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Selected Publications

Eppley T, Hoeks S, Chapman C, Ganzhorn J, Hall S, Owen M, Adams D, Allgas N, Amato K, Andriamahaihavana M, Aristizabal J, Baden A, Balestri M, Barnett A, Bicca-Marquez J, Bowler M, Boyle S, Brown M, Caillaud D, Calegaro-Marques C, Campbell C, Campera M, Campos F, Cardoso T, Carretero-Pinzón X, Champion J, Chaves O, Chen-Kraus C, Colquhoun I, Dean B, Dubreuil C, Ellis K, Erhart E, Evans K, Fedigan L, Felton A, Ferreira R, Fichtel C, Fonseca M, Fontes I, Fontes V, Fumian I, Gibson D, Guzzo G, Hartwell K, Heymann E, Hilário R, Holmes S, Irwin M, Johnson S, et al. 2022. Factors favoring transitions to terrestriality in primates of Madagascar and the Americas. Proceedings of the National Academy of Sciences of the USA 119(42):e2121105119. 

Gorczynski  D, Hsieh C, Ahumada J, Akampurira E, Andrianarisoa M, Espinosa S, Johnson S, Kayijamahe C, Lima M, Mugerwa B, Rovero F, Salvador J, Santos F, Sheil D, Uzabaho E, and Beudrot L. 2022. Human density modulates spatial associations among tropical forest terrestrial mammal species. Global Change Biology 28(24):7205-7216.

Estrada A, Garber P, Gouveia S, Fernández-Llamazares A, Ascensão F, Fuentes A, Garnett S, Shaffer C, Bicca-Marques J, Fa J, Hockings K, Shanee S, Johnson SE Shepard G, Shanee N, Golden C, Cárdenas-Navarrete A, Levey D, Boonratana R, Dobrovolksi R, Chaudhary A, Ratsimbazafy J, Supriatna J, Kone I, Volampeno S. 2022. Global importance of Indigenous Peoples their lands and knowledge systems for saving the world's primates from extinction. Science Advances 32(8):1-19.

Wampole EM, Gerber BD, Farris ZJ, Razafimahaimodison JC, Andrianarisoa MH, Ralazampirenena CJ, Wright PC, Rasamisoa CD, Gibson D, Tobler MW, Eppley TM, Vasey N, Johnson SE, Filla C, Valenta K, Ross P, Murphy A, Karpanty SM, Kelly MJ, Anderson C, Cardinal C, Donati G, Razafy P, Rafaliarison T, Rasambainarivo F, Razafindramanana J, Merson SD, and Larney E. 2022. Madagascar Terrestrial Camera Survey Database 2021: A collation of protected forest camera surveys from 2007–2021. Ecology 103: e3687.

McManus N, Holmes SM, Louis Jr. EE, Johnson SE, Baden AL, and Amato KR. 2021. The gut microbiome as an indicator of habitat disturbance in a Critically Endangered lemur. BMC Ecology and Evolution 21:222.

Borgerson C*, Johnson SE*, Hall E, Brown KA, Narváez-Torres PR, Rasolofoniaina BJR, Razafindrapaoly BN, Merson SD, Thompson KET, Holmes SM, Louis Jr. EE, and Golden CD. 2021 A national-level assessment of lemur hunting pressure in Madagascar. International Journal of Primatology 43:92-113. *Contributed equally

Chen DM, Narváez-Torres PR, Tiafinjaka O, Farris ZJ, Rasoloharijaona S, Louis Jr. EE, and Johnson SE. 2021. Lemur paparazzi: arboreal camera trapping and occupancy modeling as conservation tools for monitoring threatened lemur species. American Journal of Primatology 87: e23270.

Melin AD, Orkin JD,  Mareike CJ,  Valenzuela A, Kuderna L, Marrone F, Ramangason H, Horvath JE, Roos C, Kitchener AC, Khor CC, Lim WK, Lee JGH, Tan P, Umapathy G, Raveendran M, Harris A, Gut I, Gut M, Lizano E, Nadler T, Zinner D, Le MD, Manu S, Rabarivola C, Zaramody A, Andriaholinirina N, Johnson SE, Jarvis ED, Fedrigo O, Wu D, Zhang G, Farh KK, Rogers J, Marques-Bonet T, Navarro A, Juan D, Arora PS, and Higham JP. 2021. Variation in predicted COVID‐19 risk among lemurs and lorises. American Journal of Primatology 83:e23255.

