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Research & Collections

Publications by Staff

2020

Abbott, J. & Abbott, K. K. 2020. Common Insects of Texas and Surrounding States: A field guide. University of Texas Press, Austin, TX, 446 pp. https://utpress.utexas.edu/books/abbott-common-insects-of-texas-and-surrounding-states

Bianconi, M. E., Hackel, J., Vorontsova, M. S., Alberti, A., Arthan, W., Burke, S. V., Duvall, M. R., Kellogg, E. A., Lavergne, S., McKain, M. R., Meunier, A., Osborne, C. P., Traiperm, P., Christin, P.-A. & Besnard, G. 2020. Continued adaptation of C4 photosynthesis after an initial burst of changes in the Andropogoneae grasses Fishbein, M. (ed.). Systematic Biology, 69, 445–461, doi: 10.1093/sysbio/syz066.

Bried, J., Ries, L., Smith, B.,  Patten, M., Abbott, J., Ball-Damerow, J., Cannings, R., Cordero-Rivera, A., Córdoba-Aguilar, A., De Marco, Jr, P., Dijkstra, K.-D., Dolný, A., van Grunsven, R., Halstead, D., Harabiš, F., Hassall, C., Jeanmougin, M., Jones, C., Juen, L., Kalkman, V., Kietzka, G., Searles Mazzacano, C., Orr, A., Perron, M., Rocha-Ortega, M., Sahlén, G., Samways, M., Siepielski, A., Simaika, J., Suhling, F., Underhill, L., & White, E. 2020. Towards Global Volunteer Monitoring of Odonate Abundance. BioScience. biaa092, https://doi.org/10.1093/biosci/biaa092

Cabrera, R., O’Shields, B., Diaz-Larrea, J. & López-Bautista, J. M. 2020. Molecular phylogenetic analyses of the genus Hypnea (Cystocloniaceae, Rhodophyta) in Cuba. Caribbean Journal of Science, 50, 74–85, doi: 10.18475/cjos.v50i1.a10.

Cappelli, C. & Pérez-Huerta, A. 2020. Effect of crystallographic orientation on atom probe tomography geochemical data? Micron, 102910, doi: 10.1016/j.micron.2020.102910.

Cobo, M. C. & Kocot, K. M. 2020. Micromenia amphiatlantica sp. nov.: First solenogaster (Mollusca, Aplacophora) with an amphi-Atlantic distribution and insight into abyssal solenogaster diversity. Deep Sea Research Part I: Oceanographic Research Papers, 157, 103189, doi: 10.1016/j.dsr.2019.103189.

Gašparič, R., Robins, C. & Gale, L. 2020. Mesogalathea ardua sp. nov., a new species of squat lobster (Decapoda, Galatheidae) from the Upper Jurassic olistolith at Velika Strmica (Dolenjska, Slovenia). Geologija, 63, 29–38, doi: 10.5474/geologija.2020.003.

Henriquez, C. L., Abdullah, Ahmed, I., Carlsen, M. M., Zuluaga, A., Croat, T. B. & McKain, M. R. 2020. Evolutionary dynamics of chloroplast genomes in subfamily Aroideae (Araceae). Genomics, 112, 2349–2360, doi: 10.1016/j.ygeno.2020.01.006.

Henriquez, C. L., Abdullah, Ahmed, I., Carlsen, M. M., Zuluaga, A., Croat, T. B. & McKain, M. R. 2020. Molecular evolution of chloroplast genomes in Monsteroideae (Araceae). Planta, 251, 72, doi: 10.1007/s00425-020-03365-7.

Ikejiri, T., Lu, Y. & Zhang, B. 2020. Two-step extinction of Late Cretaceous marine vertebrates in northern Gulf of Mexico prolonged biodiversity loss prior to the Chicxulub impact. Scientific Reports, 10, 4169, doi: 10.1038/s41598-020-61089-w.

Kiel, S., Hybertsen, F., Hyžný, M. & Klompmaker, A. A. 2020. Mollusks and a crustacean from early Oligocene methaneseep deposits in the Talara Basin, northern Peru. Acta Palaeontologica Polonica, 65, 109–138.

Klompmaker, A. A. & Fraaije, R. H. B. 2020. An enigmatic arthropod from the Triassic of Winterswijk (translated from Dutch). Grondboor & Hamer, 75, 76–78.

Kocot, K. M., Poustka, A. J., Stöger, I., Halanych, K. M. & Schrödl, M. 2020. New data from Monoplacophora and a carefully-curated dataset resolve molluscan relationships. Scientific Reports, 10, 101, doi: 10.1038/s41598-019-56728-w.

Kong, L., Li, Y., Kocot, K. M., Yang, Y., Qi, L., Li, Q. & Halanych, K. M. 2020. Mitogenomics reveals phylogenetic relationships of Arcoida (Mollusca, Bivalvia) and multiple independent expansions and contractions in mitochondrial genome size. Molecular Phylogenetics and Evolution, 106857, doi: 10.1016/j.ympev.2020.106857.

Pérez-Huerta, A., Walker, S. E. & Cappelli, C. 2020. In situ geochemical analysis of organics in growth lines of Antarctic scallop shells: Implications for sclerochronology. Minerals, 10, 529, doi: 10.3390/min10060529.

Rocha-Ortega, M., Rodríguez, P., Bried, J., Abbott, J. & Córdoba-Aguilar, A. 2020. Why do bugs perish? Range size and local vulnerability traits as surrogates of Odonata extinction risk. Proceedings of the Royal Society B: Biological Sciences, 287, 20192645, doi: 10.1098/rspb.2019.2645.

Wallaard, J. J. W., Fraaije, R. H. B., Jagt, J. W. M., Klompmaker, A. A. & Van Bakel, B. W. M. 2020. The first record of a paguroid shield (Decapoda, Anomura, Annuntidiogenidae) from the Miocene of Cyprus. Geologija, 63, 93–99, doi: 10.5474/geologija.2020.010.

