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List of bacterial orders

This article lists the orders of the Bacteria. The currently accepted taxonomy is based on the List of Prokaryotic names with Standing in Nomenclature (LPSN)[1] and National Center for Biotechnology Information (NCBI)[2] and the phylogeny is based on 16S rRNA-based LTP release 132 by The All-Species Living Tree Project.[3]

Phylogeny

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National Center for Biotechnology Information (NCBI) taxonomy was initially used to decorate the genome tree via tax2tree. The 16S rRNA-based Greengenes taxonomy is used to supplement the taxonomy particularly in regions of the tree with no cultured representatives. List of Prokaryotic names with Standing in Nomenclature (LPSN) is used as the primary taxonomic authority for establishing naming priorities. Taxonomic ranks are normalised using phylorank and the taxonomy manually curated to remove polyphyletic groups.[4][5][6][7][8]

Cladogram was taken from GTDB release 09-RS220 (24 April 2024).[9][10][11]

Bacteria
Chloroflexae

Chloroflexota

Bacillati

Bacillota G

Bacillota E

Bacillota s.s.

"Desulfotomaculota" (Bacillota B)

"Selenobacteria" (Bacillota C)

Bacillota D

"Halanaerobiaeota" (Bacillota F)

Bacillota A

"Actinobacteriobiontes"

Actinomycetota

Kingdom Bacillati

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Phylogeny of Chloroflexota[9][10][11]
Phylogeny of Armatimonadota[9][10][11]
"Heboniibacteriia"

"Heboniibacterales"

"Zipacnadia"

"Zipacnadales"

Abditibacteriia

Abditibacteriales

HRBIN17

HRBIN17

UBA5829

UBA5829

Fimbriimonadia

Fimbriimonadales

Chthonomonadetes

Chthonomonadales

Armatimonadia

Armatimonadales

Phylogeny of Vulcanimicrobiota[9][10][11]
"Xenobia"

"Xenobiales"

Vulcanimicrobiia

Firmicutes incertae sedis

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Phylum Bacillota G

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Phylum Bacillota E

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Phylogeny of Bacillota E[9][10][11]
UBA3575

UBA3575

Thermaerobacteria

Thermaerobacterales

Symbiobacteriia

Symbiobacteriales

Sulfobacillia

Sulfobacillales

Phylogeny of Selenobacteria[9][10][11]

Veillonellales

Acidaminococcales

"Sporomusales" A

UPPP01

"Sporomusales" C

"Sporomusales"

UMGS1260

DSM-13327

Propionisporales

Anaeromusales

"Dendrosporobacterales"

Selenomonadales

Phylogeny of Desulfotomaculota[9][10][11]

Phylum Bacillota D

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Phylogeny of Bacillota D[9][10][11]
"Proteinivoracia"

"Proteinivoracales"

Natranaerobiia

Natranaerobiales

"Dethiobacteria"

SKNC01

"Dethiobacterales"

Phylogeny of Halanaerobiia[9][10][11]

Phylum Bacillota A

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Phylogeny of Bacillota A[9][10][11]
Phylogeny of Mycoplasmatota[9][10][11]

Phylum "Bacillota"

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Phylogeny of Bacillota[9][10][11]
Phylogeny of Actinomycetota[9][10][11]

Clade Cyanoprokaryota

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Phylogeny of Margulisiibacteriota[9][10][11]
Phylogeny of Cyanobacteriota[9][10][11]
Phylogeny of Thermotogota[9][10][11]

Phylum "Elulota"

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Phylogeny of Patescibacteria[9][10][11]

"Wirthbacteria" (CG2-30-54-11)

"Microgenomates"

"Dojkabacteria"

"Katanobacteria"

"Microgenomatia"

"Woykebacterales"

"Curtissbacterales"

"Daviesbacterales"

"Roizmanbacterales" (UBA1406)

"Gottesmanbacterales" (UBA10105)

"Levybacterales"

GWA2-44-7

"Chazhemtobacteriales"

"Shapirobacterales" (UBA12405)

cluster
"Gracilibacteria"
"Absconditabacteria"

BD1-5

"Absconditabacterales"

"Gracilibacteria"

"Abawacabacterales" (RBG-16-42-10)

"Peregrinibacterales" (UBA1369)

"Fallacibacteriales" (DOLZORAL124_38_8; UBA4473)

"Peribacterales"

cluster
"Parcubacteria"

"Doudnabacteria"

"Andersenbacteria"

"Torokbacteria" (GCA-2792135)

ABY1

"Kerfeldbacterales" (SBBC01)

"Jacksonbacterales" (UBA9629)

"Komeilibacterales" (UBA1558)

"Kuenenbacterales" (UBA2196)

"Veblenbacterales"

"Uhrbacterales" (GWA2-46-9)

"Magasanikbacterales"

"Buchananbacterales"

"Falkowbacterales"

"Moisslbacterales" (UBA2591)

"Paceibacteria"

"Moranbacterales"

UBA6257

"Spechtbacterales"

"Terrybacterales"

"Parcunitrobacterales" (GWA2-38-13b)

"Portnoybacterales"

"Paceibacterales"

"Azambacterales" (UBA10092)

"Yanofskybacterales" (2-02-FULL-40-12)

"Sungbacterales"

"Ryanbacterales"

"Giovannonibacterales"

"Niyogibacterales"

"Tagabacterales"

UBA9973

cluster

Clade

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Clade "Fusobacterida"

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Clade

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Clade

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Phylum "Aerophobota"

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Phylogeny of "Auribacterota"[9][10][11]
"Tritonobacteria"

"Tritonobacterales"

