PGIR - Rutgers University

Sorghum Genome Browser

Kafirin genes | Alpha kafirin genes

BLAST: Sorghum Genome

Waksman Genomics Laboratory

Maize Storage Protein Genes:

Alpha Zein Clones | Alpha Zein Map | Zein Kafirin Synteny Map

Sequencing The Maize Genome:

BAC Fingerprinted (464,544) | BAC Ends Sequenced (682,116)

Micro-Collinearity of Maize And Sorghum:

Collinearity Status | Sequence Alignments

Rice Genome (IRGSP):

Chromosome 10 | Chromosome 11 | Also Sequenced

Highlights!

January 2009: Sorghum genome sequenced by faster method, published in Nature.

November 2008: Opening of the Waksman Genomics Laboratory with the new SOLiD2 system.

July 2007: BAC-based map of maize inbred B73 with more than 50% of the genes tagged, published in PLoS Genetics.

October 2006: First maize chromosomal regions sequenced by a BAC-tiling path, published in Genome Research.

August 2005: Map-based sequence of rice genome, published in Nature.

June 2005: Origin of paralogs in maize by Helitron movement, published in PNAS .

Recent Publications:

Bolot, S., Abrouk, M., Masood-Quraishi, U., Stein, N., Messing, J., Feuillet, C., Salse, J. (2009).
The inner circle' of the cereal genomes. Curr. Opin. Plant Biol., Epubl. ahead of print.
Paterson, A.H., Bowers, J.E., Bruggmann, R., Dubchak, I., Grimwood, J., Gundlach, H., Haberer, G., Hellsten, U., Mitros, T., Poliakov, A., Schmutz, J., Spannagl, M., Tang, H., Wang, X., Wicker, T., Bharti, A.K., Chapman, J., Feltus, F.A., Gowik, U., Lyons, E., Maher, C., Martis, M., Narechania, A., Penning, B., Wang, Y., Zhang, L., Carpita, N.C., Freeling, M., Gingle, A.R., Hash, C.T., Keller, B., Klein, P., Kresovich, S., McCann, M.C., Ming, R., Peterson, D.G., ur-Rahman, M., Ware, D., Westhoff, P., Mayer, K.F.X., Messing. J., and Rokhsar, D.S. (2009). The Sorghum bicolor genome and the diversification of grasses. Nature 457, 551-556.
Messing, J. (2009). Synergy of two reference genomes for the grass family. Plant Physiol. 149, 117-124.
Nelson, W., Luo, M., Ma, J., Estep, M., Estill, J., He, R., Talag, J., Sisneros, N., Kudrna, D., Kim, H., Ammiraju, J.S., Collura, K., Bharti, A.K., Messing, J., Wing, R.A., Sanmiguel, P., Bennetzen, J.L., and Soderlund, C. (2008). Methylation-sensitive linking libraries enhance gene-enriched sequencing of complex genomes and map DNA methylation domains. BMC Genomics 19, e621.
Xu, J. and Messing, J. (2008). Diverged copies of the seed regulatory Opaque-2 gene by a segmental duplication in the progenitor genome of rice, sorghum, and maize. Mol. Plant 1, 760-769.
Calvino, M., Bruggmann, R., and Messing, J. (2008). Screen of genes linked to high-sugar content in stems by comparative genomics. Rice 1, 166-176.
Xu, J. and Messing, J. (2008). Organization of the prolamin gene family provides insight into the evolution of the maize genome and gene duplications in grass species. Proc. Natl. Acad. Sci. USA 105, 14330-14335.
Wei, F., Coe, E., Nelson, W., Bharti, A.K., Engler, F., Butler, E., Kim, H., Goicoechea, J.L., Chen, M., Lee, S., Fuks, G., Sanchez-Villeda, H., Schroeder, S., Fang, Z., McMullen, M., Davis, G., Bowers, J.E., Paterson, A.H., Schaeffer, M., Gardiner, J., Cone, K., Messing, J., Soderlund, C., and Wing, R.A. (2007). Physical and Genetic Structure of the Maize Genome Reflects its Complex Evolutionary History. PLoS Genetics, 3: 3123.
Bruggmann, R. Bharti, A.K., Gundlach, H. Lai, J., Young, S., Pontaroli, A.C., Wei, F., Haberer, G., Fuks, G., Du, C., Raymond, C., Estep, M.C., Liu, R., Bennetzen, J.L., Chan, A., Rabinowicz, P.D., Quackenbush, J., Barbazuk, W.B., Wing, R.A., Birren, B., Nusbaum, C., Rounsley, S., Mayer, K.F.X, and Messing, J. (2006). Uneven Chromosome Contraction and Expansion in the Maize Genome. Genome Research 16: 1241-1251. (*Equal First Authors) Cover Page Article
Haberer, G., Young, S., Bharti, A.K., Gundlach, H., Raymond, C., Fuks, G., Butler, E., Wing, R.A., Rounsley, S., Birren, B., Nusbaum, C., Mayer, K.F.X, and Messing, J. (2005). Structure and Architecture of the Maize Genome. Plant Phys. 139: 1612-1624. (*Equal First Authors)
Rice-Chromosomes-11-and-12-Sequencing-Consortia (2005). The sequence of rice chromosome 11 and 12, rich in disease resistance genes and recent gene duplications. BMC Biol. 3: e20.
McCarty, D.R., Settles, A., Suzuki, M., Tan, B-C., Latshaw, S., Porch, T., Robin, K., Baier, J., Avigne, W., Lai, J., Messing, J., Koch, K., and Hannah, L.C. (2005). Steady-state transposon mutagenesis in inbred maize. Plant J. 44: 52-61.
*Nelson, W.M., *Bharti, A.K., Butler, E., Wei, F., Fuks, G., Kim, H., Wing, R.A., Messing, J. and Soderlund, C. (2005).
Whole-genome validation of high-information-content fingerprinting. Plant Physiol 139: 27-38. (*Equal First Authors)
International Rice Genome Sequencing Project (2005). The map-based sequence of the rice genome. Nature 436: 793-800.
Lai, J., Li, Y., Messing, J., and Dooner, H. (2005). Gene movement by Helitrons contributes to the haplotype variability of maize. Proc Natl Acad Sci. USA. 102: 968-973.
Ma, J., SanMiguel, P., Lai, J., Messing, J., and Bennetzen, J.L. (2005). DNA Rearrangement in Orthologous Orp Regions of the Maize, Rice and Sorghum Genomes. Genetics 170: 1209-1220.
Swigoňová Z, Bennetzen J.L., and Messing J. (2005). Structure and evolution of the r/b chromosomal regions in rice, maize, and sorghum. Genetics 169: 891-906.