Publications
2017
Scordato, E.S., Wilkins, M.R., Semenov, G., Rubtsov, A.S., Kane, N.C. and Safran, R.J., 2017. Genomic variation across two barn swallow hybrid zones reveals traits associated with divergence in sympatry and allopatry. Molecular Ecology.
Vergara, D., Bidwell, L.C., Gaudino, R., Torres, A., Du, G., Ruthenburg, T.C., deCesare, K., Land, D. P., Hutchison, K. E. and Kane, N. C. 2017. Compromised external validity: Federally produced Cannabis does not reflect legal Markets. Scientific Reports, 7.
Badouin, H., Gouzy, J., Grassa, C.J., Murat, F., Staton, S.E., Cottret, L., Lelandais-Brière, C., Owens, G.L., Carrère, S., Mayjonade, B., Legrand, L., Gill, N., Kane, N. C., et al.. 2017. The sunflower genome provides insights into oil metabolism, flowering and Asterid evolution. Nature 546:148-152.
Van Tassel, D.L., Albrecht, K.A., Bever, J.D., Boe, A.A., Brandvain, Y., Crews, T.E., Gansberger, M., Gerstberger, P., González-Paleo, L., Hulke, B.S. and Kane, N.C. 2017. Accelerating domestication: An opportunity to develop new crop ideotypes and breeding strategies informed by multiple disciplines. Crop Science. 2017.
Leff*, J. W., Lynch*, R. C., Kane, N. C., and Fierer, N. 2017. Plant domestication and the assembly of bacterial and fungal communities associated with strains of the common sunflower, Helianthus annuus. New Phytologist 214:412-423.
Gray, H. B., Clancy**, K., Clarke, R. C deCesare, K., Fike, J., Gibbs, M. J., Grotenhermen, F., Kane, N. C., Keepers, K. G., Land, D., Lynch, R. C., Mendieta, J. P., Merlin, M., Müller-Vahl, K., Pauli, C. S., Pearson, B. J., Rhan, B., Ruthenberg, T. C., Schwartz, C. J., Tittes, S. B., Vergara, D., White, K. H., Trigiano, R. N. Current and future needs and applications for Cannabis. Critical Reviews in Plant Sciences. 35:364-377.
Vergara, D., Baker**, H., Clancy**, K., Keepers,* K. G., Mendieta**, J. P., Pauli**, C. S., Tittes*, S. B., White*, K. H., and Kane, N. C. 2017. Genetic and Genomic Tools for Cannabis. Critical Reviews in Plant Sciences 36.
Lynch*, R.C., Vergara, D., Tittes*, S., White*, K., Schwartz, C.J., Gibbs, M.J., Ruthenburg, T.C., Land, D.P. and Kane, N.C. 2017. Genomic and Chemical Diversity in Cannabis. Critical Reviews in Plant Sciences 36.
2016
Grassa, C. J., Ebert, D. P., Kane, N. C., and Rieseberg, L. H. 2016. Complete mitochondrial genome sequence of sunflower (Helianthus annuus L.). Genome Announcements 4:e00981-16.
Safran, R. J., Scordato, E. S. C., Hubbard*, J. K., Jenkins, B. R., Albrecht, T., Flaxman, S. M., Pap, P., Shen, S., Chan, F., Parchman, T., and Kane, N. C. 2016. Genome‐wide differentiation in closely related populations: the roles of selection and geographic isolation. Molecular Ecology 25: 3865–3883. (Cover photo)
51. Franks, S. J., Kane, N. C., O'Hara, N. B., Tittes, S., and Rest, J. S. 2016. Rapid genome‐wide evolution in Brassica rapa populations following drought revealed by sequencing of ancestral and descendant gene pools. Molecular ecology 25:3622-3631. (From the cover)
Keepers*, K., Martin, A. P., and Kane, N. C. 2016. The complete mitochondrial genome of the Warm Springs pupfish, Cyprinodon nevadensis pectoralis. Mitochondrial DNA 1-2.
Vergara, D., White*, K. H., Keepers*, K. G., and Kane, N. C. 2016. The complete chloroplast genomes of Cannabis sativa and Humulus lupulus. Mitochondrial DNA 1-2.
2015
Whitney KD, Broman KW, Kane NC, Hovick SM, Randell RA, Rieseberg LH. Quantitative trait locus mapping identifies candidate alleles involved in adaptive introgression and range expansion in a wild sunflower. Molecular ecology. 2015 May 1;24(9):2194-211.
Delmore KE, Hübner S, Kane NC, Schuster R, Andrew RL, Câmara F, Guigó R, Irwin DE. Genomic analysis of a migratory divide reveals candidate genes for migration and implicates selective sweeps in generating islands of differentiation. Molecular ecology. 2015 Apr 1;24(8):1873-88.
