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G. Hu, Houston, N. L., Pathak, D., Schmidt, L., Thelen, J. J., and Wendel, J. F., “Genomically biased accumulation of seed storage proteins in allopolyploid cotton”, Genetics, vol. 189, no. 3, pp. 1103-1115, 2011.
B. Chaudhary, Hovav, R., Rapp, R., Verma, N., Udall, J. A., and Wendel, J. F., “Global analysis of gene expression in cotton fibers from wild and domesticated Gossypium barbadense”, Evolution & development, vol. 10, no. 5, pp. 567-582, 2008.
J. McD. Stewart, Craven, L. A., Brubaker, C., and Wendel, J. F., “Gossypium anapoides (Malvaceae), a new species from Western Australia”, Novon, vol. 23, no. 4, pp. 447-451, 2015.
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S. A. Kelchner and Wendel, J. F., “Hairpins create minute inversions in non-coding regions of chloroplast DNA”, Current genetics, vol. 30, no. 3, pp. 259-262, 1996.
C. L. Richards and Wendel, J. F., “The hairy problem of epigenetics in evolution”, New Phytologist, vol. 191, no. 1, pp. 7-9, 2011.
T. Bureau, Hu, G., Hawkins, J. S., Grover, C. E., and Wendel, J. F., “The history and disposition of transposable elements in polyploid Gossypium”, Genome, vol. 53, no. 8, pp. 599-607, 2010.
C. E. Grover, Gallagher, J. P., Szadkowski, E. P., Yoo, M. J., Flagel, L. E., and Wendel, J. F., “Homoeolog expression bias and expression level dominance in allopolyploids”, New Phytologist, vol. 196, no. 4, pp. 966-971, 2012.
M. J. Yoo, Szadkowski, E., and Wendel, J. F., “Homoeolog expression bias and expression level dominance in allopolyploid cotton”, Heredity, vol. 110, no. 2, pp. 171-180, 2013.
A. Salmon, Flagel, L., Ying, B., Udall, J. A., and Wendel, J. F., “Homoeologous nonreciprocal recombination in polyploid cotton”, New Phytologist, vol. 186, no. 1, pp. 123-134, 2010.
K. Klier, Leoschke, M. J., and Wendel, J. F., “Hybridization and introgression in white and yellow ladyslipper orchids (Cypripedium candidum and C. pubescens)”, Journal of Heredity, vol. 82, no. 4, pp. 305-318, 1991.
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J. S. Hawkins, Pleasants, J., and Wendel, J. F., “Identification of AFLP markers that discriminate between cultivated cotton and the Hawaiian island endemic, Gossypium tomentosumNuttall ex Seeman”, Genetic Resources and Crop Evolution, vol. 52, no. 8, pp. 1069-1078, 2005.
C. E. Grover, Kim, H. R., Wing, R. A., Paterson, A. H., and Wendel, J. F., “Incongruent patterns of local and global genome size evolution in cotton”, Genome research, vol. 14, no. 8, pp. 1474-1482, 2004.
A. L. Keyte, Percifield, R., Liu, B., and Wendel, J. F., “Infraspecific DNA methylation polymorphism in cotton (Gossypium hirsutum L.)”, Journal of Heredity, vol. 97, no. 5, pp. 444-450, 2006.
K. M. Butterworth, Adams, D. C., Horner, H. T., and Wendel, J. F., “Initiation and early development of fiber in wild and cultivated cotton”, International Journal of Plant Sciences, vol. 170, no. 5, pp. 561-574, 2009.
J. T. Page, Huynh, M. D., Liechty, Z. S., Grupp, K., Stelly, D., Hulse, A. M., Ashrafi, H., Van Deynze, A., Wendel, J. F., and Udall, J. A., “Insights into the evolution of cotton diploids and polyploids from whole-genome re-sequencing”, G3: Genes| Genomes| Genetics, vol. 3, no. 10, pp. 1809-1818, 2013.
B. Liu and Wendel, J. F., “Intersimple sequence repeat (ISSR) polymorphisms as a genetic marker system in cotton”, Molecular Ecology Notes, vol. 1, no. 3, pp. 205-208, 2001.
L. H. Rieseberg and Wendel, J. F., “Introgression and its consequences in plants”, Hybrid zones and the evolutionary process, pp. 70-109, 1993.
