Maximum likelihood methods reveal conservation of function among closely related kinesin families. J Mol Evol 54(1): 42-53.

 

Hiatt, E.N., E.K. Kentner and R.K. Dawe (2002). Independently regulated neocentromere activity of two classes of tandem repeat arrays. Plant Cell 14(2): 407-420.

 

2001 & earlier

 

Lawrence, C.J., N.R. Morris, R.B. Meagher and R.K. Dawe (2001). Dyneins have run their course in plant lineage. Traffic 2(5): 362-363.

 

Yu, H.G., E.N. Hiatt and R.K. Dawe (2000). The plant kinetochore. Trends Plant Sci 5(12): 543-547.

 

Yu, H.G. and R.K. Dawe (2000). Functional redundancy in the maize meiotic kinetochore. J Cell Biol 151(1): 131-142.

 

Yu, H.G., M.G. Muszynski and R. Kelly Dawe (1999). The maize homologue of the cell cycle checkpoint protein MAD2 reveals kinetochore substructure and contrasting mitotic and meiotic localization patterns. J Cell Biol 145(3): 425-435.

 

Dawe, R.K., L.M. Reed, H.G. Yu, M.G. Muszynski and E.N. Hiatt (1999). A maize homolog of mammalian CENPC is a constitutive component of the inner kinetochore. Plant Cell 11(7): 1227-1238.

 

Buckler, E.S.t., T.L. Phelps-Durr, C.S. Buckler, R.K. Dawe, J.F. Doebley and T.P. Holtsford (1999). Meiotic drive of chromosomal knobs reshaped the maize genome. Genetics 153(1): 415-426.

 

Richards, E.J. and R.K. Dawe (1998). Plant centromeres: structure and control. Curr Opin Plant Biol 1(2): 130-135.

 

Dawe, R.K. (1998). Meiotic chromosome organization and segregation in plants. Annual Review of Plant Physiology and Plant Molecular Biology 49: 371-395.

 

Yu, H.G., E.N. Hiatt, A. Chan, M. Sweeney and R.K. Dawe (1997). Neocentromere-mediated chromosome movement in maize. J Cell Biol 139(4): 831-840.

 

Starr, D.A., B.C. Williams, Z. Li, B. Etemad-Moghadam, R.K. Dawe and M.L. Goldberg (1997). Conservation of the centromere/kinetochore protein ZW10. J Cell Biol 138(6): 1289-1301.

 

Dawe, R.K. and W.Z. Cande (1996). Induction of centromeric activity in maize by suppressor of meiotic drive 1. Proc Natl Acad Sci U S A 93(16): 8512-8517.

 

Dawe, R.K., J.W. Sedat, D.A. Agard and W.Z. Cande (1994). Meiotic chromosome pairing in maize is associated with a novel chromatin organization. Cell 76(5): 901-912.