Baute GJ, Kane NC, Grassa CJ, Lai Z, Rieseberg LH. Genome scans reveal candidate domestication and improvement genes in cultivated sunflower, as well as post‐domestication introgression with wild relatives. New Phytologist. 2015 Apr 1;206(2):830-8.
Kantar MB, Sosa CC, Khoury CK, Castañeda-Álvarez NP, Achicanoy HA, Bernau V, Kane NC, Marek L, Seiler G, Rieseberg LH. Ecogeography and utility to plant breeding of the crop wild relatives of sunflower (Helianthus annuus L.). Frontiers in plant science. 2015;6.
Lynch RC, Vergara D, Tittes S, White K, Schwartz CJ, Gibbs MJ, Ruthenburg TC, Land DP, Kane NC. Genomic and Chemical Diversity in Cannabis. bioRxiv. 2015 Jan 1:034314.
2014
Tittes, S., Kane, N. C., The genomics of adaptation, divergence and speciation: a congealing theory. Molecular ecology 23 (16), 3938-3940.
Gill N, Buti M, Kane N, Bellec A, Helmstetter N, Berges H, Rieseberg LH. Sequence-Based Analysis of Structural Organization and Composition of the Cultivated Sunflower (Helianthus annuus L.) Genome. Biology. 2014; 3(2):295-319.
Bock, D. G., Kane, N. C., Ebert, D. P, Rieseberg, L. H. The origin of the Jerusalem artichoke: neither from Jerusalem nor an Artichoke. New Phytologist 201:1021-1030.
Hodgins, K., Lai, Z., Oliveira, L., Still, D. W., Scascitelli, M., Barker, M., Kane, N. C., et al. Genomics of Compositae crops: Reference transcriptome assemblies, and evidence of hybridization with wild relatives. Molecular Ecology Resources. 14 (1), 166-177.
L Rieseberg, T Vines, J Gow, N Kane. Editorial 2014. Molecular ecology 23 (1), 1-15.
2013
Kane, N. C., Marek, L., Burke, J. M., Seiler G. and Rieseberg, L. H. Sunflower genetic, genomic and ecological resources. Molecular Ecology Resources 13:10-20. (Cover illustration)
Natalia, L., Cossua, R. M., Barghinia, E., Giorania, T., Butia, M., Mascagnia, F., Gill, N., Kane, N. C., Rieseberg, L., Cavallini, A. The repetitive component of the sunflower genome: comparative analyses using different approaches for assembling NGS reads. BMC Genomics.14:686.
Yang, J. Y., Scascitelli, M., Motilal, L. A., Sveinsson, S., Engels, J. M. M., Kane, N. C., Dempewolf, H., Zhang, D., Maharaj, K., and Cronk, QCB. Complex origin of Trinitario-type Theobroma cacao (Malvaceae) from Trinidad and Tobago revealed using plastid genomics. Tree Genetics and Genomes 9:829-840.
Vines, T. H., Andrew, R. L., Bock, D. G., Franklin, M.T., Gilbert, K. J., Kane, N.C., Kleynhans, E., Moore, J-S., Moyers, B. T. Renaut, S., Rennison, D. J., Veen, T. and Yeaman, S. Mandated archiving greatly improves access to research data. FASEB 27:1304-1308.
Bell, G. D. B., Kane, N.C., Rieseberg, L. H., and Adams, K.L. RNA-seq analysis of allele- specific expression, hybrid effects, and regulatory divergence in hybrids compared with their parents from natural populations. Genome Biology and Evolution 5(7):1309-23.
Renaut, S., Grassa, C. J., Yeaman, S., Moyers, B. T., Lai, Z., Kane, N. C., Bowers, J. E., Burke, J. M. and Rieseberg, L. H. Number and size of genomic islands of differentiation do not vary with geography of speciation. Nature Communications 4:1827.
Sveinsson, S., Gill, N, Kane, N. C., and Cronk, Q. Transposon fingerprinting using low coverage whole genome shotgun sequencing in Cacao (Theobroma cacao L.) and related species. BMC Genomics 14:502.
Andrew, R. L, Bernatchez, L., Bonin, A., Carstens, B. C., Emerson, B. C., Garant, D., Giraud, T., Kane, N. C., et al. A roadmap for molecular ecology. Molecular Ecology 22:2605-2626.
Andrew, R. L., Kane, N. C., Baute, G. J., Grassa, C. J. and Rieseberg, L. H. Recent non-hybrid origin of sunflower ecotypes in a novel habitat. Molecular Ecology. 22:799-813.
Rieseberg, L., Vines, T. and Kane, N. Editorial 2013. Molecular Ecology, 22:1-14.
2012.
Renaut, S., Grassa, C., Moyers, B., Kane, N. C. and Rieseberg, L.H. The population genomics of sunflowers and genomic determinants of protein evolution revealed by RNAseq. Biology 1: 575-596.