J. F. Wendel, Cronn, R. C., Álvarez, I., Liu, B., Small, R. L., and Senchina, D. S., “Intron size and genome size in plants”, Molecular biology and evolution, vol. 19, no. 12, pp. 2346-2352, 2002.
L. Huang, Millet, E., Rong, J., Wendel, J. F., Anikster, Y., Feldman, M., Sotirova, V., Shtereva, L., Zagorska, N., and Dimitrov, B., “ISRAEL JOURNAL OF LIBRARY PLANT SCIENCES jul o 7 2000 Vol. 47, NO. 4, 1^^ RB^ YUBRAH#. ISSN 0792-9978™***”, Israel Journal of Plant Sciences, vol. 47, p. 211, 1999.
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J. F. Wendel, Flagel, L. E., and Adams, K. L., “Jeans, genes, and genomes: cotton as a model for studying polyploidy”, in Polyploidy and genome evolution, Springer Berlin Heidelberg, 2012, pp. 181-207.
J. F. Wendel, “Jeans, Genes, and The Independent Domestications Of Cotton”, Plant and Animal Genome XXI Conference. Plant and Animal Genome, 2013.
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R. L. Small, Cronn, R. C., and Wendel, J. F., “LAS Johnson Review No. 2. Use of nuclear genes for phylogeny reconstruction in plants”, Australian Systematic Botany, vol. 17, no. 2, pp. 145-170, 2004.
J. E. Coate, Buggs, R. J. A., Wendel, J. F., Doyle, J. J., Soltis, D. E., and Soltis, P. S., “The legacy of diploid progenitors in allopolyploid gene”, 2014.
R. J. A. Buggs, Wendel, J. F., Doyle, J. J., Soltis, D. E., Soltis, P. S., and Coate, J. E., “The legacy of diploid progenitors in allopolyploid gene expression patterns”, Philosophical Transactions of the Royal Society B: Biological Sciences, vol. 369, no. 1648, p. 20130354, 2014.
K. A. Suiter, Wendel, J. F., and J Case, S., “LINKAGE-1: a PASCAL computer program for the detection and analysis of genetic linkage”, Journal of Heredity, vol. 74, no. 3, pp. 203-204, 1983.
R. L. Small, Ryburn, J. A., and Wendel, J. F., “Low levels of nucleotide diversity at homoeologous Adh loci in allotetraploid cotton (Gossypium L.).”, Molecular biology and evolution, vol. 16, no. 4, pp. 491-501, 1999.
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R. Hovav, Udall, J. A., Hovav, E., Rapp, R., Flagel, L., and Wendel, J. F., “A majority of cotton genes are expressed in single-celled fiber”, Planta, vol. 227, no. 2, pp. 319-329, 2008.
C. E. Grover, Kim, H. R., Wing, R. A., Paterson, A. H., and Wendel, J. F., “Microcolinearity and genome evolution in the AdhA region of diploid and polyploid cotton (Gossypium)”, The Plant Journal, vol. 50, no. 6, pp. 995-1006, 2007.
C. Grover, Kim, H., Wing, R. A., and Wendel, J. F., “Microcolinearity in the Allotetraploid Gossypium hirsutum”, Genome Exploitation: Data Mining the Genome, p. 231, 2007.
R. L. Small and Wendel, J. F., “The mitochondrial genome of allotetraploid cotton (Gossypium L.).”, The Journal of heredity, vol. 90, no. 1, pp. 251-253, 1998.
C. E. Grover, Zhu, X., Grupp, K. K., Jareczek, J. J., Gallagher, J. P., Szadkowski, E., Seijo, J. G., and Wendel, J. F., “Molecular confirmation of species status for the allopolyploid cotton species, Gossypium ekmanianum Wittmack”, Genetic Resources and Crop Evolution, vol. 62, no. 1, pp. 103-114, 2014.
R. A. Rapp, Álvarez, I., and Wendel, J. F., “Molecular confirmation of the position of Gossypium trifurcatum Vollesen”, Genetic Resources and Crop Evolution, vol. 52, no. 6, pp. 749-753, 2005.
C. R. Parks and Wendel, J. F., “Molecular divergence between Asian and North American species of Liriodendron (Magnoliaceae) with implications for interpretation of fossil floras”, American Journal of Botany, pp. 1243-1256, 1990.
