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| subdivision_ranks = Families<ref name="LPSN">{{cite web |vauthors=Euzéby JP, Parte AC |url=https://lpsn.dsmz.de/class/acidimicrobiia |title=''Acidimicrobiia'' |access-date=June 22, 2021 |publisher=[[List of Prokaryotic names with Standing in Nomenclature]] (LPSN)}}</ref>
| subdivision_ranks = Families<ref name="LPSN">{{cite web |vauthors=Euzéby JP, Parte AC |url=https://lpsn.dsmz.de/class/acidimicrobiia |title=''Acidimicrobiia'' |access-date=June 22, 2021 |publisher=[[List of Prokaryotic names with Standing in Nomenclature]] (LPSN)}}</ref>
| subdivision =
| subdivision =
* "[[Actinomarinales]]"
** "[[Actinomarinaceae]]"
* [[Acidimicrobiales]]
* [[Acidimicrobiales]]
** [[Acidimicrobiaceae]]
** [[Acidimicrobiaceae]]
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** [[Ilumatobacteraceae]]
** [[Ilumatobacteraceae]]
** "[[Microtrichaceae]]"
** "[[Microtrichaceae]]"
* "[[Actinomarinales]]"
** "[[Actinomarinaceae]]"
* "[[Spongiisociales]]"
** "[[Spongiisociaceae]]"
| synonyms =
| synonyms =
* Acidimicrobiidae <small>Rainey & Ward-Rainey 1997</small>
* Acidimicrobiidae <small>Rainey & Ward-Rainey 1997</small>
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==Phylogeny==
==Phylogeny==
The currently accepted taxonomy is based on the [[List of Prokaryotic names with Standing in Nomenclature]] (LPSN)<ref name="LPSN"/> and [[National Center for Biotechnology Information]] (NCBI).<ref>{{cite web |author = Sayers| url=https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Tree&id=84992&lvl=3&lin=f&keep=1&srchmode=1&unlock |title=Acidimicrobiia |access-date=2021-03-20 |publisher=[[National Center for Biotechnology Information]] (NCBI) taxonomy database |display-authors=etal}}</ref>


