1994

• Whitney, B. M. 1994. A new Scytalopus tapaculo (Rhinocryptidae) from Bolivia, with notes on other Bolivian members of the genus and the magellanicus complex. The Wilson Bulletin 106 (4): 585-614. Full article (PDF)Reference page. 

1996

• Pacheco, J. F., Whitney, B.M. & Gonzaga, L.P.. 1996. A new genus and species of furnariid (Aves: Furnariidae) from the cocoa-growing region of southeastern Bahia, Brazil. Wilson Bulletin 108 p.405-408 Full article (PDF)Reference page. 

• Goodman, S.M., Langrand, O. & Whitney, B.M. 1996. A new genus and species of passerine from the eastern rain forest of Madagascar. Ibis 138(2): 153–159. DOI: 10.1111/j.1474-919X.1996.tb04322.x Reference page. 

1998

• Whitney, B. M. & Álvarez A., J.. 1998. A new Herpsilochmus antwren (Aves: Thamnophilidae) from northern Amazonian Peru and adjacent Ecuador: the role of edaphic heterogeneity of terra firme forest. The Auk 115(3):559-576. Full article (PDF)Reference page. 

1999

• Krabbe, N., Isler, M.L., Isler, P.R., Whitney, B.M., Álvarez A., J. & Greenfield, P.J.. 1999. A new species in the Myrmotherula haematonota superspecies (Aves: Thamnophilidae) from the western amazonian lowlands of Ecuador and Peru. The Wilson Bulletin 111 (2): 157–165. Full article (PDF).Reference page. 

• Isler, M.L., Isler, P.R. & Whitney, B.M. 1999. Species limits in antbirds (Passeriformes: Thamnophilidae): the Myrmotherula surinamensis complex. The Auk 116(1):83-96. Full article (PDF) Reference page. 

2000

• Whitney, B.M., Pacheco, J.F., Buzzetti, D.R.C. & Parrini, R. 2000. Systematic revision and biogeography of the Herpsilochmus pileatus complex, with description of a new species from northeastern Brazil. The Auk 117(4): 869–891. Full article (PDF). Reference page. 

2001

• Whitney, B. M., and Pacheco, J. F. 2001. Synallaxis whitneyi Pacheco and Gonzaga, 1995 is a synonym of Synallaxis cinereus Wied, 1831. Nattereria 2: 34–35.Reference page. 

• Álvarez A., J., & Whitney, B.M.. 2001. A new Zimmerius tyrannulet (Aves: Tyrannidae) from white sand forests of northern Amazonian Peru. Wilson Bulletin 113: 1–9. AbstractReference page. 

• Isler, M.L.; Álvarez A., J.; Isler, P.R. & Whitney, B.M. (2001). A new species of Percnostola antbird (Passeriformes: Thamnophilidae) from Amazonian Peru, and an analysis of species limits within Percnostola rufifrons. The Wilson Bulletin 113:164–176. DOI: 10.1676/0043-5643(2001)113[0164:ANSOPA]2.0.CO;2 Full article PDFReference page. 

2002

• Isler, M. L., Álvarez A., J., Isler, P.R., Valqui, T., Begazo, A. & Whitney, B.M. 2002. Rediscovery of a cryptic species and description of a new subspecies in the Myrmeciza hemimelaena complex (Thamnophilidae) of the Neotropics. The Auk 119: 362–378 Full article view DOI: 10.1642/0004-8038(2002)119[0362:ROACSA]2.0.CO;2 Reference page. 

2003

• Whitney, B.M., Pacheco, J.F., Fonseca, P.S.M., Webster, R.E., Kirwan, G.M. & Mazar Barnett, J. 2003. Reassignment of Chordeiles vielliardi Lencioni-Neto, 1994, to Nyctiprogne Bonaparte, 1857, with comment on the latter genus and some presumably related chordeilines (Caprimulgidae). Bulletin of the British Ornithologists’ Club 123:103-112. Full article (PDF)Reference page. 

2004

• Whitney, B.M.; Oren, D.C. & Brumfield, R.T. 2004. A new species of Thamnophilus Antshrike (Aves: Thamnophilidae) from the Serra do Divisor, Acre, Brazil. The Auk 121(4): 1031-1039. Full article (PDF) Reference page. 

2005

• Whitney, B.M. & Álvarez A., J. (2005). A new species of gnatcatcher from white-sand forests of northern Amazonian Peru with revision of the Polioptila guianensis complex. The Wilson Bulletin 117(2):113-127. DOI: 10.1676/04-064 . ISSN 0043-5643. AbstractReference page. 

