Publications

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Journal Article
R. -lin Wang, Wendel, J. F., and Dekker, J. H., Weedy adaptation in Setaria spp. II. Genetic diversity and population genetic structure in S. glauca, S. geniculata, and S. faberii (Poaceae), American Journal of Botany, pp. 1031-1039, 1995.
R. -lin Wang, Wendel, J. F., and Dekker, J. H., Weedy adaptation in Setaria spp. I. Isozyme analysis of genetic diversity and population genetic structure in Setaria viridis, American Journal of Botany, pp. 308-317, 1995.
P. K. Bretting and Wendel, J. F., Utility of Tpi3 and Tpi4 variants in quality control of hybrid popcorn seed production., Maize Genetics Cooperation News Letter, no. 64, pp. 121-122, 1990.
J. F. Wendel, Schnabel, A., and Seelanan, T., An unusual ribosomal DNA sequence from Gossypium gossypioides reveals ancient, cryptic, intergenomic introgression, Molecular phylogenetics and evolution, vol. 4, no. 3, pp. 298-313, 1995.
A. H. Paterson and Wendel, J. F., Unraveling the fabric of polyploidy, Nature Biotechnology, vol. 33, no. 5, pp. 491-493, 2015.
A. H. Paterson and Wendel, J. F., Unraveling the fabric of polyploidy, Nature biotechnology, vol. 33, no. 5, pp. 491-493, 2015.
R. E. Hanson, M Islam-Faridi, N., Crane, C. F., Zwick, M. S., Czeschin, D. G., Wendel, J. F., McKnight, T. D., H Price, J., and Stelly, D. M., Ty1-copia-retrotransposon behavior in a polyploid cotton, Chromosome Research, vol. 8, no. 1, pp. 73-76, 2000.
R. Hovav, Faigenboim-Doron, A., Kadmon, N., Hu, G., Zhang, X., Gallagher, J. P., and Wendel, J. F., A Transcriptome Profile for Developing Seed of Polyploid Cotton, The Plant Genome, vol. 8, no. 1, 2015.
J. A. Rudgers, Strauss, S. Y., and Wendel, J. F., Trade-offs among anti-herbivore resistance traits: insights from Gossypieae (Malvaceae), American Journal of Botany, vol. 91, no. 6, pp. 871-880, 2004.
R. L. Small, Ryburn, J. A., Cronn, R. C., Seelanan, T., and Wendel, J. F., The tortoise and the hare: choosing between noncoding plastome and nuclear Adh sequences for phylogeny reconstruction in a recently diverged plant group, American Journal of Botany, vol. 85, no. 9, pp. 1301-1315, 1998.
C. E. Grover, Hawkins, J. S., and Wendel, J. F., Tobacco genomes quickly go up in smoke, New Phytologist, vol. 175, no. 4, pp. 599-602, 2007.
A. E. Percival, Wendel, J. F., and Stewart, J. M., Taxonomy and germplasm resources, Cotton: Origin, History, Technology, and Production. WC Smith and JT Cothren eds. John Wiley and Sons, Inc., New York, NY, 1999.
J. F. Wendel and Grover, C. E., Taxonomy and Evolution of the Cotton Genus, Gossypium, Cotton, no. agronmonogr57, 2015.
C. E. Grover, Salmon, A., and Wendel, J. F., Targeted sequence capture as a powerful tool for evolutionary analysis1, American journal of botany, vol. 99, no. 2, pp. 312-319, 2012.
A. Salmon, Udall, J. A., Jeddeloh, J. A., and Wendel, J. F., Targeted capture of homoeologous coding and noncoding sequence in polyploid cotton, G3: Genes| Genomes| Genetics, vol. 2, no. 8, pp. 921-930, 2012.
C. L. Brubaker and Wendel, J. F., On the specific status of Gossypium lanceolatum Todaro, Genetic Resources and Crop Evolution, vol. 40, no. 3, pp. 165-170, 1993.
