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ARS Home Midwest Area Ames, Iowa Corn Insects and Crop Genetics Research People







Steven B Cannon    Research Geneticist (Plants) Corn Insect & Crop Genetics Research Unit  /ARSUserFiles/39095/Cannon Steven 225x300.jpg

Steven CannonResearch Geneticist (Plants)819 Wallace Road1017 CGILIowa State UniversityAmes, Iowa 50011-4014515-294-6971515-294-9359 (Fax) **Education**: B.S. Math and Biology Education, Utah State University
M.A. American Culture Studies, Bowling Green State University
M.S. Urban Planning, University of Minnesota
Ph.D. Plant Biology, University of Minnesota  **Research Interests**: Management of data for plant biology research and breeding, especially for legume crops (such as soybean, alfalfa, common bean, chickpea, peanut). Bioinformatics and data processing information. Genome assembly and gene prediction and annotation. Methods of gene family construction and analysis, and use of gene families to identify corresponding genetic elements across related species. Crop domestication and improvement. **Aims:**Provide access to integrated genetic and genomic data, to enable researchers and plant breeders to breed improved varieties of legume crops.**Background:**The need to feed more people, in the face of pressures from changing climate and from new environmental and pathogen challenges, means that plant breeders need to make faster progress, using the best analysis tools and methods. Plant breeding is now a multi-disciplinary endeavor, utilizing detailed information about underlying genome and gene sequences, and involving genetics, statistics, high-performance computational methods, remote sensing, agronomy, pathology, modeling, and other approaches. Good data management has become critical for this work. Several USDA-ARS projects work to maintain the “data infrastructure” for this work, by producing and maintaining databases, websites, and analysis methods to support crop improvement. The work of my project focuses on legume crops, such as soybean, peanut, lentil, and more than two dozen other species that are important for human and animal nutrition and for other uses. Legumes are unusual among crops in that they have a symbiotic relationship with soil bacteria, allowing them to convert atmospheric nitrogen into fertilizer directly usable by the plant. In turn, this allows legumes to produce higher levels of protein than many other crops. Legume crops are therefore the source of a large portion of the protein in human and livestock diets.**Approach:**The work of my research group focuses on making data about legume species accessible to researchers, for breeding and other plant biology research. We maintain several on-line databases, including SoyBase, LegumeInfo, and PeanutBase. These provide access to genome sequences, predicted genes, and genetic markers for many important traits such as disease resistance, various kinds of stress tolerance, agronomic traits such as time to maturity or plant size, and nutritional traits such as oil and protein quality. **Outcomes:**  This work is used by plant breeders to develop improved crop varieties, and by other plant researchers to understand the basis of important traits such as resistance to current and emerging diseases, and plant responses to environmental stresses such as drought, flooding, salinity, and heat.  Publications(Clicking on the reprint iconReprint Icon  will take you to the publication reprint.)Combining GWAS and comparative genomics to fine map candidate genes for days to flowering in mung bean-(Peer Reviewed Journal) Chiteri, K.O., Rairdin, A., Sandu, K., Redsun, S., Farmer, A., O'Rourke, J.A., Cannon, S.B., Singh, A. 2024. Combining GWAS and comparative genomics to fine map candidate genes for days to flowering in mung bean. BMC Genomics. 25. Article 270. https://doi.org/10.1186/s12864-024-10156-x.Initiation of genomics-assisted breeding in virginia-type peanuts through the generation of a de novo reference genome and informative markers-(Peer Reviewed Journal) Newman, C.S., Andres, R.J., Youngblood, R.C., Campbell, J.D., Simpson, S.A., Cannon, S.B., Scheffler, B.E., Oakley, A.T., Hulse-Kemp, A.M., Dunne, J.C. 2023. Initiation of genomics-assisted breeding in Virginia-type peanuts through the generation of a de novo reference genome and informative markers. Frontiers in Plant Science. 13.Article 1073542. https://doi.org/10.3389/fpls.2022.1073542.CAPG: comprehensive allopolyploid genotyper-(Peer Reviewed Journal) Kulkarni, R., Zhang, Y., Cannon, S.B., Dorman, K.S. 2022. CAPG: comprehensive allopolyploid genotyper. Bioinformatics. 39(1).Article btac729. https://doi.org/10.1093/bioinformatics/btac729.Apply spatial statistics analysis to ordinal data for soybean iron deficiency chlorosis-(Peer Reviewed Journal) Xu, Z., Cannon, S.B., Beavis, W.D. 2022. Apply spatial statistics analysis to ordinal data for soybean iron deficiency chlorosis. Agronomy. 12(9). Article 2095. https://doi.org/10.3390/agronomy12092095.Phylogenomics of the genus Glycine sheds light on polyploid evolution and life-strategy transition-(Peer Reviewed Journal) Zhuang, Y., Wang, X., Li, X., Hu, J., Fan, L., Landis, J.B., Cannon, S.B., Grimwood, J., Schmutz, J., Jackson, S.A., Doyle, J.J., Zhang, X., Zhang, D., Ma, J. 2022. Phylogenomics of the genus Glycine sheds light on polyploid evolution and life-strategy transition. Nature Plants. 8: 233-244. https://doi.org/10.1038/s41477-022-01102-4.Dissecting the root phenotypic and genotypic variability of the Iowa mung bean diversity panel-(Peer Reviewed Journal) Chiteri, K.O., Zaki Jubery, T., Dutta, S., Ganapathysubramanian, B., Cannon, S.B., Singh, A. 2022. Dissecting the root phenotypic and genotypic variability of the Iowa mung bean diversity panel. Frontiers in Plant Science. 12:808001. https://doi.org/10.3389/fpls.2021.808001.Doing genetic and genomic biology using the Legume Information System and associated resources-(Book / Chapter) Redsun, S., Hokin, S., Cameron, C.T., Cleary, A.M., Berendzen, J., Dash, S., Brown, A.V., Wilkey, A., Campbell, J.D., Huang, W., Kalberer, S.R., Weeks, N.T., Cannon, S.B., Farmer, A.D. 2022. Doing genetic and genomic biology using the Legume Information System and associated resources. Methods in Molecular Biology. 