Below you can find full text of all my peer-reviewed publications, technical reports, and preprints still under review.
You can also find summaries for selected publications on my Research Pages.

For the most up-to-date publication lists, you can check my profiles on:
ResearchGate
GoogleScholar
PREPRINTS (Under Review)
  • Shapiro, J.T., Zorea, A., Brown Kav, A., Ontiveros, V.J., Mizrahi, I., Pilosof, S. 2022. Multilayer Networks of Plasmid Genetic Similarity Reveal Potential Pathways of Gene Transmission. bioRxiv. https://doi.org/10.1101/2022.09.08.507140 ​
  • Rasigade, J.P., Barray, A., Shapiro, J.T., Coquisart, C., Vigouroux, Y., Bal, A., Destras, G., Vanhems, P., Lina, B., Josset, L., Wirth, T. 2020. SARS-CoV-2 phylodynamics differentiates the effectiveness of non-pharmaceutical interventions. medRxiv. https://doi.org/10.1101/2020.08.24.20180927 (PDF)

PEER-REVIEWED ARTICLES
2022
  • Steigerwald, E., Ramírez-Castañeda, V., Brandt, D.Y.C.,, Báldi, A., Shapiro, J.T., Bowker, L., Tarvin, R.D. 2022. Overcoming language barriers in academia: Machine translation tools and a vision for a multilingual future. BioScience. 72: 988–998. https://doi.org/10.1093/biosci/biac062 (PDF)
  • Kauffman, K., Werner, C.S., Titcomb, G., Pender, M., Rabezara, J.Y., Herrera, J.P., Shapiro, J.T., Solis, A., Soarimalala, V., Tortosa, P., Kramer, R., Moody, J., Mucha, P.J., Nunn, C. 2022. Comparing transmission potential networks based on social network surveys, close contacts and environmental overlap in rural Madagascar. Journal of the Royal Society Interface. 19: 20210690. http://doi.org/10.1098/rsif.2021.0690 (PDF)
2021
  • Shapiro, J.T., Mollerup, S., Jensen, R.H., Olofsson, J.K., Nguyen, N.D., Hansen, T.A., Vinner, L., Monadjem, A., McCleery, R.A., Hansen, A.J. 2021. Metagenomic analysis reveals previously undescribed bat coronavirus strains in Eswatini. EcoHealth. 18. https://doi.org/10.1007/s10393-021-01567-3 (PDF)
  • Simelane, P., Shapiro, J.T., Mahlaba, T.A.M., McCleery, R.M., MacFadyen D.N., Monadjem, A. 2021. The foraging ecology of Nguni and Brahman cattle under different management systems in high-altitude grasslands of South Africa. Journal of Rangeland Science. 11: 300 – 307. www.rangeland.ir/article_679210.html (PDF)
  • Shapiro, J.T., Víquez-R, L., Leopardi, S., Vicente-Santos, A., Mendenhall, I.H., Frick, W.F., Kading, R.C., Medellín, R.A., Racey, P., Kingston, T. 2021. Setting the Terms for Zoonotic Diseases: Effective Communication for Research, Conservation, and Public Policy. Viruses 13:1356. https://doi.org/10.3390/v13071356. (PDF)
  • Shapiro, J.T., Stanton, R.A., McCleery, R.A., Monadjem, A. 2021. A scale for quantifying behavior based on aggressiveness in bats. Journal of Bat Research and Conservation 14: 5 – 13. http://dx.doi.org/10.14709/BarbJ.14.1.2021.02. ​(PDF)
  • Lukhele, S.M., Shapiro, J.T., Mahlaba, T.A.M., Sibiya, M.D., McCleery, R.A., Fletcher, R.J., Monadjem, A. 2021. Influence of sugarcane growth stages on bird diversity and community structure in an agricultural-savanna environment. Heliyon.7: e06563. https://doi.org/10.1016/j.heliyon.2021.e06563 (PDF)
  • Monadjem, A., Simelane, F., Shapiro, J.T., Gumbi, B.C., Mamba, M.L., Sibiya, M.D., Lukhele, S., Mahlba, T.A.M. 2021. Using species distribution models to gauge the completeness of the bat checklist of Eswatini. European Journal of Wildlife Research. 67: 21. https://doi.org/10.1007/s10344-021-01463-9 (PDF)

