Publications

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2005
J. Rong, Pierce, G. J., Waghmare, V. N., Rogers, C. J., Desai, A., Chee, P. W., O May, L., Gannaway, J. R., Wendel, J. F., and Wilkins, T. A., “Genetic mapping and comparative analysis of seven mutants related to seed fiber development in cotton”, Theoretical and applied genetics, vol. 111, no. 6, pp. 1137-1146, 2005.
V. N. Waghmare, Rong, J., Rogers, C. J., Pierce, G. J., Wendel, J. F., and Paterson, A. H., “Genetic mapping of a cross between Gossypium hirsutum (cotton) and the Hawaiian endemic, Gossypium tomentosum”, Theoretical and Applied Genetics, vol. 111, no. 4, pp. 665-676, 2005.
J. F. Wendel and Adams, K. L., “Genome evolution and gene silencing in polyploid cotton”, REGNUM VEGETABILE, vol. 143, p. 271, 2005.
M. L. Ainouche and Wendel, J. F., “Genome technologies, polyploidy and evolution”, Ecole thématique CNRS “High-throughput molecular biology methods in the environmental sciences”. 2005.
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.
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.
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.
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.
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.
2004
R. Cronn and Wendel, J. F., “Cryptic trysts, genomic mergers, and plant speciation”, New Phytologist, vol. 161, no. 1, pp. 133-142, 2004.
K. L. Adams and Wendel, J. F., “Exploring the genomic mysteries of polyploidy in cotton”, Biological Journal of the Linnean Society, vol. 82, no. 4, pp. 573-581, 2004.
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.
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.
K. L. Adams, Percifield, R., and Wendel, J. F., “Organ-specific silencing of duplicated genes in a newly synthesized cotton allotetraploid”, Genetics, vol. 168, no. 4, pp. 2217-2226, 2004.
L. H. Rieseberg and Wendel, J. F., “Plant speciation–rise of the poor cousins”, New Phytologist, vol. 161, no. 1, pp. 3-8, 2004.
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.
2003
R. Cronn, Small, R. L., Haselkorn, T., and Wendel, J. F., “Cryptic repeated genomic recombination during speciation in Gossypium gossypioides”, Evolution, vol. 57, no. 11, pp. 2475-2489, 2003.
B. Liu and Wendel, J. F., “Epigenetic phenomena and the evolution of plant allopolyploids”, Molecular phylogenetics and evolution, vol. 29, no. 3, pp. 365-379, 2003.
M. L. Cedroni, Cronn, R. C., Adams, K. L., Wilkins, T. A., and Wendel, J. F., “Evolution and expression of MYB genes in diploid and polyploid cotton”, Plant molecular biology, vol. 51, no. 3, pp. 313-325, 2003.
K. L. Adams, Cronn, R., Percifield, R., and Wendel, J. F., “Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ-specific reciprocal silencing”, Proceedings of the National Academy of Sciences, vol. 100, no. 8, pp. 4649-4654, 2003.
A. Schnabel, McDonel, P. E., and Wendel, J. F., “Phylogenetic relationships in Gleditsia (Leguminosae) based on ITS sequences”, American journal of botany, vol. 90, no. 2, pp. 310-320, 2003.
J. F. Wendel and Cronn, R. C., “Polyploidy and the evolutionary history of cotton”, Advances in agronomy, vol. 78, pp. 139-186, 2003.
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.
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.
2002
R. L. Small and Wendel, J. F., “Differential evolutionary dynamics of duplicated paralogous Adh loci in allotetraploid cotton (Gossypium)”, Molecular biology and evolution, vol. 19, no. 5, pp. 597-607, 2002.
J. F. Wendel, Cronn, R. C., J Johnston, S., and H Price, J., “Feast and famine in plant genomes”, Genetica, vol. 115, no. 1, pp. 37-47, 2002.
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.
B. Liu and Wendel, J. F., “Non-Mendelian phenomena in allopolyploid genome evolution”, Current Genomics, vol. 3, no. 6, pp. 489-505, 2002.
R. Cronn, Cedroni, M., Haselkorn, T., Grover, C., and Wendel, J. F., “PCR-mediated recombination in amplification products derived from polyploid cotton”, Theoretical and Applied Genetics, vol. 104, no. 2-3, pp. 482-489, 2002.
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.
2001
W. L. Applequist, Cronn, R., and Wendel, J. F., “Comparative development of fiber in wild and cultivated cotton”, Evolution & development, vol. 3, no. 1, pp. 3-17, 2001.
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.
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.
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.
2000
R. L. Small and Wendel, J. F., “Copy number lability and evolutionary dynamics of the Adh gene family in diploid and tetraploid cotton (Gossypium)”, Genetics, vol. 155, no. 4, pp. 1913-1926, 2000.
Q. Pan, Wendel, J. F., and Fluhr, R., “Divergent evolution of plant NBS-LRR resistance gene homologues in dicot and cereal genomes”, Journal of molecular evolution, vol. 50, no. 3, pp. 203-213, 2000.
J. F. Wendel, “Genome evolution in polyploids”, in Plant molecular evolution, Springer Netherlands, 2000, pp. 225-249.
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.
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.
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.
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.
1999
C. L. Brubaker, Paterson, A. H., and Wendel, J. F., “Comparative genetic mapping of allotetraploid cotton and its diploid progenitors”, Genome, vol. 42, no. 2, pp. 184-203, 1999.
R. C. Cronn, Small, R. L., and Wendel, J. F., “Duplicated genes evolve independently after polyploid formation in cotton”, Proceedings of the National Academy of Sciences, vol. 96, no. 25, pp. 14406-14411, 1999.
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.
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.
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.
C. L. Brubaker, Bourland, F. M., and Wendel, J. F., “The origin and domestication of cotton”, Cotton: Origin, history, technology, and production. John Wiley & Sons, New York, pp. 3-31, 1999.
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.
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.
1998
D. A. Baum, Small, R. L., and Wendel, J. F., “Biogeography and floral evolution of Baobabs Adansonia, Bombacaceae as inferred from multiple data sets”, Systematic Biology, vol. 47, no. 2, pp. 181-207, 1998.

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