2443. https://doi.org/10.1007/978-1-0716-2067-0_4.Genome-wide approaches delineate the additive, epistatic, and pleiotropic nature of variants controlling fatty acid composition in peanut (Arachis hypogaea L.)-(Peer Reviewed Journal) Otyama, P.I., Chamberlin, K., Ozias-Akins, P., Graham, M.A., Cannon, E.K.S., Cannon, S.B., MacDonald, G.E., Anglin, N.L. 2022. Genome-wide approaches delineate the additive, epistatic, and pleiotropic nature of variants controlling fatty acid composition in peanut (Arachis hypogaea L.). Genes, Genomes, Genetics. 12(1). Article jkab382. https://doi.org/10.1093/g3journal/jkab382.Legacy genetics of arachis cardenasii in the peanut crop shows the profound benefits of international seed exchange-(Peer Reviewed Journal) Bertioli, D.J., Clevenger, J., Godoy, I., Stalker, T., Wood, S., Santos, J., Ballen-Taborda, C., Abernathy, B., Azevedo, V., Campbell, J.D., Chavarro, C., Chu, Y., Farmer, A.D., Fonceka, D., Gao, D., Grimwood, J., Halpin, N., Korani, W., Michelotto, M.D., Ozias-Akins, P., Vaughn, J.N., Youngblood, R., Moretzsohn, M.C., Wright, G.C., Jackson, S.A., Cannon, S.B., Scheffler, B.E., Leal-Bertioli, S.M. 2021. Legacy genetics of Arachis cardenasii in the peanut crop shows the profound benefits of international seed exchange. Proceedings of the National Academy of Sciences(PNAS). 118(38). Article e2104899118. https://doi.org/10.1073/pnas.2104899118.Genome-wide approaches delineate the additive, epistatic, and pleiotropic nature of variants controlling fatty acid composition in peanut (Arachis hypogaea L.)-(Pre-print Publication) Otyama, P.I., Chamberlin, K., Ozias-Akins, P., Graham, M.A., Cannon, E.K.S., Cannon, S.B., MacDonald, G.E., Anglin, N.L. 2021. Genome-wide approaches delineate the additive, epistatic, and pleiotropic nature of variants controlling fatty acid composition in Arachis hypogaea. bioRxiv. https://doi.org/10.1101/2021.06.03.446924.Predictions from algorithmic modeling result in better decisions than from data modeling for soybean iron deficiency chlorosis-(Peer Reviewed Journal) Xu, Z., Kurek, A., Cannon, S.B., Beavis, W.D. 2021. Predictions from algorithmic modeling result in better decisions than from data modeling for soybean iron deficiency chlorosis. PLoS ONE. 16(7). Article e0240948. https://doi.org/10.1371/journal.pone.0240948.An accumulation of genetic variation and selection across the disease-related genes during apple domestication-(Peer Reviewed Journal) Singh, J., Sun, M., Cannon, S.B., Wu, J., Khan, A. 2021. An accumulation of genetic variation and selection across the disease-related genes during apple domestication. Tree Genetics and Genomes. 17. Article 29. https://doi.org/10.1007/s11295-021-01510-1.A better mousetrap to guard against anthracnose disease in bean-(Review Article) Cannon, S.B., Innes, R.W. 2021. A better mousetrap to guard against anthracnose disease in bean. Journal of Experimental Botany. 72(10):3487-3488. https://doi.org/10.1093/jxb/erab146.The legume information system and associated online genomic resources-(Peer Reviewed Journal) Berendzen, J., Brown, A.V., Cameron, C.T., Campbell, J.D., Cleary, A.M., Dash, S., Hokin, S., Huang, W., Kalberer, S.R., Nelson, R., Redsun, S., Weeks, N.T., Wilkey, A., Farmer, A.D., Cannon, S.B. 2021. The legume information system and associated online genomic resources. Legume Science. Article e74. https://doi.org/10.1002/leg3.74.A new decade and new data at SoyBase, the USDA-ARS soybean genetics and genomics database-(Peer Reviewed Journal) Brown, A.V., Connors, S., Huang, W., Wilkey, A., Grant, D.M., Weeks, N.T., Cannon, S.B., Graham, M.A., Nelson, R. 2020. A new decade and new data at SoyBase, the USDA-ARS soybean genetics and genomics database. Nucleic Acids Research. 49(D1):D1496-D1501. https://doi.org/10.1093/nar/gkaa1107.GCViT: a method for interactive, genome-wide visualization of resequencing and SNP array data-(Peer Reviewed Journal) Wilkey, A., Brown, A.V., Cannon, S.B., Cannon, E.K. 2020. GCViT: a method for interactive, genome-wide visualization of resequencing and SNP array data. Biomed Central (BMC) Genomics. 21. Article 822. https://doi.org/10.1186/s12864-020-07217-2.Genetic variation among 481 diverse soybean accessions, inferred from genomic re-sequencing-(Peer Reviewed Journal) Valliyodan, B., Brown, A.V., Wang, J., Patil, G., Liu, Y., Otyama, P.I., Nelson, R., Vuong, T., Song, Q., Musket, T.A., Wagner, R., Marri, P., Reddy, S., Sessions, A., Wu, X., Grant, D.M., Bayer, P., Roorkiwal, M., Varshney, R.K., Liu, X., Edwards, D., Xu, D., Joshi, T., Cannon, S.B., Nguyen, H.T. 2020. Genetic variation among 481 diverse soybean accessions, inferred from genomic re-sequencing. Scientific Data. 8. Article 50. https://doi.org/10.1038/s41597-021-00834-w.Which came first: the tuber or the vine? A taxonomic overview of underground storage in the legumes-(Review Article) Stai, J.S., Von Wettberg, E.B, Smykal, P., Cannon, S.B. 2020. Which came first: the tuber or the vine? A taxonomic overview of underground storage in the legumes. Legume Perspectives. (19):5-7.Apios americana – natural history and ethnobotany-(Review Article) Kalberer, S.R., Belamkar, V., Singh, J., Cannon, S.B. 2020. Apios americana: natural history and ethnobotany. Legume Perspectives. (19):29-32.Genotypic characterization of the U.S. peanut core collection-(Peer Reviewed Journal) Otyama, P.I., Kulkarni, R., Chamberlin, K., Ozias-Akins, P., Chu, Y., Lincoln, L.M., MacDonald, G.E., Anglin, N.L., Dash, S., Bertioli, D.J., Fernandez-Baca, D., Graham, M.A., Cannon, S.B., Cannon, E.K.S. 2020. Genotypic characterization of the U.S. peanut core collection. G3, Genes/Genomes/Genetics. 10(11):4013-4026. https://doi.org/10.1534/g3.120.401306.The first genetic map for a psoraleoid legume (Bituminaria bituminosa)reveals highly conserved synteny with phaseoloid legumes-(Peer Reviewed Journal) Nelson, M.N., Jabbari, J.S., Turakulov, R., Pradhan, A., Pazos-Navarro, M., Stai, J.S., Cannon, S.B., Real, D. 2020. The first genetic map for a psoraleoid legume (Bituminaria bituminosa)reveals highly conserved synteny with phaseoloid legumes. Plants. 9(8). Article 973. https://doi.org/10.3390/plants9080973.Family-specific gains and losses of protein domains in the legume and grass plant families-(Peer Reviewed Journal) Yadav, A., Fernandez-Baca, D., Cannon, S.B. 2020. Family-specific gains and losses of protein domains in the legume and grass plant families. Evolutionary Bioinformatics. 