5.501
Rearrangements in Bacteria according to Cavalier-Smith (2002b) and Garrity et al. (2004)

5.502
Further rearrangements in Bacteria according Hugenholtz et al. (1998), Hugenholtz (2002)
Placement of Gemmatimonadetes near Fibrobacteres (Zhang et al., 2003)
Further support for the phylum Bacteroidetes s.l. (Gupta, 2005; Gupta, 2004)
Removing Negi/Posibacteria, uniting Chamydia and Spirochaetes, close placement for Cyanobacteria, Hadobacteria and Actinobacter
Nanoarcheota to Euryarcheota (Brochier at al., 2005a, but see Brochier et al., 2005b)
Fusobacteria to Clostridia (Deeds et al., 2005; Yu et al., 2005)
Cenarchaeum (Lopez-Garcia et al., 2004)
Furhter support for Anaerolineae (Sekiguchi et al., 2003)

5.503
Rearrangements in Spermatophyta, Taxopsida (non-pine conifers) emerged (Magallon, Sanderson, 2002; Soltis et al., 2002; Burleig
Rearrangements in Bryophyta, Oedipodiopsida emerged (Cox et al., 2004; Goffinet et al., 2004; Shaw, Renzaglia, 2004)
Further support for Pteridophyta sensu Systema Naturae v.5.4 (Pryer et al., 2004)

5.504 
Further support for the rearrangements in Bryophyta (Magombo, 2003) and Spermatophyta (Quinn et al., 2003)
Further support for the bacterial taxonomy (Ludwig, Klenk, 2001)
Rearrangement of Rhizopoda (Cavalier-Smith et al., 2004; Smirnov et al., 2005; Nikolaev, 2005, Smirnov, 2005a; Nikolaev et al.,
Some changes in Cercozoa (Nikolaev et al., 2003)

5.505
RCS representation changed

5.506
Separate "Korarcheota" (Auchtung et al., 2006)

5.507
Code simplification

5.508
Full rewrite of ``Bacteria'' (Monera) according to long citation list, see "synat.bib", 74 references from Auchtung et al., 2004 to Gupta, 2007

5.509
Protista began to be completely reworked, this time according with paper of Adl et al., 2005; some formatting changed.

5.510
Fungi have been completely reworked, according with AFTOL results (Mycologia, 2006-06 and Hibbett et al., 2007).

5.511
Protista reviewed (Cavalier-Smith, 2003-2004; Stechmann, 2002-2003; Kawaia, 2003; Andersen, 2003): Amoebozoa, Cercozoa, Chromophyta and Dinozoa significantly changed; lower Animalia changed.

5.512
Euglenozoa changed (Andersson, 2002; Simpson, 2003); Cercozoa changed (Bass, 2004; Berney, 2004; Longet, 2004; Nikolaev, 2004); Mikrocytos mackini moved (Carnegie, 2003), Bonamia added (Burreson, 2004; Reeece, 2004); Chromista changed (Goertzen, 2003; Kuehn, 2004); Choanozoa changed (Hertel, 2002); Ciliophora changed (Lynn, 2003); Dinozoa changed (Saldarriaga, 2003; Saldarriaga, 2004); new classification of Rhodophyta (Saunders, 2004); Helicosporidium moved to Trebouxiphyceae (Tartar, 2003)

5.513
Pelagophyceae (Fuller et al., 2006), Cryptista (Harper, 2005 et al.; Hackett ey al., 2007); Ebriida, Protaspis (Hoppenrath, Leander, 2006); Synchromatophyceae (Harper et al., 2007); Telonemia (Klaveness et al., 2006); Radiolaria (Kunimoto et al., 2006); Andalucia (Lara et al., 2006); Rhytidocystis (Leander, Ramey, 2006); Breviates (Moreira et al., 2007; Walker et al., 2006); Amoebozoa (Nikolaev et al., 2006); `Picobiliphyta' (Not et al., 2007); Hatena (Okamoto, Inouye, 2006); Opistokonta (Ruiz-Trillo et al., 2006); Gromiea (da Silva et al., 2006); RM12, X-cells (Walker, 2007); Rhodophyta (Yoon, 2006); Dysnectes, Malawimonadea (Yubuiki et al., 2006; Hackett et al., 2007); Conjugatophyceae (Lemieux et al., 2007).

