Francoy, T.M.; Gonçalves, L.S. 2004. A new Mini-Syringe for multiple insemination of queen bees. American Bee Journal, 144: 628-630.

Francoy, T.M.; Gonçalves, L.S.; Santos, J.J.; DeJong, D. 2005. A mini Starter-Finisher hive model that facilitates queen rearing. American Bee Journal, 145: 503-505. 

Nunes-Silva, P.; Gonçalves, L.S.; Francoy, T.M.; DeJong, D. 2006. Rate of growth and development time of Africanized honey bee (Apis mellifera) queens and workers during ontogenetic development. Brazilian Journal of Morphological Sciences, 23: 325-332.

Francoy, T.M.; Prado, P.R.R.; Gonçalves, L.S.; Costa, L.F.; DeJong, D. 2006. Morphometric differences in a single wing cell can discriminate Apis mellifera racial types. Apidologie, 37: 91-97.

Mendes, M.F.M.; Francoy, T.M.; Nunes-Silva, P.; Menezes, C.; Imperatriz-Fonseca, V.L. 2007. Intra-populational variability in Nannotrigona testaceicornis Lepeletier, 1836 (Hymenoptera, Meliponini) using relative warps analysis. Bioscience Journal (UFU), 23: 147-152.

DeJong, D.; Gonçalves, L.S.; Francoy, T.M. 2007. A light-colored veil greatly diminishes attacks by Africanized honey bees. American Bee Journal, 147: 153-156.

Francisco, F.O.; Nunes-Silva, P.; Francoy, T.M.; Wittmann, D.; Imperatriz-Fonseca, V.L.; Arias, M.C.; Morgan, E. D. 2008. Morphometrical, biochemical and molecular tools for assessing biodiversity. An example in Plebeia remota (Holmberg, 1903) (Apidae, Meliponini). Insectes Sociaux 55: 231-237

Francoy, T.M.; Wittmann, D.; Drauschke, M.; Müller, S.; Steinhage, V.; Bezerra-Laure, M.A.F.; DeJong, D. & Gonçalves, L.S. 2008. Identification of Africanized honey bees through wing morphometrics: two fast and efficient procedures. Apidologie 39: 488-494.

Francoy, T.M.; Silva, R.A.O.; Nunes-Silva, P.; Menezes, C.; Imperatriz-Fonseca, V.L. 2009. Gender identification of five genera of stingless bees (Apidae, Meliponini) based on wing morphology. Genetics and Molecular Research 8: 207-214. 

Alves, D.A.; Imperatriz-Fonseca, V.L.; Francoy, T.M.; Santos-Filho, P.S.; Nogueira-Neto, P.; Billen, J.; Wenseleers, T. 2009. The queen is dead-long live the workers: intraspecific parasitism by workers in the stingless bee. Molecular Ecology 18: 4102-4111. 

Morais, M.M.; Francoy, T.M.; Pereira, R.A.; De Jong, D.; Goncalves, L.S. 2009. Africanized honey bees are efficient at detecting, uncapping and removing dead brood. Genetics and Molecular Research 8: 718-724.

Francoy, T.M.; Wittmann, D.; Steinhage, V.; Drauschke, M.; Muller, S.; Cunha, D.R.; Nascimento, A.M.; Figueiredo, V.L.C.; Simoes, Z.L.P.; De Jong, D.; Arias, M.C.; Goncalves, L.S. 2009. Morphometric and genetic changes in a population of Apis mellifera after 34 years of Africanization. Genetics and Molecular Research 8: 709-717.

Bloch, G.; Francoy, T.M.; Wachtel, I.; Panitz-Cohen, N.; Fuchs, S.; Mazar, A. 2010. Industrial apiculture in the Jordan valley during Biblical times with Anatolian honeybees. PNAS 107: 11240-11244.

Francoy, T.M.; Imperatriz-Fonseca, V. L. 2010. A morfometria geométrica de asas e a identificação automática de espécies de abelhas. Oecologia Australis 14: 317-321.

Morais, M.M.; Francoy, T.M.; Borissevitch, I.E.; Gonçalves, L. S. 2010. A scientific note about spectroscopic analysis of honey bee brood comb cappings in hygienic and non-hygienic honey bee colonies. Apidologie 41: 531-533.

Alves, D.A.; Imperatriz-Fonseca, V.L.; Francoy, T.M.; Santos-Filho, P.S.; Billen, J.; Wenseleers, T. 2011. Successful maintenance of a stingless bee population despite a severe genetic bottleneck. Conservation Genetics 12: 647-658. 

Wenseleers, T.; Alves, D.A.; Francoy, T.M.; Billen, J.; Imperatriz-Fonseca, V.L. 2011. Intraspecific queen parasitism in a highly eusocial bee. Biology Letters (Print) 7: 173-176. 