Wimberley, V. S. & Rocky, B. P. 2020. Investigation of the extraction processes and performance properties of kudzu fibers. Journal of Natural Fibers, 1–12, doi: 10.1080/15440478.2020.1776664.

Žigaitė, Ž., Qvarnström, M., Bancroft, A., Pérez-Huerta, A., Blom, H. & Ahlberg, P. E. 2020. Trace and rare earth element compositions of Silurian conodonts from the Vesiku Bone Bed: Histological and palaeoenvironmental implications. Palaeogeography, Palaeoclimatology, Palaeoecology, 549, 109449, doi: 10.1016/j.palaeo.2019.109449.

2019

Barrett, C. F., McKain, M. R., Sinn, B. T., Ge, X.-J., Zhang, Y., Antonelli, A. & Bacon, C. D. 2019. Ancient polyploidy and genome evolution in palms Chaw, S.-M. (ed.). Genome Biology and Evolution, 11, 1501–1511, doi: 10.1093/gbe/evz092.

Brown, I. W. 2019. The southern African-American burial pattern, as represented at Gadsden’s Alabama City Cemetery. AGS Quaterly, 43, 30–39.

Brown, I. W. 2019. China Memories: Journal of an Archaeologist in the Three Gorges of the Yangtze River in 1999. The University Press of the South, New Orleans, 185 pp.

Chávez-Sánchez, T., Piñón-Gimate, A., Melton III, J. T., López-Bautista, J. M. & Casas-Valdez, M. 2019. First report, along with nomenclature adjustments, of Ulva ohnoi, U. tepida and U. torta (Ulvaceae, Ulvales, Chlorophyta) from northwestern Mexico. Botanica Marina, 62, 113–123, doi: 10.1515/bot-2018-0007.

Cremen, M. C. M., Leliaert, F., West, J., Lam, D. W., Shimada, S., Lopez-Bautista, J. M. & Verbruggen, H. 2019. Reassessment of the classification of Bryopsidales (Chlorophyta) based on chloroplast phylogenomic analyses. Molecular Phylogenetics and Evolution, 130, 397–405, doi: 10.1016/j.ympev.2018.09.009.

Edger, P. P., Poorten, T. J., VanBuren, R., Hardigan, M. A., Colle, M., McKain, M. R., Smith, R. D., Teresi, S. J., Nelson, A. D. L., Wai, C. M., Alger, E. I., Bird, K. A., Yocca, A. E., Pumplin, N., Ou, S., Ben-Zvi, G., Brodt, A., Baruch, K., Swale, T., Shiue, L., Acharya, C. B., Cole, G. S., Mower, J. P., Childs, K. L., Jiang, N., Lyons, E., Freeling, M., Puzey, J. R. & Knapp, S. J. 2019. Origin and evolution of the octoploid strawberry genome. Nature Genetics, 51, 541–547, doi: 10.1038/s41588-019-0356-4.

Gabitov, R., Sadekov, A., Yapaskurt, V., Borrelli, C., Bychkov, A., Sabourin, K. & Perez-Huerta, A. 2019. Elemental uptake by calcite slowly grown from seawater solution: An in-situ study via depth profiling. Frontiers in Earth Science, 7, 51, doi: 10.3389/feart.2019.00051.

Galaska, M. P., Li, Y., Kocot, K. M., Mahon, A. R. & Halanych, K. M. 2019. Conservation of mitochondrial genome arrangements in brittle stars (Echinodermata, Ophiuroidea). Molecular Phylogenetics and Evolution, 130, 115–120, doi: 10.1016/j.ympev.2018.10.002.

Garcia-Soto, G. & Lopez-Bautista, J. 2019. Acanthophora dendroides Harvey (Rhodomelaceae), a new record for the Atlantic and Pacific oceans. Check List, 15, 509–514, doi: 10.15560/15.3.509.

Garcia-Soto, G. & Lopez-Bautista, J. 2019. Laurencia natalensis (Ceramiales, Rhodophyta): A new record for the Atlantic Ocean. Caribbean Journal of Science, 49, 201–208, doi: 10.18475/cjos.v49i2.a9.

Genareau, K., Perez-Huerta, A. & Laiginhas, F. 2019. Atom probe tomography analysis of exsolved mineral phases. Journal of Visualized Experiments, 152, 59863, doi: 10.3791/59863.

Kocot, K. M., Wollesen, T., Varney, R. M., Schwartz, M. L., Steiner, G. & Wanninger, A. 2019. Complete mitochondrial genomes of two scaphopod molluscs. Mitochondrial DNA Part B, 4, 3161–3162, doi: 10.1080/23802359.2019.1666689.

Kocot, K. M., Todt, C., Mikkelsen, N. T. & Halanych, K. M. 2019. Phylogenomics of Aplacophora (Mollusca, Aculifera) and a solenogaster without a foot. Proceedings of the Royal Society B: Biological Sciences, 286, 20190115, doi: 10.1098/rspb.2019.0115.

LaDu, D. A. & Brown, I. W. 2019. Second Creek Archaeology: A Glimpse into Mississippi’s Past. Borgo Publishing, Tuscaloosa, 164 pp.

Laumer, C. E., Fernández, R., Lemer, S., Combosch, D., Kocot, K. M., Riesgo, A., Andrade, S. C. S., Sterrer, W., Sørensen, M. V. & Giribet, G. 2019. Revisiting metazoan phylogeny with genomic sampling of all phyla. Proceedings of the Royal Society B: Biological Sciences, 286, 20190831, doi: 10.1098/rspb.2019.0831.

LeCount, L. J., Walker, C. P., Blitz, J. H. & Nelson, T. C. 2019. Land tenure systems at the ancient Maya site of Actuncan, Belize. Latin American Antiquity, 30, 245–265, doi: 10.1017/laq.2019.16.

Li, Y., Kocot, K. M., Tassia, M. G., Cannon, J. T., Bernt, M. & Halanych, K. M. 2019. Mitogenomics reveals a novel genetic code in Hemichordata Lavrov, D. (ed.). Genome Biology and Evolution, 11, 29–40, doi: 10.1093/gbe/evy254.