Koziol, L., Rieseberg, L. H., Kane, N. C., and Bever, J. D. Reduced drought tolerance results from trade-off against resource allocation towards growth and fecundity during domestication and the evolution of weediness. Evolution 66(12):3803-14.
Rieseberg, L. H., Blackman, B. K., Scascitelli, M., and Kane, N. C. On the Origin of Sunflowers: Fossils, Genes, Genomes, and Hybridization. Proceedings of 18th International Sunflower Conference, 2012, Mar del Plata & Balcarce, Argentina.
Staton, S. E., Bakken, B. H., Ungerer, M. C., Kane, N. C., Knapp, S. J., Rieseberg, L. H. and Burke, J. M. 2012. The sunflower (Helianthus annuus L.) genome reflects a history of biased accumulation of transposable elements. The Plant Journal 72:142-153.
Gilbert, K. J., Andrew, R. L., Bock, D. G., Franklin, M. T., Kane, N. C., Moore, J-S., Moyers, B. T. Renaut, S., Rennison, D. J., Veen, T. and Vines, T. H. Recommendations for utilizing and reporting population genetic analyses: the reproducibility of genetic clustering using the program STRUCTURE. Molecular Ecology 21: 4925–4930.
Lai, Z., Zou, Y., Kane, N. C., Choi, J., Wang, M. and Rieseberg, L. H. Preparation of normalized cDNA libraries for 454 Titanium transcriptome sequencing. Methods in Molecular Biology 888:119-33.
Kane, N. C., Sveinsoon, S., Dempewolf, H., Yang, J. Y., Zhang, D., Engels, J. M. M. and Cronk, Q. Ultra-barcoding in cacao using whole chloroplast genomes and nuclear ribosomal DNA. American Journal of Botany 99:320-329.
Lai, Z., Kane, N.C., Kozik, A., Hodgins, K. A., Dlugosch, K. M., Barker, M. S. et al. Genomics of Compositae weeds: EST libraries, microarray, and evidence of introgression. American Journal of Botany 99:209-218.
Rieseberg, L., Vines, T. and Kane, N. Editorial 2012. Molecular Ecology 21:1-22.
2011.
Blackman, B. K., Scascitelli, M., Kane, N. C., Luton, H., Bye, R. A., Lentz, D. L. and Rieseberg, L. H. Sunflower domestication alleles support single domestication center in eastern North America. Proceedings of the National Academy of Sciences, 34:14360-14365.
Kane, N. C., Zhan, S., Barker, M. S. and Rieseberg, L. H. Molecular evolution across the Asteraceae: micro- and macroevolutionary processes. Molecular Biology and Evolution, 28:3225–3235.
Mayrose, M., Kane, N. C., Mayrose I. and Rieseberg, L. H. Increased vigour in sunflower correlates with reduced defenses and altered gene expression during biotic and abiotic stress responses. Molecular Ecology 20:4683-4694.
Kane, N. C., Gill, N., King, M.G. , Bowers, J.E., Berges, H., Gouzy, J., Bachlava, E., Langlade, N.B., Lai, Z., Stewart, M., Burke, J.M., Vincourt, P., Knapp, S.J. and Rieseberg, L.H. Progress towards a reference genome for sunflower. Botany 89:429-437. Most cited paper in Botany from 2011.
Strasburg, J. L., Kane, N. C., Raduski, A. R., Bonin, A., Kozik, A., Michelmore, R. and Rieseberg, L. H. Effective population size is strongly correlated with rates of adaptive divergence among annual sunflowers. Molecular Biology and Evolution 28:1569-1580. Faculty of 1000, http://f1000.com/10407956http://f1000.com/10407956
Rieseberg, L., Vines, T. and Kane, N. Editorial – 20 years of Molecular Ecology. Molecular Ecology 20:1-21.
2010.
Dempewolfe, H., Kane N. C. Ostvik K. L. et al. Establishing genomic tools and resources for Guizotia abyssinica (L.f.) Cass. – the development of a library of expressed sequence tags, microsatellite loci and the sequencing of its chloroplast genome. Molecular Ecology Resources 10:1048-1058.
Molecular Ecology Resources Primer Development Consortium, et al. Permanent Genetic Resources added to the Molecular Ecology Resources Database 1 February 2010–31 March 2010. Molecular Ecology Resources 10:751-754.
Barker, M. S., Dlugosch, K. M., Dinh, L., Challa, S., Kane, N. C., King, M. G. and Rieseberg, L. H. EvoPipes.net: Bioinformatic pipelines and forums for ecological and evolutionary genomics. Evolutionary Bioinformatics 6:143-149.
Geraldes, A. and Kane, N. C. Pushing north one bottleneck at a time: site frequency spectra tell the history of Sitka spruce. Molecular Ecology 19:3837–3839.
Moyers, B. and Kane, N. C. Genetics of adaptation during colonization. Molecular Ecology 19:1270-1272.
