get_taxa_unique: Get a unique vector of the observed taxa at a particular...
In phyloseq: Handling and analysis of high-throughput microbiome census data
Description
Usage
Arguments
Value
See Also
Examples
View source: R/almostAllAccessors.R
Description
This is a simple accessor function to make it more convenient to determine
the different taxa present for a particular taxonomic rank
in a given phyloseq-class object.
Usage
1
get_taxa_unique(physeq, taxonomic.rank=rank_names(physeq)[1], errorIfNULL=TRUE)
Arguments
physeq
(Required). taxonomyTable-class, or phyloseq-class.
taxonomic.rank
(Optional). Character. The taxonomic rank to use. Must select
from the set indicated by get_taxa_unique. Default is
to take the first column of the taxonomyTable component.
errorIfNULL
(Optional). Logical. Should the accessor stop with
an error if the slot is empty (NULL)? Default TRUE.
Value
Character vector. Unique vector of the observed taxa
at a particular taxonomic rank
See Also
get_taxa
taxa_names
sample_names
Examples
1
2
3
4
Example output
[1] NA "Prosthecochloris"
[3] "Chloroflexus" "Dehalococcoides"
[5] "Thermus" "Listeria"
[7] "Fusobacterium" "Streptobacillus"
[9] "Brevibacillus" "Acidobacteria_Gp1_Gp1"
[11] "Paenibacillus" "Bartonella"
[13] "Beijerinckia" "Bradyrhizobium"
[15] "Brucella" "Methylobacterium"
[17] "Mesorhizobium" "Rhizobium"
[19] "Parvibaculum" "Paracoccus"
[21] "Gluconacetobacter" "Granulibacter"
[23] "Gemella" "Azospirillum"
[25] "Macrococcus" "Magnetospirillum"
[27] "Rhodospirillum" "Staphylococcus"
[29] "Rickettsia" "Pelagibacter"
[31] "Erythrobacter" "Sphingobium"
[33] "Achromobacter" "Bordetella"
[35] "Burkholderia" "Cupriavidus"
[37] "Polynucleobacter" "Ralstonia"
[39] "Acidovorax" "Comamonas"
[41] "Delftia" "Diaphorobacter"
[43] "Polaromonas" "Rhodoferax"
[45] "Variovorax" "Verminephrobacter"
[47] "Herminiimonas" "Oxalobacter"
[49] "Leptothrix" "Methylibium"
[51] "Thiomonas" "Thiobacillus"
[53] "Methylobacillus" "Neisseriaceae"
[55] "Chromobacterium" "Kingella"
[57] "Laribacter" "Abiotrophia"
[59] "Neisseria" "Simonsiella"
[61] "Aerococcus" "Nitrosomonas"
[63] "Nitrosospira" "Azoarcus"
[65] "Thauera" "Desulfotalea"
[67] "Desulfovibrio" "Lawsonia"
[69] "Pelobacter" "Geobacter"
[71] "Anaeromyxobacter" "Syntrophus"
[73] "Granulicatella" "Campylobacter"
[75] "Helicobacter" "Aeromonas"
[77] "Tolumonas" "Idiomarina"
[79] "Shewanella" "Cardiobacterium"
[81] "Nitrosococcus" "Enterococcus"
[83] "Thioalkalivibrio" "Enterobacteriaceae"
[85] "Citrobacter" "Cronobacter"
[87] "Dickeya" "Edwardsiella"
[89] "Enterobacter" "Erwinia"
[91] "Escherichia/Shigella" "Klebsiella"
[93] "Lactobacillus" "Pantoea"
[95] "Pectobacterium" "Photorhabdus"
[97] "Proteus" "Providencia"
[99] "Salmonella" "Serratia"
[101] "Sodalis" "Pediococcus"
[103] "Xenorhabdus" "Yersinia"
[105] "Leuconostoc" "Weissella"
[107] "Lactococcus" "Pasteurellaceae"
[109] "Actinobacillus" "Aggregatibacter"
[111] "Haemophilus" "Histophilus"
[113] "Streptococcus" "Pasteurella"
[115] "Acinetobacter" "Enhydrobacter"
[117] "Azotobacter" "Cellvibrio"
[119] "Pseudomonas" "Clostridiales"
[121] "Aliivibrio" "Photobacterium"
[123] "Vibrio" "Stenotrophomonas"
[125] "Xanthomonas" "Brachyspira"
[127] "Treponema" "Aminobacterium"
