Editing Pseudomonadota (section)

==Taxonomy==
The currently accepted taxonomy is based on the [[List of Prokaryotic names with Standing in Nomenclature]] (LPSN)<ref name=LPSN>{{cite web |author=A.C. Parte |url=https://lpsn.dsmz.de/phylum/pseudomonadota |title=Pseudomonadota |access-date=2025-02-28 |publisher=[[List of Prokaryotic names with Standing in Nomenclature]] (LPSN) |display-authors=et al.}}</ref> and [[National Center for Biotechnology Information]] (NCBI).<ref name=NCBI>{{cite web |author=C.L. Schoch |url=https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Tree&id=1224&lvl=3&lin=f&keep=1&srchmode=1&unlock |title=Pseudomonadota |access-date=2025-02-28 |publisher=[[National Center for Biotechnology Information]] (NCBI) taxonomy database |display-authors=et al.}}</ref>

The group Pseudomonadota is defined based on [[ribosomal RNA]] (rRNA) sequencing, and are divided into several subclasses. These subclasses were regarded as such for many years, but are now treated as various classes of the phylum. These classes are [[monophyly|monophyletic]].<ref>{{cite book | vauthors = Krieg NR, Brenner DJ, Staley JT |title=Bergey's Manual of Systematic Bacteriology  |publisher=Springer |year=2005 |isbn=978-0-387-95040-2 |volume= ((2: The Proteobacteria))}}</ref><ref>{{cite journal | vauthors = Ciccarelli FD, Doerks T, von Mering C, Creevey CJ, Snel B, Bork P | title = Toward automatic reconstruction of a highly resolved tree of life | journal = Science | volume = 311 | issue = 5765 | pages = 1283–1287 | date = March 2006 | pmid = 16513982 | doi = 10.1126/science.1123061 | bibcode = 2006Sci...311.1283C | s2cid = 1615592 | citeseerx = 10.1.1.381.9514}}</ref><ref>{{cite journal | vauthors = Yarza P, Ludwig W, Euzéby J, Amann R, Schleifer KH, Glöckner FO, Rosselló-Móra R | title = Update of the All-Species Living Tree Project based on 16S and 23S rRNA sequence analyses | journal = Systematic and Applied Microbiology | volume = 33 | issue = 6 | pages = 291–299 | date = October 2010 | pmid = 20817437 | doi = 10.1016/j.syapm.2010.08.001| bibcode = 2010SyApM..33..291Y }}</ref> The genus ''[[Acidithiobacillus]]'', part of the Gammaproteobacteria until it was transferred to class Acidithiobacillia in 2013,<ref name="WilliamsKelly" /> was previously regarded as [[paraphyly|paraphyletic]] to the ''Betaproteobacteria'' according to [[Phylogenomics|multigenome alignment studies]].<ref name=":3">{{cite journal | vauthors = Williams KP, Gillespie JJ, Sobral BW, Nordberg EK, Snyder EE, Shallom JM, Dickerman AW | title = Phylogeny of gammaproteobacteria | journal = Journal of Bacteriology | volume = 192 | issue = 9 | pages = 2305–2314 | date = May 2010 | pmid = 20207755 | pmc = 2863478 | doi = 10.1128/JB.01480-09}}</ref> In 2017, the [[Betaproteobacteria]] was subject to major revisions and the class [[Hydrogenophilalia]] was created to contain the order [[Hydrogenophilales]]<ref name="Bodenetal2017" />

Pseudomonadota classes with validly published names include some prominent genera:<ref>{{cite web |title=Interactive Tree of Life |url=http://itol.embl.de/ |url-status=live |archive-url=https://web.archive.org/web/20220223203638/http://itol.embl.de/ |archive-date=23 February 2022 |access-date=23 February 2022 |publisher=[[European Molecular Biology Laboratory]] |place=Heidelberg, DE |language=en}}</ref> e.g.:
* [[Acidithiobacillia]]: ''[[Acidithiobacillus thiooxidans|Acidithiobacillus]]'', ''[[Thermithiobacillus tepidarius|Thermithiobacillus]]''
* [[Alphaproteobacteria]]: ''[[Brucella]], [[Rhizobium]], [[Agrobacterium]], [[Caulobacter]], [[Rickettsia]], [[Wolbachia]]'', etc.
* [[Betaproteobacteria]]: ''[[Bordetella]], [[Ralstonia]], [[Neisseria]], [[Nitrosomonas]]'', etc.
* [[Gammaproteobacteria]]: ''[[Escherichia]], [[Shigella]], [[Salmonella]], [[Yersinia]], [[Buchnera (bacterium)|Buchnera]], [[Haemophilus]], [[Vibrio]], [[Pseudomonas]]'', [[Pasteurella]]'',  etc.''
* [[Zetaproteobacteria]]: ''[[Mariprofundus ferrooxydans|Mariprofundus]]''

