Dr. Khidir Hilu

(540) 231-5407

hilukw@vt.edu

Publications

Plant Evolution

Hilu, K. W.  1983.  The role of single‑gene mutations in the evolution of flowering plants.  Evol. Biol. 16: 97‑128.

Hilu, K. W. 1993.  Polyploidy and the evolution of domesticated plants.  Amer. J. Bot. 80:1494‑1499 (Special Paper).

Liu, Wen-Zhe, K. W. Hilu and Y-L Wang.  2014. From leaf and branch into flower: Magnolia tells the story.  Botanical Studies 55: 28-39.

 

Molecular Phyogenetics

Burleigh, G., K. Hilu, D. Soltis. 2009. Inferring phylogenies with incomplete data sets: a 5-gene, 567-taxon analysis of angiosperms.  BMC Evolutionary Biology 9: 61-67.

Crawley, Sunny S. and K. W. Hilu. 2011.  Impact of missing data, gene choice, and taxon sampling on phylogenetic reconstruction: the Caryophyllales (angiosperms).  Plant Systematics and Evolution 298:297–312.

Crawley, Sunny S. and K. W. Hilu.  2012.  Caryophyllales: Evaluating phylogenetic signal in trnK intron versus matK.   Journal of Systematics and Evolution. 50: 387-410.

Hilu, K. W., Black, C. M. and Oza, D.  2014.  Impact of gene molecular evolution on phylogenetic reconstruction: A case study in the Rosids (superorder Rosanae, Angiosperms).  PLOS ONE.  9(6): e99725. doi:10.1371/journal.pone.0099725.

 

Plant Phylogenetics and Evolution

Hilu, K. W. and H. Liang. 1997. The Matk gene: sequence variation and application in plant systematics. Amer. J. Bot. 84: 830-839. .pdf

Hilu, K. W. and L. A. Alice. 1999. Evolutionary implications of matk indels in Poaceae. Amer. J. Bot. 86: 1735-1741.

Borsch, T., K. W. Hilu, V. Wilde, C. Neinhuis, and W. Barthlott. 2000. Phylogenetic analysis of noncoding chloroplast DNA sequences reveals Amborella as basal most angiosperm. American Journal of Botany supplement 87: 115-116. .pdf

Thomas Borsch, Khidir Hilu, John Wiersema, C. B. Hellquist, Surrey Jacobs, Volker Wilde, and W. Barthlott. 2001. Phylogeny and evolution of Nymphaea: integrating evidence from differnt genomic regions and from paleobotany. Botany 2001 Abstract 409:102. The 2001 Annual Meeting of the Botanical Society of America.

Sauquet, H., J. A. Doyle, T. Scharaschkin, T. Borsch, K. W. Hilu, L. W. Chatrou, and A. Le Thomas. 2003. Phylogenetic analysis of Magnoliales and Myristicaceae based on multiple data sets: implications for character evolution. Bot. J. Linn. Soc. 142: 125-186. .pdf

Borsch, Thomas, Khidir W. Hilu, Dietmar Quandt, Volker Wilde, Christoph Neinhuis, and Wilhelm Barthlott. 2003. Non-coding, fast evolving plastid trnT-trnF sequences reveal a well resolved phylogeny of basal angiosperms. Journal of Evolutionary Biology 16: 558-567. .pdf

Hilu, Khidir W., Thomas Borsch, Kai Müller, Douglas E. Soltis, Pamela S. Soltis, Vincent Savolainen, Mark W. Chase, Martyn Powell, Lawrence A. Alice, Rodger Evans, Hervé Sauquet, Christoph Neinhuis, Tracey A. Slotta, Jens G. Rohwer, Christopher S. Campbell, and Lars Chatrou. 2003. Angiosperm phylogeny based on matK sequence information. American Journal of Botany 90: 1758- 1776. .pdf

Neves, S., Ginger Swire-Clark, K. W. Hilu, and Wm. Vance Baird. 2005.  Phylogeny of Eleusine (Poaceae: Chloridoideae) based on nuclear ITS and plastid trnT-trnF sequences.  Molecular Phylogenetics and Evolution 35 (2): 395-419.

Long, Q., Dombrovska, O., Lee, J., Libo, L., Whitlock, B.A., Bernasconi-Quadroni, F., Rest, J.S., Davis, C.C., Borsch, T., Hilu, K.W., Renner, S.S., Soltis, D.E., Sotis, P.S., Zanis, M.J., Cannone, J.J., Gutell, R.R., Powell, M., Savolainen, V., Chatrou, L.W., and Chasell, M.W.. 2005. Phylogenetic Analyses of Basal Angiosperms Based on Nine Plastid, Mitochondrial, and Nuclear Genes. International Journal of Plant Science. 166(5): 815-842. .pdf

Quandt D, Müller K, Stech M, Hilu KW, Frey W, Frahm JP, Borsch T. Molecular evolution of the chloroplast trnL-F region in land plants. Annals of the Missouri Botanical Gardens 98:13-37.