[129] "Aminomonas" "Pyramidobacter"
[131] "Acholeplasma" "Entomoplasmataceae"
[133] "Mesoplasma" "Mycoplasma"
[135] "Verrucomicrobia" "Akkermansia"
[137] "Opitutus" "Coraliomargarita"
[139] "Methanobrevibacter" "Methanosphaera"
[141] "Methanocella" "Cyanobacteria"
[143] "Family_XII_GpXII" "Cyanobacteria_Family_XI_GpXI"
[145] "Family_IX_GpIX" "Megasphaera"
[147] "Acidaminococcus" "Mitsuokella"
[149] "Selenomonas" "Veillonella"
[151] "Dialister" "Ruminococcaceae"
[153] "Subdoligranulum" "Faecalibacterium"
[155] "Acetivibrio" "Anaerotruncus"
[157] "Ruminococcus" "Alkaliphilus"
[159] "Clostridium" "Symbiobacterium"
[161] "Thermincola" "Desulfitobacterium"
[163] "Desulfotomaculum" "Pelotomaculum"
[165] "Finegoldia" "Peptoniphilus"
[167] "Parvimonas" "Anaerococcus"
[169] "Syntrophomonas" "Syntrophothermus"
[171] "Peptostreptococcaceae" "Filifactor"
[173] "Sporacetigenium" "Peptostreptococcus"
[175] "Heliobacterium" "Lachnospiraceae"
[177] "Oribacterium" "Coprococcus"
[179] "Roseburia" "Catonella"
[181] "Dorea" "Shuttleworthia"
[183] "Anaerostipes" "Anaerofustis"
[185] "Eubacterium" "Blautia"
[187] "Anaerosporobacter" "Marvinbryantia"
[189] "Carboxydothermus" "Caldicellulosiruptor"
[191] "Halothermothrix" "Ammonifex"
[193] "Caldanaerobacter" "Moorella"
[195] "Thermoanaerobacter" "Bulleidia"
[197] "Catenibacterium" "Coprobacillus"
[199] "Erysipelothrix" "Holdemania"
[201] "Turicibacter" "Bacteroides"
[203] "Porphyromonadaceae" "Parabacteroides"
[205] "Porphyromonas" "Prevotella"
[207] "Alistipes" "Capnocytophaga"
[209] "Chryseobacterium" "Croceibacter"
[211] "Zunongwangia" "Cytophaga"
[213] "Dyadobacter" "Bacillales"
[215] "Pedobacter" "Sphingobacterium"
[217] "Alicyclobacillus" "Actinomycetales"
[219] "Actinomyces" "Mobiluncus"
[221] "Corynebacterium" "Gordonia"
[223] "Nocardia" "Anoxybacillus"
[225] "Rhodococcus" "Bacillus"
[227] "Stackebrandtia" "Brevibacterium"
[229] "Exiguobacterium" "Kytococcus"
[231] "Geobacillus" "Micrococcus"
[233] "Rothia" "Xylanimonas"
[235] "Oceanobacillus" "Propionibacterium"
[237] "Saccharopolyspora" "Streptomyces"
[239] "Bifidobacterium" "Gardnerella"
[241] "Parascardovia" "Scardovia"
[243] "Atopobium" "Collinsella"
[245] "Cryptobacterium" "Eggerthella"
[247] "Gordonibacter" "Slackia"
[249] "Acetobacter" "Acidimicrobium"
[251] "Acidiphilium" "Acidithiobacillus"
[253] "Acidobacteria_Gp3_Gp3" "Acidothermus"
[255] "Actinosynnema" "Aeromicrobium"
[257] "Aeropyrum" "Afipia"
[259] "Alcanivorax" "Alkalilimnicola"
[261] "Allochromatium" "Alphaproteobacteria"
[263] "Alteromonas" "Anaerobaculum"
[265] "Anaplasma" "Aquifex"
[267] "Arcanobacterium" "Archaeoglobus"
[269] "Arcobacter" "Arsenophonus"
[271] "Arthrobacter" "Azorhizobium"
[273] "Bdellovibrio" "Beutenbergia"
[275] "Borrelia" "Brachybacterium"
[277] "Bradyrhizobiaceae" "Caldivirga"
[279] "Candidatus_Korarchaeum" "Catenulispora"
[281] "Caulobacter" "Cellulomonas"
[283] "Chitinophaga" "Chlamydia"
[285] "Chlamydophila" "Chlorobaculum"
[287] "Chlorobiaceae" "Chlorobium"
[289] "Chloroherpeton" "Chromohalobacter"
[291] "Clavibacter" "Colwellia"
[293] "Conexibacter" "Coprothermobacter"
[295] "Cyanobacteria_Family_II_GpIIa" "Cyanobacteria_Family_II_GpIIb"
[297] "Cyanobacteria_Family_I_GpI" "Deferribacter"