Gorczynski D, Hsieh C, Luciano JT, Ahumada J, Espinosa S, Johnson SE, Rovero F, Santos F, Andrianarisoa MH, Astaiza JH, Jansen PA, Kayijamahe C, Moreira Lima MG, Salvador J, and Beaudrot L. 2021. Tropical mammal functional diversity increases with productivity but decreases with anthropogenic disturbance. Proceedings of the Royal Society B: Biological Sciences 288: 20202098.

Junker J, Petrovan SO, Arroyo-RodrÍguez V, Boonratana R, Byler D, Chapman,CA, Chetry D, Cheyne SM, Cornejo FM, Cortés-Ortiz L, Cowlishaw G, Christie AP, Crockford C, de la Torre S, De Melo FR, Fan P, Grueter CC, Guzmán-Caro DC, Heymann EW, Herbinger I, Hoang MD, Horwich RH, Humle T, Ikemeh RA, Imong IS, Jerusalinsky L, Johnson SE, Kappeler PM, Kierulff  MCM, Koné I, Kormos R, Le KQ, Li B, Marshall AJ, Meijaard E, Mittermeier RA, Muroyama Y, Neugebauer E, Orth L, Palacios E, Papworth SK, Plumptre AJ, Rawson BM, Refisch J, Ratsimbazafy J, Roos C, Setchell JM, Smith RK, Sop T, Schwitzer C, Slater K, Strum SC, Sutherland WJ, Talebi M, Wallis J, Wich S, Williamson EA, Wittig RM, and Kühl HS. 2020. A severe lack of evidence limits effective conservation of the world's primates. BioScience 70:794-803.


Ramananjato V, Rakotomalala Z, Park DS, DeSisto CMM, Raoelinjanakolona NN, Guthrie NK, Fenosoa ZOES, Johnson SE, and Razafindratsima OH. 2020. The role of nocturnal omnivorous lemurs as seed dispersers in Malagasy rainforests. Biotropica 52:758-765.

Morelli TL, Smith AB, Mancini AN, Balko EA, Borgerson C, Dolch R, Farris Z, Sarah Federman S, Golden CD, Holmes SM, Irwin MT, Jacobs RL, Johnson SE, King T, Lehman SM, Louis EE, Murphy A, Randriahaingo HNT, Randrianarimanana HLL, Ratsimbazafy J, Razafindratsima OH, and

Baden AL. 2019. The fate of Madagascar’s rainforest habitat. Nature Climate Change 10:89-96. link

Baden AL, Mancini AN, Federman S, Holmes SM, Johnson SE, Kamilar J, Louis EE, and Bradley BJ. 2019. Anthropogenic pressures drive population genetic structuring across a Critically Endangered lemur species range. Scientific Reports 9:16276. link

Holmes SM, Louis EE, and Johnson SE. In press. Range overlap and spatiotemporal relationships of frugivorous lemurs at Kianjavato, Madagascar. Animal Behaviour. Animal Behaviour 155:53-65. link

Holmes SM, Louis EE, and Johnson SE. 2019. Lemurs in fragmented forests: A conservation and research collaboration. In Behie A, Teichroeb J, and Malone N, editors. Primate Research and Conservation in the Anthropocene (Cambridge Studies in Biological and Evolutionary Anthropology). Cambridge: Cambridge University Press. p 165-181.


Borgerson C, Johnson SE, Louis EE, Holmes SM, Anjaranirina EJG, Randriamady HJ, and Golden CD. 2018. The use of natural resources to improve household income, health, and nutrition within the forests of Kianjavato, Madagascar. Madagascar Conservation and Development 13:45-52. link


Herrera JP, Borgerson C, Tongasoa L, Andriamahazoarivosoa P, Rasolofoniaina BJR, Rakotondrafarasata ER, Randrianasolo JLRR, Johnson SE, Wright PC, and Golden CD. 2018. Estimating the population size of lemurs based on their mutualistic food trees. Journal of Biogeography 45:2546-2563. link.


