Page Banner

United States Department of Agriculture

Agricultural Research Service

Research Project: AN INTEGRATED DATABASE AND BIOINFORMATICS RESOURCE FOR SMALL GRAINS Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)

Accelerated evolution of the mitochondrial genome in an alloplasmic line of durum wheat     Reprint Icon - (Peer Reviewed Journal)
Noyszewski, A., Ghavami, F., Al-Nimer, L., Soltani, A., Gu, Y.Q., Huo, N., Meinhardt, S., Kianian, P., Kianian, S. 2014. Accelerated evolution of the mitochondrial genome in an alloplasmic line of durum wheat. Biomed Central (BMC) Genomics. 15:67.
Structural analysis of the wheat genes encoding NADH-dependent glutamine-2-oxoglutarate amidotransferases genes and correlation with grain protein content - (Peer Reviewed Journal)
Nigro, D., Gu, Y.Q., Huo, N., Marcotuli, I., Blanco, A., Gadaleta, A., Anderson, O.D. 2013. Structural analysis of the wheat genes encoding NADH-dependent glutamine-2-oxoglutarate amidotransferases genes and correlation with grain protein content. PLoS One. 8(9):e73751.
A 4-gigbase physical map unlocks the structure and evolution of the complex genome of Aegilop tauschii, the wheat D-genome progenitor - (Peer Reviewed Journal)
Luo, M., Gu, Y.Q., You, F., Deal, K.R., Ma, Y., Hu, N., Huo, N., Wang, Y., Wang, J., Chen, S., Jorgensen, C.M., Zhang, Y., Mcguire, P.E., Pastrnak, S., Stein, J.C., Ware, D.H., Mccombie, W.R., Juanuan, S.F., Martis, M.M., Mayer, K.F., Sehgal, S., Gill, B.S., Bevan, M.W., Dolezel, J., Lazo, G.R., Anderson, O.D., Dvorak, J. 2013. A 4-gigbase physical map unlocks the structure and evolution of the complex genome of Aegilop tauschii, the wheat D-genome progenitor. Proceedings of the National Academy of Sciences. 110:7940-7945.
Sequencing and characterization of full-length sequence of 18S rRNA gene from the reniform nematode - (Peer Reviewed Journal)
Nyaku, S.T., Kantety, R.V., Gu, Y.Q., Venkateswara, S.R., Sharma, G.V., Lawrence, K. 2013. Sequencing and characterization of full-length sequence of 18S rRNA gene from the reniform nematode. PLoS One. 8:e60891.
Wheat Zapper: a flexible online tool for colinearity studies in plants - (Peer Reviewed Journal)
Alnemer, L.M., Seetan, R., Bassi, F.M., Chitaranjan, C., Helsene, A., Loree, P., Goshn, S.B., Gu, Y.Q., Luo, M.C., Iqbal, M., Lazo, G.R., Kianian, S.F., Denton, A.M. 2013. Wheat Zapper: a flexible online tool for colinearity studies in plants. Functional and Integrative Genomics. 13:11-17.
SNP discovery and chromosome anchoring provide the first physically-anchored hexaploid oat map and reveal synteny with model species - (Peer Reviewed Journal)
Oliver, R.E., Tinker, N.A., Lazo, G.R., Chao, S., Jellen, E.N., Carson, M.L., Rines, H.W., Obert, D., Lutz, J.D., Shackelford, I., Korol, A.B., Wight, C., Gardner, K.M., Hattori, J., Beattie, A., Bjornstad, A., Bonman, J.M., Jannink, J., Mitchell Fetch, J.W., Harrison, S., Howarth, C.J., Ibrahim, A., Kolb, F.L., McMullen, M.S., Murphy, J.P., Ohm, H., Rossnagel, B.G., Yan, W., Miclaus, K.J., Hiller, J., Maughan, P.J., Redman-Hulse, R.R., Anderson, J.M., Islamovic, E., Jackson, E.W. 2013. SNP discovery and chromosome anchoring provide the first physically-anchored hexaploid oat map and reveal synteny with model species. PLoS One. 8:e58068.