Lu, M., Lu, Y., Ikejiri, T., Hogancamp, N., Sun, Y., Wu, Q., Carroll, R., Çemen, I. & Pashin, J. 2019. Geochemical evidence of first forestation in the southernmost Euramerica from Upper Devonian (Famennian) black shales. Scientific Reports, 9, 7581, doi: 10.1038/s41598-019-43993-y.

Martínez-Martínez, J., Benavente, D., Pérez-Huerta, A., Cueto, N. & García-del-Cura, M. A. 2019. Changes on the surface properties of foliated marbles at different cutting orientations. Construction and Building Materials, 222, 493–499, doi: 10.1016/j.conbuildmat.2019.06.099.

McAllister, C. A., McKain, M. R., Li, M., Bookout, B. & Kellogg, E. A. 2019. Specimen-based analysis of morphology and the environment in ecologically dominant grasses: The power of the herbarium. Philosophical Transactions of the Royal Society B: Biological Sciences, 374, 20170403, doi: 10.1098/rstb.2017.0403.

Mikkelsen, N. T., Todt, C., Kocot, K. M., Halanych, K. M. & Willassen, E. 2019. Molecular phylogeny of Caudofoveata (Mollusca) challenges traditional views. Molecular Phylogenetics and Evolution, 132, 138–150, doi: 10.1016/j.ympev.2018.10.037.

One Thousand Plant Transcriptomes Initiative [incl. McKain, M.]. 2019. One thousand plant transcriptomes and the phylogenomics of green plants. Nature, 574, 679–685, doi: 10.1038/s41586-019-1693-2.

Pérez-Huerta, A., Suzuki, M., Cappelli, C., Laiginhas, F. & Kintsu, H. 2019. Atom probe tomography (APT) characterization of organics occluded in single calcite crystals: Implications for biomineralization studies. C — Journal of Carbon Research, 5, 50, doi: 10.3390/c5030050.

Smythe, A. B., Holovachov, O. & Kocot, K. M. 2019. Improved phylogenomic sampling of free-living nematodes enhances resolution of higher-level nematode phylogeny. BMC Evolutionary Biology, 19, 121, doi: 10.1186/s12862-019-1444-x.

Sogabe, S., Hatleberg, W. L., Kocot, K. M., Say, T. E., Stoupin, D., Roper, K. E., Fernandez-Valverde, S. L., Degnan, S. M. & Degnan, B. M. 2019. Pluripotency and the origin of animal multicellularity. Nature, 570, 519–522, doi: 10.1038/s41586-019-1290-4.

Stefanidou, N., Genitsaris, S., Lopez-Bautista, J., Sommer, U. & Moustaka-Gouni, M. 2019. Response of a coastal Baltic Sea diatom-dominated phytoplankton community to experimental heat shock and changing salinity. Oecologia, 191, 461–474, doi: 10.1007/s00442-019-04502-0.

Teisher, J. K., McKain, M. R., Schaal, B. A. & Kellogg, E. A. 2019. Plastome phylogenetics of tribe Eriachneae and evolution of C 4 photosynthesis in subfamily Micrairoideae (Poaceae). Systematic Botany, 44, 32–40, doi: 10.1600/036364419X697877.

Varney, R. M., Funch, P., Kocot, K. M. & Sørensen, M. V. 2019. A new species of Echinoderes (Cyclorhagida: Echinoderidae) from the San Juan Islands, Washington State, USA, and insights into the kinorhynch transcriptome. Zoologischer Anzeiger, 282, 52–63, doi: 10.1016/j.jcz.2019.06.003.

Welker, C. A. D., McKain, M. R., Vorontsova, M. S., Peichoto, M. C. & Kellogg, E. A. 2019. Plastome phylogenomics of sugarcane and relatives confirms the segregation of the genus Tripidium (Poaceae: Andropogoneae). TAXON, 68, 246–267, doi: 10.1002/tax.12030.

2018

Abbott, K. K., Abbott, J. C., Lozier, J. D., Beasley, R. R. & Lance, S. L. 2018. Development of polymorphic microsatellite markers for a rare dragonfly, Cordulegaster sarracenia (Odonata: Cordulegastridae), with notes on population structure and genetic diversity. International Journal of Odonatology, 21, 165–171, doi: 10.1080/13887890.2018.1498398.

Bagley, J. C., Mayden, R. L. & Harris, P. M. 2018. Phylogeny and divergence times of suckers (Cypriniformes: Catostomidae) inferred from Bayesian total-evidence analyses of molecules, morphology, and fossils. PeerJ, 6, e5168, doi: 10.7717/peerj.5168.

Chávez-Sánchez, T., Piñón-Gimate, A., Serviere-Zaragoza, E., López-Bautista, J. M. & Casas-Valdez, M. 2018. Ulva blooms in the southwestern Gulf of California: Reproduction and biomass. Estuarine, Coastal and Shelf Science, 200, 202–211, doi: 10.1016/j.ecss.2017.11.007.

Cuif, J.-P., Perez-Huerta, A., Lo, C., Belhadj, O. & Dauphin, Y. 2018. On the deep origin of the depressed rings on pearl surface illustrated from Polynesian Pinctada margaritifera (Linnaeus 1758). Aquaculture Research, 49, 1834–1847, doi: 10.1111/are.13638.

Cuif, J.-P., Dauphin, Y., Luquet, G., Medjoubi, K., Somogyi, A. & Perez-Huerta, A. 2018. Revisiting the organic template model through the microstructural study of shell development in Pinctada margaritifera, the Polynesian pearl oyster. Minerals, 8, 370, doi: 10.3390/min8090370.

Dauphin, Y., Luquet, G., Perez-Huerta, A. & Salomé, M. 2018. Biomineralization in modern avian calcified eggshells: Similarity versus diversity. Connective Tissue Research, 59, 67–73, doi: 10.1080/03008207.2018.1430144.