Müller, K.F., Borsch, T., Hilu, K.W. 2006. Phylogenetic utility of rapidly evolving DNA at high taxonomical levels: Contrasting matK, trnT-F, and rbcL in basal angiosperms. Molecular Phylogenetics and Evolution 41: 99-117. .pdf

Chase, M.W., Fay, M.F., Devey, D.S., Maurin, O., Ronsted, N, Davies, T.J., Pillon, Y., Petersen, G., Seberg, O., Tamura, M.N., Asmussen, C.B., Hilu, K.W., Borsch, T., Davis, J.I., Stevenson, D.W., Pires, J.C., Givnish, T.J., Sytsma, K.J., McPherson, M.A., Graham, S.W., Rai, H.S. 2006. Multigene Analyses of Monocot Relationships: A Summary. Alisa 22: 63-75. .pdf

Worberg, A., Quandt, D., Barniske A-M., Löhne, C., Hilu, K.W., Borsch, T.. 2007. Phylogeny of basal eudicots: Insights from non-coding and rapidly evolving DNA. Organisms, Diversity & Evolution 7(2007) 55-77. .pdf

Brockington, S., R. Alexandre, J. Ramdial, M. Moore, S. Crawley, A. Dhingra, K. Hilu, P. Soltis, and D. Soltis. 2009. Phylogeny of the Caryophyllales sensu lato: Revisiting hypotheses on pollination biology and perianth differentiation in the core Caryophyllales. International Journal of Plant Science 170: 627-643.

Magallón, Susana and Khidir Hilu.  Embryophyta.  2009. In: Timetree of Life.  S. Blair Hedges and S. Kumar (eds.), pp. 133-137, Oxford University Press.

Soltis, D. E., Stephen A. Smith, Nico Cellinese, Kenneth J. Wurdack, David C. Tank, Samuel F. Brockington, Nancy F. Refulio-Rodriguez, Jay B. Walker, Michael J. Moore, Barbara S. Carlsward, Charles D. Bell, Maribeth Latvis, Sunny Crawley, Chelsea Black, Diaga Diouf, Zhenxiang Xi, Matthew A. Gitzendanner, Kenneth J. Sytsma, Yin-Long Qiu, Khidir W. Hilu, Charles C. Davis, Michael J. Sanderson, Richard G. Olmstead, Walter S. Judd, Michael J. Donoghue, and Pamela S. Soltis. 2011.  Angiosperm phylogeny: 17 genes 640 taxa.  American J. Botany 94: 704-730.

Crawley, Sunny S. and K. W. Hilu. 2011.  Impact of missing data, gene choice, and taxon sampling on phylogenetic reconstruction: the Caryophyllales (angiosperms).  Plant Systematics and Evolution 298:297–312.

Crawley, Sunny S. and K. W. Hilu.  2012.  Caryophyllales: Evaluating phylogenetic signal in trnK intron versus matK.   Journal of Systematics and Evolution. 50: 387-410.

Magallon, Susana, Hilu, Khidir W. and Quandt, Dietmar.  2013. Land plant evolutionary timeline: gene effects are secondary to fossil constraints in relaxed clock estimation of age and substitution rates.  American Journal of Botany.  100 (3): 556–573.

Hilu, K. W., Black, C. M. and Oza, D.  2014.  Impact of gene molecular evolution on phylogenetic reconstruction: A case study in the Rosids (superorder Rosanae, Angiosperms).  PLOS ONE.  9(6): e99725. doi:10.1371/journal.pone.0099725.


Evolution and Systematics of Grasses

Hilu, K. W. and K. Wright. 1982. Systematics of Poaceae: A Cluster Analysis Study. Taxon 31: 9-36.

Soderstrom, T. R., K. W. Hilu, C. S. Campbell, and M. E. Barkworth (eds.). 1987. Grass Systematics and Evolution. Smithsonian Press, Washington, D.C.

Hilu, K. W. 2000. Contributions of Prolamin Size Diversity and Structure to the Sytematics of the Poaceae. In Grass Systematics and Evolution. Vol. 2, Pp. 241-247. Proceedings of 2nd International Conference on the Comparative Biology of Monocotyledons, 1998, Sydney, Australia, eds. S. W. L. Jacobs and J. Everett. Melbourne: CSIRO Press.