16. https://doi.org/10.1177/1176934320939943.Evaluating two different models of peanut’s origin-(Other) Bertioli, D.J., Abernathy, B., Seijo, G., Clevenger, J., Cannon, S.B. 2020. Evaluating two different models of peanut’s origin. Nature Genetics. https://doi.org/10.1038/s41588-020-0626-1.Genotypic characterization of the U.S. peanut core collection-(Abstract Only) Otyama, P.I., Kulkarni, R., Chamberlin, K.D., Ozias-Akins, P., Chu, Y., Lincoln, L.M., Macdonald, G.E., Anglin, N.L., Dash, S., Bertoli, D., Fernandez-Baca, D., Graham, M.A., Cannon, S.B., Cannon, E.K. 2020. Genotypic characterization of the U.S. peanut core collection [abstract]. In proceedings: American Peanut Research and Education Society, July 2020. Available: https://apresinc.com/wp-content/uploads/2020/06/OtyamaPI-Abstract-2020.pdf.The future of legume genetic data resources: Challenges, opportunities, and priorities-(Peer Reviewed Journal) Bauchet, G., Bett, K.E., Cameron, C.T., Campbell, J.D., Cannon, E., Cannon, S.B., Carlson, J., Chan, A., Cleary, A., Close, T., Cook, D., Cooksey, A., Coyne, C.J., Dash, S., Dickstein, R., Farmer, A., Fernandez-Baca, D., Hokin, S., Jones, E., Kang, Y., Monteros, M., Munoz-Amatriain, M., Mysore, K., Pislariu, C., Richards, C.M., Shi, A., Town, C., Udvardi, M., Wettberg, E., Young, N., Zhao, P. 2019. The future of legume genetic data resources: Challenges, opportunities, and priorities. Legume Science. 1(1):e16. https://doi.org/10.1002/leg3.16.One thousand plant transcriptomes and the phylogenomics of green plants-(Peer Reviewed Journal) Degironimo, L., Jordon-Thaden, I.E., Joya, S., Melkonian, B., Miles, N.W., Pokorny, L., Quigley, C.T., Cannon, S.B., Leebens-Mack, J., Wong, G.K. 2019. One thousand plant transcriptomes and the phylogenomics of green plants. Nature. 574:679-685.Construction and comparison of three new reference-quality genome assemblies for soybean-(Peer Reviewed Journal) Valliyodan, B., Cannon, S.B., Bayer, P.E., Shu, S., Brown, A.V., Ren, L., Jenkins, J., Chung, C.Y.L., Chan, T.F., Daum, C.G., Plott, C., Hastie, A., Baruch, K., Barry, K.W., Huang, W., Gunvant, P., Varshney, R.K., Hu, H., Batley, J., Yuan, Y., Song, Q., Stupar, R.M., Goodstein, D.M., Stacey, G., Lam, H.M., Jackson, S.A., Schmutz, J., Grimwood, J., Edwards, D., Nguyen, H.T. 2019. Construction and comparison of three new reference-quality genome assemblies for soybean. Plant Journal. 100(5):1066-1082. https://doi.org/10.1111/tpj.14500.Genome-wide associations and epistatic interactions for internode number, plant height, seed weight and seed yield in soybean-(Peer Reviewed Journal) Assefa, T., Otyama, P., Brown, A.V., Kalberer, S.R., Kulkarni, R.S., Cannon, S.B. 2019. Genome-wide associations and epistatic interactions for internode number, plant height, seed weight and seed yield in soybean. BMC Genomics. 20(527). https://doi.org/10.1186/s12864-019-5907-7.Evaluation of linkage disequilibrium, population structure, and genetic diversity in the U.S. peanut mini core collection-(Peer Reviewed Journal) Otyama, P.I., Wilkey, A., Kulkarni, R., Assefa, T., Chu, Y., Clevenger, J., O'Conner, D.J., Wright, G.C., Dezern, S.W., MacDonald, G.E., Anglin, N.L., Cannon, E.K.S., Ozias-Akins, P., Cannon, S.B. 2019. Evaluation of linkage disequilibrium, population structure, and genetic diversity in the U.S. peanut mini core collection. BMC Genomics. https://doi.org/10.1186/s12864-019-5824-9.The genome of cowpea (Vigna unguiculata [L.] Walp.)-(Peer Reviewed Journal) Lonardi, S., Munoz-Amatriain, M., Liang, Q., Shu, S., Wanamaker, S., Lo, S., Tanskanen, J., Zhu, T., Schulman, A.H., Luo, M., Alhakami, H., Ounit, R., Abid, H., Verdier, J., Roberts, P.A., Santos, J., Ndeve, A., Dolezel, J., Vrana, J., Hokin, S.A., Farmer, A.D., Cannon, S.B., Close, T.J. 2019. The genome of cowpea (Vigna unguiculata [L.] Walp.). Plant Journal. 98(5)767-782. https://doi.org/10.1111/tpj.14349.The genome sequence of segmental allotetraploid peanut Arachis hypogaea-(Peer Reviewed Journal) Bertioli, D.J., Jenkins, J., Clevenger, J., Dudchenko, O., Gao, D., Seijo, G., Leal-Bertioli, S., Ren, L., Farmer, A., Pandey, M., Samoluk, S.S., Abernathy, B., Agarwal, G., Ballen-Taborda, C., Cameron, C., Campbell, J., Chavarro, C., Chitikineni, A., Chu, Y., Dash, S., El Baidouri, M., Guo, B., Huang, W., Kim, K.D., Korani, W., Lanciano, S., Lui, C.G., Mirouze, M., Moretzsohn, M.C., Pham, M., Shin, J.H., Shirasawa, K., Sinharoy, S., Sreedasyam, A., Weeks, N.T., Zhang, X., Zheng, Z., Sun, Z., Froenicke, L., Aiden, E.L., Michelmore, R., Varshney, R.K., Holbrook Jr, C.C., Cannon, E.K., Scheffler, B.E., Grimwwood, J., Ozias-Akins, P., Cannon, S.B., Jackson, S.A., Schmutz, J. 2019. The genome sequence of segmental allotetraploid peanut Arachis hypogaea. Nature Genetics. 51:877-884. https://doi.org/10.1038/s41588-019-0405-z.Cercis: A non-polyploid genomic relic within the generally polyploid legume family-(Peer Reviewed Journal) Stai, J.S., Yadav, A., Sinou, C., Bruneau, A., Doyle, J.J., Fernandez-Baca, D., Cannon, S.B. 2019. Cercis: A non-polyploid genomic relic within the generally polyploid legume family. Frontiers in Plant Science. 10:345. https://doi.org/10.3389/fpls.2019.00345.Reconstruction of ancestral genome reveals chromosome evolution history for selected legume species-(Peer Reviewed Journal) Ren, L., Huang, W., Cannon, S.B. 2019. Reconstruction of ancestral genome reveals chromosome evolution history for selected legume species. New Phytologist. https://doi.org/10.1111/nph.15770.A reference-grade wild soybean genome-(Peer Reviewed Journal) Min, X., Yik-Lok, C., Man-Wah, L., Fuk-Ling, W., Xin, W., Ailin, L., Zhili, W., King-Yung, A., Tin-Hang, W., Suk-Wah, I., Zhixia, X., Kejing, F., Ming-Sin, N., Linfeng, Y., Tianquan, D., Lijuan, H., Lu, C., Aisi, F., Qiong, D., Junxian, H., Gyuhwa, C., Sachiko, I., Babu, V., Nguyen, H., Cannon, S.B., Foyer, C.H., Ting-Fung, C., Hon-Ming, L. 2019. A reference-grade wild soybean genome. Nature Communications. 10:1216. https://doi.org/10.1038/s41467-019-09142-9.A review of breeding objectives, genomic resources, and marker-assisted methods in common bean (Phaseolus vulgaris L.)-(Peer Reviewed Journal) Assefa, T., Rubyogo, J., Mahama, A.A., Brown, A.V., Cannon, E., Blair, M.W., Cannon, S.B. 2019. A review of breeding objectives, genomic resources, and marker-assisted methods in common bean (Phaseolus vulgaris L.). Molecular Breeding. 