5.514
Changed Cercozoa (Bass et al., 2005), Mixiomycetes (Bauer et al., 2006), Chromophyta (Cavalier-Smith et al., 2006); Luffisphaera probably belong to Centrohelida

5.515
Animalia radically changed, with new structure of subregia, superphyla and phyla; subphyla introduced somewhere -- all according with recent literature (61 references from Andersson et al., 2004 to Barucca et al., 2006). Ichthyostraca (Grandcolas, 2004); Progoneata (Edgecombe, 2004); Hexactinellida maybe a seperate phylum (Leys, 2003).

5.600
Rearrangements with Animalia, include infraregia, Brachiopoda and Ectoprocta (Cohen, Weydmann, 2005; Waeschenbach et al., 2006), Cnidaria (Collins et al., 2006); Vertebrata (Mallatt, Winchell, 2007); Pancrustacea (Regier et al., 2005); Annelida (Rousset et al., 2006; Struck et al., 2007); support for Anephrozoa (Matus et al., 2006; Seipel, Schmid, 2005, 2006; Sempere et al., 2006); Hemirotifera (Sorensen, Giribet, 2006); Homoscleromorpha as phylum (Ereskovsky, diagram from dissertation; Sperling, Peterson, 2007; but see Wang, Lavrov, 2006); Choanozoa (Steenkamp et al., 2006); Gastrotricha (Todaro et al., 2006). Some changes for Vegetabilia, include Haplomitriopsida (Forrest, 2006; He-Nygren et al., 2006; Groth-Malonek et al., 2007), Polytrichopsida (Magombo, 2003), subphyla (Qiu 2006, 2007; Smith et al., 2006). Major release, all available data up to middle June, 2007 incorporated.

5.601
Mostly grammatical correcrions, new paraphyletic marks, Porifera re-established, Radiolaria went inside Cercozoa (Moreira et al., 2007).

5.602
Incl. Leiosporocerotopsida (Stotler and Crandall-Stotler, 2005; Duff et al., 2007; Renzaglia et al., 2007); Polypodium -> Medusozoa; Ectoprocta separated; primer of typified names for Chordata added.

5.700
Typified names added; some corrections for trivial names; classes for Bryozoa; Medusozoa changed.

5.701
Typified names changed in accordance with Kluge (2006) and Kusakin, Drozdov (1998).

5.702
Corallomyxa (Tekle et al., 2007); Gastrotricha (Petrov et al., 2007); Myxozoa to Cnidaria with new classification (Jimenez-Guri et al., 2007).

5.703
Typographic changes; "Taxopsida" (Cupressopsida) included to Pinopsida (Burleigh, Mathews, 2007).

5.704
Gastrotricha, Bryozoa and Entoprocta (Gerlach et al., 2007); move Spirochaetes (Griffiths, 2007); Sarcomastigonta are polyphyletic? (Rodriguez-Ezpeleta et al., 2007); Reticuloamoeba (Pawlowski et al., 2003); Meteora (Hausmann et al., 2002).

5.705
Border of Parazoa and Eumetazoa changed (Ball et al., 2007; Sinniger et al., 2007), new structure of Anephrozoa (Wallberg et al., 2007), Rhizaria separated from Amoebozoa (Burki et al., 2007).

5.706
Changes in Arthropoda (Carapelli et al., 2007); Amoebozoa (Smirnov et al., 2007; Fiore-Donno et al., 2007; Pawlowski and Fahrni, 2007); Rhizaria moved (Mikhailov, Aleoshin, 2007).

5.707
Spiralia changed (Hausdorf et al., 2007)

5.708
Small corrections

5.709
``SCGI'' group added

5.710
Small correction

5.711
Major changes in basal and other Metazoa (Daly, 2007; Giribet et al., 2007; Giribet, 2008; Jenner, 2008; Erpenbeck, 2007; Hejnol, 2008; Helmkampf et al., 2008; Burton, 2008; Podsiadlowski et al., 2007; Roeding, 2007; Ryan et al., 2007; Struck, 2008; Telford et al., 2007; Swalla & Smith, 2008; Jankowski et al., 2008; Maas et al., 2008; Massard et al., 2008; Schockaert et al., 2008; Shigeno et al., 2008), corrections in Pancrustacea (Boxshall, 2007), Bacteria (Jumas-Bilak et al., 2007; Euzeby, 2008; Garrity et al., 2007, Gao et al., 2007; Servin, 2007; Sugihara et al., 2008, Ciccarelli et al., 2006; Iwasaki & Takagi, 2007), Dinozoa (Leander, 2008, Logares et al., 2007), Choanozoa (Ruiz-Trillo et al., 2008), Excavata (Simpson et al., 2008), Bryophyta (Troitsky et al., 2007), protists (Wang et al., 2008).