[299] "Dehalogenimonas" "Deinococcus"
[301] "Denitrovibrio" "Desulfatibacillum"
[303] "Desulfobacteraceae" "Desulfobacterium"
[305] "Desulfohalobium" "Desulfomicrobium"
[307] "Desulfurivibrio" "Desulfurococcus"
[309] "Dichelobacter" "Dictyoglomus"
[311] "Dinoroseobacter" "Ehrlichia"
[313] "Ensifer" "Family_X_GpX"
[315] "Ferribacterium" "Ferroglobus"
[317] "Fervidobacterium" "Fibrobacter"
[319] "Flavobacteriales" "Flavobacterium"
[321] "Francisella" "Frankineae"
[323] "Gammaproteobacteria" "Gemmatimonas"
[325] "Geodermatophilus" "Glaciecola"
[327] "Gluconobacter" "Gramella"
[329] "Hahella" "Haliangium"
[331] "Haloarcula" "Halobacterium"
[333] "Haloferax" "Halomicrobium"
[335] "Haloquadratum" "Halorhabdus"
[337] "Halorhodospira" "Halorubrum"
[339] "Haloterrigena" "Halothiobacillus"
[341] "Herpetosiphon" "Hirschia"
[343] "Hydrogenobacter" "Hydrogenobaculum"
[345] "Hyperthermus" "Hyphomicrobium"
[347] "Hyphomonas" "Ignicoccus"
[349] "Jonesia" "Jonquetella"
[351] "Kangiella" "Kineococcus"
[353] "Kocuria" "Kosmotoga"
[355] "Kribbella" "Legionella"
[357] "Leifsonia" "Leptospira"
[359] "Leptotrichia" "Lysinibacillus"
[361] "Maricaulis" "Marinobacter"
[363] "Marinomonas" "Meiothermus"
[365] "Metallosphaera" "Methanocaldococcus"
[367] "Methanococcoides" "Methanococcus"
[369] "Methanocorpusculum" "Methanoculleus"
[371] "Methanohalophilus" "Methanomicrobiales"
[373] "Methanopyrus" "Methanosaeta"
[375] "Methanosarcina" "Methanosarcinaceae"
[377] "Methanosphaerula" "Methanospirillum"
[379] "Methanothermobacter" "Methylocella"
[381] "Methylococcus" "Methylophilaceae"
[383] "Methylotenera" "Methylovorus"
[385] "Moraxella" "Mycobacterium"
[387] "Myxococcus" "Nakamurella"
[389] "Nanoarchaeum" "Natranaerobius"
[391] "Natrialba" "Natronomonas"
[393] "Nautilia" "Neorickettsia"
[395] "Nitratiruptor" "Nitrobacter"
[397] "Nocardioides" "Nocardiopsis"
[399] "Novosphingobium" "Ochrobactrum"
[401] "Oenococcus" "Orientia"
[403] "Parachlamydia" "Persephonella"
[405] "Petrotoga" "Phenylobacterium"
[407] "Phyllobacteriaceae" "Picrophilus"
[409] "Pirellula" "Planctomyces"
[411] "Propionivibrio" "Proteobacteria"
[413] "Pseudoalteromonas" "Psychrobacter"
[415] "Psychromonas" "Pyrobaculum"
[417] "Pyrococcus" "Renibacterium"
[419] "Rhizobiales" "Rhodobacter"
[421] "Rhodobacteraceae" "Rhodocista"
[423] "Rhodocyclaceae" "Rhodopirellula"
[425] "Rhodopseudomonas" "Rhodospirillaceae"
[427] "Rhodothermus" "Robiginitalea"
[429] "Roseobacter" "Roseomonas"
[431] "Rubrobacter" "Ruegeria"
[433] "Saccharomonospora" "Saccharophagus"
[435] "Salinibacter" "Salinispora"
[437] "Sanguibacter" "Sebaldella"
[439] "Segniliparus" "Silicibacter"
[441] "Sorangium" "Sphaerobacter"
[443] "Sphingobacteriales" "Sphingomonas"
[445] "Sphingopyxis" "Spirosoma"
[447] "Staphylothermus" "Starkeya"
[449] "Streptosporangium" "Sulfolobus"
[451] "Sulfurihydrogenibium" "Sulfurimonas"
[453] "Sulfurospirillum" "Sulfurovum"
[455] "Syntrophobacter" "Teredinibacter"
[457] "Thermoanaerobacteraceae" "Thermobifida"
[459] "Thermobispora" "Thermococcus"
[461] "Thermocrinis" "Thermodesulfovibrio"
[463] "Thermofilum" "Thermomicrobia"
[465] "Thermomicrobium" "Thermomonospora"
[467] "Thermoplasma" "Thermoplasmatales"
[469] "Thermoprotei" "Thermosipho"
[471] "Thermosphaera" "Thermotoga"