2020
  • Shapiro, J.T., Leboucher, G., Myard-Dury, A.F., Girardo, P., Luzatti, A., Mary, M., Sauzon, J.F., Lafay, B., Dauwalder, O., Laurent, F., Lina, G., Chidiac, C., Couray-Targe, S., Vandenesch, F., Flandrois, J.P., Rasigade, J.P. 2020. Metapopulation ecology links antibiotic resistance, consumption and patient transfers in a network of hospital wards. eLife. 9: e54795. https://doi.org/10.7554/eLife.54795  (PDF)
  • Shapiro, J.T., Sovie, A.R., Faller, C.R., Monadjem, A., Fletcher, R.J., McCleery, R.A. 2020. Ebola spillover correlates with bat diversity. European Journal of Wildlife Research. 66: 12. https://doi.org/10.1007/s10344-019-1346-7 (PDF)
  • Shapiro, J.T., Monadjem, A., Roder, T., McCleery, R.A. 2020. Response of bat activity to land-cover and land-use change in savannas is scale-, season-, and guild-specific.  Biological Conservation 241: 108245. https://doi.org/10.1016/j.biocon.2019.108245 (PDF)

2019
  • Monadjem, A., Shapiro, J.T., Richards, L.R., Karabulut, H., Crawley, W., Nielsen, I.B., Hansen, A., Bohmann, K., Mourier, T. 2019. Systematics of West African Miniopterus with the description of a new species. Acta Chiropterologica 21: 237 – 256. https://doi.org/10.3161/15081109ACC2019.21.2.001 (PDF)

​2018
2017
  • Stanton, R., Shapiro, J.T., Laskowski, J., McCleery, R.A. 2017. Dynamic figures should be a central feature of scientific articles. Frontiers in Ecology and the Environment 15: 427 – 428. https://doi.org/10.1002/fee.1532  (PDF)
  • Monadjem, A., Shapiro, J.T., F. Mtsetfwa, A.E. Reside, R.A. McCleery. 2017. Acoustic call library and detection distances for bats of north-eastern Swaziland. Acta Chiropterologica 19: 175 – 187. http://dx.doi.org/10.3161/15081109ACC2017.19.1.014 (PDF)
  • Metzdorf, I.P., Lima Junior, M.S.C., Matos, M.F.C., Souza Filho, A.F., de Souza Tsujisaki, R.S., Franco, K.G., Shapiro, J.T., de Almeida Borges, F. 2017. "Molecular characterization of Leishmania infantum in domestic cats in a region of Brazil endemic for human and canine visceral leishmaniasis." Acta Tropica 166: 121 - 125. http://dx.doi.org/10.1016/j.actatropica.2016.11.013 (PDF)
​
2016
  • Shapiro, J.T., Barbier, E., Monadjem, A. 2016. First record of Streblidae, Raymondia alulata Speiser (Diptera: Streblidae), in Swaziland and a review of the genus Raymondia and their hosts in Africa. Acta Chiropterologica 18: 249 – 268. http://dx.doi.org/10.3161/15081109ACC2016.18.1.015 (PDF)
  • Novaes, R.L.M., Souza, R.F., Felix, S., Siqueira, A.C., Laurindo, R.S., Shapiro, J.T. 2016. Seasonality and habitat influence on bat assemblage structure in an urban Atlantic Forest remnant from Southeastern Brazil. Mammalia 81: 265 – 274. https://doi.org/10.1515/mammalia-2015-0115 (PDF)