5.712
Changed order in Pancrustacea classes (Moeller et al., 2008); Chromerida instead of 'RM12' (Moore et al., 2008)

5.720
Small changes

5.721
Small changes in Ciliophora (Breiner et al., 2008), changes in Amoebozoa (Smirnov et al., 2005, 2007; Tekle et al., 2008) and in general strucrure of protists (Yoon et al., 2008).
 
5.722
Kamptozoa ~ Mollusca (Haszprunar and Wanninger, 2008; Yokobori et al., 2008).

5.723
Changes in Chromophyta (Kawachi, 2002; Kai, 2008). Stephanopogon -> Heterolobosea (Yubuki, Leander, 2008).

5.724
Changes in Choanozoa, Lophotrochozoa (Dunn et al., 2008); Chlorophyta (Zingone et al., 2002; Proeschold and Proeschold, 2007; Cavalier-Smith, 2007); some other protists (Cavalier-Smith, 2007).

5.725
``Biliphyta'' (Cuvelier et al., 2008); Filasterea (Shalchian-Tabrizi et al., 2008).

5.726
Several typified names corrected.

5.727
Typified names corrected (with a help of A. Chernyshev, according to N. Kluge names from http://www.insecta.bio.pu.ru/z/nom/_typ-A.htm.

5.728
Several corrections.

5.729
"Monoplacophora" correction.

5.730
Another correction.

5.731
Infraregnum Apusozoa (Karpov, 2008 etc.); Placozoa moved again (Lavrov et al., 2008); Trebouxiophyceae -> Ulvophyceae (Turmel et al., 2008 etc.); Blasiopsida and Pelliopsida (Frey et al., 2005; Wahrmund et al., 2007), clarification of "i.s.".

5.790
4 main clades, major movements to meet them, Chlorophyte changed (Viprey et al., 2008), OP10 (Stott et al., 2008), Buxbaumiales -> Bryopsida (Stech & Frey, 2008).

5.791
Animalia went back, Monoplacophora, small changes.

5.792
Homonyms removed, some new names established, Chlorobionta (Burki et al., 2008), changes in Animalis (G. Edgecombe, pers. comm.), Homoscleromorpha ~ Calcispongia (Dohrmann et al., 2008); Korarchaeum (Elkins et al., 2008). 

5.793
Small changes.

5.794
Anthozoa: 2 classes.

5.795
Small changes.

5.796
Changes in abbreviations; Archynchocoela (Chernyshev, 2008, 1995); little changes in Bacteria (Hao, Gao, 2008, 2007); position of Priapulida (Wennberg, 2008); status of Anephrozoa (Edgecombe, 2008, pers. comm.; Deutsch, 2008; Philippe, 2007); animal subregnums according to hypothesis of Nielsen, 2008; classes of Mollusca (Haszrupnar et al., 2008; Todt et al., 2008).

5.797
Changes in Archaea (Yu. Wolf, pers. comm., Brochier-Armanet et al., 2008).

5.798
Cosmetic changes (labels after typified names); Cercozoa (Cavalier-Smith et al., 2008); subphyla in Ciliophora (Lynn, 2008); Pedinophyceae (Moestrup, 1991; Proeschold and Leliaert 2007; Vaulot, 2008)

5.7981
Pancrustacea changed, plus some new typified names (Starobogatov, 1988; Huys et al., 1993; Perez-Losada et al., 2002; Chesunov, 2002; Waloscek et al., 2005; Martin and Davis, 2001; Ponomarenko, 2006); revive of Tentaculata (Vinogradov, 2004; Wood and Lore, 2005), but still lot of fuzziness (s.aggr.); Planctosphaera in Enteropneusta (Hart et. al., 1994 etc.); new names for Cyanobacteria (Komarek, 2005); Bacteria reworked (Mazon et al., 2006; Barion et al., 2007; Damste et al., 2008; Hao et al., 2008; Nuonura, 2008 and other papers).