39:20. https://doi.org/10.1007/s11032-018-0920-0.A mechanism for genome size reduction following genomic rearrangements-(Peer Reviewed Journal) Ren, L., Huang, W., Cannon, E., Bertioli, D.J., Cannon, S.B. 2018. A mechanism for genome size reduction following genomic rearrangements. Frontiers in Genetics. https://doi.org/10.3389/fgene.2018.00454.AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture-(Peer Reviewed Journal) Harper, E.C., Campbell, J., Cannon, E.K., Jung, S., Main, D., Poelchau, M.F., Walls, R.L., Andorf, C.M., Arnaud, E., Berardini, T.Z., Birkett, C.L., Cannon, S.B., Carson, J., Condon, B., Cooper, L., Dunn, N., Elsik, C., Farmer, A., Ficklin, S., Grant, D.M., Grau, E., Hendon, N., Hu, Z., Humann, J., Jaiswal, P., Jonquet, C., Laporte, M., Larmande, P., Lazo, G.R., McCarthy, F., Menda, N., Mungall, C., Munoz-Torres, M., Naithani, S., Nelson, R., Nesdill, D., Park, C., Reecy, J., Reiser, L., Sanderson, L., Sen, T.Z., Staton, M., Subramaniam, S., Karey, T., Unda, V., Unni, D., Wang, L., Ware, D., Wegrzyn, J., Williams, J., Woodhouse, M. 2018. AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture. Database: The Journal of Biological Databases and Curation. 2018(1):1-32. https://doi.org/10.1093/database/bay088.Ten quick tips for sharing open genomic data-(Peer Reviewed Journal) Brown, A.V., Campbell, J.D., Assefa, T., Grant, D.M., Nelson, R., Weeks, N.T., Cannon, S.B. 2018. Ten quick tips for sharing open genomic data. PLoS Computational Biology. https://doi.org/10.1371/journal.pcbi.1006472.Uneven recombination and linkage disequilibrium across a reference SNP map for common bean (Phaseolus vulgaris L.)-(Peer Reviewed Journal) Blair, M.W., Cortes, A.J., Farmer, A.D., Huang, W., Penmetsa, V., Cannon, S.B. 2018. Uneven recombination and linkage disequilibrium across a reference SNP map for common bean (Phaseolus vulgaris L.). PLoS One. 13(3):e0189597. https://doi.org/10.1371/journal.pone.0189597.A transcriptome-SNP-derived linkage map of Apios americana (potato bean) provides insights about genome re-organization and synteny conservation in the phaseoloid legumes-(Peer Reviewed Journal) Singh, J., Kalberer, S.R., Belamkar, V., Assefa, T., Nelson, M.N., Farmer, A.D., Blackmon, W.J., Cannon, S.B. 2017. A transcriptome-SNP-derived linkage map of Apios americana (potato bean) provides insights about genome re-organization and synteny conservation in the phaseoloid legumes. Theoretical and Applied Genetics. 131(2):333-351. https://doi.org/10.1007/s00122-017-3004-3.Improving adaptation to drought stress in white pea bean (Phaseolus vulgaris L): genotypic effects on grain yield, yield components and pod harvest index-(Peer Reviewed Journal) Assefa, T., Rao, I.M., Cannon, S.B., Wu, J., Gutema, Z., Blair, M., Otyama, P., Alemayehu, F., Dagne, B. 2017. Improving adaptation to drought stress in white pea bean (Phaseolus vulgaris L): genotypic effects on grain yield, yield components and pod harvest index. Plant Breeding. 136(4):548-561. doi:10.1111/pbr.12496.Genomics-assisted characterization of a breeding collection of Apios americana, an edible tuberous legume-(Peer Reviewed Journal) Belamkar, V., Farmer, A.D., Weeks, N.T., Kalberer, S.R., Blackmon, W.J., Cannon, S.B. 2016. Genomics-assisted characterization of a breeding collection of Apios americana, an edible tuberous legume. Nature Scientific Reports. 6:34908. doi: 10.1038/srep34908.A comprehensive draft genome sequence for lupin (Lupinus angustifolius), an emerging health food: Insights into plant-microbe interactions and legume evolution-(Peer Reviewed Journal) Hane, J.K., Yao, M., Kamphuis, L.G., Nelson, M.N., Atkins, C.A., Bravo, A., Bringans, S., Cannon, S.B., Huang, W., Cullerne, D., Foley, R., Garg, G., Gao, L., Harrison, M., Li, S., Mcgrath, A., Morahan, G., Taylor, J., Weller, J., Jianbo, J., Singh, K.B. 2016. A comprehensive draft genome sequence for lupin (Lupinus angustifolius), an emerging health food: Insights into plant-microbe interactions and legume evolution. Plant Biotechnology Journal. doi: 10.1111/pbi.12615.Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)-(Peer Reviewed Journal) Martin, K., Jugpreet, S., Hill, J.H., Whitham, S., Cannon, S.B. 2016. Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.). Biomed Central (BMC) Genomics. 17:613. doi:10.1186/s12864-016-2976-8.Characterization and development mechanism of Apios americana tuber starch-(Peer Reviewed Journal) Yangcheng, H., Belamkar, V., Cannon, S.B., Jane, J. 2016. Characterization and development mechanism of Apios americana tuber starch. Carbohydrate Polymers. 151:198-205. doi:10.1016/j.carbpol.2016.05.062.The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut-(Peer Reviewed Journal) Bertioli, D., Cannon, S.B., Froenicke, L., Huang, G., Farmer, A.D., Cannon, E., Dash, S., Liu, X., Barkley, N.L., Guo, B., Scheffler, B.E., et al. 2016. The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut. Nature Genetics. 48:438-446. doi: 10.1038/ng.3517.Legume Information System (LegumeInfo.org):  a key component of a set of federated data resources for the legume family-(Peer Reviewed Journal) Dash, S., Campbell, J.D., Cannon, E., Cleary, A.M., Huang, W., Kalberer, S.R., Karingula, V., Rice, A.G., Singh, J., Umale, P.E., Weeks, N.T., Wilkey, A.P., Farmer, A.D., Cannon, S.B. 2015. Legume Information System (LegumeInfo.org):  a key component of a set of federated data resources for the legume family. 2016. Nucleic Acids Research. 44 (D1):D1181-D1188. doi: 10.1093/nar/gkv1159.An ontology approach to comparative phenomics in plants-(Peer Reviewed Journal) Oellrich, A., Walls, R.L., Cannon, E., Cannon, S.B., Cooper, L., Gardiner, J., Gkoutos, G.V., Harper, E.C., He, M., Hoehndorf, R., Jaiswal, P., Kalberer, S.R., Lloyd, J., Meinke, D., Menda, N., Moore, L., Nelson, R., Pujar, A., Lawrence, C.J., Huala, E. 2015. An ontology approach to comparative phenomics in plants. Plant Methods. 