Dellinger, M., West, A. J., Paris, G., Adkins, J. F., Pogge von Strandmann, P. A. E., Ullmann, C. V., Eagle, R. A., Freitas, P., Bagard, M.-L., Ries, J. B., Corsetti, F. A., Perez-Huerta, A. & Kampf, A. R. 2018. The Li isotope composition of marine biogenic carbonates: Patterns and mechanisms. Geochimica et Cosmochimica Acta, 236, 315–335, doi: 10.1016/j.gca.2018.03.014.

Ebersole, J. A. & Ehret, D. J. 2018. A new species of Cretalamna sensu stricto (Lamniformes, Otodontidae) from the Late Cretaceous (Santonian-Campanian) of Alabama, USA. PeerJ, 6, e4229, doi: 10.7717/peerj.4229.

Edger, P. P., McKain, M. R., Bird, K. A. & VanBuren, R. 2018. Subgenome assignment in allopolyploids: challenges and future directions. Current Opinion in Plant Biology, 42, 76–80, doi: 10.1016/j.pbi.2018.03.006.

Esarey, D., Brown, I. W. & Coble, A. 2018. The Mississippian site of origin for the so-called Moundville spider. Midcontinental Journal of Archaeology, 43, 23–34, doi: 10.1080/01461109.2017.1370527.

Field, D. J., Hanson, M., Burnham, D., Wilson, L. E., Super, K., Ehret, D., Ebersole, J. A. & Bhullar, B.-A. S. 2018. Complete Ichthyornis skull illuminates mosaic assembly of the avian head. Nature, 557, 96–100, doi: 10.1038/s41586-018-0053-y.

Friel, J. P. & Carvalho, T. P. 2018. Family Aspredinidae – Banjo Catfishes. In: Van der Sleen, P. & Albert, J. S. (eds) Field Guide to the Fishes of the Amazon, Orinoco & Guianas. Princeton University Press, Princeton, 202–207.

García-Soto, G. & Lopez-Bautista, J. 2018. Taxonomic notes on the genus Alsidium C. Agardh, including the merging of Bryothamnion Kützing (Rhodomelaceae). ALGAE, 33, 215–229, doi: 10.4490/algae.2018.33.6.25.

Gitzendanner, M. A., Yang, Y., Wickett, N. J., McKain, M. & Beaulieu, J. M. 2018. Methods for exploring the plant tree of life. Applications in Plant Sciences, 6, e1039, doi: 10.1002/aps3.1039.

Henkes, G. A., Passey, B. H., Grossman, E. L., Shenton, B. J., Yancey, T. E. & Pérez-Huerta, A. 2018. Temperature evolution and the oxygen isotope composition of Phanerozoic oceans from carbonate clumped isotope thermometry. Earth and Planetary Science Letters, 490, 40–50, doi: 10.1016/j.epsl.2018.02.001.

Hoffman, R., Wynne, M. J., Schils, T., Lopez-Bautista, J. & Verbruggen, H. 2018. Codium pulvinatum (Bryopsidales, Chlorophyta), a new species from the Arabian Sea, recently introduced into the Mediterranean Sea. Phycologia, 57, 79–89, doi: 10.2216/17-74.1.

Kersken, D., Kocot, K., Janussen, D., Schell, T., Pfenninger, M. & Martínez Arbizu, P. 2018. First insights into the phylogeny of deep-sea glass sponges (Hexactinellida) from polymetallic nodule fields in the Clarion-Clipperton Fracture Zone (CCFZ), northeastern Pacific. Hydrobiologia, 811, 283–293, doi: 10.1007/s10750-017-3498-3.

Kocot, K. M., Tassia, M. G., Halanych, K. M. & Swalla, B. J. 2018. Phylogenomics offers resolution of major tunicate relationships. Molecular Phylogenetics and Evolution, 121, 166–173, doi: 10.1016/j.ympev.2018.01.005.

Lemes-Da-Silva, N. M., López-Bautista, J. M. & Branco, L. H. Z. 2018. A new and cryptic species of Trentepohlia (Ulvophyceae, Chlorophyta) from Brazilian mixed forests. Phycologia, 57, 385–393, doi: 10.2216/16-133.1.

Ludlow, C. & Wimberley, V. 2018. Amelia Gayle Gorgas: A study of the woman and her dress. Proceedings of the International Textile and Apparel Association, 75, 1–3.

McKain, M. R., Johnson, M. G., Uribe-Convers, S., Eaton, D. & Yang, Y. 2018. Practical considerations for plant phylogenomics. Applications in Plant Sciences, 6, e1038, doi: 10.1002/aps3.1038.

Mikkelsen, N. T., Kocot, K. M. & Halanych, K. M. 2018. Mitogenomics reveals phylogenetic relationships of caudofoveate aplacophoran molluscs. Molecular Phylogenetics and Evolution, 127, 429–436, doi: 10.1016/j.ympev.2018.04.031.

Pabst, E. A. & Kocot, K. M. 2018. Phylogenomics confirms monophyly of Nudipleura (Gastropoda: Heterobranchia). Journal of Molluscan Studies, 84, 259–265, doi: 10.1093/mollus/eyy013.

Pérez-Huerta, A. & Laiginhas, F. 2018. Preliminary data on the nanoscale chemical characterization of the inter-crystalline organic matrix of a calcium carbonate biomineral. Minerals, 8, 223, doi: 10.3390/min8060223.

Pérez-Huerta, A. & Reed, H. 2018. Preliminary assessment of coupling the analysis of shell microstructures and microtextures as palaeoecological indicator in fossil brachiopods. Spanish Journal of Palaeontology, 33, 129–138.

Pérez-Huerta, A., Coronado, I. & Hegna, T. A. 2018. Understanding biomineralization in the fossil record. Earth-Science Reviews, 179, 95–122, doi: 10.1016/j.earscirev.2018.02.015.

Pugh, M. W., Franklin, T., Siefferman, L. & Gangloff, M. M. 2018. A protocol for quantifying Hellbender abundance and in-stream habitat. Herpetological Conservation and Biology, 13, 598–608.