5.7982
Xenoturbellida in Acoelomprpha, this is more convenient for "bauplan" criterion.

5.7983
Demospongia s. ggr. (Botting, 2003), Chaetozoa moved (Colgan et al., 2008); Excavata s.l. (Kim, Graham, 2008); Cycloneuralia changed (Sorensen et al., 2008); Myzostomida (Bleindorn et al., 2007a; Lanterbecq et al., 2008).

5.7984
Endomicrobia moved (Hongoh et al., 2008); slight changes in Metamonada (Kolisko et al., 2008); ``MAST'' group placements (Worden and Not, 2008); Chlorophyta subphyla (Rodrigues-Espeleta et al., 2007 etc.).

5.7985
Bacterial names changed to adopt Euzeby (2008) nomenclatorial database and ICNB recommendations; changes in Cercozoa (Chantangsi, 2008); changes in Basidiomycota (Matheny et al., 2006; Scheuer et al., 2008); Treubiopsida (Parker, 1982).

5.8000
Some typified names changed according to N. Kluge (pers. comm.) and Doweld (2001).

5.8001
Apusozoa and a structure of "Biconta" changed (Cavalier-Smith et al., 2008), little changes in Arthropoda (Gai et al., 2008; Glenner et al., 2008).

5.8002
Slight changes in Dinozoa (Guillou et al., 2008); Chaetozoa moved (Marletaz, Le, 2008); Lobosea re-worked (Pawlowski, 2008; Moran et al., 2007); support for Cryptista (Sanchez-Puerta, 2008).

5.8003
Slight changes in Bryophyta (Koch et al., 2008), in crustaceans (Grygier, 1983; Newman, 1983; Boxshall, 1983 etc.); changes in Monera names and positions (Bousseau et al., 2008).

5.8004
Small changes in different protists (Brown et al., 2008; Grant et al., 2008; Minge et al., 2008; Yabuki, Ishida, 2008; Yubuki et al., 2008; Tsiu et al., 2008; Cavalier-Smith, 2008); bacteria (Horiike et al., 2008; Fukunaga et al., 2008; Ganesan et al., 2008); revive of Coelenterata (Schierwater et al., 2008b); Cercozoa reworked (Bass et al., 2008; Skovgaard, 2008).

5.8005
Minute change.

5.8006
Cryptophyta: added Tetragonidium, Bjornbergiella (Pringsheim, 1944; Moehn, 1980); Acidobacteria incl. Solibacteres (diff. sources); Mollusca closer to Entoprocta (Haszprunar, Wanninger, 2008); Acoelomorpha to Deuterostomia (Hejnol, Martindale, 2008; Telford, 2008b etc.); Diurodrilidae sed.m. in Annelida (Worsaae, Rouse, 2008).

5.8007
Brachiopoda changed (Williams et al., 1996 and other sources).

5.8008
Diuridrilus moved further; Bryophyta changed (Crandall-Stotler et al., 2008; Goffinet et al., 2008).

5.8009
Changes in Monera (Lake et al., 2008; Fuerst, 2007; Ludwig et al., 2008a, 2008b), Amoebozoa (Kudryavtsev et al., 2008), Arthropoda (Dell'Ampio et al., 2008; Regier et al., 2008) and Chlorophyta (Turmel et al., 1999; Turmel et al., 2008; Nakayama et al., 2007; Durako, Bailey, 2007; Pombert et al., 2007).

5.8010
Symbiobacteria -> Clostridia (Nishida et al., 2009); Gnathostomulea (Paps et al., 2009).

5.8011
Changes in Euglenozoa (Yubuki et al., 2009).

5.0812
Aminanaerobia.

5.0813
Cycliophora.

5.0814
Changes in many names; in Amoebozoa and Rhizaria (Pawlowski, Burki, 2009); Chromophyta (Riisberg et al, 2009; Patil et al., 2009); Annelida (Mwinyi et al., 2009); Remipedia (Koenemann et al., 2009); Dinozoa (Hoppenrath, Leander, 2009); Breviatozoa; Discoba (Hampl et al., 2009).