11:10. DOI: 10.1186/s13007-015-0053-y.PeanutBase and other bioinformatic resources for peanut-(Book / Chapter) Dash, S., Cannon, E., Kalberer, S.R., Farmer, A.D., Cannon, S.B. 2016. PeanutBase and other bioinformatic resources for peanut. In: Stalker, T.H., Wilson, R.F., editors. Peanuts: Genetidcs, Processing, and Utilization (AOCS Monograph Series on Oilseeds). Waltham, MA: Academic Press and AOCS Press. p. 241-252.Multiple polyploidy events in the early radiation of nodulating and non-nodulating legumes-(Peer Reviewed Journal) Cannon, S.B., McKain, M.R., Harkess, A., Nelson, M.N., Dash, S., Deyholos, M.K., Peng, Y., Joyce, B., Stewart, C.N., Rolf, M., Kutchan, T., Xuemei, T., Chen, C., Zhang, Y., Carpenter, E., Wong, G., Doyle, J., Leebens-Mack, J. 2014. Multiple polyploidy events in the early radiation of nodulating and non-nodulating legumes. Molecular Biology and Evolution. 32(1):193-210. DOI: 10.1093/molbev/msu296.Comprehensive characterization and RNA-Seq profiling of the HD-Zip transcription factor family in soybean (Glycine max) during dehydration and salt stress-(Peer Reviewed Journal) Belamkar, V., Weeks, N.T., Bharti, A.K., Farmer, A.D., Graham, M.A., Cannon, S.B. 2014. Comprehensive characterization and RNA-Seq profiling of the HD-Zip transcription factor family in soybean (Glycine max) during dehydration and salt stress. Biomed Central (BMC) Genomics. 15:950. DOI:10.1186/1471-2164-15-950.Evaluation of phenotypic variation in a collection of Apios americana: an edible tuberous legume-(Peer Reviewed Journal) Belamkar, V., Wenger, A., Kalberer, S.R., Bhattacharya, G.V., Blackmon, W.J., Cannon, S.B. 2015. Evaluation of phenotypic variation in a collection of Apios americana: an edible tuberous legume. Crop Science. 55(2):712-726. DOI: 10.2135/cropsci2014.04.0281.Occurrence and characterization of Bean common mosaic virus strain NL1 in Iowa-(Peer Reviewed Journal) Martin, K.M., Hill, J.H., Cannon, S.B. 2014. Occurrence and characterization of Bean common mosaic virus strain NL1 in Iowa. Plant Disease. 98(11):1593. DOI: 10.1094/PDIS-07-14-0673-PDN.A roadmap for functional structural variants in the soybean genome-(Peer Reviewed Journal) Anderson, J.E., Kantar, M.B., Kono, T.Y., Fu, F., Stec, A.O., Song, Q., Cregan, P.B., Specht, J.E., Diers, B.W., Cannon, S.B., McHale, L.K., Stupar, R.M. 2014. A roadmap for functional structural variants in the soybean genome. Genes, Genomes, Genetics. DOI:10.1534/g3.114.011551.A reference genome for common bean and genome wide analysis of dual domestications-(Peer Reviewed Journal) Shmutz, J., Mcclean, P., Mamidi, S., Wu, A., Cannon, S.B., Grimwood, J., Jenkins, J., Shu, S., Song, Q., Chavarro, C., Geffroy, V., Moghaddam, S.M., Dongying, G., Abernathy, B., Barry, K., Blair, M., Brick, M.A., Chovatia, M., Gepts, P., Goodstein, D.M., Gonzales, M., Hellsten, U., Hyten, D.L., Gaofeng, J., Kelly, J., Kudrna, D., Lee, R., Manon, R.M., Miklas, P.N., Osorno, J.M., Rodrigues, J., Thareau, V., Urrea, C.A., Wang, M., Yu, Y., Zhang, M., Wing, R.A., Cregan, P.B., Rokhsar, D.S., Jackson, S.A. 2014. A reference genome for common bean and genome wide analysis of dual domestications. Nature Genetics. 46: 707-713. DOI: 10.1038/ng.3008.Comprehensive transcriptome assembly of chickpea (Cicer arietinum L.) using Sanger and next generation sequencing platforms:  development and applications-(Peer Reviewed Journal) Kudapa, H., Azam, S., Sharpe, A.G., Taran, B., Li, R., Deonovic, B., Cameron, C., Farmer, A.D., Cannon, S.B., Varshney, R.K. 2014. Comprehensive transcriptome assembly of chickpea (Cicer arietinum L.) using Sanger and next generation sequencing platforms:  development and applications. PLoS One. 9(1):e86039. DOI: 10.1371/journal.pone.0086039.Big data computing: Building a vision for ARS information management-(Government Publication) James, R.R., Lawrence, C.J., Papiernik, S.K., Van Tassell, C.P., Ahuja, L.R., Baxter, I.R., Cannon, S.B., Lunney, J.K., Rexroad Iii, C.E., Sadler, J., Stanton, T.B., Stephensen, C.B. 2013. Big data computing: Building a vision for ARS information management. USDA. Agricultural Research Service Publication (White Paper).Keeping an eye on the biology-(Peer Reviewed Journal) Singer, S.R., Schwarz, J.A., Manduca, C.A., Fox, S.P., Iverson, E.R., Taylor, B., Cannon, S.B., May, G.D., et al. 2013. Keeping an eye on the biology. Science. 339(6118):408-409.Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement-(Peer Reviewed Journal) Varshney, R.K., Song, C., Saxena, R.K., Azam, S., Yu, S., Sharpe, A.G., Cannon, S.B., Rosen, B., Tar'An, B., Millan, T., et al. 2013. Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement. Nature Biotechnology. 31:240-246.The model legume genomes-(Book / Chapter) Cannon, S.B. 2013. The model legume genomes. In: Rose, R.J., editor. Legume Genomics: Methods and Protocols. Heidelberg, NY: Springer. p. 1-14.Genome-wide characterization of nonreference transposons reveals evolutionary propensities of transposons in soybean-(Peer Reviewed Journal) Tian, Z., She, M., Zhao, M., Du, J., Cannon, S.B., Liu, X., Xu, X., Lam, H., Ma, J. 2012. Genome-Wide characterization of nonreference transposons reveals evolutionary propensities of transposons in soybean. The Plant Cell. 24(11): 4422-4436.Investigating nitrogen deficiency in common beans-(Abstract Only) O'Rourke, J.A., Iniguez, L.P., Bucciarelli, B., Woodey, J.L., Shoemaker, R.C., Graham, M.A., Cannon, S.B., Mcclean, P.E., Jackson, S.A., Hernandez, G., Vance, C.P. 2012. Investigating nitrogen deficiency in common beans [abstract]. Molecular & Cellular Biology of the Soybean Conference, August 12-15, 2012, Des Moines, Iowa. Available: http://www.extension.iastate.edu/registration/events/soybean/speakeranchor.htm#speaker16.The future of soybean genomics is here-(Review Article) Shoemaker, R.C., Severin, A., Woody, J.L., Cannon, S.B., Graham, M.A. 2013. The future of soybean genomics is here. Grain Legumes. 1:16-18.The impact of polyploidy on the evolution of a complex NB-LRR resistance gene cluster in soybean-(Peer Reviewed Journal) Ashfield, T., Egan, A.N., Pfeil, B.E., Chen, N.W., Ratnaparkhe, M.B., Ameline-Torregrosa, C., Denny, R., Cannon, S.B., Doyle, J.J., Geffroy, V., Roe, B.A., Maroof, M.S., Young, N.D., Innes, R.W. 2012. The impact of polyploidy on the evolution of a complex NB-LRR resistance gene cluster in soybean. Plant Physiology. DOI:10.1104/CS.112.195040.Pericentromeric effects shape the patterns of divergence, retention, and expression of duplicated genes in the Paleopolyploid Soybean-(Peer Reviewed Journal) Du, J., Tian, Z., Sui, Y., Zhao, M., Song, Q., Cannon, S.B., Cregan, P.B., Ma, J. 2012. Pericentromeric effects shape the patterns of divergence, retention, and expression of duplicated genes in the Paleopolyploid Soybean. The Plant Cell. 24(1):21-32.A comprehensive transcriptome assembly of pigeonpea (Cajanauscajan L.) using sanger and second-generation sequencing platforms-(Peer Reviewed Journal) Kudapa, H., Bharti, A.K., Cannon, S.B., Farmer, A.D., Deonovic, B., Kramer, R., Bohra, A., Weeks, N.T., Crow, J.A., Tuteja, R., Shah, T., Dutta, S., Gupta, D.K., Singh, A., Gaikwad, K., Sharma, T.R., May, G.D., Singh, N.K., Varshney, R.K. 2012. A comprehensive transcriptome assembly of pigeonpea (Cajanauscajan L.) using sanger and second-generation sequencing platforms. Molecular Plant. 