2015
  • Shapiro, J.T., dos Santos, T.M.R., Marchetti, C.R., Bordignon, M.O. 2015. Characterization of fungi associated with the nasal hairs of Molossid bats (Gervais 1856), Mato Grosso do Sul, Southwest Brazil. Fungal Ecology 18:126 -29. http://dx.doi.org/10.1016/j.funeco.2015.06.005 (PDF)
  • Fenesi, A., Vagasi, C.I., Beldean, M., Foldesi, R., Kolcsar, L.P., Shapiro, J.T., Török, E., Kovacs-Hostyanszki, A. 2015. Solidago canadensis impacts on native plant and pollinator communities in different-aged old-fields. Basic and Applied Ecology 16: 335 – 346. http://dx.doi.org/10.1016/j.baae.2015.03.003​ (PDF)

2014
2013
  • Shapiro, J.T., Lima Junior, M.S.C., Dorval, M.E.C., França, A.O., Matos, M.C.F, Bordignon, M.O. 2013. First record of Leishmania braziliensispresence detected in bats, Mato Grosso do Sul, southwest Brazil. Acta Tropica 128: 171-174. http://dx.doi.org/10.1016/j.actatropica.2013.07.004 (PDF) 
  • dos Santos, T.M.R., Shapiro, J.T, Shibuya, P.S., Aoki, C. 2013. Observation of Trigona recursa Smith (Hymenoptera: Apidae) feeding on Crotalaria micans Link (Fabaceae: Faboideae) in a Brazilian savanna fragment. Sociobiology 60: 210-213. http://dx.doi.org/10.13102/sociobiology.v60i2.210-213 (PDF) 
  • Baldi, A., Shapiro, J.T. 2013. A reply to Sólymos et al. Frontiers in Ecology and the Environment 11: 179-180. http://dx.doi.org/10.1890/13.WB.011 (PDF)

​2010 - 2012
  • Shapiro, J.T., Baldi, A. 2012. Lost locations and the (ir) repeatability of ecological studies. Frontiers in Ecology and the Environment 10: 235-236. http://dx.doi:10.1890/12.WB.015 (PDF)
  • Shapiro, J.T., Pringle, A. 2010. Anthropogenic influences on the diversity of fungi isolated from caves in Kentucky and Tennessee. American Midland Naturalist 163: 76-86. http://dx.doi.org/10.1674/0003-0031-163.1.76​ (PDF)