Rieseberg, L., Vines, T. and Kane, N. 2010 Editorial and Retrospective. Molecular Ecology 19:1-22.
2009.
Kane, N. C., King, M. G., Barker, M. S., Raduski, A., Karrenberg, S., Yatabe, Y., Knapp, S. J. and Rieseberg, L. H. Comparative genomic and population genetic analyses indicate highly porous genomes and high levels of gene flow between divergent Helianthus species. Evolution 63:2061-2075.
Hudson, M. E., and Kane, N. C. Plant genomes do a balancing act. Molecular Ecology 18:2743-2745.
Kane, N. C. and King, M. Using parentage analysis to examine gene flow and spatial genetic structure. Molecular Ecology. 18:1551-1552.
Rieseberg, L., Vines, T. and Kane, N. 2009 Editorial and Retrospective. Molecular Ecology 18: 1-13.
2008.
Barker, M. S., Kane, N. C., Kozik, A., Michelmore, R. W., Knapp, S. J., Kesseli, R. K., Still, D. W., Bradford, K. J., and Rieseberg, L. H. Multiple paleopolyploidizations during the evolution of the Compositae reveal parallel patterns of duplicate gene retention after millions of years. Molecular Biology and Evolution. 25:2445-2455.
Lai, Z. Kane, N. C., and Rieseberg, L. H. Natural variation in gene expression between wild and weedy populations of Helianthus annuus. Genetics 179:1881-1890.
Kane, N. C. and Rieseberg, L. H. Genetics and the evolution of weediness in Helianthus annuus. Molecular Ecology 17: 384-394.
Kane, N. C. and Cronk, Q. Meeting Review: Botany Without Borders, Barcoding in focus. Molecular Ecology 17:5175-5176.
2007.
Yatabe, Y., Kane, N. C. Scotti-Saintagne, C. and Rieseberg, L. H. Rampant gene exchange across a strong reproductive barrier between the annual sunflowers, Helianthus annuus and H. petiolaris. Genetics 175: 1883-1893.
Kane, N. C. and Baack, E. J. Hybridization and the origin of weedy rice. Molecular Ecology 16: 4423-4425.
Ortiz-Barrientos, D. and Kane, N. C. The genetics of speciation. Molecular Ecology 16: 2852-2854.
2006.
Kane, N. C., Gross, B. L., and Rieseberg, L. H. Transgressive segregation (plant breeding). pp. 331-334 in “McGraw-Hill Yearbook of Science & Technology.” McGraw-Hill, New York.
Kane, N. C. and Rieseberg, L. H. Selective sweeps reveal candidate genes for adaptation to drought and salt tolerance in common sunflower, Helianthus annuus. Genetics 175:1823-1824.
2005.
Kane, N. C. and Rieseberg, L. H. Maize genetics: The treasure of the Sierra Madre. Current Biology 15: R137-R139.
2004.
Ludwig, F., Rosenthal, D. M., Johnston, J. A., Kane, N., Gross, B. L., Lexer, C., Dudley, S. A., Rieseberg, L. H. and Donovan, L. A. Selection on leaf ecophysiological traits in a desert hybrid Helianthus species and early generation hybrids. Evolution 58:2682-2692.
Weinig, C., Gravuer, K., Kane, N. C. and J. Schmitt. Testing adaptive plasticity to UV: costs and benefits of stem elongation and light-induced phenolics. Evolution 58:2645-2656.
Gross, B. L. , Kane, N. C., Lexer, C. Ludwig, F., Rosenthal, D. M., Donovan, L. A. and Rieseberg, L. H. Reconstructing the origin of Helianthus deserticola: Survival and selection on the desert floor. The American Naturalist 164:145-156.
Huber, H., Kane, N. C., Heschel, M. S. von Wettberg, E. J. Banta, J., Leuck, A. and Schmitt, J. Frequency and microenvironmental pattern of selection on plastic shade-avoidance traits in a natural population of Impatiens capensis. The American Naturalist 163:548-563.
2003.
Weinig C., Dorn L.A., Kane N.C., German Z.M., Hahdorsdottir S.S., Ungerer M.C., Toyonaga Y., Mackay T.F.C., Purugganan M.D., Schmitt J. Heterogeneous selection at specific loci in natural environments in Arabidopsis thaliana. Genetics 165:321-329.
2002.
Weinig, C., Ungerer, M. C., Dorn, L. A., Kane, N. C., Toyonaga, Y, Halldorsdottier, S. S., Mackay, T. F. C., Purugganan, M. D. and Schmitt, J. . Novel loci control variation in reproductive timing in Arabidopsis thaliana in natural environments. Genetics 162:1875–1884.
Kane, N. C., Gross, B. L., and Rieseberg, L. H. Book review: Hey, J. Genes, categories, and species - The evolution and cognitive cause of the species problem. Plant Systematics and Evolution 234:237-239.