5(5):1020-1028.CViT: “Chromosome Visualization Tool” – A whole-genome viewer-(Peer Reviewed Journal) Cannon, E.K., Cannon, S.B. 2011. CViT: “Chromosome Visualization Tool” – A whole-genome viewer. International Journal of Plant Genomics. DOI:10.1155/2011/373875.SoyBase and the legume information system: accessing information about the soybean and other legume genomes-(Book / Chapter) Cannon, S.B., Crow, J.A., Grant, D.M. 2012. SoyBase and the legume information system: accessing information about the soybean and other legume genomes. In: Wilson, R. editor. Designing Soybeans for 21st Century Markets. Urbana, IL: AOCS Press. p. 53-66.The medicago genome provides insight into evolution of rhizobial symbiosis-(Peer Reviewed Journal) Young, N.D., Debelle, F., Oldroyd, G., Geurts, R., Cannon, S.B., Mayer, K.F., Gouzy, J., Van De Peer, Y., Schoof, H., Udvardi, M.K., Cook, D.R., Meyers, B.C., Spannagl, M., Cheung, F., De Mita, S., Proost, S., Krishnakumar, V., Gundlach, H., Zhou, S., Mudge, J., Bharti, A.K., Benedito, V.A., Murray, J.D., Naoumkina, M.A., Rosen, B., Silverstein, K.A., Tang, H., Rombauts, S., Zhao, P.X., Zhou, P., Barbe, V., Bardou, P., Bechner, M., Bellec, A., Berger, A., Berges, H., Bidwell, S., Bisseling, T., Choisne, N., Couloux, A., Denny, R., Deshpande, S., Doyle, J.J., Dudez, A., Farmer, A.D., Fouteau, S., Franken, C., Gibelin, C., Gish, J., Gonzalez, A.J., Green, P.J., Hallab, A., Hartog, M., Hua, A., Humphray, S., Jeong, D., Jing, Y., Jocker, A., Kenton, S.M., Kim, D., Klee, K., Lai, H., Lang, C., Lin, S., Macmill, S.L., Magdelenat, G., Matthews, L., Mccorrison, J., Monaghan, E.L., Mun, J., Najar, F.Z., Nicholson, C., Noirot, C., Paule, C.R., Poulain, J., Prion, F., Qin, B., Qu, C., Retzel, E.F., Riddle, C., Sallet, E., Samain, S., Samson, N., Saurat, O., Scarpelli, C., Schiex, T., Segurens, B., Seigfried, M., Severin, A., Sherrier, J.D., Shi, R., Sims, S., Sinharoy, S., Sterck, L., Vasylenko, I., Viollet, A., Wang, K., Wang, B., Wang, X. 2011. The medicago genome provides insight into evolution of rhizobial symbiosis. Nature. 480(7378):520-524.Evolutionary and comparative analyses of the soybean genome-(Peer Reviewed Journal) Cannon, S.B., Shoemaker, R.C. 2012. Evolutionary and comparative analyses of the soybean genome. Journal of Breeding Science. 61(5):437-444.Changes in twelve conserved soybean genomic regions following three rounds of polyploidy-(Peer Reviewed Journal) Severin, A.J., Cannon, S.B., Graham, M.A., Grant, D.M., Shoemaker, R.C. 2011. Changes in twelve conserved soybean genomic regions following three rounds of polyploidy. The Plant Cell. 23(9):3129-3136.Large-scale transcriptome analysis in chickpea (Cicer arietinum L.), an orphan legume crop of the semi-arid tropics of Asia and Africa-(Peer Reviewed Journal) Hiremath, P.J., Farmer, A., Woodward, J., Cannon, S.B., Kudapa, H., Tuteja, R., Kumar, A., Varshney, R.K. 2011. Large-scale transcriptome analysis in chickpea (Cicer arietinum L.), an orphan legume crop of the semi-arid tropics of Asia and Africa. Plant Biotechnology Journal. 9:922-931.Defining the transcriptome assembly and its use for genome dynamics and transcriptome profiling studies in pigeonpea (Cajanus cajan L.)-(Peer Reviewed Journal) Dubey, A., Farmer, A., Schlueter, J., Cannon, S.B., Abernathy, B., Tuteja, R., Woodward, J., Varshney, R.K. 2011. Defining the transcriptome assembly and its use for genome dynamics and transcriptome profiling studies in pigeonpea (Cajanus cajan L.). DNA Research. 18(3):153-164.Legumes as a Model Plant Family-(Book / Chapter) Cannon, S.B., Sato, S., Tabata, S., Young, N.D., May, G.D. 2011. Legumes as a Model Plant Family. In: Pratap, A., Kumar, J., editors.  Biology and Breeding of Food Legumes. Cambridge, MA.  CABI.  p. 348-357.Soybean transcriptome analysis using the SoyBase soybean metabolic database SoyCyc-(Abstract Only) Nelson, R., Grant, D.M., Cannon, S.B., Chi, A., Zhang, P., Rhee, S., Shoemaker, R.C. 2011. Soybean transcriptome analysis using the SoyBase soybean metabolic database SoyCyc [abstract]. Plant and Animal Genome Conference. Poster 772.Gene expression patterns are correlated with genomic and genic structure in soybean-(Peer Reviewed Journal) Woody, J.L., Severin, A., Bolon, Y.E., Joseph, B., Diers, B.W., Farmer, A.T., Weeks, N.T., Muehlbauer, G.J., Nelson, R., Grant, D.M., Specht, J.E., Graham, M.A., Cannon, S.B., May, G.D., Vance, C.P., Shoemaker, R.C. 2011. Gene expression patterns are correlated with genomic and genic structure in soybean. Genome. 54(1):10-18.Polyploids did not Predate the Evolution of Nodulation in all Legumes-(Peer Reviewed Journal) Cannon, S.B., Ilut, D., Farmer, A.D., Maki, S.L., May, G.D., Singer, S.R., Doyle, J.J. 2010. Nodule evolution did not depend on early polyploidy in the legumes. PLoS One. 5(7):e11630.Applying Small-Scale DNA Signatures as an Aid in Assembling Soybean Chromosome Sequences-(Peer Reviewed Journal) Peto, M.F., Grant, D.M., Shoemaker, R.C., Cannon, S.B. 2010. Applying small-scale DNA signatures as an aid in assembling soybean chromosome sequences. Advances in Bioinformatics. DOI:10.1155/2010/976792.RNA-Seq Atlas of Glycine max: a guide to the soybean transcriptome-(Peer Reviewed Journal) Severin, A.J., Woody, J.L., Bolon, Y.E., Joseph, B., Diers, B.W., Farmer, A.D., Muehlbauer, G.J., Nelson, R., Grant, D.M., Specht, J.E., Graham, M.A., Cannon, S.B., May, G.D., Vance, C.P., Shoemaker, R.C. 2010. RNA-Seq Atlas of Glycine max: a guide to the soybean transcriptome. Biomed Central (BMC) Plant Biology. 