Rapid genome mapping in nano channel array for highly complete and accurate de novo sequence assembly of the complex Aegilops tauschii genome - (Peer Reviewed Journal)
Hastie, A., Dong, L., Luo, M., Huo, N., Gu, Y.Q., Xiao, M. 2013. Rapid genome mapping in nano channel array for highly complete and accurate de novo sequence assembly of the complex Aegilops tauschii genome. PLoS One. 8:e55864.
Physical mapping resources for large plant genomes: radiation hybrids for wheat D-genome progenitor aegilops tauschii accession AL8/78 - (Peer Reviewed Journal)
Kumar, A., Simons, K., Iqbal, M.J., Jimenez, M., Bassi, F.M., Ghavami, F., Al, A., Wang, Y., Luo, M., Gu, Y.Q., Denton, A., Xu, S.S., Dvorak, J., Kianian, P., Kianian, S.F. 2012. Physical mapping resources for large plant genomes: radiation hybrids for wheat D-genome progenitor aegilops tauschii. Biomed Central (BMC) Genomics. 13:597.
Piece: a Database for Plant Gene Structure Comparison and Evolution - (Peer Reviewed Journal)
Wang, Y., You, F., Lazo, G.R., Luo, M., Thilmony, R.L., Gordon, S.P., Gu, Y.Q., Kianian, S. 2012. PIECE: A database for plant gene structure comparison and evolution. Nucleic Acids Research. D1159-D1166.
Analysis of the allohexaploid bread wheat genome (Triticum aestivum) using comparative whole genome shotgun sequencing - (Peer Reviewed Journal)
Brenchley, R., Spannagl, M., Pfeifer, M., Baker, G., D'Amore, R., Gu, Y.Q., Luo, M., Huo, N., Anderson, O.D., Dvorak, J., Hall, A., Mayer, K., Edward, K.J., Hall, N. 2012. Analysis of the allohexaploid bread wheat genome (Triticum aestivum) using comparative whole genome shotgun sequencing. Nature. 491:705-710.
Exploring the diploid wheat ancestral A genome through sequence comparison at the High-Molecular-Weight glutenin locus region - (Peer Reviewed Journal)
Dong, L., Huo, N., Wang, Y., Deal, K., Luo, M., Wang, D., Anderson, O.D., Gu, Y.Q. 2012. Exploring the diploid wheat ancestral A genome through sequence comparison at the High-Molecular-Weight glutenin locus region. Molecular Genetics and Genomics. 287:855-866.
Annotation-based genome-wide SNP discovery in the large and complex Aegilops tauschii genome using next-generation sequencing without a reference genome sequence - (Peer Reviewed Journal)
You, F., Huo, N., Deal, K., Gu, Y.Q., Luo, M., Mcguire, P., Dvorak, J., Anderson, O.D. 2011. Annotation-based genome-wide SNP discovery in the large and complex Aegilops tauschii genome using next-generation sequencing without a reference genome sequence. Biomed Central (BMC) Genomics. 12:59.
RJPrimers: unique transposable element insertion junction discovery and PCR primer design for marker development - (Peer Reviewed Journal)
You, F., Wanjugi, H., Huo, N., Lazo, G.R., Luo, M., Anderson, O.D., Dvorak, J., Gu, Y.Q. 2010. RJPrimers: unique transposable element insertion junction discovery and PCR primer design for marker development. Nucleic Acids Research. 38:Suppl:W310-320.
Evolutionary relationship of nuclear genes encoding mitochondrial proteins across grasses - (Peer Reviewed Journal)
Michalak, M.K., Ghavami, F., Lazo, G.R., Gu, Y.Q., Kianian, S.F. 2009. Evolutionary relationship of nuclear genes encoding mitochondrial proteins across grasses. Maydica. 54: 471-483
The WheatCAP Project: Creating Public Long-Term Tools And Capabilities For Wheat Improvement - (Abstract Only)
Soria, M.A., Sherman, J., Anderson, J.A., Baenziger, P., Bai, G., Berzonsky, B., Brown Guedira, G.L., Campbell, K.J., Carver, B.F., Chao, S., Fritz, A., Griffey, C., Haley, S.D., Johnson, J.W., Kianian, S.F., Kidwell, K., Matthews, D.E., Mergoum, M., Ohm, H., Peterson, J., Lizrazu, O., Rudd, J., Talbert, L., Sorrells, M.E., Souza, E.J., Yan, L., Zemetra, R. 2010. The WheatCAP Project: Creating Public Long-Term Tools And Capabilities For Wheat Improvement. Meeting Abstract.
