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United States Department of Agriculture

Agricultural Research Service

Related Topics

Yong Qiang Gu
Crop Improvement and Genetics Research
Genetics

Phone: (510) 559-5732
Fax: (510) 559-5818
Room 2116

800 BUCHANAN ST
ALBANY , CA 94710

Projects
Enhancement of Wheat through Genomic and Molecular Approaches
Appropriated (D)
  Accession Number: 424644
Small Grains Database and Bioinformatics Resources
Appropriated (D)
  Accession Number: 425427
Genomics, Bioinformatics and Database Development for Crop Improvement and Biofuel Research
Specific Cooperative Agreement (S)
  Accession Number: 424616

Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)
Rapid evolutionary dynamics in a 2.8-Mb chromosomal region containing multiple prolamin and resistance gene families in Aegilops tauschii -
Dong, L., Huo, N., Wang, Y., Deal, K., Wang, D., Hu, D., Dvorak, J., Anderson, O.D., Luo, M., Gu, Y.Q. 2016. Rapid evolutionary dynamics in a 2.8-Mb chromosomal region containing multiple prolamin and resistance gene families in Aegilops tauschii. Plant Journal. doi: 10.111/tpi.13214.
Glutamine synthetase in durum wheat: Genotypic variation and relationship with grain protein content -
Nigro, D., Fortunate, S., Giove, S., Paradiso, A., Gu, Y.Q., Blanco, A., Cencetta De Pinto, M., Gadaleta, A. 2016. Glutamine synthetase in durum wheat: genotypic variation and relationship with grain protein content. Frontiers in Plant Science. doi: 10.3389lfpls.2016.00971.
Draft Genome Sequence of Agrobacterium rhizogenes Strain NCPPB2659 -
Valdes, J., Collier, R.A., Wang, Y., Huo, N., Gu, Y.Q., Thilmony, R.L., Thomson, J.G. 2002. Draft Genome Sequence of Agrobacterium rhizogenes Strain NCPPB2659. Genome Announcements. 4:1-2.
MetaCoMET: a web platform for discovery and visualization of the core microbiome -
Wang, Y., Xu, L., Gu, Y.Q., Coleman-Derr, D.A. 2016. MetaCoMET: a web platform for discovery and visualization of the core microbiome. Bioinformatics. doi: 10.1093/bioinformatics/btw507.
GSP: A web-based platform for designing genome-specific primers in polyploids -
Wang, Y., Tiwari, T., Coleman-Derr, D.A., Rawda, N., Gill, B., Huo, N., You, F., Gu, Y.Q. 2016. GSP: A web-based platform for designing genome-specific primers in polyploids. Bioinformatics. doi: 10.1093/bioinformatics/btw/34.
GSP: a web-based platform for designing genome-specific primers in polyploids -
Wang, Y., Tiwari, V.K., Rawat, N., Gill, B.S., Huo, N., You, F.M., Coleman-Derr, D.A., Gu, Y.Q. 2016. GSP: a web-based platform for designing genome-specific primers in polyploids. Bioinformatics. 32(15):2382-2383.
A rhomboid gene controls speciation through regulation of nuclear-mitochondrial compatibility in Triticum -
Bassi, F.M., Ghavami, F., Hayden, M.J., Wang, Y., Forrest, K., Kong, S., Dizon, R.G., Michalak De Jimenez, M.K., Meinhardt, S., Mergoum, M., Gu, Y.Q., Kianian, S. 2016. A rhomboid gene controls speciation through regulation of nuclear-mitochondrial compatibility in Triticum. Plant Biotechnology Journal. 14(8):1716-26.
A whole-genome, radiation hybrid map of wheat -
Tiwari, V., Heesacker, A., Riera-Lizarazu, O., Gunn, H., Wang, S., Wang, Y., Gu, Y.Q., Paux, E., Koo, D.H., Luo, M.C., Lazo, G.R., Akhunov, E., Friebe, B., Poland, J.A., Gill, B., Kianian, S., Leonard, J. 2016. A whole-genome, radiation hybrid map of wheat. Plant Journal. doi: 10.1111/tpj.13513.
WheatExp: an RNA-seq expression database for polypoid wheat -
Pearce, S., Vazquez-Cross, H., Herin, S.Y., Hane, D., Wang, Y., Gu, Y.Q., Dubcovsky, J. 2015. WheatExp: an RNA-seq expression database for polypoid wheat. Biomed Central (BMC) Plant Biology. 15:299.
Radiation hybrid maps of D-genome of Aegilops tauschii and their application in sequence assembly of large and complex plant genomes -
Kumar, A., Seetan, R., Mergoum, M., Tiwari, V., Iqbal, M.J., Wang, Y., Al-Assam, O., Simkova, H., Luo, M., Dvorak, J., Gu, Y.Q., Denton, A.M., Kilian, A., Lazo, G.R., Kianian, S.F. 2015. Radiation hybrid maps of D-genome of Aegilops tauschii and their application in sequence assembly of large and complex plant genomes. BMC Genomics. 16:800.