10:610.Evolutionary conservation, diversity and specificity of LTR retrotransposons in flowering plants: insights from genome-wide analysis and multi-specific comparison-(Peer Reviewed Journal) Du, J., Tian, S., Hans, C., Jackson, S., Cannon, S.B., Shoemaker, R.C., Ma, J. 2010. Evolutionary conservation, diversity and specificity of LTR retrotransposons in flowering plants: insights from genome-wide analysis and multi-specific comparison. Plant Journal. 63(4):584-598.A Fluorescence In Situ Hybridization System for Karyotyping Soybean-(Peer Reviewed Journal) Findley, S.D., Cannon, S.B., Varala, K., Du, J., Ma, J., Hudson, M.E., Birchler, J., Stacey, G. 2010. A Fluorescence In Situ Hybridization System for Karyotyping Soybean. Genetics. 185:727-744.Complementary Genetic and Genomic Approaches Help Characterize the Linkage Group I Seed Protein QTL in Soybean-(Peer Reviewed Journal) Bolon, Y.E., Joseph, B., Cannon, S.B., Graham, M.A., Diers, B.W., Farmer, A.D., May, G.D., Muehlbauer, G.J., Specht, J.E., Tu, Z., Weeks, N.T., Xu, W.W., Shoemaker, R.C., Vance, C.P. 2010. Complementary Genetic and Genomic Approaches Help Characterize the Linkage Group I Seed Protein QTL in Soybean. Biomed Central (BMC) Plant Biology. 10:41. Available: http://www.biomedcentral.com/1471-2229/10/41.High-Throughput SNP Discovery through Deep Resequencing of a Reduced Representation Library to Anchor and Orient Scaffolds in the Soybean Whole Genome Sequence-(Peer Reviewed Journal) Hyten, D.L., Cannon, S.B., Song, Q., Weeks, N.T., Fickus, E.W., Shoemaker, R.C., Specht, J.E., May, G.D., Cregan, P.B. 2010. High-Throughput SNP Discovery through Deep Resequencing of a Reduced Representation Library to Anchor and Orient Scaffolds in the Soybean Whole Genome Sequence. Biomed Central (BMC) Genomics. 11:38.Genome Sequence of the Paleopolyploid Soybean (Glycine max (L.) Merr.)-(Peer Reviewed Journal) Schmutz, J., Cannon, S.B., Schlueter, J., Ma, J., Hyten, D.L., Song, Q., Mitros, T., Nelson, W., May, G.D., Gill, N., Peto, M.F., Shu, S., Goodstein, D., Thelen, J.J., Cheng, J., Sakurai, T., Umezawa, T., Shinozaki, K., Du, J., Bhattacharyya, M., Sandhu, D., Grant, D.M., Joshi, T., Libault, M., Zhang, X., Hguyen, H., Valliyodan, B., Xu, D., Futrell-Griggs, M., Abernathy, B., Hellsten, U., Berry, K., Grimwood, J., Yu, Y., Wing, R.A., Cregan, P.B., Stacey, G., Specht, J., Rokhsar, D., Shoemaker, R.C., Jackson, S. 2010. Genome Sequence of the Paleopolyploid Soybean (Glycine max (L.) Merr.). Nature. 463:178-183.A Nomadic Subtelomeric Disease Resistance Gene Cluster in Common Bean-(Peer Reviewed Journal) David, P., Chen, N., Pedrosa-Harand, A., Sevignac, M., Thareau, V., Cannon, S.B., Debouck, D., Langin, T., Geffroy, V. 2009. A Nomadic Subtelomeric Disease Resistance Gene Cluster in Common Bean. Plant Physiology. 151:1048-1065.Update on Comparative Genomics of Legumes-(Review Article) Cannon, S.B., May, G.D., Jackson, S.A. 2009. Update on Comparative Genomics of Legumes. Plant Physiology. 151:970-977.SoyBase, The USDA-ARS Soybean Genetics and Genomics Database-(Peer Reviewed Journal) Grant, D.M., Nelson, R., Cannon, S.B., Shoemaker, R.C. 2009. SoyBase, The USDA-ARS Soybean Genetics and Genomics Database. Nucleic Acids Research. Doi: 10.1093/nar/gkp798.Beyond the Papilionoids – What can We Learn from Chamaecrista?-(Review Article) Singer, S.R., Maki, S.L., Farmer, A.D., Ilut, D., May, G.D., Cannon, S.B., Doyle, J.J. 2009. Beyond the Papilionoids – What can We Learn from Chamaecrista? Plant Physiology. 151:1041-1047.Evolutionary Genomics of LysM Genes in Land Plants-(Peer Reviewed Journal) Zhang, X., Cannon, S.B., Stacey, G. 2009. Evolutionary Genomics of LysM Genes in Land Plants. BMC Evolutionary Biology. 9:183.Integrating Microarray Analysis and the Soybean Genome to Understand the Soybean's Iron Deficiency Response-(Peer Reviewed Journal) O'Rourke, J.A., Nelson, R., Grant, D.M., Schmutz, J., Grimwald, J., Cannon, S.B., Vance, C.P., Graham, M.A., Shoemaker, R.C. 2009. Integrating Microarray Analysis and the Soybean Genome to Understand the Soybean's Iron Deficiency Response. Biomed Central(BMC)Genomics. 10:376. Available: http://www.biomedcentral.com/1471-2164/10/376.Soybean Comparative Genomics-(Book / Chapter) Ma, J., Cannon, S.B., Jackson, S.A., Shoemaker, R.C. 2010. Soybean Comparative Genomics. In: Bilyeu, K., Ratnaparkhe, M.B., and Kole, C., editors. Genetics, Genomics, and Breeding of Soybean. Routledge, New York. p. 245-262.Genetics, Genomics and Breeding in Soybean-(Book / Chapter)SoyBase Soybean Ontologies: Pathways to Soybean Growth and Developmental Description-(Abstract Only) Nelson, R., Grant, D.M., Cannon, S.B., Shoemaker, R.C. 2009. SoyBase Soybean Ontologies: Pathways to Soybean Growth and Developmental Description [abstract]. Plant and Animal Genome Conference. Poster No. P797.Soybase and The Soybean Breeder's Toolbox: Updated Features and New Data-(Abstract Only) Grant, D.M., Nelson, R., Cannon, S.B., Shoemaker, R.C. 2009. Soybase and The Soybean Breeder's Toolbox: Updated Features and New Data [abstract]. Plant and Animal Genome Conference. Poster No. P364.Genomic Studies in Soybean: Toward Understanding Seed Oil and Protein Production-(Abstract Only) Bolon, Y.E., Joseph, B., Cannon, S.B., Diers, B., Farmer, A., Graham, M.A., May, G., Muehlbauer, G., Specht, J., Tu, Z., Weeks, N., Xu, W., Shoemaker, R.C., Vance, C.P. 2008. Genomic Studies in Soybean: Toward Understanding Seed Oil and Protein Production [abstract]. IV International Conference on Legume Genomics and Genetics, December 7-12, 2008, Puerto Vallarta, Mexico. Abstract No. W28. p. 101 and Abstract No. P57, p. 63.An analysis of synteny of Arachis with Lotus and Medicago sheds new light on the structure, stability and evolution of legume genomes-(Peer Reviewed Journal) Bertioli, D., Moretzsohn, M., Madsen, L.H., Sandal, N., Leal-Bertioli, S., Guimaraes, P., Hougaard, B.K., Fredslund, J., Schauser, L., Nielsen, A.M., Sato, S., Tabata, S., Cannon, S.B. 2009. An analysis of synteny of Arachis with Lotus and Medicago sheds new light on the structure, stability and evolution of legume genomes. BMC Genomics. 