Francoy, T.M.; Grassi, M.L.; Imperatriz-Fonseca, V.L.; May-Itzá, W.J.; Quezada-Euán, J.J.G. 2011. Geometric morphometrics of the wing as a tool for assigning genetic lineages and geographic origin to Melipona beecheii (Hymenoptera: Meliponini). Apidologie 42: 499-507. 

Imperatriz-Fonseca, V.L.; Gonçalves, L.S.; Francoy, T.M.; Nunes-Silva, P. 2012. Desaparecimento das abelhas melíferas e a perspectiva do uso de outras abelhas na polinização. Documentos (Embrapa Semi-Árido. Online) 249: 210-233.

Francoy, T.M.; Gonçalves, L.S.; De Jong, D. 2012. Rapid morphological changes in populations of hybrids between Africanized and European honey bees. Genetics and Molecular Research 11: 3349-3356. 

Francoy, T.M.; Franco, F.F.; Roubik, D.W. 2012. Integrated landmark and outline-based morphometric methods efficiently distinguish species of Euglossa (Hymenoptera, Apidae, Euglossini). Apidologie 43: 609-617. 

Lima Junior, C.A.; Carvalho, C.A.L.; Nunes, L.A.; Francoy, T.M. 2012. Population divergence of Melipona scutellaris Latreille (Hymenoptera: Meliponina) in two Restricted Areas in Bahia, Brazil. Sociobiology 59: 107-122. 

Morais, M.M.; Turcatto, A. P.; Francoy, T.M.; Goncalves, L.S.; Capellari, F. A.; De Jong, D. Evaluation of inexpensive pollen substitute diets through quantification of hemolymph proteins. Journal of Apicultural Research 52: 119-121.

Combey, R.; Teixeira, J.S.G.; Bonatti, V.; Kwapong, P.; Francoy, T.M. 2013. Geometric morphometrics reveals morphological differentiation within four African stingless bee species. Annals of Biological Research, 4: 93-103.

De Souza, D.A.; Bezerra-Laure, M.A.F.; Francoy, T.M.; Gonçalves, L.S. 2013. Experimental evaluation of the reproductive quality of Africanized queen bees (Apis mellifera) on the basis of body weight at emergence. Genetics and Molecular Research 12: 5382-5391.

Teixeira, E.W.; Santos, L.G.; Sattler, A.; Message, D.; Alves, M.L.T.M.F.; Martins, M.F.; Grassi-Sella, M.L.; Francoy, T.M. 2013. Nosema ceranae has been present in Brazil for more than three decades infecting Africanized honey bees. Journal of Invertebrate Pathology 114: 250-254.

Pereira, R.A.; Morais, M.M.; Francoy, T.M.; Goncalves, L.S. 2013. Hygienic Behavior of Africanized Honey Bees Apis mellifera Directed towards Brood in Old and New Combs during Diurnal and Nocturnal Periods. Insects 4: 521-532.

Morais, M.M.; Turcatto, A.P.; Pereira, R.A.; Francoy, T.M.; Guidugli-Lazzarini, K.R.; Gonçalves, L.S.; Volpini, J.M.; Ellis, J.D.; DeJong, D. 2013. Protein levels and colony development of Africanized and European honey bees fed natural and artificial diets. Genetics and Molecular Research 12: 6915-6922.

Jaffé, R.; Pioker-Hara, F.C.; Santos, C.F.; Santiago, L.R.; Alves, D.A.; Kleinert, A.M.P.; Francoy, T.M.; Arias, M.C.; Imperatriz-Fonseca, V.L. 2014. Monogamy in large bee societies: a stingless paradox. Naturwissenschaften 101: 261-264.

Bonatti, V.; Simões, Z.L.P.; Franco, F.F.; Francoy, T.M. 2014. Evidence of at least two evolutionary lineages in Melipona subnitida (Apidae, Meliponini) suggested by mtDNA variability and geometric morphometrics of forewings. Naturwissenschaften 101 17-24.

Santana, F.S.; Costa, A.H.R.; Truzzi, F.S.; Da Silva, F.L.; Santos, S.L.; Francoy, T.M.; Saraiva, A.M. 2014. A reference process for automating bee species identification based on wing images and digital image processing. Ecological Informatics 24: 248-260.

 Souza, D.A.; Wang, Y.; Kaftanoglu, O.; De Jong, D.; Amdam, G.; Gonçalves, L.S.; Francoy, T.M. 2015. Morphometric Identification of queens, workers and intermediates in in vitro reared honey bees (Apis mellifera). Plos One, 10: p. e0123663

Silva, F.L.; Grassi-Sella, M.L.; Francoy, T.M.; Costa, A.H.R. 2015. Evaluating classification and feature selection techniques for honeybee subspecies identification using wing images. Computers and Eletronics in Agriculture. 114: 68-77.

Francoy, T.M.; Bonatti, V.; Viraktamath, S.; Rajankar, B.R. 2015. Wing morphometrics indicates the existence of two distinct phenotipic clusters withing population of Tetragonula iridipennis (Apidae: Meliponini) from India. Insectes Sociaux 63: 109-115