{| class="wikitable"
{| class="wikitable"
|-
|-
! colspan=1 | [[MLST]] based phylogeny of 30 proteins.<ref><!-- Figure 1B of the following. -->{{cite journal | vauthors = Hu D, Cha G, ((Gao B.)) | year = 2018 | title = A phylogenomic and molecular markers-based analysis of the class ''Acidimicrobiia'' | journal = Frontiers in Microbiology | volume = 9 | pages = 987 | doi = 10.3389/fmicb.2018.00987 | pmid = 29867887 | pmc = 5962788 | doi-access = free}}</ref>
! colspan=1 | [[MLST]] based phylogeny of 30 proteins.<ref><!-- Figure 1B of the following. -->{{cite journal | vauthors = Hu D, Cha G, ((Gao B.)) | year = 2018 | title = A phylogenomic and molecular markers-based analysis of the class ''Acidimicrobiia'' | journal = Frontiers in Microbiology | volume = 9 | pages = 987 | doi = 10.3389/fmicb.2018.00987 | pmid = 29867887 | pmc = 5962788 | doi-access = free}}</ref>
! colspan=1 | 16S rRNA based [[The All-Species Living Tree Project|LTP]]_12_2021<ref>{{cite web|title=The LTP |url=https://imedea.uib-csic.es/mmg/ltp/#LTP| access-date=23 February 2021}}</ref><ref>{{cite web|title=LTP_all tree in newick format| url=https://imedea.uib-csic.es/mmg/ltp/wp-content/uploads/ltp/Tree_LTP_all_12_2021.ntree |access-date=23 February 2021}}</ref><ref>{{cite web|title=LTP_12_2021 Release Notes| url=https://imedea.uib-csic.es/mmg/ltp/wp-content/uploads/ltp/LTP_12_2021_release_notes.pdf |access-date=23 February 2021}}</ref>
! colspan=1 | 16S rRNA based [[The All-Species Living Tree Project|LTP]]_08_2023<ref name=LTP>{{cite web|title=The LTP |url=https://imedea.uib-csic.es/mmg/ltp/#LTP| access-date=20 November 2023}}</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_08_2023.ntree |access-date=20 November 2023}}</ref><ref>{{cite web|title=LTP_08_2023 Release Notes| url=https://imedea.uib-csic.es/mmg/ltp/wp-content/uploads/ltp/LTP_08_2023_release_notes.pdf |access-date=20 November 2023}}</ref>
! colspan=1 | GTDB 07-RS207 by [[Genome Taxonomy Database]]<ref name="about">{{cite web |title=GTDB release 07-RS207 |url=https://gtdb.ecogenomic.org/about#4%7C |website=[[Genome Taxonomy Database]]|access-date=20 June 2022}}</ref><ref name="tree">{{cite web |title=ar53_r207.sp_label |url=https://data.gtdb.ecogenomic.org/releases/release207/207.0/auxillary_files/ar53_r207.sp_labels.tree |website=[[Genome Taxonomy Database]]|access-date=20 June 2022}}</ref><ref name="taxon_history">{{cite web |title=Taxon History |url=https://gtdb.ecogenomic.org/taxon_history/ |website=[[Genome Taxonomy Database]]|access-date=20 June 2022}}</ref>
|-
|-
| style="vertical-align:top|
| style="vertical-align:top|
{{Clade | style=font-size:90%;line-height:80%
{{Clade | style=font-size:90%;line-height:80%
|label1='''Acidimicrobiales'''
|label1=Acidimicrobiales
|1={{clade
|1={{clade
|1=''[[Aciditerrimonas]]''
|1=''[[Aciditerrimonas]]''
|2={{clade
|2={{clade
|1={{clade
|label1=[[Acidimicrobiaceae]]
|label1=[[Acidimicrobiaceae]]
|1={{clade
|1={{clade
|1="''[[Acidithrix]]''"
|1=''[[Acidithrix]]''
|2={{clade
|2={{clade
|1=''[[Ferrithrix]]''
|1=''[[Ferrithrix]]''
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}}
}}
}}
}}
}}
}}
}}
|2={{clade
|2={{clade
|1={{clade
|label1=[[Iamiaceae]]
|label1=[[Iamiaceae]]
|1={{clade
|1={{clade
|1=''[[Aquihabitans]]''
|1=''[[Aquihabitans]]''
|2=''[[Iamia]]''
|2=''[[Iamia]]''
}}
}}
}}
|2={{clade
|2={{clade
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|
|
{{Clade | style=font-size:90%;line-height:80%
{{Clade | style=font-size:90%;line-height:80%
|label1='''Acidimicrobiales'''
|label1=Acidimicrobiales
|1={{clade
|1={{clade
|1={{clade
|label1=[[Acidimicrobiaceae]]
|label1=[[Acidimicrobiaceae]]
|1={{clade
|1={{clade
|1={{clade
|1={{clade
|1=''[[Acidiferrimicrobium]]''
|1=''[[Acidiferrimicrobium]]'' <small>González et al. 2020</small>
|2=''[[Aciditerrimonas]]''
|2=''[[Aciditerrimonas]]''
}}
}}
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|1=''[[Acidimicrobium]]''
|1=''[[Acidimicrobium]]''
|2={{clade
|2={{clade
|1=''[[Ferrimicrobium]]''
|1=''[[Acidithrix]]''
|2=''[[Ferrithrix]]''
|2={{clade
|1=''[[Ferrimicrobium]]''
|2=''[[Ferrithrix]]''
}}
}}
}}
}}
}}
}}
}}
}}
|2={{clade
|2={{clade
|label1=[[Iamiaceae]]
|label1=[[Ilumatobacteraceae]]
|1={{clade
|1={{clade
|1=''[[Desertimonas]]''
|2=''[[Ilumatobacter]]''
}}
|label2=[[Iamiaceae]]
|2={{clade
|1={{clade
|1={{clade
|1=''[[Aquihabitans]]''
|1=''[[Aquihabitans]]''
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|2=''[[Iamia]]''
|2=''[[Iamia]]''
}}
}}
}}
|label2=[[Ilumatobacteraceae]]
|2={{clade
|1=''[[Desertimonas]]''
|2=''[[Ilumatobacter]]''
}}
}}
}}
}}
}}
}}
}}
}}
|
|}