Johnson SE, and Brown KA. 2018. The specialist capuchin? Using ecological niche models to compare niche breadth in Mesoamerican primates. In:

Kalbitzer U, and Jack KM, editors. Primate Life Histories, Sex Roles, and Adaptability: Essays in Honour of Linda M Fedigan. Cham: Springer International Publishing. p 311-329.


Aylward ML, Sullivan AP, Perry GH, Johnson SE, and Louis EE. 2018. An environmental DNA (eDNA) sampling method for aye-ayes from their feeding traces. Ecology and Evolution 8:9229-9240. link.


Estrada A, Garber PA, Mittermeier RA, Wich S, Gouveia S, Dobrovilski R, A. NK, Nijman V, Rylands AB, Maisels F, Williamson EA, Bicca-Marques JC, Fuentes A, Jerusalinsky L, Johnson SE, Rodrigues de Melo F, Oliveira L, Schwitzer C, Roos C, Cheyne SM, Martins Kierulff MC, Raharivololona B, Talebi M, Ratsimbazafy J, Supriatna J, Boonratana R, Wedana M, and Setiawan A. 2018. Primates in peril: the significance of Brazil, Madagascar, Indonesia and the Democratic Republic of the Congo for global primate conservation. PeerJ 6:e4869. link

Razafundratsima OH, Brown KA, Carvalho F, Johnson SE, Wright PC, Dunham AE. 2018. Edge effects on components of diversity and above‐ground biomass in a tropical rainforest.. Journal of Applied Ecology 55:977-985. link.


Lei R, Frasier CL, Hawkins MTR, Engberg SE, Bailey CA, Johnson SE, McLain AT, Colin P. Groves CP, Perry GH, Nash SD, Mittermeier RA, and Louis EE. 2016. Phylogenomic reconstruction of sportive lemurs (genus Lepilemur) recovered from mitogenomes with inferences for Madagascar biogeography. Journal of Heredity 108:107-119. link.


Brown KA, Farris ZJ, Yesuf G, Rasambainarivo F, Karpanty S, Kelly M, Razafimahaimodison JC, Larney E, Wright PC, and Johnson SE. 2016. Modeling co-occurrence between toxic prey and naïve predators in an incipient invasion. Biodiversity and Conservation 25:2723–2741. link.


Holmes SM, Gordon AD, Louis EE, and Johnson SE. 2016. Fission-fusion dynamics in black-and-white ruffed lemurs may facilitate both feeding strategies and communal care of infants in a spatially and temporally variable environment. Behavioral Ecology and Sociobiology 70:1949-1960. link.


Valenta K, Edwards M, Rafaliarison RR, Johnson SE, Holmes SM, Brown KA, Dominy NJ, Lehman SM, Parra EJ, and Melin AD. 2016. Visual ecology of Eulemur suggests a cathemeral origin for the primate cone opsin polymorphism. Functional Ecology 30:932-942. link.


Johnson SE, Delmore KE, Brown KA, Wyman TM, and Louis EE. 2016. Niche divergence in a brown lemur (Eulemur spp.) hybrid zone: Using ecological niche models to test models of stability. International Journal of Primatology 37:69-88. link.


Gordon AD, Johnson SE, and Louis EE. 2016.  Environmental correlates of body mass in true lemurs (Eulemur spp.). International Journal of Primatology 37:89-108. link.


Brown KA, Parks KE, Bethell CA, Johnson SE, and Mulligan M. 2015. Predicting biodiversity patterns in Madagascar: Understanding the effects of climate and land cover change in a biodiversity hotspot. PLOS ONE 10:e0122721. link.


Baden AL, Holmes SM, Johnson SE, Louis Jr. EE, and Bradley BJ. 2014. Species-level view of population structure and gene flow for a critically endangered primate (Varecia variegata). Ecology and Evolution. doi: 10.1002/ece3.1119. link.


Schwitzer C, Mittermeier RA, Johnson SE, Donati G, Irwin M, Peacock H, Ratsimbazafy J, Razafindramanana J, Louis Jr. EE, Chikhi L, Colquhoun IC, Tinsman J, Dolch R, LaFleur M, Nash S, Patel E, Randrianambinina B, Rasolofoharivelo T, and Wright PC. 2014. Averting lemur extinctions amid Madagascar’s political crisis. Science 343:842-843. link.