Scordato, E.S., Wilkins, M.R., Semenov, G., Rubtsov, A.S., Kane, N.C. and Safran, R.J., 2017. Genomic variation across two barn swallow hybrid zones reveals traits associated with divergence in sympatry and allopatry. Molecular Ecology.
Vergara, D., Bidwell, L.C., Gaudino, R., Torres, A., Du, G., Ruthenburg, T.C., deCesare, K., Land, D. P., Hutchison, K. E. and Kane, N. C. 2017. Compromised external validity: Federally produced Cannabis does not reflect legal Markets. Scientific Reports, 7.
Badouin, H., Gouzy, J., Grassa, C.J., Murat, F., Staton, S.E., Cottret, L., Lelandais-Brière, C., Owens, G.L., Carrère, S., Mayjonade, B., Legrand, L., Gill, N., Kane, N. C., et al.. 2017. The sunflower genome provides insights into oil metabolism, flowering and Asterid evolution. Nature 546:148-152.
Van Tassel, D.L., Albrecht, K.A., Bever, J.D., Boe, A.A., Brandvain, Y., Crews, T.E., Gansberger, M., Gerstberger, P., González-Paleo, L., Hulke, B.S. and Kane, N.C. 2017. Accelerating domestication: An opportunity to develop new crop ideotypes and breeding strategies informed by multiple disciplines. Crop Science. 2017.
Leff*, J. W., Lynch*, R. C., Kane, N. C., and Fierer, N. 2017. Plant domestication and the assembly of bacterial and fungal communities associated with strains of the common sunflower, Helianthus annuus. New Phytologist 214:412-423.
Gray, H. B., Clancy**, K., Clarke, R. C deCesare, K., Fike, J., Gibbs, M. J., Grotenhermen, F., Kane, N. C., Keepers, K. G., Land, D., Lynch, R. C., Mendieta, J. P., Merlin, M., Müller-Vahl, K., Pauli, C. S., Pearson, B. J., Rhan, B., Ruthenberg, T. C., Schwartz, C. J., Tittes, S. B., Vergara, D., White, K. H., Trigiano, R. N. Current and future needs and applications for Cannabis. Critical Reviews in Plant Sciences. 35:364-377.
Vergara, D., Baker**, H., Clancy**, K., Keepers,* K. G., Mendieta**, J. P., Pauli**, C. S., Tittes*, S. B., White*, K. H., and Kane, N. C. 2017. Genetic and Genomic Tools for Cannabis. Critical Reviews in Plant Sciences 36.
Lynch*, R.C., Vergara, D., Tittes*, S., White*, K., Schwartz, C.J., Gibbs, M.J., Ruthenburg, T.C., Land, D.P. and Kane, N.C. 2017. Genomic and Chemical Diversity in Cannabis. Critical Reviews in Plant Sciences 36.
2016
Grassa, C. J., Ebert, D. P., Kane, N. C., and Rieseberg, L. H. 2016. Complete mitochondrial genome sequence of sunflower (Helianthus annuus L.). Genome Announcements 4:e00981-16.
Safran, R. J., Scordato, E. S. C., Hubbard*, J. K., Jenkins, B. R., Albrecht, T., Flaxman, S. M., Pap, P., Shen, S., Chan, F., Parchman, T., and Kane, N. C. 2016. Genome‐wide differentiation in closely related populations: the roles of selection and geographic isolation. Molecular Ecology 25: 3865–3883. (Cover photo)
51. Franks, S. J., Kane, N. C., O'Hara, N. B., Tittes, S., and Rest, J. S. 2016. Rapid genome‐wide evolution in Brassica rapa populations following drought revealed by sequencing of ancestral and descendant gene pools. Molecular ecology 25:3622-3631. (From the cover)
Keepers*, K., Martin, A. P., and Kane, N. C. 2016. The complete mitochondrial genome of the Warm Springs pupfish, Cyprinodon nevadensis pectoralis. Mitochondrial DNA 1-2.
Vergara, D., White*, K. H., Keepers*, K. G., and Kane, N. C. 2016. The complete chloroplast genomes of Cannabis sativa and Humulus lupulus. Mitochondrial DNA 1-2.
2015
Whitney KD, Broman KW, Kane NC, Hovick SM, Randell RA, Rieseberg LH. Quantitative trait locus mapping identifies candidate alleles involved in adaptive introgression and range expansion in a wild sunflower. Molecular ecology. 2015 May 1;24(9):2194-211.
Delmore KE, Hübner S, Kane NC, Schuster R, Andrew RL, Câmara F, Guigó R, Irwin DE. Genomic analysis of a migratory divide reveals candidate genes for migration and implicates selective sweeps in generating islands of differentiation. Molecular ecology. 2015 Apr 1;24(8):1873-88.