[473] "Thiomicrospira" "Tropheryma"
[475] "Truepera" "Tsukamurella"
[477] "Ureaplasma" "Waddlia"
[479] "Wolinella" "Xanthobacter"
[481] "Xylella" "Zymomonas"
[483] "Papillibacter" "Anaerovorax"
[485] "Parasporobacterium" "Chrysiogenes"
[487] "Solobacterium" "Sarcina"
[489] "Olsenella" "Lachnobacterium"
[491] "Anaeroglobus" "Dysgonomonas"
[493] "Megamonas" "Gallicola"
[495] "Sneathia" "Victivallis"
[497] "Varibaculum" "Solirubrobacter"
[499] "Allisonella" "Tepidibacter"
[501] "Hespellia" "Bryantella"
[503] "Mahella" "Ethanoligenens"
[505] "Soehngenia" "Acetanaerobacterium"
[507] "Peptococcus" "Carnobacterium"
[509] "Rikenella" "Odoribacter"
[511] "Acetitomaculum" "Phascolarctobacterium"
[513] "Coriobacterium" "Microbacterium"
[515] "Acetobacterium" "Luteococcus"
[517] "Geosporobacter" "Barnesiella"
[519] "Zymophilus" "Howardella"
[521] "Sutterella" "Succiniclasticum"
[523] "Lactonifactor" "Moryella"
[525] "Sporobacter" "Oscillibacter"
[527] "Pseudobutyrivibrio" "Cloacibacillus"
[529] "Hallella" "Anaerofilum"
[531] "Asaccharobacter" "Xylanibacter"
[533] "Escherichia" "Butyricimonas"
[535] "Paraprevotella" "Parasutterella"
[537] "Enterorhabdus" "Butyricicoccus"
[539] "Robinsoniella" "Hydrogenoanaerobacterium"
[541] "Thermotalea" "Paraeggerthella"
[543] "Anaerobacter" "Desulfocurvus"
[545] "Fusibacter" "Actinobaculum"
[547] "Asticcacaulis" "Succinispira"
[549] "Butyrivibrio" "Desulfonispora"
[551] "Syntrophococcus" "Mogibacterium"
[1] NA
[2] "Sulfolobaceae"
[3] "SAGMA-X"
[4] "Cenarchaeaceae"
[5] "Nitrososphaeraceae"
[6] "Halobacteriaceae"
[7] "Methanosaetaceae"
[8] "Methanosarcinaceae"
[9] "Methanocorpusculaceae"
[10] "MarinegroupIII"
[11] "MOB7-9"
[12] "WCHD3-02"
[13] "pMC2A33"
[14] "MarinegroupII"
[15] "WSA2"
[16] "MSBL1"
[17] "Methanobacteriaceae"
[18] "Propionibacteriaceae"
[19] "Nocardioidaceae"
[20] "Microthrixaceae"
[21] "ZA3409c"
[22] "TK06"
[23] "ZA3612c"
[24] "ntu14"
[25] "JdFBGBact"
[26] "SC3-41"
[27] "wb1_P06"
[28] "AKIW874"
[29] "Iamiaceae"
[30] "CL500-29"
[31] "Acidimicrobiaceae"
[32] "EB1017"
[33] "Euzebiaceae"
[34] "Thermomonosporaceae"
[35] "Nocardiopsaceae"
[36] "Streptosporangiaceae"
[37] "Pseudonocardiaceae"
[38] "Actinosynnemataceae"
[39] "Micromonosporaceae"
[40] "Glycomycetaceae"
[41] "Actinopolysporaceae"
[42] "Catenulisporaceae"
[43] "Actinospicaceae"
[44] "Streptomycetaceae"
[45] "ACK-M1"
[46] "Frankiaceae"
[47] "Sporichthyaceae"
[48] "Geodermatophilaceae"
[49] "Nakamurellaceae"
[50] "Cryptosporangiaceae"
[51] "Kineosporiaceae"
[52] "Microbacteriaceae"
[53] "Intrasporangiaceae"
[54] "Dermabacteraceae"
[55] "Dermatophilaceae"
[56] "Dermacoccaceae"
[57] "Cellulomonadaceae"
[58] "Sanguibacteraceae"
[59] "Promicromonosporaceae"
[60] "Beutenbergiaceae"
[61] "Bogoriellaceae"
[62] "Rarobacteraceae"
[63] "Jonesiaceae"
[64] "Actinomycetaceae"
[65] "Brevibacteriaceae"
[66] "Micrococcaceae"
[67] "Yaniellaceae"
[68] "Dietziaceae"
[69] "Corynebacteriaceae"
[70] "Nocardiaceae"
[71] "Williamsiaceae"
[72] "Gordoniaceae"
[73] "Segniliparaceae"
[74] "Tsukamurellaceae"
[75] "Mycobacteriaceae"
[76] "Bifidobacteriaceae"
[77] "SHA-116"
[78] "SHA-4"
[79] "Spirochaetaceae"
[80] "Leptospiraceae"
[81] "Desulfohalobiaceae"
[82] "Desulfonatronumaceae"
[83] "Desulfovibrionaceae"