5.0815
Names change; Protista have been made more realistic (5 infraregnums, no subregnums).

5.8016
Small change.

5.8017
Changes in names and qualifiers.

5.8018
Fonticula moved once again (Worley et al., 1979; Deasey et al., 1982); Semimorula, Protostelia and Copromyxidae to Mycetozoa (Haskins et al., 1983; Nesom, Olive, 1972; Raper et al., 1978; Dykstra, 1977); Thalassochytrium to Chytridiomycetes (Nyvall et al., 1989); breake Coelenterata again, Cycliophora -> Kamptozoa (Schierwater et al., 2009; Hejnol, in review); three classes of Hepaticae (Crandall-Stotler et al., 2009); changes in Chromophyta (Grant et al., 2009); Spirogyromyces (Tzean, Barron, 1981); Monadifilosea changes (Howe et al., 2009): only five classes.

5.8019
Small changes in protists and bacteria (Gong et al., 2009; Nechitaylo et al., 2009).

5.8020
Changes in Bacteria (Mori et al., 2008 and in press; Guermazi et al., 2008); very small changes in several places.

5.8100
Synergistia (Jumas-Bilak et al., 2009), Thermodesulfobacteria (Miroshnichenko et al., 2009); Telonemia as a phylum (Reeb et al., 2009).

5.8101
Small change.

5.8102
Very small change.

5.8103
Synergistetes and Elusimicrobia (Herlemann et al., 2009); protist subkingdoms (Rogozin et al., 2009; L. Katz, pers. comm.); Ascomycota (Schoch et al., 2009).

5.8104
Hemimastigea into Cercozoa, some other changes there (Cavalier-Smith et al., 2009); changes in Conosea (Fiore-Donno et al., 2009a, b); changes in Metazoa incl. name change Cycloneuralia -> Nemathelminthes (Paps et al., 2009; Sperling et al., 2009); Bacteria (Puigbo et al., 2009; Mori et al., 2009; Lake et al, 2009); Geoglossomycetes (Schoch et al., 2009); Chlorophyta (Turmel et al., 2009).

5.8105
Apusozoa in Panmycota (Baldauf, 2009; Brown et al., 2009); Porifera again (Campbell, Pisani, 2009; Voigt et al., 2009); expanded Gnathifera (Kieneke et al., 2009; Witek et al., 2009); Olpidium (Larsson, 2009; Sekimoto et al., 2009); Oedipodiopsida (Chang, Graham, 2009); Chlorophyta (Cocquyt et al., 2009); Panalgae (Nozaki, 2009; Nozaki et al., 2009; Burki et al., 2009; Frommolt, 2008; Maruyama et al., 2009); Fonticula (Brown et al., 2009); Amoebozoa (Cole et al., 2009); Zetaproteobacteria (Emerson et al., 2007; Kato et al., 2009); Ignavibacteria (Iino et al., 2009); Rozellomycetes (Lara et al., 2009); Negativicutes (Marchandin et al., 2009); Acoelomorpha (Jondelius, pers. comm.).

5.8200
Small changes (Santagata, Cohen, 2009; Chantangsi, Leander, 2009; Wahrmund et al.); removal of Thaumarcheota (Blombach et al., 2009); Excavata may be separate (Desmond, Gribaldo, 2009; Torruella et al., 2009);
Rhombozoa closer to Orthonecta (Kobayashi et al., 2009); support for Kamptozoa s.l. (Malatt et al., 2009); Hacrobia, minus Telonemia (Okamoto et al., 2009); Protostelia splitted between Variosea and Macromycetozoa (Shadwick et al., 2009).

5.8300
Thecofilosea (Chantangsi, Leander, 2009); 2 eukaryote subkingdoms (Cavalier-Smith, 2009); bacteria rearranged (Wu et al., 2009; Jun et al., 2009; Cavalier-Smith, 2009); 
Nucleomycota (Liu et al., 2009); Chlorophyta radically changed (Marin, Melkonian, 2009); Opalozoa (Kim et al., 2009 etc.); crustaceans rearranged (Koenemann et al., 2009; Jenner, 2009).

5.8400
Polyzoa (Gruhl, 2009; Hausdorf et al., 2010; Hejnol et al., 2009), Spermatophyta (Mathews et al., 2010).

5.8401
Parabasalea (Cepicka et al., 2010); Protocruziidea (LiFang et al., 2010); Nucleoophaga (Michel et al., 2009); changes in Bacteria (Nitschke et al., 2010); Oligostraca (regier et al., 2010); Cyanobacteria (Gupta, Mathews, 2010).

