2001

• McGuire, J.A. & Kiew, B.H. 2001. Phylogenetic systematics of Southeast Asian flying lizards (Iguania: Agamidae Draco) as inferred from mitochondrial DNA sequence data. Biological Journal of the Linnean Society 72(2): 203–229. DOI: j.1095-8312.2001.tb01312.x Reference page. 

2007

• McGuire, J.A., Witt, C.C., Altshuler, D.L. & Remsen, Jr., J.V. 2007. Phylogenetic systematics and biogeography of hummingbirds: Bayesian and Maximum Likelihood analyses of partitioned data and selection of an appropriate partitioning strategy. Systematic Biology 56(5):837–856. Full article (PDF)Reference page. 

2008

• Devitt, T.J., LaDuc, T.J. & McGuire, J.A. 2008. The Trimorphodon biscutatus (Squamata: Colubridae) Species Complex Revisited: A Multivariate Statistical Analysis of Geographic Variation. Copeia 2008(2): 370-387. DOI: 10.1643/CH-07-045 Reference page. 

• McGuire, J.A., Witt, C.C., Remsen, Jr., J.V., Dudley, R. & Altshuler, D.L. 2008. A higher-level taxonomy for hummingbirds. Journal of Ornithology 150:155–165. DOI: 10.1007/s10336-008-0330-x Full article (PDF)Reference page. 

2013

• Grismer, L.L., Wood, Jr., P.L., Anuar Mohd Sah, S., Muin, M.A., Quah, E.S.H., McGuire, J.A., Brown, R.M., Ngo, V.T. & Thai, P.H. 2013. Integrative taxonomy uncovers high levels of cryptic species diversity in Hemiphyllodactylus Bleeker, 1860 (Squamata: Gekkonidae) and the description of a new species from Peninsular Malaysia. Zoological Journal of the Linnean Society 169(4): 849–880. DOI: 10.1111/zoj.12064 Reference page. 

2014

• Mcguire, J.A., Witt, C.C., Remsen, Jr., J.V., Corl, A., Rabosky, D.L., Altshuler, D.L. & Dudley, R. 2014. Molecular phylogenetics and the diversification of Hummingbirds. Current Biology 24: 910–916. DOI: 10.1016/j.cub.2014.03.016 Full article PDF and ErratumReference page. 

2015

• Remsen, J. V., Jr., Stiles, F. & McGuire, J. A. (2015). Classification of the Polytminae (Aves: Trochilidae). Zootaxa 3957(1): 143–150. DOI: 10.11646/zootaxa.3957.1.13 . Full article (PDF) Reference page. 

• Amarasinghe, A.A.T., Vogel, G., McGuire, J.A., Sidik, I., Supriatna, J. & Ineich, I. 2015. Description of a Second Species of the Genus Rabdion Duméril, Bibron & Duméril, 1854 (Colubridae: Calamariinae) from Sulawesi, Indonesia. Herpetologica 71(3): 234–239. DOI: 10.1655/HERPETOLOGICA-D-14-00058 Reference page. 

2017

• Iskandar, D.T., McGuire, J.A. & Amarasingue, A.A.T. 2017. Description of Five New Day Geckos of Cnemaspis kandiana Group (Sauria: Gekkonidae) from Sumatra and Mentawai Archipelago, Indonesia. Journal of Herpetology 51(1): 142–153. DOI: 10.1670/15-047 Reference page. 

• Riyanto, A., Mulyadi, McGuire, J.A., Kusrini, M.D., Febylasmia, Basyir, I.H. & Kaiser, H. 2017. A new small bent-toed gecko of the genus Cyrtodactylus (Squamata: Gekkonidae) from the lower slopes of Mount Tambora, Sumbawa Island, Indonesia. Zootaxa 4242(3): 517–528. DOI: 10.11646/zootaxa.4242.3.5 . Reference page. 

• Stiles, F.G., Remsen, J.V., Jr. & McGuire, J.A. 2017. The generic classification of the Trochilini (Aves: Trochilidae): Reconciling taxonomy with phylogeny. Zootaxa 4353(3): 401–424. DOI: 10.11646/zootaxa.4353.3.1 . Reference page. 

• Stubbs, A.L., Karin, B.R., Arifin, U., Iskandar, D.T., Arida, E., Reilly, S.B., Block, L.M., Kusnadi, A. & McGuire, J.A. 2017. A new species of Lepidodactylus (Reptilia: Squamata: Gekkonidae) from the Kei Islands, Maluku, Indonesia. Zootaxa 4350(1): 91–105. DOI: 10.11646/zootaxa.4350.1.5 Reference page.