Werth, C. R., K. W. Hilu, and C. A. Langner. 1994. Isozymes of Eleusine (Gramineae) and the origin of finger millet. Amer. J. Bot., 81:1186-1197.

Hilu, K. W. and J. L. Johnson. 1997. Systematics of Eleusine Gaertn. (Poaceae, Chloridoideae): Chloroplast DNA and total evidence. Annals Missouri Bot. Gard. 84: 841-847. .pdf

Hilu, K. W. and L. A. Alice. 1999. Systematic and evolutionary implications of matk indels in Poaceae. Amer. J. Bot. 86: 1735-1741. .pdf

Hilu, K. W., L. A. Alice and H. Liang. 1999. Phylogeny of Poaceae inferred from matK sequences. Annals of Missouri Bot. Gard. 86: 835-851. .pdf

Mullins, I. M. and K. W. Hilu. 2002.Sequence variation in the gene encoding the 10 kDa prolamin in Oryza (Poaceae): I. Phylogenetic Implications. Theoretical and Applied Genetics 105: 841-846. .pdf

Hilu, K. W. 2003. The genus Eleusine. In. M. E. Barkworth and K. M. Capels (eds.). Manual of North American Grasses, vol. 25: 109-110. Oxford Univ. Press, Oxford, New York.

Hilu, K. W. 2004. Phylogenetics and chromosomal evolution in the Poaceae (grasses). Australian Journal of Botany 52: 13-22. .pdf

Tallury, S.P., Hilu, K.W., Milla, S.R., Friend, S.A., Alsaghir, M., Stalker, H.T., and Quandt, D.  2005. Genomic affinities in Arachis section Arachis (Fabaceae): molecular and cytogenetic evidence.  Theor. Appl. Genet. 105: 841-846.

Hilu, K.W. 2006. Skewed Distribution of Species Number in Grass Genera: Is it a Taxonomic Artifact? Chapter in Reconstructing the Tree of Life: Taxonomy and Systematics of Species Rich Taxa Eds. Trevor Hodkinson John A.N. Parnell. Page 165. .pdf

Hilu, K.W. 2007. A century of progress in grass systematics. Kew Bulletin 62: 355-373. .pdf

Döring, E., Schneider, J., Hilu, K.W., Röser, Martin. 2007. Phylogenetic relationships in the Aveneae/Poeae complex. Kew Bulletin 62: 407– 424. .pdf

Hilu, K.W. 2007. A century of progress in grass systematics. Kew Bulletin 62: 355-373. .pdf

Voshell, Stephanie M., Riccardo M. Baldini, Rohit Kumar, Nicholas Tatalovich, and Khidir W. Hilu.  2011.  Canary grasses (Phalaris, Poaceae): Molecular phylogenetics, polyploidy and floret evolution.  Taxon 60: 1306–1316.

Aliscioni S., H. L. Bell, G. Besnard, P-A. Christin4, J. T. Columbus, M. R. Duvall, E. J. Edwards4, L. Giussani, K. Hasenstab-Lehman, K. W. Hilu, T. R. Hodkinson, A. L. Ingram, E. Kellogg, S. Mashayekhi, O. Morrone, C. P Osborne, N. Salamin, E. Spriggs4, S. A. Smith4, F. Zuloaga.  2012.  New grass phylogeny resolves deep evolutionary relationships and discovers C4 origins.  New Phtologist 193: 304-312.

Voshell, S.M. and Hilu, K.W.  2014. Canary Grasses (Phalaris, Poaceae): biogeography, molecular dating and the role of floret structure in dispersal. 2013. Journal of Molecular Ecology 23: 212-224.

Schneider, Julia, Elke Döring, Khidir W. Hilu, and Martin Röser. 2009. Phylogenetic structure of the grass subfamily Pooideae revisited: A comparison of plastid matK and 3’ trnK gene and nuclear ITS sequences. Taxon 58: 405-424.

 

Protein Multigene Families in Grasses

Hilu, K. W. and A. Esen. 1988. Prolamin size diversity in the Poaceae. Biochem. Syst. and Ecol. 16: 457-465.

Esen, A. and K. W. Hilu. 1989. Immunological affinities among subfamilies of the Poaceae. Amer. J. Bot. 76:196-203. .pdf

Hilu, K. W. 2000. Contributions of Prolamin Size Diversity and Structure to the Sytematics of the Poaceae. In Grass Systematics and Evolution. Vol. 2, Pp. 241-247. Proceedings of 2nd International Conference on the Comparative Biology of Monocotyledons, 1998, Sydney, Australia, eds. S. W. L. Jacobs and J. Everett. Melbourne: CSIRO Press.