{| class="wikitable"
|-
! colspan=1 | 120 marker proteins based [[Genome Taxonomy Database|GTDB]] 08-RS214<ref name="about">{{cite web |title=GTDB release 08-RS214 |url=https://gtdb.ecogenomic.org/about#4%7C |website=[[Genome Taxonomy Database]]|access-date=10 May 2023}}</ref><ref name="tree">{{cite web |title=bac120_r214.sp_label |url=https://data.gtdb.ecogenomic.org/releases/release214/214.0/auxillary_files/bac120_r214.sp_labels.tree |website=[[Genome Taxonomy Database]]|access-date=10 May 2023}}</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 2023}}</ref>
|-
| style="vertical-align:top|
{{Clade | style=font-size:90%;line-height:80%
{{Clade | style=font-size:90%;line-height:80%
|label1='''Acidimicrobiia'''
|label1=Acidimicrobiia
|1={{clade
|1={{clade
|label1="Actinomarinales"
|label1="Actinomarinales"
|1={{clade
|1={{clade
|label1="Actinomarinaceae"
|label1="Actinomarinaceae"
|1=''Ca.'' "[[Actinomarina]]"
|1=''Ca.'' "[[Actinomarina]]" <small>Ghai et al. 2013</small>
}}
}}
|label2=[[Acidimicrobiales]]
|label2=[[Acidimicrobiales]]
|2={{clade
|2={{clade
|label1=[[Acidimicrobiaceae]]
|1={{clade
|1={{clade
|1="''[[Acidithrix]]''"
|label1=UBA8190
|1=''[[Aciditerrimonas]]'' <small>Itoh et al. 2011 </small>
|label2=[[Acidimicrobiaceae]]
|2={{clade
|2={{clade
|1=''[[Ferrithrix]]''
|1=''[[Acidithrix]]'' <small>Jones & Johnson 2022</small>
|2={{clade
|2={{clade
|1=''[[Ferrimicrobium]]''
|1=''[[Ferrithrix]]'' <small>Johnson et al. 2009</small>
|2=''[[Acidimicrobium]]''
|2={{clade
|1=''[[Ferrimicrobium]]'' <small>Johnson et al. 2009</small>
|2=''[[Acidimicrobium]]'' <small>Clark & Norris 1996</small>
}}
}}
}}
}}
}}
}}
}}
|2={{clade
|2={{clade
|1={{clade
|label1=[[Ilumatobacteraceae]]
|label1=[[Ilumatobacteraceae]]
|1={{clade
|1={{clade
|1=''[[Desertimonas]]''
|1=''[[Desertimonas]]'' <small>Asem et al. 2018</small>
|2=''[[Ilumatobacter]]''
|2=''[[Ilumatobacter]]'' <small>Matsumoto et al. 2009</small>
}}
}}
}}
|2={{clade
|2={{clade
|label1=JAAYBP01
|1={{clade
|1=''[[Aquihabitans]]''
|label1="Poriferisodalaceae"
|1="''Ca.'' [[Poriferisodalis]]" <small>Nguyen 2022</small>
}}
|2={{clade
|2={{clade
|label1=
|1={{clade
|1={{clade
|1=''[[Actinomarinicola]]''
|label1="Rhabdothermincolaceae"
|2=''[[Rhabdothermincola]]''
|1=''[[Rhabdothermincola]]'' <small>Liu et al. 2021</small>
|label2=[[Iamiaceae]]
|2={{clade
|1=''[[Aquihabitans]]'' <small>Jin et al. 2013</small>
|2=''[[Iamia]]'' <small>Kurahashi et al. 2009</small>
}}
}}
|2={{clade
|1={{clade
|label1="Actinomarinicolaceae"
|1=''[[Actinomarinicola]]'' <small>He et al. 2020</small>
}}
|2={{clade
|1={{clade
|label1="Microtrichaceae"
|1="''Ca.'' [[Neomicrothrix]]" <small>corrig. Blackall et al. 1996</small> ["''Ca.'' [[Microthrix]]" <small>Blackall et al. 1996 non Ragonot 1888</small>]
}}
|2={{clade
|label1="Aldehyrespiratoraceae"
|1="''Ca.'' [[Aldehyrespirator]]" <small>Nguyen 2022</small>
|label2="Hopanoidivoracaceae"
|2={{clade
|1="''Ca.'' [[Hopanoidivorans]]" <small>Nguyen 2022</small>
|2="''Ca.'' [[Poriferisocius]]" <small>Nguyen 2022</small>
}}
}}
}}
}}
}}
|label2="Microtrichaceae"
|2="''Ca.'' [[Neomicrothrix]]"
}}
}}
}}
}}
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}}
}}
|}
|}
====Genera incertae sedis====