Toward a better understanding of the genomic region harboring Fusarium head blight resistance QTL Qfhs.ndsu-3AS in durum wheat Reprint Icon -
Zhu, X., Zhong, S., Chao, S., Gu, Y.Q., Kianian, S.F., Elias, E., Cai, X. 2016. Toward a better understanding of the genomic region harboring Fusarium head blight resistance QTL Qfhs.ndsu-3AS in durum wheat. Theoretical and Applied Genetics. 129:31-43.
Brachypodium seed - a potential model for studying grain development of cereal crops -
Wu, J., Thilmony, R.L., Gu, Y.Q. 2016. Brachypodium seed - a potential model for studying grain development of cereal crops. In:Vogel, J., editor. Genetics and Genomics of Brachypodium. Cham, Switzerland:Springer International Publishing. p. 219-243. doi: 10.1007/7397.2015.12.
GrainGenes: Changing Times, Changing Databases, Digital Evolution. Reprint Icon -
Tobias, C.M., Lazo, G.R., Gu, Y.Q., Matthews, D.E. 2015. GrainGenes: Changing Times, Changing Databases, Digital Evolution. Meeting Abstract. scisoc.confex.com/scisoc/2015am/webprogram/Paper94726.html.
Development of a D genome specific marker resource for diploid and hexaploid wheat -
Wang, Y., Drader, T., Tiwari, V.K., Dong, L., Kumar, A., Huo, N., Ghavami, F., Iqbal, M.J., Lazo, G.R., Gill, B., Kianian, S., Luo, M., Gu, Y.Q. 2015. Development of a D genome specific marker resource for diploid and hexaploid wheat. Biomed Central (BMC) Genomics. doi: 10.11861S12864-015-1852-2.
OrthoVenn: a web server for genome wide comparison and annotation of orthologous clusters across multiple species -
Wang, Y., Coleman-Derr, D.A., Chen, G., Gu, Y.Q. 2015. OrthoVenn: a web server for genome wide comparison and annotation of orthologous clusters across multiple species. Nucleic Acids Research. 43(W1):W78-W84. doi: 10.1093/nar/gkv487.
Dynamic evolution of resistance gene analogs in the orthologous genomic regions of powdery mildew resistance gene MlIW170 in Triticum dicoccoides and Aegilops tauschii -
Liang, Y., Zhang, D., Ouyang, S., Xie, J., Wu, Q., Wang, Z., Cui, Y., Liu, Z., Chen, Y., Zhang, Y., Luo, M., Dvorak, J., Huo, N., Sun, Q., Gu, Y.Q., Liu, Z. 2015. Dynamic evolution of resistance gene analogs in the orthologous genomic regions of powdery mildew resistance gene MlIW170 in Triticum dicoccoides and Aegilops tauschii. Theoretical and Applied Genetics. 128:1617-1629.
AIM: A comprehensive Arabidopsis Interactome Module database and related interologs in plants -
Wang, Y., Thilmony, R.L., Zhao, Y., Chen, G., Gu, Y.Q. 2014. AIM: A comprehensive Arabidopsis Interactome Module database and related interologs in plants. Database: The Journal of Biological Databases and Curation. doi: 10.1093/database/bau117.
Fine physical and genetic mapping of powdery mildew resistance gene MlIW172 originating from wild emmer(Triticum dicoccoides) -
Ouyang, S., Zhang, D., Han, J., Zhao, X., Cui, Y., Song, W., Huo, N., Liang, Y., Xie, J., Wang, Z., Wu, Q., Chen, Y., Lu, P., Zhang, D., Wang, L., Sun, H., Yang, T., Keeble-Gagnere, G., Appels, R., Dolezel, J., Ling, H., Luo, M., Gu, Y.Q., Sun, X., Liu, Z. 2014. Fine physical and genetic mapping of powdery mildew resistance gene MlIW172 originating from wild emmer (Triticum dicoccoides). PLoS One. 9:e100160.
Net Venn - An integrated network analysis web platform for gene lists -
Wang, Y., Thilmony, R.L., Gu, Y.Q. 2014. Net Venn - An integrated network analysis web platform for gene lists. Nucleic Acids Research. DOI: 10.1093/narlgku331.
Transposable element junctions in marker development and genomic characterization of barley -
Maazaheri, M., Kianian, P., Mergoum, M., Valentini, G., Seetan, R., Pirseyedi, S., Kumar, A., Gu, Y.Q., Stein, N., Kubalakova, M., Dolezel, J., Denton, A., Kianian, S. 2014. Transposable element junctions in marker development and genomic characterization of barley. The Plant Genome. 7:1-8.
Characterization of reniform nematode genome through shotgun sequencing -
Nyaku, S.T., Sripathi, V.R., Kateny, R.V., Cseke, S.B., Buyyarapu, R., Mcewan, R., Gu, Y.Q., Lawrence, K., Sripathi, P., George, P., Sharma, G.C. 2014. Characterization of reniform nematode genome through shotgun sequencing. Genome. DOI: 10.1139/gen-20140019.
Accelerated evolution of the mitochondrial genome in an alloplasmic line of durum wheat Reprint Icon -
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.