Rodriguez, J., Jones, T. H., Sierwald, P., Marek, P. E., Shear, W. A., Brewer, M. S., Kocot, K. M. & Bond, J. E. 2018. Step-wise evolution of complex chemical defenses in millipedes: A phylogenomic approach. Scientific Reports, 8, 3209, doi: 10.1038/s41598-018-19996-6.

Saeidi, E. & Wimberley, V. S. 2018. Precious cut: Exploring creative pattern cutting and draping for zero-waste design. International Journal of Fashion Design, Technology and Education, 11, 243–253, doi: 10.1080/17543266.2017.1389997.

Saeidi, S., McKain, M. R. & Kellogg, E. A. 2018. Robust DNA isolation and high-throughput sequencing library construction for herbarium specimens. Journal of Visualized Experiments, 133, 56837, doi: 10.3791/56837.

Stefanidou, N., Genitsaris, S., Lopez-Bautista, J., Sommer, U. & Moustaka-Gouni, M. 2018. Effects of heat shock and salinity changes on coastal Mediterranean phytoplankton in a mesocosm experiment. Marine Biology, 165, 154, doi: 10.1007/s00227-018-3415-y.

Stefanidou, N., Genitsaris, S., Lopez-Bautista, J., Sommer, U. & Moustaka-Gouni, M. 2018. Unicellular eukaryotic community response to temperature and salinity variation in mesocosm experiments. Frontiers in Microbiology, 9, 2444, doi: 10.3389/fmicb.2018.02444.

Unruh, S. A., McKain, M. R., Lee, Y.-I., Yukawa, T., McCormick, M. K., Shefferson, R. P., Smithson, A., Leebens-Mack, J. H. & Pires, J. C. 2018. Phylotranscriptomic analysis and genome evolution of the Cypripedioideae (Orchidaceae). American Journal of Botany, 105, 631–640, doi: 10.1002/ajb2.1047.

Winebarger, M. M., Pugh, M. W., Gangloff, M. M., Osbourn, M. S. & Siefferman, L. 2018. Body size is positively correlated with conspicuous coloration in Ambystoma salamanders, but negatively correlated with conspicuous coloration in Plethodon salamanders. Frontiers in Ecology and Evolution, 6, 143, doi: 10.3389/fevo.2018.00143.

2017

Alexandre, H., Faure, J., Ginzbarg, S., Clark, J. & Joly, S. 2017. Bioclimatic niches are conserved and unrelated to pollination syndromes in Antillean Gesneriaceae. Royal Society Open Science, 4, 170293, doi: 10.1098/rsos.170293.

Bingham, P. M., Souza, J. & Blitz, J. H. 2017. What can the Alabama Mississippians teach us about human evolution and behavior? In: Lynn, C. D., Glaze, A. L., Evans, W. A. & Reed, L. K. (eds) Evolution Education in the American South. Palgrave Macmillan US, New York, 239–261, doi: 10.1057/978-1-349-95139-0_13.

Blitz, J. H. 2016. Mound X and selective forgetting at early Moundville. In: Steponaitis, V. P. & Scarry, C. M. (eds) Rethinking Moundville and Its Hinterland. University Press of Florida, 54–73., doi: 10.5744/florida/9780813061665.003.0004.

Blitz, J. H. & Riehm, G. E. (eds). 2017. Andrews Place (1MB1): A late Woodland and Mississippian shell midden on the Alabama Gulf Coast. Journal of Alabama Archaeology, 61, 1–117.

Blitz, J. H. & Riehm, G. E. 2017. Andrews place in retrospect. Journal of Alabama Archaeology, 61, 102–105.

Blitz, J. H. & Riehm, G. E. 2017. Ceramic effigy adornos, miniature vessels, and figurines. Journal of Alabama Archaeology, 61, 47–57.

Blum, T. B., Darling, J. R., Kelly, T. F., Larson, D. J., Moser, D. E., Perez-Huerta, A., Prosa, T. J., Reddy, S. M., Reinhard, D. A., Saxey, D. W., Ulfig, R. M. & Valley, J. W. 2017. Best practices for reporting atom probe analysis of geological materials. In: Moser, D. E., Corfu, F., Darling, J. R., Reddy, S. M. & Tait, K. (eds) Geophysical Monograph Series. John Wiley & Sons, Inc., Hoboken, NJ, USA, 369–373, doi: 10.1002/9781119227250.ch18.

Brown, I. W. & Steponaitis, V. P. 2017. The grand village of the Natchez was indeed grand: A reconsideration of the fatherland site landscape. In: Waselkov, G. A. & Smith, M. T. (eds) Southeastern Identities: Social Archaeology, Ethnohistory, and Folklore of the Mississippian to Early Historic South. University of Alabama Press, Tuscaloosa, 182–204.

Carvalho, T. P., Reis, R. E. & Friel, J. P. 2017. A new species of Hoplomyzon (Siluriformes: Aspredinidae) from Maracaibo Basin, Venezuela: Osteological description using high-resolution computed microtomography of a miniature species. Neotropical Ichthyology, 15, e160143, doi: 10.1590/1982-0224-20160143.

Collins, S. D., Abbott, J. C. & McIntyre, N. E. 2017. Quantifying the degree of bias from using county-scale data in species distribution modeling: Can increasing sample size or using county-averaged environmental data reduce distributional overprediction? Ecology and Evolution, 7, 6012–6022, doi: 10.1002/ece3.3115.

Day, J. J., Fages, A., Brown, K. J., Vreven, E. J., Stiassny, M. L. J., Bills, R., Friel, J. P. & Rüber, L. 2017. Multiple independent colonizations into the Congo Basin during the continental radiation of African Mastacembelus spiny eels. Journal of Biogeography, 44, 2308–2318, doi: 10.1111/jbi.13037.