Ranaivoarisoa JF, Zaonarivelo JR, Lei R, Johnson SE, Wyman TM, Mittermeier RA, and Louis Jr. EE. 2013. Rapid survey and assessment of the northern sportive lemur, Lepilemur septentrionalis, in northern Madagascar. Primate Conservation 27:23-31. link.


Delmore KE, Brenneman RA, Lei R, Bailey CA, Brelsford A, Louis Jr. EE, and Johnson SE. 2013. Clinal variation in a brown lemur (Eulemur spp.) hybrid zone: Combining morphological, genetic and climatic data to examine stability. Journal of Evolutionary Biology 26: 1677–1690. link.


Holmes SM, Baden AL, Brenneman RA, Engberg SE, Louis Jr. EE, and Johnson SE. 2013. Patch size and isolation influence genetic patterns in black-and-white ruffed lemur (Varecia variegata) populations. Conservation Genetics 14:615-624. link.


Gordon AD, Johnson SE, and Louis Jr. EE. 2013. Females are the ecological sex: Sex-specific body mass ecogeography in wild sifaka populations (Propithecus spp.). American Journal of Physical Anthropology 151:77-87. link.


Perry GH, Louis Jr. EE, Ratan A, Bedoya-Reina OC, Burhans R, Lei R, Johnson SE, Schuster SC, and Miller W. 2013. Aye-aye population genomic analyses highlight an important center of endemism in northern Madagascar. Proceedings of the National Academy of Sciences of the United States of America 110:5823-5828. link.


Brown KA, Johnson SE, Parks KE, Holmes SM, Ivoandry T, Abram NK, Delmore KE, Ludovic R, Andriamaharoa HE, Wyman TM, and Wright PC. 2013. Use of provisioning ecosystem services drives loss of functional traits across land use intensification gradients in tropical forests in Madagascar. Biological Conservation 161:118-127. link.


Ratsimbazafy JH, Arrigo-Nelson SJ, Dollar L, Holmes CM, Irwin MT, Johnson SE, Stevens NJ, and Wright PC. 2013. Conservation of prosimians in Madagascar:  A view from the Great Red Island.  In JC Masters, M Gamba, and F Génin (eds.) Leaping Ahead:  Advances in Prosimian Biology. New York:  Springer, pp 387-396. link.


Brenneman RA, Johnson SE, Bailey CA, Ingraldi C, Delmore KE, Wyman TM, Andriamaharoa HE, Ralainasolo FB, Ratsimbazafy JH, and Louis EE. 2012. Population genetics and abundance of the Endangered grey-headed lemur Eulemur cinereiceps in south-east Madagascar:  Assessing risks for fragmented and continuous populations. Oryx 46:298-307. link.


Wright PC, Erhart EM, Tecot S, Baden AL, Arrigo-Nelson SJ, Herrera J, Morelli TL, Blanco M, Deppe A, Atsalis S, Johnson SE, Ratelolahy F, Tan C, and Zohdy S. 2012. Long-term lemur research at Centre Valbio, Ranomafana National Park, Madagascar. In PM Kappeler and DP Watts (eds.):  Long-Term Field Studies of Primates.  New York:  Springer, pp 67-100. link.


Brown KA, Flynn DFB, Abram NK, Ingram JC, Johnson SE, Ravalison M, and Wright PC. 2011. Assessing natural resource use by forest-reliant communities in Madagascar using functional diversity and functional redundancy metrics. PLoS ONE 6:e24107. link.


Johnson SE, Ingraldi C, Ralainasolo FB, Andriamaharoa HE, Ludovic R, Birkinshaw CR, Wright PC, and Ratsimbazafy JH. 2011. Gray-headed lemur (Eulemur cinereiceps) abundance and forest structure dynamics at Manombo, Madagascar. Biotropica 43:371-379. link.


Delmore KE, Louis EE, and Johnson SE. 2011. Morphological characterization of a brown lemur hybrid zone (Eulemur rufifrons x E. cinereiceps). American Journal of Physical Anthropology 145:55-66. link.

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