R. Cronn and Wendel, J. F., Simple methods for isolating homoeologous loci from allopolyploid genomes, Genome, vol. 41, no. 6, pp. 756-762, 1998.
C. R. Parks, Wendel, J. F., Sewell, M. M., and Qiu, Y. - L., The significance of allozyme variation and introgression in the Liriodendron tulipifera complex (Magnoliaceae), American Journal of Botany, pp. 878-889, 1994.
I. Álvarez and Wendel, J. F., Ribosomal ITS sequences and plant phylogenetic inference, Molecular phylogenetics and evolution, vol. 29, no. 3, pp. 417-434, 2003.
C. L. Brubaker and Wendel, J. F., RFLP diversity in cotton, Genetic improvement of cotton, emerging technologies. Science Publisher, Inc, Enfield, NH, pp. 81-101, 2001.
L. ‐F. Li, Liu, B., Olsen, K. M., and Wendel, J. F., A re‐evaluation of the homoploid hybrid origin of Aegilops tauschii, the donor of the wheat D‐subgenome, New Phytologist, 2015.
J. F. Wendel and Wessler, S. R., Retrotransposon-mediated genome evolution on a local ecological scale, Proceedings of the National Academy of Sciences, vol. 97, no. 12, pp. 6250-6252, 2000.
B. Liu and Wendel, J. F., Retrotransposon activation followed by rapid repression in introgressed rice plants, Genome, vol. 43, no. 5, pp. 874-880, 2000.
L. Huang, Millet, E., Rong, J., Wendel, J. F., Anikster, Y., and Feldman, M., Restriction fragment length polymorphism in wild and cultivated tetraploid wheat, Israel Journal of Plant Sciences, vol. 47, no. 4, pp. 213-224, 1999.
J. M. Pleasants and Wendel, J. F., Reproductive and Pollination Biology of the Endemic Hawaiian Cotton, Gossypium tomentosum (Malvaceae) 1, Pacific Science, vol. 64, no. 1, pp. 45-55, 2010.
A. H. Paterson, Wendel, J. F., Gundlach, H., Guo, H., Jenkins, J., Jin, D., Llewellyn, D., Showmaker, K. C., Shu, S., and Udall, J., Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres, Nature, vol. 492, no. 7429, pp. 423-427, 2012.
J. S. Hawkins, Grover, C. E., and Wendel, J. F., Repeated big bangs and the expanding universe: Directionality in plant genome size evolution, Plant Science, vol. 174, no. 6, pp. 557-562, 2008.
C. E. Grover, Gallagher, J. P., Jareczek, J. J., Page, J. T., Udall, J. A., Gore, M. A., and Wendel, J. F., Re-evaluating the phylogeny of allopolyploid Gossypium L, Molecular Phylogenetics and Evolution, 2015.
C. E. Grover, Gallagher, J. P., Jareczek, J. J., Page, J. T., Udall, J. A., Gore, M. A., and Wendel, J. F., Re-evaluating the phylogeny of allopolyploid Gossypium L., Molecular phylogenetics and evolution, vol. 92, pp. 45-52, 2015.
C. L. Brubaker and Wendel, J. F., Reevaluating the origin of domesticated cotton (Gossypium hirsutum; Malvaceae) using nuclear restriction fragment length polymorphisms (RFLPs), American journal of botany, pp. 1309-1326, 1994.
B. Chaudhary, Flagel, L., Stupar, R. M., Udall, J. A., Verma, N., Springer, N. M., and Wendel, J. F., Reciprocal silencing, transcriptional bias and functional divergence of homeologs in polyploid cotton (Gossypium), Genetics, vol. 182, no. 2, pp. 503-517, 2009.
C. E. Grover and Wendel, J. F., Recent insights into mechanisms of genome size change in plants, Journal of Botany, vol. 2010, 2010.