Dynamic evolution of Rht-1 homologous regions in grass genomes -
Wu, J., Kong, X., Shi, C., Gu, Y.Q., Jin, C., Gao, L., Jia, J. 2013. Evolutionary dynamics of Rht-1, a "green revolution" gene homologous regions across the subgenomes, ploids and related grass genomes. PLoS One. 8(9):e75544.
Developing improved durum wheat germplasm by altering the cytoplasmic genome -
Ghavami, F., Bassi, F., Burciaga, R., Soltani, A., Noyszewski, A., Michalak, D., Gu, Y.Q., Meinhardt, S., Elias, E., Kianian, P., Mergoum, M., Mann, S., Kianian, S. 2014. Developing improved durum wheat germplasm by altering the cytoplasmic genome. Symposium Proceedings. 110:177-188.
Haplotype variation of Glu-D1 locus and the origin of Glu-D1d allele conferring superior end-use qualities in common wheat -
Dong, G., Yang, Y., Li, Y., Lou, H., An, X., Dong, L., Gu, Y.Q., Anderson, O.D., Liu, X., Qin, H., Zhang, K., Wang, D. 2013. Haplotype variation of Glu-D1 locus and the origin of Glu-D1d allele conferring superior end-use qualities in common wheat. PLoS One. 8(9):e74859.
Sequence organization and evolutionary dynamics of Brachypodium-specific centromere retrotransposons -
Qi, L.L., Wu, J.J., Friebe, B., Qian, C., Gu, Y.Q., Fu, D.L., Gill, B.S. 2013. Sequence organization and evolutionary dynamics of Brachypodium-specific centromere retrotransposons. Chromosome Research. 21(5):507-521.
Structural analysis of the wheat genes encoding NADH-dependent glutamine-2-oxoglutarate amidotransferases genes and correlation with grain protein content -
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.
Genetic association and disassociation of OPR and LOX genes with resistance to Hessian fly in hexaploid wheat -
Tan, C.T., Carver, B., Chen, M., Gu, Y.Q., Yan, L. 2013. Genetic association and disassociation of OPR and LOX genes with resistance to Hessian fly in hexaploid wheat. Biomed Central (BMC) Genomics. 14:369.
The gene space in wheat: the complete y-gliadin gene family from the wheat cultivar Chinese Spring -
Anderson, O.D., Huo, N., Gu, Y.Q. 2013. The gene space in wheat: the complete y-gliadin gene family from the wheat cultivar Chinese Spring. Functional and Integrative Genomics. 10.1007/s10142-013-0321-8.
A 4-gigbase physical map unlocks the structure and evolution of the complex genome of Aegilop tauschii, the wheat D-genome progenitor -
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.
A 4-gigabase physical map unlocks the structure and evolution of the complex genome of Aegilops tauschii, the wheat D-genome progenitor Reprint Icon -
Lou, M., Gu, Y.Q., You, F., Deal, K., Ma, Y., Hu, Y., Huo, N., Wang, Y., Wang, J., Chen, S., Jorgensen, C., Zhang, Y., Mcguire, P., Pasternak, S., Stein, J., Ware, D., Kramer, M., Mccombie, W., Kianian, S., Martis, M., Mayer, K., Sehgal, K., Li, W., Gill, B., Bevan, M., Simkova, H., Dolezel, J., Weining, S., Lazo, G.R., Anderson, O.D., Dvorak, J. 2013. A 4-gigabase physical map unlocks the structure and evolution of the complex genome of Aegilops tauschii, the wheat D-genome progenitor. Proceedings of the National Academy of Sciences. 110(19):7940-7945.
Sequencing and characterization of full-length sequence of 18S rRNA gene from the reniform nematode -
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 -
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.
A radiation hybrid map of chromosome ID reveals synteny conservation at a wheat speciation locus. -
Michalak De Jimenez, M.K., Bassi, F.M., Ghavami, F.G., Simons, K., Dizon, R., Setan, R.I., Alnemer, L.M., Denstin, A.M., Dogramaci, M., Simkova, H., Dolezel, J., Seth, K., Luo, M., Dvorak, J., Gu, Y.Q., Kianian, S.F. 2013. Accelerated evolution of the mitochondrial genome in an alloplasmic line of durum wheat. Functional and Integrative Genomics. 13:19-32.
Rapid genome mapping in nano channel array for highly complete and accurate de novo sequence assembly of the complex Aegilops tauschii genome -
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.
Phylogenetic, molecular, and biochemical characterization of caffeic aicd O-methyltransferase (COMT) gene family in Brachypodium distachyon -
Wu, X., Ju, J., Bragg, J.N., Vogel, J.P., Anderson, O.D., Gu, Y.Q. 2013. Phylogenetic, molecular, and biochemical characterization of caffeic aicd O-methyltransferase (COMT) gene family in Brachypodium distachyon. International Journal of Plant Genomics. doi.org/10.1155/2013/423189.
A new class of wheat gliadin genes and proteins -
Anderson, O.D., Dong, L., Huo, N., Gu, Y.Q. 2012. A new class of wheat gliadin genes and proteins. PLoS One. 7:e52139.
