BACON, C. D., F. FELTUS, A. PATTERSON, AND C. D. BAILEY. 2008. Novel Intron-Spanning Primers for Arecaceae Evolutionary Biology. Molecular Ecology Notes. 8: 211-214 Preprint PDF

HUGHES, C. E., G. RAJANIKANTH, A. ROBERTSON, D. FILER, STEPHEN HARRIS, AND C. D. BAILEY. 2007. Serendipitous backyard hybridization and the origin of crops. PNAS. Preprint PDF

LOHITHASWA, F. FELTUS, H. SINGH, C. BACON, C. D. BAILEY AND A. PATTERSON. 2007. Leveraging the Rice Genome Sequence for Monocot Comparative and Translational Genomics. Theoretical and Applied Genetics. PDF

ALEXANDER, P. J., G. RAJANIKANTH, C. D. BACON, AND C. D. BAILEY (2007) Rapid inexpensive recovery of high quality plant DNA using a reciprocating saw and silica-based columns. Molecular Ecology Notes 7: 5-9.. PDF - NOTE CORRECTION - Use 80ul of lysis buffer NOT 320ul!

BAILEY, C. D., I. A. AL-SHEHBAZ, AND G. RAJANIKANTH. (2007). Generic limits in the tribe Halimolobeae and the description of the new genus Exhalimolobos (Brassicaceae). Systematic Botany 32:140-156. Preprint PDF

BAILEY, C.D., M.A. KOCH, M. MAYER, K. MUMMENHOFF, S. O'KANE JR., S.I. WARWICK, M.D. WINDHAM, I.A. AL-SHEHBAZ (2006) Toward a global phylogeny of the Brassicaceae. Molecular Biology and Evolution. Online - PDF

BACON, C. D. AND C.D. BAILEY (2006) Using AFLP markers to test species boundaries in the Chamaedorea alternans and C. tepejilote complex, Los Tuxtlos, Mexico. Annals of Botany. 98: 755-763. Preprint PDF

BAILEY, C. D., M. FAIN, P. HOUDE (2006) On Conditioned Reconstruction, Gene Content Data, and the Recovery of Fusion Genomes. Molecular Phylogenetics and Evolution. 39:263-270. PDF

HUGHES, C. E., R. J. EASTWOOD, AND C. D. BAILEY (2006) From famine to feast? Selecting nuclear DNA sequence loci for plant species level phylogeny reconstruction. Philosophical transactions of the Royal Society, Series B 361: 211-225. PDF

BAILEY, C. D., C. E. HUGHES, AND S. A. HARRIS (2004) Using RAPDs to identify DNA sequence loci for species level phylogeny reconstruction: an example from Leucaena (Fabaceae). Systematic Botany 29: 4-14. PDF

BAILEY, C. D., T. G. CARR, S. A. HARRIS, AND C. E. HUGHES (2003) Characterization of angiosperm nrDNA polymorphism, paralogy, and pseudogenes. Molecular Phylogenetics and Evolution 29:435-455 PDF

HUGHES, C. E., C. D. BAILEY, S. KROSNICK, AND M. LUCKOW (2003) Relationships among genera of the informal Dichrostachys and Leucaena groups (Mimosoideae) inferred from nuclear ribosomal ITS sequences. In B. Klitgaard and A. Bruneau [eds.], Advances in Legume Systematics 10, Pgs 221-238, Royal Botanic Gardens, Kew. PDF

SCOTLAND, R., C. E. HUGHES, C. D. BAILEY, AND A. WORTLEY (2003) The Big Machine and the Much-Maligned Taxonomist. Systematics and Biodiversity 1: 139-143. PDF

BAILEY, C. D., R. A. PRICE, AND J. J. DOYLE (2002) Systematics of the Halimolobine Brassicaceae: evidence from three loci and morphology. Systematic Botany 27: 318-332. PDF

HUGHES, C. E., C. D. BAILEY, AND S. A. HARRIS (2002) Divergent and reticulate species relationships in Leucaena (Fabaceae) inferred from multiple data sources: insights into polyploid origins and nrDNA polymorphism. American Journal of Botany 89: 1057-1073. PDF

KAJITA, T., H. OHASHI, Y. TATEISHI, C. D. BAILEY, AND J. J. DOYLE (2001) rbcL and legume phylogeny, with particular reference to phaseoleae, millettieae, and allies. Systematic Botany 26: 515-536.

PRICE, R. A., C. D. BAILEY, AND I. A. AL-SHEHBAZ (2001) Transfer of the cupulate-flowered Arabis microsperma and A. tricornuta (Brassicaceae) to Pennellia. Novon 337-340: 337-340.

DOYLE, J. J., J. A. CHAPPILL, C. D. BAILEY, AND T. KAJITA. 2000. Towards a comprehensive phylogeny of Legumes: evidence from rbcL sequences and non-molecular data. In P. S. Herendeen and A. BRUNEAU [eds.], Advances in Legume Systematics, 1-20. The Royal Botanic GardensKew, London. PDF

SIMMONS, M. P., C. D. BAILEY, AND K. C. NIXON (2000) Phylogeny reconstruction using duplicate genes. Molecular Biology and Evolution 17: 469-473.

BAILEY, C. D., AND J. J. DOYLE (1999) Potential phylogenetic utility of the low-copy nuclear gene pistillata in dicotyledonous plants: comparison to nrDNA ITS and trnL intron in Sphaerocardamum and other Brassicaceae. Molecular Phylogenetics and Evolution 13: 20-30.

BAILEY, C. D., J. J. DOYLE, T. KAJITA, T. NEMOTO, AND H. OHASHI (1997) The chloroplast rpl2 intron and ORF184 as phylogenetic markers in the legume tribe Desmodieae. Systematic Botany 22: 133-138.