* "[[Spongiisociales]]" <small>Nguyen 2022</small>
==Taxonomy==
** "[[Spongiisociaceae]]" <small>Nguyen 2022</small>
The currently accepted taxonomy is based on the [[List of Prokaryotic names with Standing in Nomenclature]] (LPSN)<ref name="LPSN"/> and [[National Center for Biotechnology Information]] (NCBI).<ref>{{cite web |author = Sayers| url=https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Tree&id=84992&lvl=3&lin=f&keep=1&srchmode=1&unlock |title=Acidimicrobiia |access-date=2021-03-20 |publisher=[[National Center for Biotechnology Information]] (NCBI) taxonomy database |display-authors=etal}}</ref>
*** "''Candidatus'' [[Spongiisocius]]" <small>Nguyen 2022</small>

* [[Acidimicrobiales]]
* '''Order''' "'''[[Actinomarinales]]'''" <small>Ghai et al. 2013</small>
** Family "'''[[Actinomarinaceae]]'''" <small>Ghai et al. 2013</small>
** ''[[Acidithiomicrobium]]'' <small>Davis-Belmar & Norris 2009</small>
** "[[Microtrichaceae]]"
*** Genus "''Candidatus'' [[Actinomarina]]" <small>Ghai et al. 2013</small>
* '''Order [[Acidimicrobiales]]''' <small>Stackebrandt, Rainey & Ward-Rainey 1997</small>
*** "''Candidatus'' [[Limnosphaera]]" <small>Kim, Kang & Cho 2017</small>
** Genus ?''[[Acidithiomicrobium]]'' <small>Davis-Belmar & Norris 2009</small>
** '''Family [[Acidimicrobiaceae]]''' <small>Stackebrandt, Rainey & Ward-Rainey 1997</small>
*** Genus ?''[[Acidiferrimicrobium]]'' <small>González et al. 2020</small>
*** Genus ?''[[Aciditerrimonas]]'' <small>Itoh et al. 2011 </small>
*** Genus ''[[Acidimicrobium]]'' <small>Clark & Norris 1996</small>
*** Genus "''[[Acidithrix]]''" <small>Kay et al. 2013/Jones & Johnson 2015</small>
*** Genus ''[[Ferrimicrobium]]'' <small>Johnson et al. 2009</small>
*** Genus ''[[Ferrithrix]]'' <small>Johnson et al. 2009</small>
** '''Family [[Iamiaceae]]''' <small>Iamiaceae</small>
*** Genus ''[[Actinomarinicola]]'' <small>He et al. 2020</small>
*** Genus ''[[Aquihabitans]]'' <small>Jin et al. 2013</small>
*** Genus ''[[Iamia]]'' <small>Kurahashi et al. 2009</small>
*** Genus ''[[Rhabdothermincola]]'' <small>Liu et al. 2021</small>
** '''Family [[Ilumatobacteraceae]]''' <small>Asem et al. 2018</small>
*** Genus ''[[Desertimonas]]'' <small>Asem et al. 2018</small>
*** Genus ''[[Ilumatobacter]]'' <small>Matsumoto et al. 2009</small>
** '''Family''' "'''[[Microtrichaceae]]'''" <small>Joseph et al. 2003</small>
*** Genus ?"''Candidatus'' [[Limnosphaera]]" <small>Kim, Kang & Cho 2017</small>
*** Genus "''Candidatus'' [[Neomicrothrix]]" <small>corrig. Blackall et al. 1996</small> ["''Ca.'' [[Microthrix]]" <small>Blackall et al. 1996 non Ragonot 1888</small>]


==See also==
==See also==
* [[List of bacteria genera]]
* [[List of bacterial orders]]
* [[List of bacterial orders]]


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{{Portal bar|Biology}}
{{Portal bar|Biology}}
{{Taxonbar|from1=Q26265286|from2=Q873826}}
{{Taxonbar|from1=Q26265286|from2=Q873826}}

[[Category:Actinomycetota]]
[[Category:Actinomycetota]]