Baute GJ, Kane NC, Grassa CJ, Lai Z, Rieseberg LH. Genome scans reveal candidate domestication and improvement genes in cultivated sunflower, as well as post‐domestication introgression with wild relatives. New Phytologist. 2015 Apr 1;206(2):830-8.
Kantar MB, Sosa CC, Khoury CK, Castañeda-Álvarez NP, Achicanoy HA, Bernau V, Kane NC, Marek L, Seiler G, Rieseberg LH. Ecogeography and utility to plant breeding of the crop wild relatives of sunflower (Helianthus annuus L.). Frontiers in plant science. 2015;6.
Lynch RC, Vergara D, Tittes S, White K, Schwartz CJ, Gibbs MJ, Ruthenburg TC, Land DP, Kane NC. Genomic and Chemical Diversity in Cannabis. bioRxiv. 2015 Jan 1:034314.
2014
Tittes, S., Kane, N. C., The genomics of adaptation, divergence and speciation: a congealing theory. Molecular ecology 23 (16), 3938-3940.
Gill N, Buti M, Kane N, Bellec A, Helmstetter N, Berges H, Rieseberg LH. Sequence-Based Analysis of Structural Organization and Composition of the Cultivated Sunflower (Helianthus annuus L.) Genome. Biology. 2014; 3(2):295-319.
Bock, D. G., Kane, N. C., Ebert, D. P, Rieseberg, L. H. The origin of the Jerusalem artichoke: neither from Jerusalem nor an Artichoke. New Phytologist 201:1021-1030.
Hodgins, K., Lai, Z., Oliveira, L., Still, D. W., Scascitelli, M., Barker, M., Kane, N. C., et al. Genomics of Compositae crops: Reference transcriptome assemblies, and evidence of hybridization with wild relatives. Molecular Ecology Resources. 14 (1), 166-177.
L Rieseberg, T Vines, J Gow, N Kane. Editorial 2014. Molecular ecology 23 (1), 1-15.
2013
Kane, N. C., Marek, L., Burke, J. M., Seiler G. and Rieseberg, L. H. Sunflower genetic, genomic and ecological resources. Molecular Ecology Resources 13:10-20. (Cover illustration)
Natalia, L., Cossua, R. M., Barghinia, E., Giorania, T., Butia, M., Mascagnia, F., Gill, N., Kane, N. C., Rieseberg, L., Cavallini, A. The repetitive component of the sunflower genome: comparative analyses using different approaches for assembling NGS reads. BMC Genomics.14:686.
Yang, J. Y., Scascitelli, M., Motilal, L. A., Sveinsson, S., Engels, J. M. M., Kane, N. C., Dempewolf, H., Zhang, D., Maharaj, K., and Cronk, QCB. Complex origin of Trinitario-type Theobroma cacao (Malvaceae) from Trinidad and Tobago revealed using plastid genomics. Tree Genetics and Genomes 9:829-840.
Vines, T. H., Andrew, R. L., Bock, D. G., Franklin, M.T., Gilbert, K. J., Kane, N.C., Kleynhans, E., Moore, J-S., Moyers, B. T. Renaut, S., Rennison, D. J., Veen, T. and Yeaman, S. Mandated archiving greatly improves access to research data. FASEB 27:1304-1308.
Bell, G. D. B., Kane, N.C., Rieseberg, L. H., and Adams, K.L. RNA-seq analysis of allele- specific expression, hybrid effects, and regulatory divergence in hybrids compared with their parents from natural populations. Genome Biology and Evolution 5(7):1309-23.
Renaut, S., Grassa, C. J., Yeaman, S., Moyers, B. T., Lai, Z., Kane, N. C., Bowers, J. E., Burke, J. M. and Rieseberg, L. H. Number and size of genomic islands of differentiation do not vary with geography of speciation. Nature Communications 4:1827.
Sveinsson, S., Gill, N, Kane, N. C., and Cronk, Q. Transposon fingerprinting using low coverage whole genome shotgun sequencing in Cacao (Theobroma cacao L.) and related species. BMC Genomics 14:502.
Andrew, R. L, Bernatchez, L., Bonin, A., Carstens, B. C., Emerson, B. C., Garant, D., Giraud, T., Kane, N. C., et al. A roadmap for molecular ecology. Molecular Ecology 22:2605-2626.
Andrew, R. L., Kane, N. C., Baute, G. J., Grassa, C. J. and Rieseberg, L. H. Recent non-hybrid origin of sunflower ecotypes in a novel habitat. Molecular Ecology. 22:799-813.
Rieseberg, L., Vines, T. and Kane, N. Editorial 2013. Molecular Ecology, 22:1-14.
2012.
Renaut, S., Grassa, C., Moyers, B., Kane, N. C. and Rieseberg, L.H. The population genomics of sunflowers and genomic determinants of protein evolution revealed by RNAseq. Biology 1: 575-596.