Physical mapping resources for large plant genomes: radiation hybrids for wheat D-genome progenitor aegilops tauschii accession AL8/78 -
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 -
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 -
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 -
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.
DNA repair and crossing over favor similar chromosome regions as discovered in radiation hybrid of Triticum -
Kumar, A., Bassi, F.M., Gu, Y.Q., Dogramaci, M., Kianian, S. 2012. DNA repair and crossing over favor similar chromosome regions as discovered in radiation hybrid of Triticum. Biomed Central (BMC) Genomics. doi 10.1186/1471-2164-13-339.
Generation and characterization of the Western Regional Research Center brachypodium T-DNA insertional mutant collection -
Bragg, J., Wu, J., Gordon, S.P., Guttman, M.E., Thilmony, R.L., Lazo, G.R., Gu, Y.Q., Vogel, J.P. 2012. Generation and characterization of the Western Regional Research Center brachypodium T-DNA insertional mutant collection. PLoS One. 7(9):e41916. doi:10.1371/journal.pone.0041916.
A tandem segmental duplication (TSD) in the green revolution gene Rht-D1b region underlies plant height variation -
Li, Y., Xioa, J., Wu, J., Gu, Y.Q., Kong, X. 2012. A tandem segmental duplication (TSD) in the green revolution gene Rht-D1b region underlies plant height variation. New Phytologist. doi: 10.1111/j.1469-8137.2012.04243.x.
Fine mapping of the Bsrl barley stripe mosaic virus resistance gene in the model grass Brachypodium distachyon. -
Cui, Y., Lee, M.Y., Huo, N., Bragg, J., Yan, L., Yuan, C., Li, C., Holditch, S.J., Xie, J., Luo, M.C., Li, D., Yu, J., Martin, J., Schackwitz, W., Gu, Y.Q., Vogel, J.P., Jackson, A.O., Liu, Z., Garvin, D.F. 2012. Fine mapping of the Bsrl barley stripe mosaic virus resistance gene in the model grass Brachypodium distachyon. PLoS One. 7:e38333.
New cis-regulatory elements in the Rht-D1b locus region of wheat -
Duan, J., Wu, J., Gu, Y.Q., Kong, X. 2012. New cis-regulatory elements in the Rht-D1b locus region of wheat. Functional and Integrative Genomics. Available at: http://rd.springer.com/article/10.2007/s10142-012-0283-2. DOI 10.1007/s10142-012-0283-2.
Characterizing the walnut genome through analyses of BAC end sequences -
Wu, J., Gu, Y.Q., Hu, Y., You, F.M., Dandekar, A.M., Leslie, C.A., Aradhya, M.K., Dvorak, J., Luo, M. 2011. Characterizing the walnut genome through analyses of BAC end sequences. Plant Molecular Biology. 78:95-107.
Characterizing the walnut genome through analyses of BAC end sequences -
Wu, J., Gu, Y.Q., Hu, Y., You, F.M., Dandekar, A.M., Leslie, C., Aradhya, M.K., Dvorak, J., Luo, M. 2011. Characterizing the walnut genome through analyses of BAC end sequences. Plant Molecular Biology. 78:95-107.
Characterizing the citrus variety Carrizo genome through 454 shotgun sequencing -
Belknap, W.R., Wang, Y., Wu, J., Huo, N., Rockhold, D.R., Gu, Y.Q., Stover, E.W. 2011. Characterizing the citrus variety Carrizo genome through 454 shotgun sequencing. Genome. 54:1005-1015. doi:10.1139/G11-070.
Brachypodium as a model for the grasses: today and the future Reprint Icon -
Brkljacic, J., Grotewold, E., Scholl, R., Mockler, T., Garvin, D.F., Vain, P., Brutnell, T., Sibout, R., Bevan, M., Budak, H., Caicedo, A.L., Gao, C., Gu, Y.Q., Hazen, S.P., Holt, B.F., Hong, S., Jordan, M., Manzaneda, A.J., Mitchell-Olds, T., Mochida, K., Mur, L.A., Park, C., Sedbrook, J., Watt, M., Zheng, S., Vogel, J.P. 2011. Brachypodium as a model for the grasses: today and the future. Plant Physiology. 157(1):3-13.
Comparison of a high-density genetic linkage map to genome features in the model grass Brachypodium distachyon -
Huo, N., Garvin, D.F., You, F., McMahon, S.A., Luo, M., Gu, Y.Q., Lazo, G.R., Vogel, J.P. 2011. Comparison of a high-density genetic linkage map to genome features in the model grass Brachypodium distachyon. Theoretical and Applied Genetics. 123(3):455-464.
Gene Space Dynamics during the Evolution of Aegilops tauschii, Brachypodium distachyon, Oryza sativa, and Sorghum bicolor Genomes -
Massa, A.N., Wanjugi, H., Deal, K.R., Chan, A.P., Gu, Y.Q., Luo, M., Anderson, O.D., Rabinomics, P.D., Dvorak, J., Devos, K.M., O'Brien, K., Maiti, R., You, F. 2011. Gene space dynamics during the evolution of Aegilops tauschii, Brachypodium distachyon, Oryza sativa, and Sorghum bicolor genomes. Molecular Biology and Evolution. Available at: http://mbe.oxfordjournalsorg/content/early/2011/04/06/molbev.msr080.long. DOI: 10.1093/molbev/msr080.