2007

• Isler, M.L., Isler, P.R. & Whitney, B.M. (2007). Species limits in Antbirds (Thamnophilidae): The Warbling Antbird (Hypocnemis cantator) complex. Auk 124(1): 11–28. DOI: 10.1642/0004-8038(2007)124[11:SLIATT]2.0.CO;2 Reference page. 

• Isler, M.L., Isler, P.R., Whitney, B.M. & Zimmer, K.J. 2007. Species limits in the "Schistocichla" complex of Percnostola antbirds (Passeriformes: Thamnophilidae). Wilson Journal of Ornithology 119: 53:70. DOI: 10.1676/05-121.1 Full article viewReference page. 

2008

• Isler, M.L., Isler, P.R. & Whitney, B.M. 2008. Species limits in antbirds (Aves: Passeriformes: Thamnophilidae): an evaluation of Plumbeous Antvireo (Dysithamnus plumbeus) based on vocalizations. Zootaxa 1726: 60–68. Full article viewReference page. 

• Simon, J.E., Pacheco, J.F., Whitney, B.M., Mattos, G.T. & Gagliardi, R.L. 2008. Phacellodomus ferrugineigula (Pelzeln, 1858) (Aves: Furnariidae) é uma espécie válida. Revista Brasileira de Ornitologia 16(2): 107-124. Full article (PDF) Reference page. 

2009

• Isler, M.L., Isler, P.R, Whitney, B.M., Zimmer, K.J. & Whittaker, A. 2009. Species limits in antbirds (Aves: Passeriformes: Thamnophilidae): an evaluation of Frederickena unduligera (Undulated Antshrike) based on vocalizations. Zootaxa, 2305: 61-68. Full article viewReference page. 

2010

• Piacentini, V.Q., Pachecho, J.F. & Whitney B.M. 2010. The name Ramphastos piperivora Linnaeus revisited Bulletin of the British Ornithologists’ Club 130(2):141-143. Full article viewReference page. 

• Whitney, B.M.; Vasconcelos, M.F.; Silveira, L.F.; Pacheco, J.F. 2010: Scytalopus petrophilus (Rock Tapaculo): a new species from Minas Gerais, Brazil. Revista Brasileira de Ornitologia, 18(2): 73–88. Full article (PDF)Reference page. 

• Maurício, G.N., Bornschein, M.R., Vasconcelos, M.F., Whitney, B.M., Pacheco, J.F. & Silveira, L.F. 2010. Taxonomy of “Mouse-colored Tapaculos”. I. On the application of the name Malacorhynchus speluncae Ménétries, 1835 (Aves: Passeriformes: Rhinocryptidae). Zootaxa 2518: 32–48. Preview Reference page. 

2011

• Isler, M. L. & Whitney, B.M. 2011. Species limits in antbirds (Thamnophilidae): the Scale-backed Antbird (Willisornis poecilinotus) complex. The Wilson Journal of Ornithology 123(1): 1-14 Abstract DOI: 10.1676/10-082.1 Reference page. 

2012

• Bravo, G.A., Remsen, Jr., J.V., Whitney, B.M. & Brumfield, R.T. 2012. DNA sequence data reveal a previously unsuspected subfamily-level divergence within Thamnophilidae (Aves: Passeriformes). Molecular phylogenetics and evolution, 65(1): 287-293. DOI: 10.1016/j.ympev.2012.06.016 Full article (PDF)Reference page. 

2013

• Whitney, B.M., Piacentini, V.Q., Schunck, F., Aleixo, A., Souza, B.R.S., Silveira, L.F., Rego, M.A. 2013. A name for Striolated Puffbird west of the Rio Madeira with revision of the Nystalus striolatus (Aves: Bucconidae) complex. Pp. 240–244 in: del Hoyo, J., A. Elliott, J. Sargatal, and D.A. Christie (eds.) (2013). Handbook of the Birds of the World. Special Volume: New Species and Global Index. Lynx Edicions, Barcelona. PDF Reference page. 

• Whitney, B. M., F. Schunck, M. A. Rêgo, and L. F. Silveira. 2013a. A new species of Zimmerius tyrannulet from the upper Madeira-Tapajós interfluvium in central Amazonian Brazil: birds don't always occur where they should. Pp. 286-291 in Handbook of the Birds of the World. Special Volume: New Species and Global Index (del Hoyo et al., eds.). Lynx Edicions, Barcelona. PDFReference page. 

• Whitney, B. M., F. Schunck, M. A. Rêgo, and L. F. Silveira. 2013b. A new species of flycatcher in the Tolmomyias assimilis radiation from the lower Sucunduri-Tapajós interfluvium in central Amazonian Brazil heralds a new chapter in Amazonian biogeography. Pp. 297-300 in Handbook of the Birds of the World. Special Volume: New Species and Global Index (del Hoyo et al., eds.).Lynx Edicions, Barcelona. PDFReference page. 