Hilu, K. W. and L. Sharova. 1998. Characterization of 10kDa Prolamin Genes in Phyllostachys aurea Riv. (Bambusoideae, Poaceae). Amer. J. Bot. 85: 1033-1037. .pdf

Hilu, K. W. and L. V. Sharova. 2002. Evolutionary implications of substitution patterns in prolamin genes of Oryza glaberrima (African rice, Poaceae) and related species. American Journal of Botany. 89: 211-219. .pdf

Mullins, I. M. and K. W. Hilu. 2002. Sequence variation in the gene encoding the 10 kDa prolamin in Oryza(Poaceae): I. Phylogenetic Implications. Theoretical and Applied Genetics 105: 841-846. .pdf

Boyle, I. M. and K. W. Hilu. (2004). Amino Acid Variation in the 10 kDa Oryza Prolamin Seed Storage Protein . Journal of Agriculture and Food Chemistry. 52(8): 2242-2246. .pdf

 

Evolution of Waterlilies

Borsch, T., K. W. Hilu, V. Wilde, and W. Barthlott. 1999. Evidence from plastic and nuclear DNA sequences on the phylogeny of Nymphaea L. (Nymphaeaceae). Abstracts of the 14the Conference on Morphology, Anatomy and Systematic, P. 24, held in Jena, Germany, 1999.

Thomas Borsch, Khidir Hilu, John Wiersema, C. B. Hellquist, Surrey Jacobs, Volker Wilde, and W. Barthlott. 2001. Phylogeny and evolution of Nymphaea: integrating evidence from differnt genomic regions and from paleobotany. Botany 2001. Abstract 409: 102. The 2001 Annual Meeting of the Botanical Society of America

Woods, Kristi, K. W. Hilu, J. H. Wiersema, T. B. Borsch: 2005. Pattern of Variation and Systematics of Nymphaea odorata: I. Evidence from Morphology and Inter-Simple Sequence Repeats (ISSR). Systematic Biology (30)3: 471-480. .pdf

Woods, Kristi, K. W. Hilu, T. B. Borsch, J. H. Wiersema. 2005 Pattern of Variation and Systematics of Nymphaea odorata: II. Sequence information from ITS and trnL-trnF. .pdf

 

Crop Evolution

Pillay, M. and K. W. Hilu.  1990.  Chloroplast DNA variation in diploid and polyploid species of Bromus subgenera Festucaria and Ceratochloa (Poaceae, grasses). Theor. Appl. Genet.  80:326‑332.

Hilu, K. W. 1993. Polyploidy and the evolution of domesticated plants. Amer. J. Bot. 80:1494-1499 (Special Paper). .pdf

Hilu, K. W. 1994. Evolution of domesticated plants. In C. J. Arntzen (ed.), Encyclopedia of Agricultural Science. Vol. 2, pp. 117-127 Academic Press.

Hilu, K. W. 1988. Identification of the "A" genome of finger millet using chloroplast DNA. Genetics 118: 163-167. .pdf

Hilu, K. W. 1994. Evidence from RAPD markers in the evolution of Echinochloa millets (Poaceae). Pl. Syst. Evol. 189:247-257. .pdf

M'Ribu, K. and K. W. Hilu. 1994. Detection of interspecific and intraspecific variation in Panicum millets through random amplified polymorphic DNA (RAPD). Theor. Appl. Genet. 88:412-416. .pdf

Hilu, K. W. and H. T. Stalker. 1995. Genetic relationship between peanuts and wild species of Arachis Section Arachis: Evidence from RAPD. Pl. Syst. Evol. 198: 167-178.

Hilu, K. W., K. M'Ribu, H. Liang, and C. Mandelbaum. 1997. Fonio Millets: Ethnobotany, Genetic diversity and Evolution. South. Afr. Jour. Bot. 63: 185-190.

Hilu, K. W. and J. L. Johnson. 1997. Systematics of Eleusine Gaertn. (Poaceae, Chloridoideae): Chloroplast DNA and total evidence. Annals Missouri Bot. Gard. 84: 841-847.