Annotation-based genome-wide SNP discovery in the large and complex Aegilops tauschii genome using next-generation sequencing without a reference genome sequence -
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.
Nucleotide diversity maps reveal variation in diversity among wheat genomes and chromosomes -
Akhunov, E.D., Akhunova, A., Anderson, O.D., Anderson, J., Blake, N., Clegg, M., Coleman-Derr, D., Conley, E., Crossman, C., Deal, K., Dubcovsky, J., Gill, B., Gu, Y.Q., Hadam, J., Heo, H., Huo, N., Lazo, G.R., Luo, M., Ma, Y., Matthews, D.E., Mcguire, P., Morrell, P., Qualset, C., Renfro, J., Tabanao, D., Talbert, L., Tian, C., Toleno, D., Warburton, M., You, F., Zhang, W., Dvorak, J. 2010. Nucleotide diversity maps reveal variation in diversity among wheat genomes and chromosomes. Biomed Central (BMC) Genomics. 11:702-710.
The compact Brachypodium genome conserves centromeric regions of a common ancestor with wheat and rice Reprint Icon -
Qi, L., Friebe, B., Wu, J., Gu, Y., Qian, C., Gill, B.S. 2010. The compact Brachypodium genome conserves centromeric regions of a common ancestor with wheat and rice. Functional and Integrative Genomics. 10:477-492.
Structural and transcriptional analysis of plant genes encoding the bifunctional lysine ketoglutarate reductase saccharopine dehydrogenase enzyme -
Anderson, O.D., Coleman-Derr, D., Gu, Y.Q., Heath, S. 2010. Structural and transcriptional analysis of plant genes encoding the bifunctional lysine ketoglutarate reductase saccharopine dehydrogenase enzyme. Biomed Central (BMC) Genomics. 10:113.
Inferring geographic origin of barley accessions using molecular markers -
Bonman, J.M., Gu, Y.Q., Coleman Derr, D., Jackson, E.W., Bockelman, H.E. 2010. Inferring geographic origin of barley accessions using molecular markers. Genetic Resources and Crop Evolution. DOI: 10.1007/s10722-010-9574-4.
RJPrimers: unique transposable element insertion junction discovery and PCR primer design for marker development -
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.
Development of PCR-based Markers for Marker-Assisted Selection of H26 and H32 for Hessian Fly Resistance -
Yu, G.T., S.S. Xu, M.O. Harris, X. Cai, C.E. Williams, Y.-Q. Gu, and M.-C. Luo. 2010. Development of PCR-based markers for marker-assisted selection of H26 and H32 for Hessian fly resistance. p. 328. In: Abstract of Oral and Poster Presentations, 8th International Wheat Conference, June 1 - 4, St. Petersburg, Russia.
Genome Sequencing and Analysis of the Model Grass Brachypodium Distachyon. -
Vogel, J.P., Garvin, D.F., Gu, Y.Q., Lazo, G.R., Anderson, O.D., Bragg, J.N., Chingcuanco, D.L., Weng, Y., Belknap, W.R., Thomson, J.G., Dardick, C.D., Baxter, I.R. 2010. Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature. 463:763-768.
Evolutionary relationship of nuclear genes encoding mitochondrial proteins across grasses -
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
A BAC-based physical map of Brachypodium distachyon and its comparative analysis with rice and wheat -
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 -
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-Wide Sequence Comparison of Centromeric Regions and BAC-Landing on Chromosomes Provide New Insights into Centromere Evolution Among Wheat, Brachypodium, and Rice Reprint Icon -
Qi, L., Friebe, B., Gu, Y.Q., Qian, C., Gill, B.S. 2010. Genome-Wide Sequence Comparison of Centromeric Regions and BAC-Landing on Chromosomes Provide New Insights into Centromere Evolution Among Wheat, Brachypodium, and Rice. Plant and Animal Genome XVIII Conference, January 9-13, 2010, San Diego, CA. P236. Available: http://www.intl-pag.org/18/abstracts/P05a_PAGXVIII_236.html
An SSR-Based Genetic Linkage Map of the Model Grass Brachypodium distachyon Reprint Icon -
Garvin, D.F., Mckenzie, N., Vogel, J.P., Mockler, T.C., Blankenheim, Z., Wright, J., Huo, N., Cheema, J.J., Dicks, J., Hayden, D.M., Gu, Y.Q., Tobias, C.M., Chang, J.H., Chu, A., Trick, M., Michael, T.P., Bevan, M.W., Snape, J.W. 2010. An SSR-Based Genetic Linkage Map of the Model Grass Brachypodium distachyon. Genome. 53(1):1-13.
Conserved globulin gene across eight grass genomes identify fundamental units of the loci encoding seed storage proteins -
Gu, Y.Q., Wanjugi, H., Coleman-Derr, D., Kong, X., Anderson, O.D. 2009. Conserved globulin gene across eight grass genomes identify fundamental units of the loci encoding seed storage proteins. Functional and Integrative Genomics. 10:111-122.