5.8402
Bihospites (Breglia et al., 2010); Grellamoeba (Dykova et al., 2010); Ancyromonas (Heiss et al., 2010); Xenoturbella (Nielsen, 2010); Trizobia (Stenroos et al., 2009); Parvarchaea (Baker et al., 2010); Anisomonadea, Palpitomonadea (Yubuki et al., 2010); Brachiozoa (Helmkampf et al., 2008).

5.8403
Cercozoa (Chantangsi et al., 2010); Thaumarcheota (Muller et al., 2010; Spang et al., 2010); Armatimonasia (Tamaki et al., 2010).

5.9000
Rhizomastix (Cepicka et al., 2010); Mantamonas etc. (Glueksman et al., 2010); support for current Lophotrochozoa in Hejnol, 2010; for Archaebacteria in Kelly et al., 2010 and Sun et al., 2010; Deferribacteria in Kunisawa, 2010a; Chloroflexi (Kinisawa, 2010b); Corallochytrium (Marshall, Berbee, 2010); Acoelomorpha (Mwinyi et al., 2010); Ctenophora again (Ryan et al., 2010); Palmophyllales (Zechman et al., 2010); Equisetopsida (Rai, Graham, 2010); Telonemea, Soginia, Metopion, Mikrocytos mackini, Endomyxa changed basing on Parfrey et al., 2010.

5.9100
Copromyxa and other Amoebozoa (Brown et al., 2010); Andersen et al., 2011 support Chromophyta; Cercozoa changes (Burki et al., 2010; Howe et al., 2011; Yabuki & Ishida, 2011); Echinodermata (Janies et al., 2011); "rappenomonads" (Kim et al., 2010); Armatimonadetes (Lee et al., 2010); Caldiarchaeum (Nuonura et al., 2010); Mesozoa (Petrov et al., 2010); Blastocladiomycetes (Porter et al., 2011); major changes in Annelida (Struck et al., 2011); in Ciliophora (Vdacny et al., 2010).

5.9200
Nanoarchaeota (Brochier-Armanet, 2011); "Cryptomycetes" name (Jones et al., 2011); - Breviatozoa (Katz et al., 2011); Vetuliozoa for Acoelomorpha + Deuterostomia (de Mendoza and Ruiz-Trillo, 2011); Tsukubamonas (Yabuli et al., 2011); multiple changes in Amoebozoa (Kudryavtsev et al., 2011); Pharyngomonas (Park and Simpson, 2011); Monoblastozoa (Frenzel, 1892).

5.9300
Names in Cercozoa (Cavalier-Smith, Karpov, 2011); Pedinophyceae (Fawley et al., 2011); changes in Mollusca (Kocot et al., 2011; Smith et al., 2011); Radiolaria (Krabbered et al., 2011); Pteridophyta (Lehtonen, 2011); Chromerida (Obornik et al., 2011); Cariacotrichea in Ciliophora (Orsi et al., 2011); Ctenophora (Pisani et al., 2011); Archaeorhizomycetes (Roslig et al., 2011); Lobosea completely reworked basing on Smirnov et al., 2011; changes in Ascidia (Tatian et al., 2011), Eomycota (Torruella et al., 2011); Chromophyta reworked in accordance to Yang et al.

6.0
Technical cleaning and change of version treatment

6.1
Chlorophyta (Friedl, Rybalka, 2012; Marin, 2012); Solenicolida and MASTs (Gomez et al., 2011; Lin et al., 2012); Retaria (Ishitani, 2011); Proteomyxidea (Hess, 2012); Mucoromycetes (Hoffmann et al., 2011); Glomeromycetes (Oehl et al., 2011); Ascomycota (Kumar et al., 2011); Annelida (Struck, 2011); Diphylatia and Malawimonozoa (Zhao et al., 2012); Cercozoa (Cavalier-Smith, Oates, 2012; Ota et al., 2011; Cavalier-Smith, Chao, 2012); Heliozoa and Cryptista (Cavalier-Smith, Chao, 2012; Yabuki et al., 2011); Caudofoveata (Faller et al., 2012); Mikrocytos (Abbott, 2011 and BLAST search)