[84] "Desulfomicrobiaceae"
[85] "Fusobacteriaceae"
[86] "Spiroplasmataceae"
[87] "Entomoplasmataceae"
[88] "Mycoplasmataceae"
[89] "Anaeroplasmataceae"
[90] "Acholeplasmataceae"
[91] "Erysipelotrichaceae"
[92] "vadinHA31"
[93] "Chlamydomonadaceae"
[94] "Mamiellaceae"
[95] "Chlorarachniophyceae"
[96] "Trebouxiophyceae"
[97] "Acaryochloridaceae"
[98] "Pseudanabaenaceae"
[99] "Phormidiaceae"
[100] "Xenococcaceae"
[101] "Spirulinaceae"
[102] "Cyanobacteriaceae"
[103] "Microcystaceae"
[104] "Gomphosphaeriaceae"
[105] "Oscillatoriaceae"
[106] "Chamaesiphonaceae"
[107] "Scytonemataceae"
[108] "Nostocaceae"
[109] "Rivulariaceae"
[110] "Gomontiellaceae"
[111] "Synechococcaceae"
[112] "Helicobacteraceae"
[113] "Campylobacteraceae"
[114] "Mariprofundaceae"
[115] "Hydrogenophilaceae"
[116] "Burkholderiaceae"
[117] "Alcaligenaceae"
[118] "Neisseriaceae"
[119] "Procabacteriaceae"
[120] "Methylophilaceae"
[121] "Nitrosomonadaceae"
[122] "Gallionellaceae"
[123] "Rhodocyclaceae"
[124] "Oxalobacteraceae"
[125] "Comamonadaceae"
[126] "Xanthomonadaceae"
[127] "Cardiobacteriaceae"
[128] "Halothiobacillaceae"
[129] "Chromatiaceae"
[130] "Alteromonadaceae"
[131] "Pseudoalteromonadaceae"
[132] "Psychromonadaceae"
[133] "Celerinatantimonadaceae"
[134] "Idiomarinaceae"
[135] "Colwelliaceae"
[136] "Vibrionaceae"
[137] "Moritellaceae"
[138] "Shewanellaceae"
[139] "Ferrimonadaceae"
[140] "Aeromonadaceae"
[141] "Pasteurellaceae"
[142] "Enterobacteriaceae"
[143] "Succinivibrionaceae"
[144] "Moraxellaceae"
[145] "Halomonadaceae"
[146] "Oceanospirillaceae"
[147] "FCPT525"
[148] "SUP05"
[149] "Piscirickettsiaceae"
[150] "Alcanivoracaceae"
[151] "125ds10"
[152] "OM60"
[153] "J115"
[154] "HTCC2089"
[155] "ZA3412c"
[156] "211ds20"
[157] "HTCC2188"
[158] "Hahellaceae"
[159] "Litincolaceae"
[160] "Saccharospirillaceae"
[161] "Endozoicimonaceae"
[162] "HOC21"
[163] "Oleiphilaceae"
[164] "Pseudomonadaceae"
[165] "Methylococcaceae"
[166] "Crenotrichaceae"
[167] "Thiotrichaceae"
[168] "Coxiellaceae"
[169] "Legionellaceae"
[170] "Endoecteinascidiaceae"
[171] "Francisellaceae"
[172] "Ectothiorhodospiraceae"
[173] "Sinobacteraceae"
[174] "Salinisphaeraceae"
[175] "Rickettsiaceae"
[176] "Phyllobacteriaceae"
[177] "Rhizobiaceae"
[178] "Bartonellaceae"
[179] "Brucellaceae"
[180] "Aurantimonadaceae"
[181] "Rhodobiaceae"
[182] "Hyphomicrobiaceae"
[183] "Methylocystaceae"
[184] "Xanthobacteraceae"
[185] "Bradyrhizobiaceae"
[186] "Methylobacteriaceae"
[187] "Beijerinckiaceae"
[188] "Cohaesibacteraceae"
[189] "Rhodobacteraceae"
[190] "Hyphomonadaceae"
[191] "Caulobacteraceae"
[192] "Rhodospirillaceae"
[193] "Acetobacteraceae"
[194] "Sphingomonadaceae"
[195] "Erythrobacteraceae"
[196] "Kiloniellaceae"
[197] "Kordiimonadaceae"
[198] "Syntrophaceae"
[199] "Syntrophobacteraceae"
[200] "Desulfobacteraceae"
[201] "Desulfobulbaceae"
[202] "Syntrophorhabdaceae"
[203] "Bdellovibrionaceae"
[204] "Bacteriovoracaceae"
[205] "MND4"
[206] "JTB38"
[207] "NB1-i"
[208] "Polyangiaceae"
[209] "Haliangiaceae"
[210] "Nannocystaceae"
[211] "Myxococcaceae"
[212] "Cystobacteraceae"
[213] "Geobacteraceae"
[214] "Pelobacteraceae"
[215] "Desulfuromonadaceae"
[216] "Ignavibacteriaceae"
[217] "Balneolaceae"
[218] "Flammeovirgaceae"
[219] "Flavobacteriaceae"