Genome Comparisons Reveal a Dominant Mechanism of Chromosome Number Reduction in Grasses and Accelerated Genome Evolution in Triticeae -
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.
Development of SSR markers and analysis of diversity in Turkish populations of Brachypodium distachyon -
Vogel, J.P., Metin, T., Budak, H., Huo, N., Gu, Y.Q., Steinwand, M.A. 2009. Development of SSR markers and analysis of diversity in Turkish populations of Brachypodium distachyon Biomed Central (BMC) Plant Biology. 9:Article 88. Available: http://www.biomedcentral.com/1471-2229/9/88/abstract
Novel microRNAs uncovered by deep sequencing of small RNA transcriptomes in bread wheat (Triticum aestivum L.) and Brachypodium distachyon (L.) Beauv -
Bai, W., Cai, A., Rz, Z., Li, A., Huo, N., Li, S., Gu, Y.Q., Yabut, L., Jia, J., Qi, Y. 2009. Novel microRNAs uncovered by deep sequencing of small RNA transcriptomes in bread wheat (Triticum aestivum L.) and Brachypodium distachyon (L.) Beauv. Functional and Integrative Genomics. 9:532-541.
Structure of the omega-gliadin gene family -
Anderson, O.D., Gu, Y.Q., Kong, K., Lazo, G.R., Wu, J. 2009. Structure of the omega-gliadin gene family. Functional and Integrative Genomics. 9: 397-410.
Saturation and comparative mapping of genomic region harboring Hessian fly resistance gene H26 in wheat -
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 -
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.
Structural characterization of Brachypodium genome and its syntenic relationship with rice and wheat -
Huo, N., Vogel, J.P., Lazo, G.R., You, F., Ma, Y., McMahon, S.A., Dvorak, J., Anderson, O.D., Luo, M., Gu, Y.Q. 2009. Structural characterization of Brachypodium genome and its syntenic relationship with rice and wheat. Plant Molecular Biology. 70: 47-61.
Radiation hybrid mapping in crop plants -
Kalavachrla, V., Hossia, K., Gu, Y.Q., Maan, S., Kianian, S. 2009. Radiation hybrid mapping in crop plants. Advances in Agronomy. 102:199-219.
The complete chloroplast genome sequence of Brachypodium distachyon: sequence comparison and phylogenetic analysis of eight grass plastomes -
Bortiri, E., Coleman-Derr, D., Lazo, G.R., Anderson, O.D., Gu, Y.Q. 2008. The complete chloroplast genome sequence of Brachypodium distachyon: sequence comparison and phylogenetic analysis of eight grass plastomes. BMC Research Notes. 1:61.
BatchPrimer3: A high throughput web application for PCR and sequencing primer design -
You, F.M., Huo, N., Gu, Y.Q., Luo, M., Ma, Y., Hane, D., Lazo, G.R., Dvorak, J., Anderson, O.D. 2008. BatchPrimer3: A high throughput web application for PCR and sequencing primer design. BMC Bioinformatics. 9:253.
The nuclear genome of Brachypodium distachyon: analysis of BAC end sequences. -
Huo, N., Lazo, G.R., Vogel, J.P., You, F., Ma, Y., Hayden, D.M., Coleman-Derr, D., Hill, T., Dvorak, J., Anderson, O.D., Luo, M., Gu, Y.Q. 2007. Characterizing the nuclear genome structure of Brachypodium distachyon using BAC end sequences. Functional and Integrative Genomics. 8:135-147.
Development of genetic and genomic research resources for Brachypodium distachyon, a new model system for grass crop research Reprint Icon -
Garvin, D.F., Gu, Y.Q., Hasterok, R., Hazen, S.P., Jenkins, G., Mockler, T.C., Mur, L.A., Vogel, J.P. 2008. Development of genetic and genomic research resources for Brachypodium distachyon, a new model system for grass crop research. The Plant Genome. 48:S69-S84.
Rapid evolution and complex structural organization in genomic regions harboring multiple prolamin genes in the polyploid wheat genome -
Gao, S., Gu, Y.Q., Wu, J., Huo, N., Crossman, C., Jia, J., Ren, Z., Anderson, O.D., Xiuying, K. 2007. Rapid evolution and complex structural organization in genomic regions harboring multiple prolamin genes in the polyploid wheat genome. Plant Molecular Biology. 65:189-203.
New insights into Oryza genome evolution: high gene colinearity and differential retrotransposon amplification -
Zhang, S., Gu, Y., Singh, J., Coleman-Derr, D., Brar, D., Jiang, N., Lemaux, P. 2007. New Insights into Oryza genome evolution: high gene colinearity and differential retrotransposon amplification. Plant Molecular Biology. 64:589-600.
GENO PROFILER: BATCH PROCESSING OF HIGH THROUGHPUT CAPILLARY FINGERPRINTING DATA -
You, F.M., Luo, M.C., Gu, Y.Q., Lazo, G.R., Thomas, C., McGuire, P.E., Dvorak, J., and Anderson, O.D. 2007. Genoprofiler: Automated processing of high throughput capillary fingerprinting data. Bioinformatics. 23:240-242.