Del Cortona, A., Leliaert, F., Bogaert, K. A., Turmel, M., Boedeker, C., Janouškovec, J., Lopez-Bautista, J. M., Verbruggen, H., Vandepoele, K. & De Clerck, O. 2017. The plastid genome in cladophorales green algae is encoded by hairpin chromosomes. Current Biology, 27, 3771-3782.e6, doi: 10.1016/j.cub.2017.11.004.

Duquette, A., McClintock, J. B., Amsler, C. D., Pérez-Huerta, A., Milazzo, M. & Hall-Spencer, J. M. 2017. Effects of ocean acidification on the shells of four Mediterranean gastropod species near a CO2 seep. Marine Pollution Bulletin, 124, 917–928, doi: 10.1016/j.marpolbul.2017.08.007.

Gannon, M. E., Pérez-Huerta, A., Aharon, P. & Street, S. C. 2017. A biomineralization study of the Indo-Pacific giant clam Tridacna gigas. Coral Reefs, 36, 503–517, doi: 10.1007/s00338-016-1538-5.

Halanych, K. M. & Kocot, K. M. 2017. Genome evolution: Shellfish genes. Nature Ecology & Evolution, 1, 0142, doi: 10.1038/s41559-017-0142.

Hall, M. R., Kocot, K. M., Baughman, K. W., Fernandez-Valverde, S. L., Gauthier, M. E. A., Hatleberg, W. L., Krishnan, A., McDougall, C., Motti, C. A., Shoguchi, E., Wang, T., Xiang, X., Zhao, M., Bose, U., Shinzato, C., Hisata, K., Fujie, M., Kanda, M., Cummins, S. F., Satoh, N., Degnan, S. M. & Degnan, B. M. 2017. The crown-of-thorns starfish genome as a guide for biocontrol of this coral reef pest. Nature, 544, 231–234, doi: 10.1038/nature22033.

Harkess, A., Zhou, J., Xu, C., Bowers, J. E., Van der Hulst, R., Ayyampalayam, S., Mercati, F., Riccardi, P., McKain, M. R., Kakrana, A., Tang, H., Ray, J., Groenendijk, J., Arikit, S., Mathioni, S. M., Nakano, M., Shan, H., Telgmann-Rauber, A., Kanno, A., Yue, Z., Chen, Haixin, Li, W., Chen, Y., Xu, X., Zhang, Y., Luo, S., Chen, Helong, Gao, J., Mao, Z., Pires, J. C., Luo, M., Kudrna, D., Wing, R. A., Meyers, B. C., Yi, K., Kong, H., Lavrijsen, P., Sunseri, F., Falavigna, A., Ye, Y., Leebens-Mack, J. H. & Chen, G. 2017. The asparagus genome sheds light on the origin and evolution of a young Y chromosome. Nature Communications, 8, 1279, doi: 10.1038/s41467-017-01064-8.

Knight, V. J. 2017. Database of portable representational indigenous art, Greater Antilles. In: Proceedings of the 26th Congress of the International Association of Caribbean Archaeology. St. Martin, Lesser Antilles, 38–51.

Knight, V. J. (ed.). 2017. X-Kukican: University of Alabama Investigations at a Maya site in Yucatán, Mexico, 1965-1969. Alabama Museum of Natural History, Bulletin, 34.

Knight, V. J., Lankford, G. E., Phillips, E., Dye, D. H., Steponaitis, V. P. & Childress, M. R. 2017. The Holly Bluff style. Southeastern Archaeology, 36, 195–213, doi: 10.1080/0734578X.2017.1286569.

Kocot, K. M. 2017. Introduction to the AMS Symposium “Phylogenomics of Mollusks,” 82 nd Annual Meeting of the American Malacological Society. American Malacological Bulletin, 35, 70–72, doi: 10.4003/006.035.0110.

Koontz, M. L. 2017. bad munster in couture [fashion sculpture]. Monster Makeover VIII. The Tuscaloosa News et al.

LaDu, D. A. & Brown, I. W. 2017. The sandstone grave markers of Greenwood Cemetery, Tuscaloosa, Alabama. Markers, 33, 50–81.

Li, Y., Kocot, K. M., Whelan, N. V., Santos, S. R., Waits, D. S., Thornhill, D. J. & Halanych, K. M. 2017. Phylogenomics of tubeworms (Siboglinidae, Annelida) and comparative performance of different reconstruction methods. Zoologica Scripta, 46, 200–213, doi: 10.1111/zsc.12201.

Marlow, Jeffrey, Borrelli, C., Jungbluth, S. P., Hoffman, C., Marlow, Jennifer, Girguis, P. R. & the AT-36 Team [incl. Kocot, K.]. 2017. Opinion: Telepresence is a potentially transformative tool for field science. Proceedings of the National Academy of Sciences, 114, 4841–4844, doi: 10.1073/pnas.1703514114.

Melton, J. T. & Lopez-Bautista, J. M. 2017. The chloroplast genome of the marine green macroalga Ulva fasciata Delile (Ulvophyceae, Chlorophyta). Mitochondrial DNA Part A, 28, 93–95, doi: 10.3109/19401736.2015.1110814.

Minton, R. L., Harris, P. M., North, E. & Tu, D. V. 2017. Diversity and taxonomy of Vietnamese Pollicaria (Gastropoda, Pupinidae). Zoosystematics and Evolution, 93, 95–104, doi: 10.3897/zse.93.10794.

Piteo, M. S., Kendrick, M. R. & Harris, P. M. 2017. Life history of Labidesthes vanhyningi (Atheriniformes: Atherinopsidae; Stout Silverside) in the Black Warrior River Drainage, Alabama. Southeastern Naturalist, 16, 451–463, doi: 10.1656/058.016.0311.

Schmidt, R. C., Bart, H. L., Pezold, F. & Friel, J. P. 2017. A biodiversity hotspot heats up: Nine new species of suckermouth catfishes (Mochokidae: Chiloglanis) from upper Guinean forest streams in West Africa. Copeia, 105, 301–338, doi: 10.1643/CI-16-474.

Smith, K. Y. & Knight, V. J. 2017. Swift Creek paddle designs and the imperative to be unique. Southeastern Archaeology, 36, 122–130, doi: 10.1080/0734578X.2016.1246342.