{| class="wikitable"
|-
! colspan="1" | according to iTOL, Bergey's <br/>and others.
! colspan=1 | 16S rRNA based [[The All-Species Living Tree Project|LTP]]_10_2024<ref>{{cite web |title=The LTP |url=https://imedea.uib-csic.es/mmg/ltp/#LTP| access-date=10 December 2024}}</ref><ref>{{cite web |title=LTP_all tree in newick format |url=https://imedea.uib-csic.es/mmg/ltp/wp-content/uploads/ltp/LTP_all_10_2024.ntree |access-date=10 December 2024}}</ref><ref>{{cite web |title=LTP_10_2024 Release Notes |url=https://imedea.uib-csic.es/mmg/ltp/wp-content/uploads/ltp/LTP_10_2024_release_notes.pdf |access-date=10 December 2024}}</ref>
! colspan=1 | 120 marker proteins based [[Genome Taxonomy Database|GTDB]] 09-RS220<ref name="about">{{cite web |title=GTDB release 09-RS220 |url=https://gtdb.ecogenomic.org/about#4%7C |website=[[Genome Taxonomy Database]] |access-date=10 May 2024}}</ref><ref name="tree">{{cite web |title=bac120_r220.sp_labels |url=https://data.gtdb.ecogenomic.org/releases/release220/220.0/auxillary_files/bac120_r220.sp_labels.tree |website=[[Genome Taxonomy Database]] |access-date=10 May 2024}}</ref><ref name="taxon_history">{{cite web |title=Taxon History |url=https://gtdb.ecogenomic.org/taxon_history/ |website=[[Genome Taxonomy Database]] |access-date=10 May 2024}}</ref>
|-
| style="vertical-align:top" |
{{Clade | style=font-size:90%;line-height:80%
|1={{clade
  |1=[[Alphaproteobacteria]]
  |2={{clade
    |1=[[Zetaproteobacteria]]
    |2={{clade
      |1=[[Gammaproteobacteria]]
      |2=[[Betaproteobacteria]]
      |3=[[Hydrogenophilalia]]        
       }}
     }}
   }}
}}
|
{{Clade | style=font-size:90%;line-height:80%
|1={{clade
  |1={{clade
    |1=other
    |2={{clade
      |1=other
      |2={{clade
      |label1="Caulobacterota"
      |sublabel1=("Alphaproteobacteriota")
      |1="[[Caulobacteria]]" ([[Alphaproteobacteria]])
         }}
       }}
     }}
  |2={{clade
    |1=other
    |2={{clade
    |label1="Chromatibacteria"
    |1={{clade
      |1={{clade
        |1={{clade
          |1=[[Thiohalorhabdales]]
          |2={{clade
            |1=[[Magnetococcales|Magnetococcia]]
            |2="[[Mariprofundales|Mariprofundia]]" ([[Zetaproteobacteria]])
             }}
           }}
        |2={{clade
          |1=[[Methylohalomonadales]]
          |2={{clade
            |1=[[Thiohalomonadales]]
            |2={{clade
              |1=[[Thiomicrospirales]]
              |2={{clade
                |1=[[Hydrogenophilalia]]
                |2=[[Betaproteobacteria]]
                 }}
               }}
             }}
           }}
         }}
      |2="Pseudomonadia" ([[Gammaproteobacteria]]<br/> and nested [[Acidithiobacillia]])
       }}
       }}
     }}  
   }}
}}
|
{{Clade | style=font-size:90%;line-height:80%
|1={{clade
  |1={{clade
  |label1="[[Caulobacteria]]"
  |sublabel1=([[Alphaproteobacteria]])
  |1={{clade
    |1=Clade 1
    |2={{clade
      |1="Rickettsiidae"
      |2="Caulobacteridae"
       }}
     }}
     }}
  |2={{clade
    |1="[[Mariprofundales|Mariprofundia]]" ([[Zetaproteobacteria]])
    |2={{clade
      |1=[[Magnetococcales|Magnetococcia]]
      |2={{clade
      |label1="[[Pseudomonadia]]"
      |1={{clade
        |1="Neisseriidae" ([[Betaproteobacteria]]<br/> & nested [[Hydrogenophilalia]])
        |2="Pseudomonadidae" ([[Gammaproteobacteria]]<br/> & nested [[Acidithiobacillia]])
         }}
         }}
       }}
     }}
   }}
}}
|}