Geno Profiler: Automated processing of high throughput capillary fingerprinting data -
You, F., Ming-Cheng, L., Gu, Y.Q., Lazo, G.R., Thomas, C., Mcguire, P.E., Dvorak, J., Anderson, O.D. 2006. Geno Profiler: Automated Processing of High Throughput Capillary Fingerprinting Data. Bioinformatics. 2:240-242.
TYPES AND RATES OF SEQUENCE EVOLUTION AT HMW-GLUTENIN LOCUS IN HEXAPLOID WHEAT AND ITS ANCESTRAL GENOMES -
Gu, Y., Salse, J., Coleman-Derr, D., Dupin, A., Crossman, C., Lazo, G., Huo, N., Belcram, H., Ravel, C., Charmet, G., Charles, M., Anderson, O., Chalhoub, B. 2006. Types and Rates of Sequence Evolution at the HMW-Glutenin Locus in Hexaploid Wheat and Its Ancestral Genomes. Genetics. 174:1493-1504.
CONSTRUCTION AND CHARACTERIZATION OF TWO BAC LIBRARIES FROM BRACHYPODIUM DISTACHYPON, A NEW MODEL FOR GRASS GENOMICS -
Gu, Y., Lazo, G., Vogel, J., Coleman-Derr, D., Luo, M.C., Thilmony, R., Garvin, D., Anderson, O., Huo, N. 2006. Construction and characterization of two BAC libraries from Brachypodium distachyon, a new model for grass genomics. Genome. 49(9):1099-1108.
HIGH-RESOLUTION RADIATION HYBRID MAP OF WHEAT CHROMOSOME 1D -
Kalavacharla, V., Hossain, K., Gu, Y.Q., Riera, L.O., Isabel, V.M., Bhamidimarri, S., Gonzalez-Hernandez, J., Maan, S., Kianian, S. 2006. High-resolution radiation hybrid map of wheat chromosome 1d. Genetics. 173:1-11.
EST SEQUENCING AND PHYLOGENETIC ANALYSIS OF THE MODEL GRASS BRACHYPODIUM DISTACHYON -
Vogel, J.P., Gu, Y.Q., Twigg, P., Lazo, G.R., Chingcuanco, D.L., Hayden, D.M., Donze, T., Vivia-Lindsay, A., Stamova, B., Coleman-Derr, D. 2006. EST sequencing and phylogenetic analysis of the model grass brachypodium distachyon. Theoretical and Applied Genetics. 113: 186-195.
SUBTRACTIVE CDNA LIBRARIES IDENTIFY DIFFERENTIALLY EXPRESSED GENES IN DORMANT AND GROWING BUDS OF LEAFY SPURGE (EUPHORBIA ESULA) -
Jia, Y., Anderson, J.V., Horvath, D.P., Gu, Y.-Q., Lym, R.G., Chao, W.S. 2006. Subtractive cDNA libraries identify differentially expressed genes in dormant and growing buds of leafy spurge (Euphorbia esula). Plant Molecular Biology. 61:329-344.
POSITIONAL RELATIONSHIP BETWEEN PHOTOPERIOD RESPONSE QTL AND PHOTORECEPTOR AND VERNALIZATION GENES IN BARLEY -
Szucs, P., Karsai, I., Von Zitzewitz, J., Meszaros, K., Copper, L., Gu, Y.Q., Chen, T., Hayes, P., Skinner, J. 2006. Positional relationship between photoperiod response qtl and photoreceptor and vernalization genes in barley. Theoretical and Applied Genetics. 112: 1,277-1,285.
POSITIONAL RELATIONSHIP BETWEEN PHOTOPERIOD RESPONSE QTL AND PHOTORECEPTOR AND VERNALIAZATION GENES IN BARLEY -
Szucs, P., Karsai, I., Von Zitzewitz, J., Meszaros, K., Cooper, L., Gu, Y.Q., Chen, T., Hayes, P., Skinner, J. 2006. Positional relationship between photoperiod response qtl and photoreceptor and vernaliazation genes in barley. Theoretical and Applied Genetics. 112: 1,277-1,285.
SUBTRACTIVE CDNA LIBRARIES IDENTIFY DIFFERENTIALLY-EXPRESSED GENES IN DORMANT AND GROWING BUDS OF LEAFY SPURGE (EUPHORBIA ESULA) -
Jia, Y., Anderson, J.V., Horvath, D.P., Gu, Y.Q., Lym, R.G., Chao, W.S. 2006. Subtractive cDNA libraries identify differentially-expressed genes in dormant and growing buds of leafy spurge (Euphorbia esula). [Abstract]. Weed Science Society of America Abstracts 46:30.
IDENTIFICATION OF DIFFERENTIALLY-EXPRESSED GENES IN DORMANT AND GROWING BUDS OF LEAFY SPURGE (EUPHORBIA ESULA L.) -
Jia, Y., Gu, Y.Q., Horvath, D.P., Anderson, J.V., Chao, W.S. 2005. Identification of differentially-expressed genes in dormant and growing buds of leafy spurge (Euphorbia esula L.). [Abstract]. Annual Meeting of the American Society of Plant Biologists. Final Program and Abstract Supplement, Poster 670, Page 225.