Tanner, A. R., Fuchs, D., Winkelmann, I. E., Gilbert, M. T. P., Pankey, M. S., Ribeiro, Â. M., Kocot, K. M., Halanych, K. M., Oakley, T. H., da Fonseca, R. R., Pisani, D. & Vinther, J. 2017. Molecular clocks indicate turnover and diversification of modern coleoid cephalopods during the Mesozoic Marine Revolution. Proceedings of the Royal Society B: Biological Sciences, 284, 20162818, doi: 10.1098/rspb.2016.2818.

Tennessen, K. J. & Abbott, J. C. 2017. Description of the nymph of Gomphurus gonzalezi (Odonata: Gomphidae). International Journal of Odonatology, 20, 201–208, doi: 10.1080/13887890.2017.1392905.

Voolstra, C. R., GIGA Community of Scientists (COS) [incl. Kocot, K.], Wörheide, G. & Lopez, J. V. 2017. Advancing genomics through the Global Invertebrate Genomics Alliance (GIGA). Invertebrate Systematics, 31, 1–7, doi: 10.1071/IS16059.

Whelan, N. V., Kocot, K. M., Moroz, T. P., Mukherjee, K., Williams, P., Paulay, G., Moroz, L. L. & Halanych, K. M. 2017. Ctenophore relationships and their placement as the sister group to all other animals. Nature Ecology & Evolution, 1, 1737–1746, doi: 10.1038/s41559-017-0331-3.

2016

Beshera, K. A., Harris, P. M. & Mayden, R. L. 2016. Novel evolutionary lineages in Labeobarbus (Cypriniformes; Cyprinidae) based on phylogenetic analyses of mtDNA sequences. Zootaxa, 4093, 363–381, doi: 10.11646/zootaxa.4093.3.4.

Brown, I. W. 2016. Marking Graves in Tuscaloosa County, Alabama: The Musings of a Teacher. Borgo Publishing, Tuscaloosa, 120 pp.

Cannon, J. T. & Kocot, K. M. 2016. Phylogenomics using transcriptome data. In: Bourlat, S. J. & Bourlat, S.J. (eds) Marine Genomics: Methods and Protocols, Methods in Molecular Biology. Springer New York, New York, Methods in Molecular Biology, 65–80, doi: 10.1007/978-1-4939-3774-5_4.

Carvalho, T. P., Lundberg, J. G., Baskin, J. N., Friel, J. P. & Reis, R. E. 2016. A new species of the blind and miniature genus Micromyzon Friel and Lundberg, 1996 (Silurifomes: Aspredinidae) from the Orinoco River: describing catfish diversity using high-resolution computed tomography. Proceedings of the Academy of Natural Sciences of Philadelphia, 165, 37–53, doi: 10.1635/053.165.0104.

Clark, J. V., Pérez-Huerta, A., Gillikin, D. P., Aldridge, A. E., Reolid, M. & Endo, K. 2016. Determination of paleoseasonality of fossil brachiopods using shell spiral deviations and chemical proxies. Palaeoworld, 25, 662–674, doi: 10.1016/j.palwor.2016.05.010.

Coronado, I., Pérez-Huerta, A. & Rodríguez, S. 2016. Analogous biomineralization processes between the fossil coral Calceola sandalina (Rugosa, Devonian) and other Recent and fossil cnidarians. Journal of Structural Biology, 196, 173–186, doi: 10.1016/j.jsb.2016.06.013.

Ehret, D. J. 2016. Rediscovery of the type series of the Carboniferous ichnospecies Attenosaurus subulensis (Aldrich in Aldrich & Jones, 1930) and Cincosaurus cobbi (Aldrich in Aldrich & Jones, 1930) with comments on the designation of neotypes. The Bulletin of Zoological Nomenclature, 73, 77–80, doi: 10.21805/bzn.v73i1.a4.

Friel, J. P. & Carvalho, T. P. 2016. A new species of Amaralia Fowler (Siluriformes: Aspredinidae) from the Paraná-Paraguay River Basin. Zootaxa, 4088, 531–546, doi: 10.11646/zootaxa.4088.4.4.

Garrison, N. L., Rodriguez, J., Agnarsson, I., Coddington, J. A., Griswold, C. E., Hamilton, C. A., Hedin, M., Kocot, K. M., Ledford, J. M. & Bond, J. E. 2016. Spider phylogenomics: Untangling the spider tree of life. PeerJ, 4, e1719, doi: 10.7717/peerj.1719.

Halanych, K. M., Whelan, N. V., Kocot, K. M., Kohn, A. B. & Moroz, L. L. 2016. Miscues misplace sponges. Proceedings of the National Academy of Sciences, 113, E946–E947, doi: 10.1073/pnas.1525332113.

Harrell, T. L., Pérez-Huerta, A. & Suarez, C. A. 2016. Endothermic mosasaurs? Possible thermoregulation of Late Cretaceous mosasaurs (Reptilia, Squamata) indicated by stable oxygen isotopes in fossil bioapatite in comparison with coeval marine fish and pelagic seabirds. Palaeontology, 59, 351–363, doi: 10.1111/pala.12240.

Harrell, T. L., Pérez-Huerta, A. & Phillips, G. 2016. Strontium isotope age-dating of fossil shark tooth enameloid from the Upper Cretaceous Strata of Alabama and Mississippi, USA. Cretaceous Research, 62, 1–12, doi: 10.1016/j.cretres.2016.01.011.

Hu, Z.-M., Duan, D.-L. & Lopez-Bautista, J. 2016. Seaweed phylogeography from 1994 to 2014: An overview. In: Hu, Z.-M. & Fraser, C. (eds) Seaweed Phylogeography. Springer Netherlands, Dordrecht, 3–22., doi: 10.1007/978-94-017-7534-2_1.

