After Giannini & Simmons, 2003, and Giannini, Cunha Almeida, Simmons & DeSalle, 2006

<==o Megachiroptera (suurlepakot)
   `--o Pteropodidae (hedelmälepakot)
      |-- †Archaeopteropus transiens Meschinelli, 1903 [Archaeopteropodinae]
      `--+-- †Propotto leakeyi Simpson, 1967 [Propottinae]
         `--o Pteropodidae sensu Giannini & Simmons, 2003 [recent Pteropodids]
            |?- Plerotes [Plerotini Bergmans, 1997] [not treated by Giannini & Simmons, 2003]
            |?-o Scotonycterini Bergmans, 1997 [not treated by Giannini & Simmons, 2003]
            |  |-- Scotonycteris
            |  `-- Casinycteris
            |-- Melanonycteris
            `--+--o Nyctimeninae Miller, 1907
               |  |-- Paranyctimene
               |  `-- Nyctimene
               `--+--+-- Eiolodon
                  |  `-- Pteralopex
                  `--+--+-- Acerodon
                     |  `-- Pteropus
                     `--+--+-- Notopteris
                        |  `--+-- Harpyionycterinae Miller, 1907
                        |     `--+--+-- Macroglossus
                        |        |  `-- Syconycteris
                        |        `--o Cynopterinae Andersen, 1912
                        |           |?- Ptenochirus [not treated by Giannini & Simmons, 2003]
                        |           |?- Dyacopterus [not treated by Giannini & Simmons, 2003]
                        |           |?- Sphaerias [not treated by Giannini & Simmons, 2003]
                        |           |?- Penthetor [not treated by Giannini & Simmons, 2003]
                        |           |?- Latidens [not treated by Giannini & Simmons, 2003]
                        |           |?- Alionycteris [not treated by Giannini & Simmons, 2003]
                        |           |?- Otopteropus [not treated by Giannini & Simmons, 2003]
                        |           |?- Haplonycteris [not treated by Giannini & Simmons, 2003]
                        |           |--+-- Cynopterus
                        |           |  `--+-- Megaerops
                        |           |     `-- Ptenochirus
                        |           `--+-- Thoopterus
                        |              |-- Chironax
                        |              |-- Aethalops
                        |              `-- Balionycteris
                        `--+--+-- Eonycteris
                           |  `--+-- Stenonycteris
                           |     `-- Rousettus
                           `--+--o Epomophorini Gray, 1821
                              |  |?- Hypsignathus [not treated by Giannini & Simmons, 2003]
                              |  |?- Nanonycteris [not treated by Giannini & Simmons, 2003]
                              |  |-- Epomops
                              |  `--+-- Epomophorus
                              |     `-- Micropteropus
                              `--o Myonycterini Lawrence & Novick, 1963
                                 |-- Megaloglossus
                                 `--+-- Lissonycteris
                                    `-- Myonycteris


Reference(s):