• Whitney, B. M., M. Cohn-Haft, G. A. Bravo, F. Schunck & L. F. Silveira (2013). A new species of Herpsilochmus antwren from the Aripuanã-Machado interfluvium in central Amazonian Brazil. Pp. 277-281. In: del Hoyo, J., A. Elliott, J. Sargatal, and D.A. Christie (eds.) (2013). Handbook of the Birds of the World. Special Volume: New Species and Global Index. Lynx Edicions, Barcelona.Reference page.  Full article (PDF) Reference page. 

• Whitney, B. M., M. L. Isler, G. A. Bravo, N. Aristizábal, F. Schunck, L. F. Silveira, and V. de Q. Piacentini. 2013. A new species of Epinecrophylla antwren from the Aripuanã-Machado interfluvium in central Amazonian Brazil with revision of the "stipple-throated antwren" complex. In del Hoyo, J., Elliot, A., Sargatal, J., & Christie, A. (Eds), Handbook of the Birds of the World. Special Volume: New Species and Global Index. Lynx Edicions, Barcelona, Spain, pp. 263–267. Full article (PDF)Reference page. 

• Whitney, B. M., M. L. Isler, G. A. Bravo, N. Aristizábal, F. Schunck, L. F. Silveira, V. de Q. Piacentini, M. Cohn-Haft, and M. A. Rêgo 2013. A new species of antbird in the Hypocnemis cantator complex from the Aripuanã-Machado interfluvium in central Amazonian Brazil. P. 282–285 In: del Hoyo, J., A. Elliott, J. Sargatal, and D.A. Christie (eds.) (2013). Handbook of the Birds of the World. Special Volume: New Species and Global Index. Lynx Edicions, Barcelona.Reference page.  Full article (PDF)Reference page. 

• Miranda, L.d.S., Aleixo, A., Whitney, B.M., Silveira, L.F., Guilherme, E., Santos, M.P.D. & Schneider, M.P.C., 2013. Molecular systematics and taxonomic revision of the Ihering's Antwren complex (Myrmotherula iheringi: Thamnophilidae), with description of a new species from southwestern Amazonia. In del Hoyo, J., Elliot, A., Sargatal, J., & Christie, A. (Eds), Handbook of the Birds of the World. Special Volume: New Species and Global Index. Lynx Edicions, Barcelona, Spain, pp. 268–271. Full article (PDF) available for download Reference page. 

• Whittaker, A., Aleixo, A., Whitney, B.M., Smith, B.T. & Klicka, J. 2013. A distinctive new species of gnatcatcher in the Polioptila guianensis complex (Aves: Polioptilidae) from western Amazonian Brazil. pp.301-305. In: del Hoyo, J., Elliott, A. & Christie D. (Org.). Handbook of the Birds of the World, Special Volume: New Species and Global Index. 1ed. Barcelona: Lynx Edicions. Full article (PDF) Reference page. 

2014

• Maurício, G.N., Belmonte-Lopes, R., Pacheco, J.F., Silveira, L.F., Whitney, B.M., & Bornschein, M.R. 2014. Taxonomy of “Mouse-colored Tapaculos” (II): An endangered new species from the montane Atlantic Forest of southern Bahia, Brazil (Passeriformes: Rhinocryptidae: Scytalopus) The Auk 131(4): 643–659. Full article. and Erratum: The Auk 132(4): 951–952. 2015 Erratum. Reference page. 

2017

• Evangelista-Vargas, D., Costa, T.V.V., Whitney, B.M., Schunck, F. & Silveira, L.F. 2017. Penelope superciliaris pseudonyma Neumann, 1933 (Aves, Cracidae) is the valid name for the blue-faced population of Rusty-margined Guan endemic to the Madeira-Tapajós interfluvium of central Amazonian Brazil. Zootaxa 4294(4): 436–442. DOI: 10.11646/zootaxa.4294.4.3 . Reference page. 

• Isler, M.L. & Whitney, B.M. 2017. Species limits in the genus Thamnistes (Aves: Passeriformes: Thamnophilidae): an evaluation based on vocalizations. Zootaxa 4291(1): 192–200. DOI: 10.11646/zootaxa.4291.1.12 Full article view. Reference page. 

2018

• Isler, M.L. & Whitney, B.M.. 2018. Reevaluation of the taxonomic positions of members of the Epinecrophylla haematonota (Aves: Passeriformes: Thamnophilidae) antwren complex including E. fjeldsaai based on vocalizations. Wilson Journal of Ornithology 130(4): 908–914. DOI: 10.1676/17-097.1 Reference page.