10:45.Replication of Nonautonomous Retroelements in Soybean Appears to be Both Recent and Common-(Peer Reviewed Journal) Wawrzynski, A., Ashfield, T., Chen, N.W., Mammadov, J., Nguyen, A., Podicheti, R., Cannon, S.B., Thareau, V., Ameline-Torregrosa, C., Cannon, E., Chacko, B., Couloux, A., Dalwani, A., Denny, R., Deshpande, S., Egan, A., Glover, N., Howell, S., Ilut, D., Lai, H., Martin Del Campo, S., Metcalf, M., O'Bleness, M., Pfeil, B., Ratnaparkhe, M., Roe, B., Maroof, M., Samain, S., Sanders, I., Segurens, B., Sevignac, M., Sherman-Broyles, S., Tucker, D.M., Yi, J., Doyle, J.J., Geffroy, V., Roe, B., Maroof, M., Young, N., Innes, R.W. 2008. Replication of Nonautonomous Retroelements in Soybean Appears to be Both Recent and Common. Plant Physiology. 148:1760-1771.Differential Accumulation of Retroelements and Diversification of NB-LRR Disease Resistance Genes in Duplicated Regions Following Polyploidy in the Ancestor of Soybean-(Peer Reviewed Journal) Innes, R.W., Ameline-Torregrosa, C., Ashfield, T., Cannon, E., Cannon, S.B., Chacko, B., Chen, N.W., Couloux, A., Dalvani, A., Denny, R., Deshpade, S., Doyle, J.J., Egan, A., Geffroy, V., Glover, N., Hans, C.S., Howell, S., Ilut, D., Jackson, S., Lai, H., Mammadov, J., Martin Del Campo, S., Metcalf, M., Nguyen, A., O'Bleness, M., Pfeil, B., Podicheti, R., Ratnaparkhe, M., Roe, B., Saghai, M.A., Samain, S., Sanders, I., Segurens, B., Sevigna, M., Sherman-Broyles, S., Thareau, V., Tucker, D., Walling, J., Wawrzynski, A., Yi, J., Young, N.D. 2008. Differential Accumulation of Retroelements and Diversification of NB-LRR Disease Resistance Genes in Duplicated Regions Following Polyploidy in the Ancestor of Soybean. Plant Physiology. 148:1740-1759.The Soybean Breeder’s Toolbox: Updated Features and New Data-(Abstract Only)Molecular genetic analysis of seed protein control at Linkage Group I in soybean near-isogenic lines-(Abstract Only) Bolon, Y.E., Joseph, B., Cannon, S.B., Diers, B., Farmer, A., Graham, M.A., May, G., Muehlbauer, G., Specht, J., Weeks, N., Shoemaker, R.C., Vance, C.P. 2008. Molecular Genetic Analysis of Seed Protein Control at Linkage Group I in Soybean Near-Isogenic Lines [abstract]. 12th Biennial Conference on Molecular and Cellular Biology of the Soybean, July 20-23, 2008, Indianapolis, Indiana.COMPARATIVE GENOMICS IN LEGUMES-(Proceedings) Cannon, S.B. 2008. Comparative genomics in legumes. In:Yamada, T., Spangenberg, G., editors, Proceedings of the 5th International Symposium on the Molecular Breeding of Forage and Turf, July 1-6, 2007, Sapporo, Japan. p. 41.Microsatellite Discovery from BAC End Sequences and Genetic Mapping to Anchor the Soybean Physical and Genetic Maps-(Peer Reviewed Journal) Shoemaker, R.C., Grant, D.M., Olson, T., Warren, W.C., Wing, R., Yu, Y., Kim, H., Cregan, P.B., Joseph, B., Futrell-Griggs, M., Nelson, W., Davito, J., Walker, J., Wallis, J., Kremitski, C., Scheer, D., Clifton, S., Graves, T., Nguyen, H., Wu, X., Luo, M., Dvorak, J., Nelson, R., Cannon, S.B., Thomkins, J., Schmutz, J., Stacey, G., Jackson, S. 2008. Microsatellite Discovery from BAC End Sequences and Genetic Mapping to Anchor the Soybean Physical and Genetic Maps. Genome. 51:294-302.IDENTIFICATION AND CHARACTERIZATION OF NBS-LRR GENES IN THE MODEL PLANT MEDICAGO TRUNCATULA-(Peer Reviewed Journal) Ameline-Torregrosa, C., Wang, B., O'Bleness, M., Deshpande, S., Zhu, H., Roe, B., Young, N.D., Cannon, S.B. 2008. Identification and characterization of NBS-LRR encoded genes in the model plant medicago truncatula. Plant Physiology. 146:5-21.Genetic dissection of resistance to anthracnose and powdery mildew in Medicago truncatula-(Peer Reviewed Journal) Ameline-Torregrosal, C., Cazaux, M., Danesh, D., Chardon, F., Cannon, S.B., Esquerre-Tugaye, M., Dumas, B., Young, N.D., Samac, D.A., Huguet, T., Jacquet, C. 2008. Genetic dissection of resistance to anthracnose and powdery mildew in Medicago truncatula. Molecular Plant-Microbe Interactions. 21(1):61-69.LEGUME COMPARATIVE GENOMICS-(Book / Chapter) Cannon, S.B. 2008. Legume comparative genomics. In: Stacey, G. editor. Genetics and Genomics of Soybean. Series:Plant Genetics and Genomics:Crops and Models 2. New York, NY: Springer-Verlag. p. 35-54.MOLECULAR EVOLUTION OF LYSIN MOTIF-TYPE RECEPTOR-LIKE KINASES IN PLANTS-(Peer Reviewed Journal) Zhang, X., Wu, X., Findley, S., Wan, J., Libault, M., Nguyen, H.T., Cannon, S.B. 2007. Molecular evolution of lysin motif-type receptor-like kinases in plants. Plant Physiology. 144:623-636.Construction, characterization and preliminary BAC-end sequencing analysis of a bacterial artificial chromosome library of white clover (Trifolium repens L.)-(Peer Reviewed Journal) Febrer, M., Cheung, F., Town, C.D., Cannon, S.B., Young, N.D., Abberton, M., Jenkins, G., Milbourne, D. 2007. Construction, characterization and preliminary BAC-end sequencing analysis of a bacterial artificial chromosome library of white clover (Trifolium repens L.). Genome. 50:412-421.LEGUME GENOME EVOLUTION VIEWED THROUGH THE MEDICAGO TRUNCATULA AND LOTUS JAPONICUS GENOMES-(Peer Reviewed Journal) Cannon, S.B., Sterck, L., Rombauts, S., Sato, S., Cheung, F., Gouzy, J., Wang, X., Mudge, J., Vasdewani, J., Humphray, S.J., Nicholson, C., Spannagl, M., Schiex, T., Mayer, K., Schoof, H., Rogers, J., Quetier, F., Oldroyd, G., Debelle, F., Cook, D.R., Roe, B., Town, C.D., Tabata, S., Van De Peer, Y., Young, N.D. 2006. Legume genome evolution viewed through the medicago truncatula and lotus japonicus genomes. Proceedings of the National Academy of Sciences. 103(40):14959-14964.TAKING THE FIRST STEPS TOWARDS A STANDARD FOR REPORTING ON PHYLOGENIES: MINIMAL INFORMATION ABOUT A PHYLOGENETIC ANALYLSIS (MIAPA)-(Peer Reviewed Journal) Leebens-Mack, J., Vision, T., Brenner, E., Bowers, J.E., Cannon, S.B., Clement, M.J., Cunningham, C.W., Depamphilis, C., Desalle, R., Doyle, J.J., Eisen, J.A., Gu, X., Harshman, J., Kellogg, E., Koonin, E.V., Philippe, H., Pires, J., Qiu, Y., Rhee, S.Y., Sjolander, K., Soltis, D.E., Stevens, P., Stevenson, D.W., Warnow, T., Zmasek, C., Soltis, P.S. 2006. Taking the first steps towards a standard for reporting on phylogenies: minimal information about a phylogenetic analylsis (miapa). OMICS: A Journal of Integrative Biology. 10(20):231-237. ProjectsSoyBase and the Legume Information System - Information Infrastructure and Research for Legume Crop ImprovementIn-House Appropriated (D)Accession Number:444068Legume Information System and Network - a Legume Bioinformatics ResourceNon-Assistance Cooperative Agreement (S)Accession Number:442240 ARS News ArticlesitemPeanut Genome Sequenced with Unprecedent Accuracy


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