{{actinobacteria-stub}}
{{actinobacteria-stub}}

Revision as of 19:59, 14 December 2023

Acidimicrobiia
Acidimicrobium ferrooxidans
Scientific classification Edit this classification
Domain: Bacteria
Phylum: Actinomycetota
Norris 2013[2]
Class: Acidimicrobiia
Stackebrandt et al. 1997[1]
Type genus
Acidimicrobium
Clark and Norris 1996
Families[3]
Synonyms
  • Acidimicrobiidae Rainey & Ward-Rainey 1997
  • "Actinomarinidae" Ghai et al. 2013

The Acidimicrobiia are a class of Actinomycetota, in which three families, eight genera, and nine species have been described, Acidimicrobium ferrooxidans is the type species of the order.[1]

Phylogeny

The currently accepted taxonomy is based on the List of Prokaryotic names with Standing in Nomenclature (LPSN)[3] and National Center for Biotechnology Information (NCBI).[4]

MLST based phylogeny of 30 proteins.[5] 16S rRNA based LTP_08_2023[6][7][8]
Acidimicrobiales
Acidimicrobiales
120 marker proteins based GTDB 08-RS214[9][10][11]
Acidimicrobiia
"Actinomarinales"
"Actinomarinaceae"

Ca. "Actinomarina" Ghai et al. 2013

Acidimicrobiales
UBA8190

Aciditerrimonas Itoh et al. 2011

Acidimicrobiaceae

Acidithrix Jones & Johnson 2022

Ferrithrix Johnson et al. 2009

Ferrimicrobium Johnson et al. 2009

Acidimicrobium Clark & Norris 1996

Ilumatobacteraceae

Desertimonas Asem et al. 2018

Ilumatobacter Matsumoto et al. 2009

"Poriferisodalaceae"

"Ca. Poriferisodalis" Nguyen 2022

"Rhabdothermincolaceae"

Rhabdothermincola Liu et al. 2021

Iamiaceae

Aquihabitans Jin et al. 2013

Iamia Kurahashi et al. 2009

"Actinomarinicolaceae"

Actinomarinicola He et al. 2020

"Microtrichaceae"

"Ca. Neomicrothrix" corrig. Blackall et al. 1996 ["Ca. Microthrix" Blackall et al. 1996 non Ragonot 1888]

"Aldehyrespiratoraceae"

"Ca. Aldehyrespirator" Nguyen 2022

"Hopanoidivoracaceae"

"Ca. Hopanoidivorans" Nguyen 2022

"Ca. Poriferisocius" Nguyen 2022

Genera incertae sedis

See also

References

  1. ^ a b Stackebrandt E, Rainey FA, Ward-Rainey NL (1997). "Proposal for a new hierarchic classification system, Actinobacteria classis nov". Int. J. Syst. Bacteriol. 47: 479–491.
  2. ^ Norris PR (2012). "Class II. Acidimicrobiia class. nov.". In Goodfellow M, Kämpfer P, Trujillo ME, Ludwig W, Whitman WB (eds.). Bergey's Manual of Systematic Bacteriology. Vol. 5 (The Actinobacteria), part B (2nd ed.). New York: Springer. p. 1968.
  3. ^ a b Euzéby JP, Parte AC. "Acidimicrobiia". List of Prokaryotic names with Standing in Nomenclature (LPSN). Retrieved June 22, 2021.
  4. ^ Sayers; et al. "Acidimicrobiia". National Center for Biotechnology Information (NCBI) taxonomy database. Retrieved 2021-03-20.
  5. ^ Hu D, Cha G, Gao B. (2018). "A phylogenomic and molecular markers-based analysis of the class Acidimicrobiia". Frontiers in Microbiology. 9: 987. doi:10.3389/fmicb.2018.00987. PMC 5962788. PMID 29867887.
  6. ^ "The LTP". Retrieved 20 November 2023.
  7. ^ "LTP_all tree in newick format". Retrieved 20 November 2023.
  8. ^ "LTP_08_2023 Release Notes" (PDF). Retrieved 20 November 2023.
  9. ^ "GTDB release 08-RS214". Genome Taxonomy Database. Retrieved 10 May 2023.
  10. ^ "bac120_r214.sp_label". Genome Taxonomy Database. Retrieved 10 May 2023.
  11. ^ "Taxon History". Genome Taxonomy Database. Retrieved 10 May 2023.
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