A Bac-Based Physical Map of Brachypodium Distachyon and Its Comparative Analysis with Rice and Wheat - (Peer Reviewed Journal)
Gu, Y.Q., Ma, Y., Huo, N., Vogel, J.P., You, F., Lazo, G.R., Nelson, W., Soderlund, C., Dvorak, J. 2009. A BAC-based physical map of Brachypodium distachyon and its comparative analysis with rice and wheat. Biomed Central (BMC) Genomics. 10:496
ConservedPrimers 2.0: A high-throughput pipeline for comparative genome referenced intron-flanking PCR primer design and its application in wheat SNP discovery - (Peer Reviewed Journal)
You, F., Huo, N., Gu, Y.Q., Lazo, G.R., Dvorak, J., Anderson, O.D. 2009. ConservedPrimers 2.0: A high-throughput pipeline for comparative genome referenced intron-flanking PCR primer design and its application in wheat SNP discovery. BMC Bioinformatics. 10:331.
Genome Comparisons Reveal a Dominant Mechanism of Chromosome Number Reduction in Grasses and Accelerated Genome Evolution in Triticeae - (Peer Reviewed Journal)
Luo, M.C., Deal, K.R., Akhunov, E.D., Akhunova, A.R., Anderson, O.D., Anderson, J.A., Blake, N., Clegg, M.T., Coleman-Derr, D., Conley, E.E., Crossman, C.C., Dubcovsky, J., Gill, B.S., Gu, Y.Q., Hadam, J., Heo, H., Huo, N., Lazo, G.R., Lundy, K.E., Ma, Y., Matthews, D.E., Mcguire, P.E., Morrell, P.L., Nicolet, C.M., Qualset, C.O., Renfro, J., Tabano, D., Talbert, L.E., Tian, A., Toleno, D.M., Warburton, M.L., You, F.M., Zhang, W.J., Dvorak, J. 2009. Genome Comparisons Reveal a Dominant Mechanism of Chromosome Number Reduction in Grasses and Accelerated Genome Evolution in Triticeae. Proceedings of the National Academy of Sciences. 106:15780-15785.
EST mining for structure and expression of genes in the region of the wheat high-molecular-weight glutenin loci - (Peer Reviewed Journal)
Anderson, O.D. 2009. EST mining for structure and expression of genes in the region of the wheat high-molecular-weight glutenin loci . Genome. 52:1-15.
Saturation and comparative mapping of genomic region harboring Hessian fly resistance gene H26 in wheat - (Peer Reviewed Journal)
Yu, G., Cai, X., Harris, M., Gu, Y.Q., Luo, M., Xu, S.S. 2009. Saturation and comparative mapping of genomic region harboring Hessian fly resistance gene H26 in wheat. Theoretical and Applied Genetics. 118(8):1589-1599.
Rapid development of PCR-based genome-specific repetitive DNA junction markers in wheat - (Peer Reviewed Journal)
Wanjugi, H., Coleman-Derr, D., Huo, N., Kianian, S.F., Luo, M., Wu, J., Anderson, O.D., Gu, Y.Q. 2009. Rapid development of PCR-based genome-specific repetitive DNA junction markers in wheat. Genome. 52:576-587.
Plant and Crop Databases - (Book / Chapter)
Matthews, D.E., Lazo, G.R., Anderson, O.D. 2009. Plant and Crop Databases. In: Somers, D.J., Langridge, P., and Gustafson, J.P., editors. Plant Genomics: Methods and Protocols. New York, NY: Humana Press. P. 243-262.
Last Modified: 11/22/2014
Footer Content Back to Top of Page