[220] "Blattabacteriaceae"
[221] "Cryomorphaceae"
[222] "Marinilabiaceae"
[223] "Porphyromonadaceae"
[224] "Bacteroidaceae"
[225] "Prevotellaceae"
[226] "Rikenellaceae"
[227] "Sphingobacteriaceae"
[228] "Cyclobacteriaceae"
[229] "Flexibacteraceae"
[230] "Saprospiraceae"
[231] "Rhodothermaceae"
[232] "Chlorobiaceae"
[233] "A714017"
[234] "AEGEAN_185"
[235] "SHAS460"
[236] "Thermaceae"
[237] "Deinococcaceae"
[238] "Gemmatimonadaceae"
[239] "Fibrobacteraceae"
[240] "Entotheonellaceae"
[241] "Elusimicrobiaceae"
[242] "Methylomirabiliaceae"
[243] "Koribacteraceae"
[244] "Acidobacteriaceae"
[245] "Solibacteraceae"
[246] "Holophagaceae"
[247] "Thermodesulfovibrionaceae"
[248] "Nitrospiraceae"
[249] "FW"
[250] "Nitrospinaceae"
[251] "PRR-10"
[252] "Puniceicoccaceae"
[253] "Opitutaceae"
[254] "Methylacidiphilaceae"
[255] "LD19"
[256] "Verrucomicrobiaceae"
[257] "Spartobacteriaceae"
[258] "Verrucomicrobiasubdivision3"
[259] "Victivallaceae"
[260] "Lentisphaeraceae"
[261] "Waddliaceae"
[262] "Parachlamydiaceae"
[263] "Simkaniaceae"
[264] "Rhabdochlamydiaceae"
[265] "kpj58rc"
[266] "Kueneniaceae"
[267] "Pirellulaceae"
[268] "Planctomycetaceae"
[269] "Gemmataceae"
[270] "Isosphaeraceae"
[271] "Phycisphaeraceae"
[272] "At425_EubF1"
[273] "Coriobacteriaceae"
[274] "Solirubrobacteraceae"
[275] "Patulibacteraceae"
[276] "Rubrobacteraceae"
[277] "Halobacteroidaceae"
[278] "Halanaerobiaceae"
[279] "Chthonomonadaceae"
[280] "Armatimonadaceae"
[281] "WD294"
[282] "F16"
[283] "Oscillochloridaceae"
[284] "Kouleothrixaceae"
[285] "AKYH910"
[286] "FFCH4570"
[287] "5B-12"
[288] "Dolo_23"
[289] "Dehalococcoidaceae"
[290] "Caldilineaceae"
[291] "S47"
[292] "KNA6-EB22"
[293] "Anaerolinaceae"
[294] "SHA-31"
[295] "Clostridiaceae"
[296] "Eubacteriaceae"
[297] "Peptostreptococcaceae"
[298] "ClostridialesFamilyXIII.IncertaeSedis"
[299] "ClostridialesFamilyXII.IncertaeSedis"
[300] "ClostridialesFamilyXI.IncertaeSedis"
[301] "Catabacteriaceae"
[302] "Ruminococcaceae"
[303] "Lachnospiraceae"
[304] "Symbiobacteriaceae"
[305] "Thermoanaerobacteraceae"
[306] "Thermicanaceae"
[307] "Paenibacillaceae"
[308] "Bacillaceae"
[309] "Sporolactobacillaceae"
[310] "Planococcaceae"
[311] "Listeriaceae"
[312] "Gemellaceae"
[313] "Turicibacteraceae"
[314] "Haloplasmataceae"
[315] "Carnobacteriaceae"
[316] "Enterococcaceae"
[317] "Aerococcaceae"
[318] "Leuconostocaceae"
[319] "Streptococcaceae"
[320] "Lactobacillaceae"
[321] "Staphylococcaceae"
[322] "Exiguobacteraceae"
[323] "Pasteuriaceae"
[324] "Thermoactinomycetaceae"
[325] "Alicyclobacillaceae"
[326] "Syntrophomonadaceae"
[327] "Desulfitobacteraceae"
[328] "BSV43"
[329] "Veillonellaceae"
[330] "Peptococcaceae"
[331] "Dehalobacteriaceae"
[332] "Thermotogaceae"
[333] "Synergistaceae"
[334] "Dethiosulfovibrionaceae"
[335] "Thermodesulfobiaceae"
Warning message:
system call failed: Cannot allocate memory
phyloseq documentation built on Nov. 8, 2020, 6:41 p.m.
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Description Usage Arguments Value See Also Examples
View source: R/almostAllAccessors.R
Description
This is a simple accessor function to make it more convenient to determine
the different taxa present for a particular taxonomic rank
in a given phyloseq-class object.