J. F. Wendel and Percival, A. E., “Molecular divergence in the Galapagos Islands—Baja California species pair, Gossypium klotzschianum andG. davidsonii (Malvaceae)”, Plant Systematics and Evolution, vol. 171, no. 1-4, pp. 99-115, 1990.
J. F. Wendel, McD, J., and Rettig, J. H., “Molecular evidence for homoploid reticulate evolution among Australian species of Gossypium”, Evolution, pp. 694-711, 1991.
C. W. Stuber, Edwards, M. D., and Wendel, J. F., “Molecular marker-facilitated investigations of quantitative trait loci in maize. II. Factors influencing yield and its component traits”, Crop Science, vol. 27, no. 4, pp. 639-648, 1987.
T. Seelanan, Brubaker, C. L., McD, J., Craven, L. A., and Wendel, J. F., “Molecular systematics of Australian Gossypium section grandicalyx (Malvaceae)”, Systematic Botany, pp. 183-208, 1999.
M. D. Edwards, Stuber, C. W., and Wendel, J. F., “Molecular-marker-facilitated investigations of quantitative-trait loci in maize. I. Numbers, genomic distribution and types of gene action”, Genetics, vol. 116, no. 1, pp. 113-125, 1987.
M. A. Stanton, J Stewart, M. D., A Pervical, E., and Wendel, J. F., “Morphological diversity and relationships in the A-genome cottons, Gossypium arboreum and G. herbaceum”, Crop science, vol. 34, no. 2, pp. 519-527, 1994.
J. F. Wendel, Edwards, M. D., and Stuber, C. W., “MULTILOCUS GENETIC-CONTROL OF PREFERENTIAL FERTILIZATION IN ZEA-MAYS-L”, AMERICAN JOURNAL OF BOTANY, vol. 74, no. 5. BOTANICAL SOC AMER INC OHIO STATE UNIV-DEPT BOTANY 1735 NEIL AVE, COLUMBUS, OH 43210, pp. 671-671, 1987.
Y. Bao, Wendel, J. F., and Ge, S., “Multiple patterns of rDNA evolution following polyploidy in Oryza”, Molecular phylogenetics and evolution, vol. 55, no. 1, pp. 136-142, 2010.
L. ‐F. Li, Liu, B., Olsen, K. M., and Wendel, J. F., “Multiple rounds of ancient and recent hybridizations have occurred within the Aegilops–Triticum complex”, New Phytologist, 2015.
J. Dekker, Burmester, R., and Wendel, J. F., “Mutant Weeds of Iowa: S-Triazine Resistant Pennsylvania Smartweed (Polygonum pensylvanicum)”, Weed Technology, pp. 211-213, 1991.
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J. F. Wendel, Goodman, M. M., Stuber, C. W., and Beckett, J. B., “New isozyme systems for maize (Zea mays L.): aconitate hydratase, adenylate kinase, NADH dehydrogenase, and shikimate dehydrogenase”, Biochemical genetics, vol. 26, no. 5-6, pp. 421-445, 1988.
L. G. Clark, Wendel, J. F., and Ven, L. A. Cra, “A new species of Micraira (Poaceae: Micraireae) from northern Western Australia”, 1995.
J. F. Wendel, “New World tetraploid cottons contain Old World cytoplasm”, Proceedings of the National Academy of Sciences, vol. 86, no. 11, pp. 4132-4136, 1989.
B. Liu and Wendel, J. F., “Non-Mendelian phenomena in allopolyploid genome evolution”, Current Genomics, vol. 3, no. 6, pp. 489-505, 2002.
J. A. Udall, Swanson, J. M., Nettleton, D., Percifield, R. J., and Wendel, J. F., “A novel approach for characterizing expression levels of genes duplicated by polyploidy”, Genetics, vol. 173, no. 3, pp. 1823-1827, 2006.
K. L. Adams and Wendel, J. F., “Novel patterns of gene expression in polyploid plants”, TRENDS in Genetics, vol. 21, no. 10, pp. 539-543, 2005.
R. Whitkus, Doebley, J., and Wendel, J. F., “Nuclear DNA markers in systematics and evolution”, in DNA-based markers in plants, Springer Netherlands, 1994, pp. 116-141.

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