Jacobi, K. 2016. Cadaver detection in forensic anthropology and criminology: An overview with personal notes. In: Jezierski, T., Ensminger, J. & Papet, L. E. (eds) Canine Olfaction Science and Law: Advances in Forensics, Medicine, Conservation and Environmental Remediation. CRC Press, Boca Raton, 247–260.

Kocot, K. M. 2016. On 20 years of Lophotrochozoa. Organisms Diversity & Evolution, 16, 329–343, doi: 10.1007/s13127-015-0261-3.

Kocot, K. M., McDougall, C. & Degnan, B. M. 2016. Developing perspectives on molluscan shells, part 1: Introduction and molecular biology. In: Saleuddin, S. & Mukai, S. (eds) Physiology of Molluscs Volume 1: A Collection of Selected Reviews. Apple Academic Press, Oakville, 1–41.

Kocot, K. M., Struck, T. H., Merkel, J., Waits, D. S., Todt, C., Brannock, P. M., Weese, D. A., Cannon, J. T., Moroz, L. L., Lieb, B. & Halanych, K. M. 2016. Phylogenomics of Lophotrochozoa with consideration of systematic error. Systematic Biology, 66, 256–282, doi: 10.1093/sysbio/syw079.

Kocot, K. M., Aguilera, F., McDougall, C., Jackson, D. J. & Degnan, B. M. 2016. Sea shell diversity and rapidly evolving secretomes: insights into the evolution of biomineralization. Frontiers in Zoology, 13, 23, doi: 10.1186/s12983-016-0155-z.

Koontz, M. L. 2016. An accelerated initiatory learning experience for undergraduate students in an apparel design portfolio class. The International Journal of Design Education, 10, 9–23, doi: 10.18848/2325-128X/CGP/v10i04/9-23.

Koontz, M. L. 2016. Green-eyed fashion envy [Illustration]. Envy. Jennifer Nicole Wells et al. Jacksonville. Fēlan: poetry & visual arts, 1(8), 5.

Koontz, M. L. 2016. Issie’s yo-yo [garment]. Monster Makeover VII. The Tuscaloosa News et al. Tuscaloosa.

Lam, D. W. & Lopez-Bautista, J. M. 2016. Complete chloroplast genome for Caulerpa racemosa (Bryopsidales, Chlorophyta) and comparative analyses of siphonous green seaweed plastomes. Cymbella, 2, 23–32.

Leliaert, F., Tronholm, A., Lemieux, C., Turmel, M., DePriest, M. S., Bhattacharya, D., Karol, K. G., Fredericq, S., Zechman, F. W. & Lopez-Bautista, J. M. 2016. Chloroplast phylogenomic analyses reveal the deepest-branching lineage of the Chlorophyta, Palmophyllophyceae class. nov. Scientific Reports, 6, 25367, doi: 10.1038/srep25367.

Melton III, J., Collado-Vides, L. & Lopez-Bautista, J. 2016. Molecular identification and nutrient analysis of the green tide species Ulva ohnoi M. Hiraoka & S. Shimada, 2004 (Ulvophyceae, Chlorophyta), a new report and likely nonnative species in the Gulf of Mexico and Atlantic Florida, USA. Aquatic Invasions, 11, 225–237, doi: 10.3391/ai.2016.11.3.01.

Melton III, J. T., García-Soto, G. C. & López-Bautista, J. M. 2016. A new record of the bloom-forming green algal species Ulva ohnoi (Ulvales, Chlorophyta) in the Caribbean Sea. Revista Chilena de Historia Natural, 85, 495–502.

Melton, J. T. & Lopez-Bautista, J. M. 2016. De novo assembly of the mitochondrial genome of Ulva fasciata Delile (Ulvophyceae, Chlorophyta), a distromatic blade-forming green macroalga. Mitochondrial DNA Part A, 27, 3817–3819, doi: 10.3109/19401736.2015.1082095.

Panakhyo, M. & Jacobi, K. 2016. Limited circumstances: Creating a better understanding of prehistoric peoples through the reanalysis of collections of commingled human remains. In: Osterholtz, A. J. (ed.) Theoretical Approaches to Analysis and Interpretation of Commingled Human Remains. Springer, New York, 75–96.

Pérez-Huerta, A. & Dauphin, Y. 2016. Comparison of the structure, crystallography and composition of eggshells of the guinea fowl and graylag goose. Zoology, 119, 52–63, doi: 10.1016/j.zool.2015.11.002.

Pérez-Huerta, A., Laiginhas, F., Reinhard, D. A., Prosa, T. J. & Martens, R. L. 2016. Atom probe tomography (APT) of carbonate minerals. Micron, 80, 83–89, doi: 10.1016/j.micron.2015.10.001.

Stöger, I., Kocot, K. M., Poustka, A. J., Wilson, N. G., Ivanov, D., Halanych, K. M. & Schrödl, M. 2016. Monoplacophoran mitochondrial genomes: Convergent gene arrangements and little phylogenetic signal. BMC Evolutionary Biology, 16, 274, doi: 10.1186/s12862-016-0829-3.

Ward, G. M., Ward, A. K. & Maistre, A. 2016. Hydrology and water quality in the Mobile-Tensaw delta. In: Waselkov, G. A., Andrus, C. F. & Plumb, G. E. (eds) A State of Knowledge of the Natural, Cultural, and Economic Resources of the Greater Mobile-Tensaw River Area. Natural Resource Report NPS/NRSS/BRD/ NRR—2016/1243. Biological Resources Division, National Park Service, Fort Collins, Colorado, 19–25.

Žigaitė, Ž., Fadel, A., Pérez-Huerta, A., Jeffries, T., Goujet, D. & Ahlberg, P. E. 2016. Paleoenvironments revealed by rare-earth element systematics in vertebrate bioapatite from the Lower Devonian of Svalbard Jin, J. (ed.). Canadian Journal of Earth Sciences, 53, 788–794, doi: 10.1139/cjes-2015-0206.

Note: Publications listed here are restricted to those from the Department of Museum Research and Collections staff including UA faculty Curators and Research Associates using the UA Museums / Alabama Museum of Natural History affiliation.