Koziol, L., Rieseberg, L. H., Kane, N. C., and Bever, J. D. Reduced drought tolerance results from trade-off against resource allocation towards growth and fecundity during domestication and the evolution of weediness. Evolution 66(12):3803-14.
Rieseberg, L. H., Blackman, B. K., Scascitelli, M., and Kane, N. C. On the Origin of Sunflowers: Fossils, Genes, Genomes, and Hybridization. Proceedings of 18th International Sunflower Conference, 2012, Mar del Plata & Balcarce, Argentina.
Staton, S. E., Bakken, B. H., Ungerer, M. C., Kane, N. C., Knapp, S. J., Rieseberg, L. H. and Burke, J. M. 2012. The sunflower (Helianthus annuus L.) genome reflects a history of biased accumulation of transposable elements. The Plant Journal 72:142-153.
Gilbert, K. J., Andrew, R. L., Bock, D. G., Franklin, M. T., Kane, N. C., Moore, J-S., Moyers, B. T. Renaut, S., Rennison, D. J., Veen, T. and Vines, T. H. Recommendations for utilizing and reporting population genetic analyses: the reproducibility of genetic clustering using the program STRUCTURE. Molecular Ecology 21: 4925–4930.
Lai, Z., Zou, Y., Kane, N. C., Choi, J., Wang, M. and Rieseberg, L. H. Preparation of normalized cDNA libraries for 454 Titanium transcriptome sequencing. Methods in Molecular Biology 888:119-33.
Kane, N. C., Sveinsoon, S., Dempewolf, H., Yang, J. Y., Zhang, D., Engels, J. M. M. and Cronk, Q. Ultra-barcoding in cacao using whole chloroplast genomes and nuclear ribosomal DNA. American Journal of Botany 99:320-329.
Lai, Z., Kane, N.C., Kozik, A., Hodgins, K. A., Dlugosch, K. M., Barker, M. S. et al. Genomics of Compositae weeds: EST libraries, microarray, and evidence of introgression. American Journal of Botany 99:209-218.
Rieseberg, L., Vines, T. and Kane, N. Editorial 2012. Molecular Ecology 21:1-22.
2011.
Blackman, B. K., Scascitelli, M., Kane, N. C., Luton, H., Bye, R. A., Lentz, D. L. and Rieseberg, L. H. Sunflower domestication alleles support single domestication center in eastern North America. Proceedings of the National Academy of Sciences, 34:14360-14365.
Kane, N. C., Zhan, S., Barker, M. S. and Rieseberg, L. H. Molecular evolution across the Asteraceae: micro- and macroevolutionary processes. Molecular Biology and Evolution, 28:3225–3235.
Mayrose, M., Kane, N. C., Mayrose I. and Rieseberg, L. H. Increased vigour in sunflower correlates with reduced defenses and altered gene expression during biotic and abiotic stress responses. Molecular Ecology 20:4683-4694.
Kane, N. C., Gill, N., King, M.G. , Bowers, J.E., Berges, H., Gouzy, J., Bachlava, E., Langlade, N.B., Lai, Z., Stewart, M., Burke, J.M., Vincourt, P., Knapp, S.J. and Rieseberg, L.H. Progress towards a reference genome for sunflower. Botany 89:429-437. Most cited paper in Botany from 2011.
Strasburg, J. L., Kane, N. C., Raduski, A. R., Bonin, A., Kozik, A., Michelmore, R. and Rieseberg, L. H. Effective population size is strongly correlated with rates of adaptive divergence among annual sunflowers. Molecular Biology and Evolution 28:1569-1580. Faculty of 1000, http://f1000.com/10407956http://f1000.com/10407956
Rieseberg, L., Vines, T. and Kane, N. Editorial – 20 years of Molecular Ecology. Molecular Ecology 20:1-21.
2010.
Dempewolfe, H., Kane N. C. Ostvik K. L. et al. Establishing genomic tools and resources for Guizotia abyssinica (L.f.) Cass. – the development of a library of expressed sequence tags, microsatellite loci and the sequencing of its chloroplast genome. Molecular Ecology Resources 10:1048-1058.
Molecular Ecology Resources Primer Development Consortium, et al. Permanent Genetic Resources added to the Molecular Ecology Resources Database 1 February 2010–31 March 2010. Molecular Ecology Resources 10:751-754.
Barker, M. S., Dlugosch, K. M., Dinh, L., Challa, S., Kane, N. C., King, M. G. and Rieseberg, L. H. EvoPipes.net: Bioinformatic pipelines and forums for ecological and evolutionary genomics. Evolutionary Bioinformatics 6:143-149.
Geraldes, A. and Kane, N. C. Pushing north one bottleneck at a time: site frequency spectra tell the history of Sitka spruce. Molecular Ecology 19:3837–3839.
Moyers, B. and Kane, N. C. Genetics of adaptation during colonization. Molecular Ecology 19:1270-1272.
