After Carroll, 1988, and Nelson, 1994, with Recent species from Froese & Pauly, 2001 [“The Fishbase”]

<==o Eurypterygii Rosen, 1973
   |--o Cyclosquamata [Aulopiformes Rosen, 1973 sensu lato]
   |  |?- Alepisauriformes Regan, 1911 [Aulopiformes in partim]
   |  `-- Aulopiformes Rosen, 1973 (aulopikalat)
   `--o Ctenosquamata
      |--o Scopelomorpha
      |  `-- Myctophiformes Regan, 1911 (lanternfishes; lyhtykalat)
      `--o Acanthomorpha sensu Johnson & Patterson, 1993 [Acanthomorphata Betancur-R et al., 2013]
         |?-o †Aipichthys U. Cret. SWAs. [Aipichthyidae]
         |  |-- †A. velifer
         |  `-- †A. minor
         |?- †Asineops squamifrons Eoc. NA. [Asineopidae]
         |?- †Digoria ambigua L. Olig. SEEu. [Digoriidae]
         |?- †Dinopteryx spinosus U. Cret. SWAs. [Dinopterygidae]
         |?-o †Ferrifronsidae Arratia & Chorn, 1998
         |  |-- †Ferrifrons rugosus Jordan, 1924
         |  `-- †Acanthichthys major Arratia & Chorn, 1998
         |?- †Pharmaichthys [Pharmaichthyidae]
         |?- †Pycnosteroides laevispinosus U. Cret. SWAs. [Pycnosteroididae]
         |?- †Spinocaudichthys oumtkoutensis Filleul & Dutheil, 2001; U. Cret. NWAf.
         |?- †Stichocentrus livatus U. Cret. SWAs. [Stichocentridae]
         |--o Lampridiomorpha
         |  `-- Lampridiformes Regan, 1909 (kiiltolahnakalat)
         `--o Euacanthomorpha
            |-- Polymixiomorpha (partakalamaiset kalat) [paraphyletic assemblage?]
            `--o Holacanthopterygii
               |--o Paracanthopterygii [Paracanthomorphacea Betancur-R et al., 2013]
               |  |-- Percopsiformes Berg, 1940 (lohiahvenkalat)
               |  `--o Anacanthini Patterson & Rosen, 1989?
               |     |?-o †Sphenocephalus U. Cret. Eu. [Stephanocephaliformes: Sphenocephalidae]
               |     |  |-- †S. sp.
               |     |  `-- †S. fissicaudus
               |     `--+-- Ophidiiformes Berg, 1937 (partanilkkakalat) [possibly paraphyletic?]
               |        `--+?- †Mcconichthys longipinnis Grande, 1988; L.Paleoc. NA. [Mcconichthyidae]
               |           |-- Gadiformes Goodrich, 1909 (cods, and relatives; turskakalat)
               |           `--o Pediculati
               |              |-- Batrachoidiformes [Haplodoci] (konnakalat)
               |              `-- Lophiiformes Garman, 1899 (krottikalat; anglerfishes)
               `--o Acanthopterygii sensu Nelson, 1994 [alternative phylogeny after Johnson & Patterson, 1993]
                  |--o Mugilomorpha
                  |  `-- Mugiliformes Berg, 1940 [Mugiloformes (lapsus calami?)] (kelttikalat)
                  `--+--o Atherinomorpha
                     |  |-- Atheriniformes Rosen, 1966 (silversides & rainbowfishes; hopeakylkikalat, sateenkaarikalat)
                     |  `--o Cyprinodontea
                     |     |-- Beloniformes Berg, 1940 (nokkakalat)
                     |     `-- Cyprinodontiformes Berg, 1940 [Microcyprini] (toothcarps; hammaskarppikalat)
                     `--o Percomorpha sensu Nelson, 1994
                        |-- Stephanoberyciformes [Xenoberyces in partim] (okakalat)
                        `--+-- Beryciformes Regan, 1909 (limapääkalat)
                           `--+--+-- Zeiformes (pietarinkalat)
                              |  `-- Tetraodontiformes Berg, 1940 (puffer & porcupinefishes; jäykkäleukakalat)
                              `--+-- Gasterosteiformes (piikkikalat)
                                 |-- Synbranchiformes (yhdyskiduskalat)
                                 `--+== “Perciformes” Bleeker, 1859 (ahvenkalat) [paraphyletic]
                                    |== “Scorpaeniformes” Greenwood et al., 1966 (simppukalat)
                                    `-- Pleuronectiformes [Heterosomata] (kampelakalat)

After Betancur-R et al., 2013:

<==o Eurypterygia
   |-- Aulopiformes
   `--o Ctenosquamata
      |-- Myctophiformes
      `--o Acanthomorphata
         |--+-- Lampridiformes
         |  `--o Paracanthomorphacea
         |     |-- Percopsiformes
         |     `--o Zeiogadaria
         |        |-- Zeiformes
         |        `--o Gadariae
         |           |-- Stylephorus [Stylephoriformes]
         |           `-- Gadiformes
         `--+-- Polymixiiformes
            `--o Euacanthomorphacea
               |-- Beryciformes
               |-- Holocentriformes
               `--o Percomorphaceae
                  |-- Ophidiiformes
                  `--+-- Batrachoidiformes
                     `--+--o Gobiomorpharia
                        |  |-- Kurtiformes
                        |  `-- Gobiiformes
                        `--+--o Scombrimorpharia
                           |  |-- Syngnathiformes
                           |  `-- Scombriformes
                           `--+--o Carangimorpharia
                              |  |--o Ovalentariae
                              |  |  |--+--o Cichlomorphae
                              |  |  |  |  `-- Cichliformes
                              |  |  |  `--o Atherinomorphae
                              |  |  |     |-- Atheriniformes
                              |  |  |     `--+-- Cyprinodontiformes
                              |  |  |        `-- Beloniformes
                              |  |  `--+-- Mugiliformes
                              |  |     `--o Blenniimorphae
                              |  |        `-- Blenniiformes
                              |  `--+--o Anabantomorphariae
                              |     |  |-- Synbranchiformes
                              |     |  `-- Anabantiformes
                              |     `--o Carangimorphariae
                              |        |== Carangiformes
                              |        `== Pleuronectiformes
                              `--o Percomorpharia
                                 |--+-- Uranoscopiformes
                                 |  `-- Labriformes
                                 `--+--+-- Ephippiformes
                                    |  `--+-- Acanthuriformes
                                    |     `--+-- Tetraodontiformes
                                    |        `-- Lophiiformes
                                    `--+-- Perciformes [incl. Scorpaeniformes & Gasterosteiformes]
                                       `--+-- Pempheriformes
                                          `--+-- Cirrhitiformes
                                             `-- Centarchiformes

Reference(s):

  • Betancur-R., R., Broughton, R. E., Wiley, E. O., Carpenter, K., López, J. A., Li, C., Holcroft, N. I., Arcila, D., Sanciangco, M., Cureton II, J. C., Zhang, F., Buser, T., Campbell, M. A., Ballesteros, J. A., Roa-Varon, A., Willis, S., Borden, W. C., Rowley, T., Reneau, P. C., Hough, D. J., Lu, G., Grande, T., Arratia, G. & Ortí, G., 2013 The Tree of Life and a New Classification of Bony Fishes.
    –PLOS Currents Tree of Life [doi: 10.1371/currents.tol.53ba26640df0ccaee75bb165c8c26288]

After Johnson & Patterson, 1993 (vide Nelson, 1994)

<==o Acanthopterygii
   |-- Stephanoberyciformes
   `--+-- Zeiformes
      `--o Euacanthopterygii
         |-- Beryciformes
         `--o Percomorpha
            |--o Smegmamorpha
            |  |-- Synbranchiformes
            |  |-- Elassosomus
            |  |-- Gasterosteiformes
            |  |-- Mugiloidei
            |  `--o Atherinomorpha
            |     |-- Atheriniformes
            |     `--o Cyprinodontea
            |        |-- Beloniformes
            |        `-- Cyprinodontiformes
            `--+== Perciformes
               |-- Dactylopteriformes
               |-- Scorpaeniformes
               |-- Pleuronectiformes
               `-- Tetraodontiformes

Alternative [molecular] phylogeny of Holacanthopterygii [= Percomorpha] after Mabuchi, Miya, Azuma & Nishida, 2007

<==o  Percomorpha
   |--  Ophidiiformes
   `--+--+--+-- Percidae
      |  |  `--+-- Scorpaenoidei
      |  |     `--+--+-- Cottoidei
      |  |        |  `-- Trachinoidei
      |  |        `--+-- Zoarcoidei
      |  |           `-- Gasterosteoidei
      |  `--+--+-- Odacidae
      |     |  `--+-- Scaridae
      |     |     `-- Labridae
      |     `--+--+-- Emmelichthyidae
      |        |  `-- Lutjanidae
      |        `--+-- Sparidae
      |           `--+-- Caproidae
      |              `--+-- Tetraodontiformes
      |                 `-- Lophiiformes
      `--+--+--+-- Pleuronectiformes
         |  |  `-- Carangidae
         |  `--+-- Scombroidei
         |     `--+-- Dactylopteridae
         |        `-- Gobioidei
         `--+--+== Synbranchiformes
            |  `-- Indostomoidei
            `--+--+-- Pseudochromidae
               |  `-- Mugiloformes
               `--+--+-- Pomacentridae
                  |  `--+-- Embiotocidae
                  |     `-- Cichlidae
                  `--+--+-- Blennoidei
                     |  `-- Gobiesocoidei
                     `--o Atherinomorpha
                        |-- Atheriniformes
                        `--o Cyprinodontea
                           |-- Beloniformes
                           `-- Cyprinodontiformes

Reference(s):