"Erginobacteria"

"Erginobacterales"

"Ancaeobacteria"

"Ancaeobacterales"

"Auribacteria"

"Auribacterales"

JACPWU01

"Theseobacterales"

Phylum "Omnitrophota"

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Phylogeny of Omnitrophota[9][10][11]

Clade Spirochaetobacteriobiontes

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Phylum "Babelota"

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Phylogeny of Spirochaetota[9][10][11]
"Leptospirae"
Leptospiria
"Euspirochaetae"
Phylogeny of Planctomycetota[9][10][11]
Phylogeny of Verrucomicrobiota[9][10][11]

Clade

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Phylum "Sumerlaeota"

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Phylum "Heilongiota"

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Phylogeny of Gemmatimonadota[9][10][11]
Phylogeny of Hydrothermota[9][10][11]
Phylogeny of Fibrobacterota[9][10][11]

Phylum "Cosmopoliota"

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Phylogeny of "Zhuqueibacterota"[9][10][11]
Phylogeny of Bacteroidota[9][10][11]

Phylum "Canglongiota"

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Phylogeny of Acidobacteriota[9][10][11]
Phylogeny of Nitrospirota[9][10][11]

Phylum SAR324

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Phylogeny of Bdellovibrionota[9][10][11]

Phylum "Binatota"

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Phylum "Lernaellota"

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Phylogeny of Myxococcota[9][10][11]
Phylogeny of Thermodesulfobacteriota[9][10][11]

Phylum Desulfobacterota G

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Phylum "Acidulodesulfobacteriota"

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Phylogeny of Aquificota[9][10][11]
Desulfurobacteriia

Desulfurobacteriales

Aquificia

Phylum Campylobacterota_A

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Phylogeny of Campylobacterota[9][10][11]
Phylogeny of Pseudomonadota[9][10][11]
"Caulobacteria"

Holosporales A

Rickettsiales A

Holosporales

Paracaedibacterales

"Caulobacteridae" cont'd

"Mariprofundia"

Mariprofundales

Magnetococcia

Magnetococcales

"Pseudomonadia"
"Neisseriidae"

"Tethybacterales"

Burkholderiales

"Pseudomonadidae"

"Thioglobales"

"Comchoanobacterales"

"Magnimaribacterales"

Pseudomonadales A

Cardiobacteriales

"Chromatiae"

"Enterobacteriae"

Phylogeny of "Caulobacteridae"[9][10][11]
Phylogeny of "Pseudomonadidae"[9][10][11]

List of Candidate Phyla

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See also

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References

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  1. ^ J.P. Euzéby. "Bacteria". List of Prokaryotic names with Standing in Nomenclature (LPSN). Retrieved 2021-06-27.
  2. ^ Sayers; et al. "Bacteria". National Center for Biotechnology Information (NCBI) taxonomy database. Retrieved 2021-03-20.
  3. ^ All-Species Living Tree Project."16S rRNA-based LTP release 132". Silva Comprehensive Ribosomal RNA Database. Retrieved 2020-08-20.
  4. ^ Parks, DH; Chuvochina, M; Waite, DW; Rinke, C; Skarshewski, A; Chaumeil, PA; Hugenholtz, P (November 2018). "A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life". Nature Biotechnology. 36 (10): 996–1004. bioRxiv 10.1101/256800. doi:10.1038/nbt.4229. PMID 30148503. S2CID 52093100.
  5. ^ Parks, DH; Chuvochina, M; Chaumeil, PA; Rinke, C; Mussig, AJ; Hugenholtz, P (September 2020). "A complete domain-to-species taxonomy for Bacteria and Archaea". Nature Biotechnology. 38 (9): 1079–1086. bioRxiv 10.1101/771964. doi:10.1038/s41587-020-0501-8. PMID 32341564. S2CID 216560589.
  6. ^ Chaumeil, PA; Mussig, AJ; Hugenholtz, P; Parks, DH (15 November 2019). "GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database". Bioinformatics. 36 (6): 1925–1927. doi:10.1093/bioinformatics/btz848. PMC 7703759. PMID 31730192.
  7. ^ Almeida, Alexandre; Nayfach, Stephen; Boland, Miguel; Strozzi, Francesco; Beracochea, Martin; Shi, Zhou Jason; Pollard, Katherine S.; Sakharova, Ekaterina; Parks, Donovan H.; Hugenholtz, Philip; Segata, Nicola; Kyrpides, Nikos C.; Finn, Robert D. (20 July 2020). "A unified catalog of 204,938 reference genomes from the human gut microbiome". Nature Biotechnology. 39 (1): 105–114. doi:10.1038/s41587-020-0603-3. PMC 7801254. PMID 32690973.
  8. ^ Nayfach, Stephen; et al. (9 November 2020). "A genomic catalog of Earth's microbiomes". Nature Biotechnology. 39 (4): 499–509. doi:10.1038/s41587-020-0718-6. PMC 8041624. PMID 33169036.
  9. ^ a b c d e f g h i j k l m n o p q r s t u v w x y z aa ab ac ad ae af ag ah ai aj ak "GTDB release 09-RS220". Genome Taxonomy Database. Retrieved 10 May 2024.
  10. ^ a b c d e f g h i j k l m n o p q r s t u v w x y z aa ab ac ad ae af ag ah ai aj ak "bac120_r220.sp_labels". Genome Taxonomy Database. Retrieved 10 May 2024.
  11. ^ a b c d e f g h i j k l m n o p q r s t u v w x y z aa ab ac ad ae af ag ah ai aj ak "Taxon History". Genome Taxonomy Database. Retrieved 10 May 2024.