Rieseberg, L., Vines, T. and Kane, N. 2010 Editorial and Retrospective. Molecular Ecology 19:1-22.
2009.
Kane, N. C., King, M. G., Barker, M. S., Raduski, A., Karrenberg, S., Yatabe, Y., Knapp, S. J. and Rieseberg, L. H. Comparative genomic and population genetic analyses indicate highly porous genomes and high levels of gene flow between divergent Helianthus species. Evolution 63:2061-2075.
Hudson, M. E., and Kane, N. C. Plant genomes do a balancing act. Molecular Ecology 18:2743-2745.
Kane, N. C. and King, M. Using parentage analysis to examine gene flow and spatial genetic structure. Molecular Ecology. 18:1551-1552.
Rieseberg, L., Vines, T. and Kane, N. 2009 Editorial and Retrospective. Molecular Ecology 18: 1-13.
2008.
Barker, M. S., Kane, N. C., Kozik, A., Michelmore, R. W., Knapp, S. J., Kesseli, R. K., Still, D. W., Bradford, K. J., and Rieseberg, L. H. Multiple paleopolyploidizations during the evolution of the Compositae reveal parallel patterns of duplicate gene retention after millions of years. Molecular Biology and Evolution. 25:2445-2455.
Lai, Z. Kane, N. C., and Rieseberg, L. H. Natural variation in gene expression between wild and weedy populations of Helianthus annuus. Genetics 179:1881-1890.
Kane, N. C. and Rieseberg, L. H. Genetics and the evolution of weediness in Helianthus annuus. Molecular Ecology 17: 384-394.
Kane, N. C. and Cronk, Q. Meeting Review: Botany Without Borders, Barcoding in focus. Molecular Ecology 17:5175-5176.
2007.
Yatabe, Y., Kane, N. C. Scotti-Saintagne, C. and Rieseberg, L. H. Rampant gene exchange across a strong reproductive barrier between the annual sunflowers, Helianthus annuus and H. petiolaris. Genetics 175: 1883-1893.
Kane, N. C. and Baack, E. J. Hybridization and the origin of weedy rice. Molecular Ecology 16: 4423-4425.
Ortiz-Barrientos, D. and Kane, N. C. The genetics of speciation. Molecular Ecology 16: 2852-2854.
2006.
Kane, N. C., Gross, B. L., and Rieseberg, L. H. Transgressive segregation (plant breeding). pp. 331-334 in “McGraw-Hill Yearbook of Science & Technology.” McGraw-Hill, New York.
Kane, N. C. and Rieseberg, L. H. Selective sweeps reveal candidate genes for adaptation to drought and salt tolerance in common sunflower, Helianthus annuus. Genetics 175:1823-1824.
2005.
Kane, N. C. and Rieseberg, L. H. Maize genetics: The treasure of the Sierra Madre. Current Biology 15: R137-R139.
2004.
Ludwig, F., Rosenthal, D. M., Johnston, J. A., Kane, N., Gross, B. L., Lexer, C., Dudley, S. A., Rieseberg, L. H. and Donovan, L. A. Selection on leaf ecophysiological traits in a desert hybrid Helianthus species and early generation hybrids. Evolution 58:2682-2692.
Weinig, C., Gravuer, K., Kane, N. C. and J. Schmitt. Testing adaptive plasticity to UV: costs and benefits of stem elongation and light-induced phenolics. Evolution 58:2645-2656.
Gross, B. L. , Kane, N. C., Lexer, C. Ludwig, F., Rosenthal, D. M., Donovan, L. A. and Rieseberg, L. H. Reconstructing the origin of Helianthus deserticola: Survival and selection on the desert floor. The American Naturalist 164:145-156.
Huber, H., Kane, N. C., Heschel, M. S. von Wettberg, E. J. Banta, J., Leuck, A. and Schmitt, J. Frequency and microenvironmental pattern of selection on plastic shade-avoidance traits in a natural population of Impatiens capensis. The American Naturalist 163:548-563.
2003.
Weinig C., Dorn L.A., Kane N.C., German Z.M., Hahdorsdottir S.S., Ungerer M.C., Toyonaga Y., Mackay T.F.C., Purugganan M.D., Schmitt J. Heterogeneous selection at specific loci in natural environments in Arabidopsis thaliana. Genetics 165:321-329.
2002.
Weinig, C., Ungerer, M. C., Dorn, L. A., Kane, N. C., Toyonaga, Y, Halldorsdottier, S. S., Mackay, T. F. C., Purugganan, M. D. and Schmitt, J. . Novel loci control variation in reproductive timing in Arabidopsis thaliana in natural environments. Genetics 162:1875–1884.
Kane, N. C., Gross, B. L., and Rieseberg, L. H. Book review: Hey, J. Genes, categories, and species - The evolution and cognitive cause of the species problem. Plant Systematics and Evolution 234:237-239.