Usage
1 | get_taxa_unique(physeq, taxonomic.rank=rank_names(physeq)[1], errorIfNULL=TRUE)
|
Arguments
physeq |
(Required). |
taxonomic.rank |
(Optional). Character. The taxonomic rank to use. Must select
from the set indicated by |
errorIfNULL |
(Optional). Logical. Should the accessor stop with
an error if the slot is empty ( |
Value
Character vector. Unique vector of the observed taxa at a particular taxonomic rank
See Also
get_taxa
taxa_names
sample_names
Examples
1 2 3 4 |
Example output
[1] NA "Prosthecochloris"
[3] "Chloroflexus" "Dehalococcoides"
[5] "Thermus" "Listeria"
[7] "Fusobacterium" "Streptobacillus"
[9] "Brevibacillus" "Acidobacteria_Gp1_Gp1"
[11] "Paenibacillus" "Bartonella"
[13] "Beijerinckia" "Bradyrhizobium"
[15] "Brucella" "Methylobacterium"
[17] "Mesorhizobium" "Rhizobium"
[19] "Parvibaculum" "Paracoccus"
[21] "Gluconacetobacter" "Granulibacter"
[23] "Gemella" "Azospirillum"
[25] "Macrococcus" "Magnetospirillum"
[27] "Rhodospirillum" "Staphylococcus"
[29] "Rickettsia" "Pelagibacter"
[31] "Erythrobacter" "Sphingobium"
[33] "Achromobacter" "Bordetella"
[35] "Burkholderia" "Cupriavidus"
[37] "Polynucleobacter" "Ralstonia"
[39] "Acidovorax" "Comamonas"
[41] "Delftia" "Diaphorobacter"
[43] "Polaromonas" "Rhodoferax"
[45] "Variovorax" "Verminephrobacter"
[47] "Herminiimonas" "Oxalobacter"
[49] "Leptothrix" "Methylibium"
[51] "Thiomonas" "Thiobacillus"
[53] "Methylobacillus" "Neisseriaceae"
[55] "Chromobacterium" "Kingella"
[57] "Laribacter" "Abiotrophia"
[59] "Neisseria" "Simonsiella"
[61] "Aerococcus" "Nitrosomonas"
[63] "Nitrosospira" "Azoarcus"
[65] "Thauera" "Desulfotalea"
[67] "Desulfovibrio" "Lawsonia"
[69] "Pelobacter" "Geobacter"
[71] "Anaeromyxobacter" "Syntrophus"
[73] "Granulicatella" "Campylobacter"
[75] "Helicobacter" "Aeromonas"
[77] "Tolumonas" "Idiomarina"
[79] "Shewanella" "Cardiobacterium"
[81] "Nitrosococcus" "Enterococcus"
[83] "Thioalkalivibrio" "Enterobacteriaceae"
[85] "Citrobacter" "Cronobacter"
[87] "Dickeya" "Edwardsiella"
[89] "Enterobacter" "Erwinia"
[91] "Escherichia/Shigella" "Klebsiella"
[93] "Lactobacillus" "Pantoea"
[95] "Pectobacterium" "Photorhabdus"
[97] "Proteus" "Providencia"
[99] "Salmonella" "Serratia"
[101] "Sodalis" "Pediococcus"
[103] "Xenorhabdus" "Yersinia"
[105] "Leuconostoc" "Weissella"
[107] "Lactococcus" "Pasteurellaceae"
[109] "Actinobacillus" "Aggregatibacter"
[111] "Haemophilus" "Histophilus"
[113] "Streptococcus" "Pasteurella"
[115] "Acinetobacter" "Enhydrobacter"
[117] "Azotobacter" "Cellvibrio"
[119] "Pseudomonas" "Clostridiales"
[121] "Aliivibrio" "Photobacterium"
[123] "Vibrio" "Stenotrophomonas"
[125] "Xanthomonas" "Brachyspira"
[127] "Treponema" "Aminobacterium"
[129] "Aminomonas" "Pyramidobacter"
[131] "Acholeplasma" "Entomoplasmataceae"
[133] "Mesoplasma" "Mycoplasma"
[135] "Verrucomicrobia" "Akkermansia"
[137] "Opitutus" "Coraliomargarita"
[139] "Methanobrevibacter" "Methanosphaera"
[141] "Methanocella" "Cyanobacteria"
[143] "Family_XII_GpXII" "Cyanobacteria_Family_XI_GpXI"
[145] "Family_IX_GpIX" "Megasphaera"
[147] "Acidaminococcus" "Mitsuokella"
[149] "Selenomonas" "Veillonella"
[151] "Dialister" "Ruminococcaceae"
[153] "Subdoligranulum" "Faecalibacterium"
[155] "Acetivibrio" "Anaerotruncus"
[157] "Ruminococcus" "Alkaliphilus"
[159] "Clostridium" "Symbiobacterium"
[161] "Thermincola" "Desulfitobacterium"
[163] "Desulfotomaculum" "Pelotomaculum"
[165] "Finegoldia" "Peptoniphilus"
[167] "Parvimonas" "Anaerococcus"
[169] "Syntrophomonas" "Syntrophothermus"
[171] "Peptostreptococcaceae" "Filifactor"
[173] "Sporacetigenium" "Peptostreptococcus"
[175] "Heliobacterium" "Lachnospiraceae"
[177] "Oribacterium" "Coprococcus"
[179] "Roseburia" "Catonella"