TECHNICAL REPORTS
  • Shapiro, J.T., Izdebski, A., Tchouaffe Tchiadje, N., Abd Farag, E., Caron, A., Christie, A., Cunningham, A., Fernandez, M., Jagadesh, S., Lajaunie, C., Turan, H.M., Wall, K. 2022. Eklipse Expert Working Group on Biodiversity and Pandemics Methods Protocol (PDF)
  • Frick, W.F., Kingston, K., Leopardi, S., Medellín, R., Mendenhall, I.H., Racey, P., Shapiro, J.T., Vicente-Santos, A., Víquez-R, L., Worledge, L. 2021. IUCN SSC Bat Specialist Group (BSG) recommendations to reduce the risk of transmission of SARS-CoV-2 from humans to bats by cavers. Version 2.0, MAP: Minimize, Assess, Protect. (PDF)
  • ​Kingston, K., Frick, W.F., Kading, R., Leopardi, S., Medellín, R., Mendenhall, I.H., Racey, P., Shapiro, J.T., Vicente-Santos, A., Víquez-R, L., Worledge, L. 2021. IUCN SSC Bat Specialist Group (BSG) Recommended Strategy for Researchers to Reduce the Risk of Transmission of SARS-CoV-2 from Humans to Bats. Version 2.0, AMP: Assess, Modify, Protect. (PDF)
  • Jolliffe, T., Kepel, A., Kingston, Leopardi, S., T., Mclean, J., Mendenhall, I.H., Parsons, S., Russo, D., Shapiro, J.T., Víquez-R, L., Worledge, L. IUCN SSC Bat Specialist Group (BSG) recommendations to reduce the risk of transmission of SARS CoV-2 from humans to bats in bat rescue and rehabilitation centers. MAP: Minimize Assess, Protect. Version 2.0. 2021. (PDF)
  • Gómez Estrada, L.B., Kading. R., Kingston, T., Mandl, I., Medellin, R., Parsons, S., Russo, D., Shapiro, J.T., Tec Pool, F., Tiburcio Sánchez, I., Vicente-Santos, A., Worledge, L. 2020. IUCN SSC Bat Specialist Group (BSG) recommendations to reduce the risk of transmission of SARS-CoV-2 from humans to bats by cavers. IUCN Bat Specialist Group. Archived, available on request
  • Jolliffe, T., Kepel, A., Kingston, T., Mclean, J., Parsons, S., Russo, D., Shapiro, J.T., Worledge, L. IUCN SSC Bat Specialist Group (BSG) recommendations to reduce the risk of transmission of SARS CoV-2 from humans to bats in bat rescue and rehabilitation centers. 2020. Archived, available on request
  • Botto Nuñez, G., Cunningham, A., Bakwo Fils, E.M., Frick, W., Islam, N., Jolliffe, T., Kading, R., Kepel, A., Kingston, T., Leopardi, S., Medellín, R., Mendenhall, I., Parsons, S., Racey, P., Russo, D., Shapiro, J.T.,
    Vicente-Santos, A., Víquez-R, L., Dinh, T.V. 2020. IUCN SSC Bat Specialist Group (BSG) Recommended Strategy for Researchers to Reduce the Risk of Transmission of SARS-CoV-2 from Humans to Bats. (PDF)
  • Shapiro, J., Cooper-Bohannon, R., Jacobs, D., Cotterill, F.P.D., Taylor, P.J. 2020. Rhinolophus deckenii. The IUCN Red List of Threatened Species 2020: e.T19537A21979537. https://dx.doi.org/10.2305/IUCN.UK.2020-2.RLTS.T19537A21979537.en (PDF)
  • Shapiro, J. and Cooper-Bohannon, R. 2020. Rhinolophus guineensis. The IUCN Red List of Threatened Species 2020: e.T19542A21980043. https://dx.doi.org/10.2305/IUCN.UK.2020-2.RLTS.T19542A21980043.en (PDF) ​
  • Shapiro, J., Cooper-Bohannon, R., Fahr, J. 2019. Rhinolophus maclaudi. The IUCN Red List of Threatened Species 2019: e.T19549A21978925. https://dx.doi.org/10.2305/IUCN.UK.2019-3.RLTS.T19549A21978925.en (PDF) (Link)
  • Shapiro, J.T. 2017. Mops bakarii. The IUCN Red List of Threatened Species 2017: e.T67363010A67363012.  http://dx.doi.org/10.2305/IUCN.UK.2017-2.RLTS.T67363010A67363012.en (PDF) (Link)
  • Monadjem, A., Shapiro, J.T. 2017. Hipposideros tephrus. The IUCN Red List of Threatened Species 2017: e.T85646524A85646528  http://dx.doi.org/10.2305/IUCN.UK.2017-2.RLTS.T85646524A85646528.en (PDF) (Link)
  • Monadjem, A., Shapiro, J.T. 2017. Triaenops afer. The IUCN Red List of Threatened Species 2017: e.T81081036A95642225 http://dx.doi.org/10.2305/IUCN.UK.2017-2.RLTS.T81081036A95642225.en (PDF) (Link)

BOOK CHAPTERS
  • McCleery, R.A., Shapiro, J.T., Bailey, K., Frazer, T. 2019. Getting involved: advice from students and professionals. In International Wildlife: A Global Perspective. Eds. John L. Koprowski, Paul R. Krausman, Dun Wang. Baltimore, MD: Johns Hopkins University Press. https://tinyurl.com/skkbw5mc 

POPULAR ARTICLES