Mullins, I. M. and K. W. Hilu. 2002. Sequence variation in the gene encoding the 10 kDa prolamin in Oryza(Poaceae): I. Phylogenetic Implications. Theoretical and Applied Genetics 105: 841-846. .pdf

Mullins, I. M. and K. W. Hilu. 2004. Amino Acid Variation in the 10 kDa Oryza Prolamin Seed Storage Protein . Journal of Agricultural Chemistry 52(8): pp. 2242-2246. .pdf

Diouf, Diaga and Khidir W. Hilu. 2004. Microsatellites and RAPD markers to study genetic relationship among cowpea breeding lines and local varieties in Senegal. Journal of Genetic Resources and Crop Evolution. 52:8, pp 1057-1067 .pdf

Breviario, Diego, Wm. Vance Baird, Shail Sangoi, Khidir Hilu, Pietro Blumetti, and Silvia Gianì.  2007.  High polymorphism and resolution in targeted fingerprinting with combined beta-tubulin introns.  Molecular Breeding 20: 249-259. .pdf

Friend, Sheena A., Dietmar Quandt, S. P. Tallury, H. Thomas Stalker, K. W. Hilu. 2010 (on line).  Species, genomes and section relationships in genus Arachis (Fabaceae): A molecular phylogeny.  Plant Systematics and Evolution 290: 185-199.

 

MatK Gene Evolution

Hilu, K. W. and H. Liang. 1997. The Matk gene: sequence variation and application in plant systematics. Amer. J. Bot. 84: 830-839. .pdf

Hilu, K. W. and L. A. Alice. 1999. Evolutionary implications of matk indels in Poaceae. Amer. J. Bot. 86: 1735-1741.

Hilu, K. W. and L. A. Alice. 1999. Systematic and evolutionary implications of matk indels in Poaceae. Amer. J. Bot. 86: 1735-1741. .pdf

Hilu, K. W., L. A. Alice and H. Liang. 1999. Phylogeny of Poaceae inferred from matK sequences. Annals of Missouri Bot. Gard. 86: 835-851. .pdf

Hilu, Khidir W., Thomas Borsch, Kai Müller, Douglas E. Soltis, Pamela S. Soltis, Vincent Savolainen, Mark W. Chase, Martyn Powell, Lawrence A. Alice, Rodger Evans, Hervé Sauquet, Christoph Neinhuis, Tracey A. Slotta, Jens G. Rohwer, Christopher S. Campbell, and Lars Chatrou. 2003. Angiosperm phylogeny based on matK sequence information. American Journal of Botany 90: 1758- 1776. .pdf

Müller, K.F., Borsch, T., Hilu, K.W. 2006. Phylogenetic utility of rapidly evolving DNA at high taxonomical levels: Contrasting matK, trnT-F, and rbcL in basal angiosperms. Molecular Phylogenetics and Evolution 41: 99-117. .pdf

Barthet, Michelle and Khidir Hilu.  2007.  Expression of matK: functional and systematic implications. American J. Botany 94: 1402–1412. .pdf

Barthet, Michelle and Khidir Hilu. 2008. Evaluating evolutionary constraint on the rapidly evolving gene  matK using protein composition.  Journal of Molecular Evolution.  (Article was selected for the journal’s cover) 66: 85-97. .pdf

Hilu, Khidir and Michelle Barthet. 2008.  Mode and Tempo of matK: Gene Evolution and Phylogenetic Implications.  In Evolutionary biology from concepts to applications, pp 165-180, ed. Pierre Pontarotti. Springer, Germany.

Hilu, K. W.,  C. Black, D. Diouf, G. Burleigh, 2008. Phylogenetic signal in matK vs. trnK:  A case study in early-diverging eudicots (Angiosperms).  Molecular Phylogenetics and Evolution 48: 1120-1130.

Hilu, K. W., Black, C. M. and Oza, D.  2014.  Impact of gene molecular evolution on phylogenetic reconstruction: A case study in the Rosids (superorder Rosanae, Angiosperms).  PLOS ONE.  9(6): e99725. doi:10.1371/journal.pone.0099725.

Michelle M. Barthet, Keenan Moukarzel, Kayla N. Smith, Jaimin Patel and Khidir W. Hilu.  Alternative translation initiation codons for the plastid maturase MatK: unraveling the pseudogene misconception in the Orchidaceae.. BMC Evolutionary Biology (2015) 15:210.  DOI 10.1186/s12862-015-0491-1 .pdf

 

Phylogeny and evolution of the peanut gens Arachis and its allergens

Tallury S.P., Hilu K.W., Milla S.R., Friend S.A., Al-Saghir M., Stalker H.T., and Quant, D. 2005 Genomics affinities in Arachis section Arachis (Fabaceae): cytogenetic and molecular evidence. Theoretical and Applied Genetics. 111(7):1229-1237 .pdf

Friend, Sheena A., Dietmar Quandt, S. P. Tallury, H. Thomas Stalker, K. W. Hilu. 2010 (on line).  Species, genomes and section relationships in genus Arachis (Fabaceae): A molecular phylogeny.  Plant Systematics and Evolution 290: 185-199.

 

Last Update 19 February 2016