D. S. Senchina, Álvarez, I., Cronn, R. C., Liu, B., Rong, J., Noyes, R. D., Paterson, A. H., Wing, R. A., Wilkins, T. A., and Wendel, J. F., Rate variation among nuclear genes and the age of polyploidy in Gossypium, Molecular biology and evolution, vol. 20, no. 4, pp. 633-643, 2003.
A. H. Paterson, Brubaker, C. L., and Wendel, J. F., A rapid method for extraction of cotton (Gossypium spp.) genomic DNA suitable for RFLP or PCR analysis, Plant Molecular Biology Reporter, vol. 11, no. 2, pp. 122-127, 1993.
J. S. Hawkins, Rapp, R. A., and Wendel, J. F., Rapid DNA loss as a counterbalance to retrotransposon proliferation in plant genome size evolution, Transposable Elements and Genome Size Dynamics in Gossypium, p. 61, 2007.
J. S. Hawkins, Proulx, S. R., Rapp, R. A., and Wendel, J. F., Rapid DNA loss as a counterbalance to genome expansion through retrotransposon proliferation in plants, Proceedings of the National Academy of Sciences, vol. 106, no. 42, pp. 17811-17816, 2009.
R. C. Cronn, Small, R. L., Haselkorn, T., and Wendel, J. F., Rapid diversification of the cotton genus (Gossypium: Malvaceae) revealed by analysis of sixteen nuclear and chloroplast genes, American Journal of Botany, vol. 89, no. 4, pp. 707-725, 2002.
G. Hu, Koh, J., Yoo, M. - J., Pathak, D., Chen, S., and Wendel, J. F., Proteomics profiling of fiber development and domestication in upland cotton (Gossypium hirsutum L.), Planta, vol. 240, no. 6, pp. 1237-1251, 2014.
G. Hu, Koh, J., Yoo, M. ‐J., Grupp, K., Chen, S., and Wendel, J. F., Proteomic profiling of developing cotton fibers from wild and domesticated Gossypium barbadense, New Phytologist, vol. 200, no. 2, pp. 570-582, 2013.
M. Bohlke and Wendel, J. F., A possible hybrid in the genus Hieracium., 1976.
J. F. Wendel and Cronn, R. C., Polyploidy and the evolutionary history of cotton, Advances in agronomy, vol. 78, pp. 139-186, 2003.
K. L. Adams and Wendel, J. F., Polyploidy and genome evolution in plants, Current opinion in plant biology, vol. 8, no. 2, pp. 135-141, 2005.
J. A. Udall and Wendel, J. F., Polyploidy and crop improvement, Crop Science, vol. 46, no. Supplement_1, p. S-3-S-14, 2006.
B. Liu, Brubaker, C. L., Mergeai, G., Cronn, R. C., and Wendel, J. F., Polyploid formation in cotton is not accompanied by rapid genomic changes, Genome, vol. 44, no. 3, pp. 321-330, 2001.
L. H. Rieseberg and Wendel, J. F., Plant speciation–rise of the poor cousins, New Phytologist, vol. 161, no. 1, pp. 3-8, 2004.
E. H. Crane, Farrar, D. R., and Wendel, J. F., Phylogeny of the Vittariaceae: convergent simplification leads to a polyphyletic Vittaria, American Fern Journal, pp. 283-305, 1995.
I. Álvarez, Cronn, R., and Wendel, J. F., Phylogeny of the New World diploid cottons (Gossypium L., Malvaceae) based on sequences of three low-copy nuclear genes, Plant Systematics and Evolution, vol. 252, no. 3-4, pp. 199-214, 2005.
L. G. Clark, Zhang, W., and Wendel, J. F., A phylogeny of the grass family (Poaceae) based on ndhF sequence data, Systematic Botany, pp. 436-460, 1995.
R. L. Small and Wendel, J. F., Phylogeny, duplication, and intraspecific variation of Adh sequences in new world diploid cottons (Gossypium L., Malvaceae), Molecular Phylogenetics and Evolution, vol. 16, no. 1, pp. 73-84, 2000.

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