HYBSWEEPER: A RESOURCE FOR DETECTING HIGH-DENSITY PLATE COORDINATES -
Lazo, G.R., Lui, N., Gu, Y.Q., Kong, X., Coleman Derr, D., Anderson, O.D. 2005. Hybsweeper: a resource for detecting high-density plate coordinates. Biotechniques. 39:320-324.
SUBTRACTIVE HYBRIDIZATION AS A TOOL TO SCREEN FOR GENES INVOLVED IN DORMANCY AND GROWTH IN UNDERGROUND ADVENTITIOUS BUDS OF LEAFY SPURGE (EUPHORBIA ESULA) -
Jia, Y., Gu, Y., Horvath, D.P., Anderson, J.V., Chao, W.S. 2005. Subtractive hybridization as a tool to screen for genes involved in dormancy and growth in underground adventitious buds of leafy spurge (Euphorbia esula). [Abstract]. Weed Science Society of America. Page No. 120.
GENOMIC ORGANIZATION OF THE COMPLEX A-GLIADIN GENE LOCI IN WHEAT -
Gu, Y.Q., Crossman, C.C., Kong, X., Luo, M., You, F.M., Coleman Derr, D., Dubcovsky, J., Anderson, O.D. 2004. Genomic organization of the complex a-gliadin gene loci in wheat. Theoretical and Applied Genetics. 109:648-657.
Rapid genome evolution as revealed by comparative sequence analysis of orthologous regions from four triticeae genomes -
Gu, Y.Q., Coleman-Derr, D., Kong, X., Anderson, O.D. 2004. Dynamics and rapid genome evolution in allopolyploid wheat as revealed by comparative sequence analysis of the complex hmw-glutenin locus regions. Plant Physiology. 135:459-470.
DYNAMICS OF THE EVOLUTION OF ORTHOLOGOUS AND PARALOGOUS PORTIONS OF A COMPLEX LOCUS REGION IN TWO GENOMES OF ALLOPOLYPLOID WHEAT -
Kong, X., Gu, Y.Q., You, F.M., Dubcovsky, J., Anderson, O.D. 2004. Dynamics of the evolution of orthologous and paralogous portions of a complex locus region in two genomes of allopolyploid wheat. Plant Molecular Biology. 54:55-69.
CONSTRUCTION OF CONTIGS OF AEGILOPS TAUSCHII GENOMIC DNA FRAGMENTS CLONED IN BAC AND BIBAC VECTORS -
LUO, M., THOMAS, C.S., DEAL, K.R., YOU, F., ANDERSON, O.D., GU, Y.Q., LI, W., KURAPARTHY, V., GILL, B.S., MCGUIRE, P.E. 2003. CONSTRUCTION OF CONTIGS OF AEGILOPS TAUSCHII GENOMIC DNA FRAGMENTS CLONED IN BAC AND BIBAC VECTORS. WHEAT GENETICS INTERNATIONAL SYMPOSIUM PROCEEDINGS. 1:293-296.
Structure organization of barley D-hordein locus in comparison with its orthologous regions of wheat genomes -
Gu, Y.Q., Anderson, O.D., Kong, X., Lazo, G.R., Wilson, C. 2003. Structure organization of barley D-hordein locus in comparison with its orthologous regions of wheat genomes. Genome. 46:1084-1097.
Construction and characterization of a half million clones BAC library of durum wheat (Triticum Turdigum SSP. durum). -
Cenci, A., Chantret, N., Kong, X., Gu, Y.Q., Anderson, O.D., Fahima, T., Distelfeld, A., Dubcovsky, J. 2003. Construction and Characterization of a half-million clones BAC library of durum wheat (Triticum Turdigum SSP. Durum). Theoretical and Applied Genetics. 107:931-939.
SILENCING OF SUBFAMILY I OF PROTEIN PHOSPHATASE 2A CATALYTIC SUBUNITS RESULTS IN ACTIVATION OF PLANT DEFENSE RESPONSES AND LOCALIZED CELL DEATH. -
He, X., Anderson, J.C., Del Pozo, O., Gu, Y.Q., Tang, X., Martin, G.B. 2004. Silencing of subfamily I of protein phosphatase 2A catalytic subunits results in activation of plant defense responses and localized cell death. Plant Journal. 38:563-577.
ASSESSMENT OF THE INSULAR ORGANIZATION OF THE WHEAT D GENOME BY PHYSICAL MAPPING -
DVORAK, J., ANDERSON, O.D., GILL, B.S., LUO, M., ZHANG, H., DEAL, K., LI, W., YOU, F., GU, Y.Q., MCGUIRE, P.E. ASSESSMENT OF THE INSULAR ORGANIZATION OF THE WHEAT D GENOME BY PHYSICAL MAPPING. Annual International Plant & Animal Genome Conference. 2003.
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Last Modified: 5/2/2016
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