[181] "Dorea" "Shuttleworthia"
[183] "Anaerostipes" "Anaerofustis"
[185] "Eubacterium" "Blautia"
[187] "Anaerosporobacter" "Marvinbryantia"
[189] "Carboxydothermus" "Caldicellulosiruptor"
[191] "Halothermothrix" "Ammonifex"
[193] "Caldanaerobacter" "Moorella"
[195] "Thermoanaerobacter" "Bulleidia"
[197] "Catenibacterium" "Coprobacillus"
[199] "Erysipelothrix" "Holdemania"
[201] "Turicibacter" "Bacteroides"
[203] "Porphyromonadaceae" "Parabacteroides"
[205] "Porphyromonas" "Prevotella"
[207] "Alistipes" "Capnocytophaga"
[209] "Chryseobacterium" "Croceibacter"
[211] "Zunongwangia" "Cytophaga"
[213] "Dyadobacter" "Bacillales"
[215] "Pedobacter" "Sphingobacterium"
[217] "Alicyclobacillus" "Actinomycetales"
[219] "Actinomyces" "Mobiluncus"
[221] "Corynebacterium" "Gordonia"
[223] "Nocardia" "Anoxybacillus"
[225] "Rhodococcus" "Bacillus"
[227] "Stackebrandtia" "Brevibacterium"
[229] "Exiguobacterium" "Kytococcus"
[231] "Geobacillus" "Micrococcus"
[233] "Rothia" "Xylanimonas"
[235] "Oceanobacillus" "Propionibacterium"
[237] "Saccharopolyspora" "Streptomyces"
[239] "Bifidobacterium" "Gardnerella"
[241] "Parascardovia" "Scardovia"
[243] "Atopobium" "Collinsella"
[245] "Cryptobacterium" "Eggerthella"
[247] "Gordonibacter" "Slackia"
[249] "Acetobacter" "Acidimicrobium"
[251] "Acidiphilium" "Acidithiobacillus"
[253] "Acidobacteria_Gp3_Gp3" "Acidothermus"
[255] "Actinosynnema" "Aeromicrobium"
[257] "Aeropyrum" "Afipia"
[259] "Alcanivorax" "Alkalilimnicola"
[261] "Allochromatium" "Alphaproteobacteria"
[263] "Alteromonas" "Anaerobaculum"
[265] "Anaplasma" "Aquifex"
[267] "Arcanobacterium" "Archaeoglobus"
[269] "Arcobacter" "Arsenophonus"
[271] "Arthrobacter" "Azorhizobium"
[273] "Bdellovibrio" "Beutenbergia"
[275] "Borrelia" "Brachybacterium"
[277] "Bradyrhizobiaceae" "Caldivirga"
[279] "Candidatus_Korarchaeum" "Catenulispora"
[281] "Caulobacter" "Cellulomonas"
[283] "Chitinophaga" "Chlamydia"
[285] "Chlamydophila" "Chlorobaculum"
[287] "Chlorobiaceae" "Chlorobium"
[289] "Chloroherpeton" "Chromohalobacter"
[291] "Clavibacter" "Colwellia"
[293] "Conexibacter" "Coprothermobacter"
[295] "Cyanobacteria_Family_II_GpIIa" "Cyanobacteria_Family_II_GpIIb"
[297] "Cyanobacteria_Family_I_GpI" "Deferribacter"
[299] "Dehalogenimonas" "Deinococcus"
[301] "Denitrovibrio" "Desulfatibacillum"
[303] "Desulfobacteraceae" "Desulfobacterium"
[305] "Desulfohalobium" "Desulfomicrobium"
[307] "Desulfurivibrio" "Desulfurococcus"
[309] "Dichelobacter" "Dictyoglomus"
[311] "Dinoroseobacter" "Ehrlichia"
[313] "Ensifer" "Family_X_GpX"
[315] "Ferribacterium" "Ferroglobus"
[317] "Fervidobacterium" "Fibrobacter"
[319] "Flavobacteriales" "Flavobacterium"
[321] "Francisella" "Frankineae"
[323] "Gammaproteobacteria" "Gemmatimonas"
[325] "Geodermatophilus" "Glaciecola"
[327] "Gluconobacter" "Gramella"
[329] "Hahella" "Haliangium"
[331] "Haloarcula" "Halobacterium"
[333] "Haloferax" "Halomicrobium"
[335] "Haloquadratum" "Halorhabdus"
[337] "Halorhodospira" "Halorubrum"
[339] "Haloterrigena" "Halothiobacillus"
[341] "Herpetosiphon" "Hirschia"
[343] "Hydrogenobacter" "Hydrogenobaculum"
[345] "Hyperthermus" "Hyphomicrobium"
[347] "Hyphomonas" "Ignicoccus"
[349] "Jonesia" "Jonquetella"
[351] "Kangiella" "Kineococcus"
[353] "Kocuria" "Kosmotoga"
[355] "Kribbella" "Legionella"
[357] "Leifsonia" "Leptospira"
[359] "Leptotrichia" "Lysinibacillus"
[361] "Maricaulis" "Marinobacter"
[363] "Marinomonas" "Meiothermus"
[365] "Metallosphaera" "Methanocaldococcus"
[367] "Methanococcoides" "Methanococcus"
[369] "Methanocorpusculum" "Methanoculleus"
[371] "Methanohalophilus" "Methanomicrobiales"
[373] "Methanopyrus" "Methanosaeta"
[375] "Methanosarcina" "Methanosarcinaceae"
[377] "Methanosphaerula" "Methanospirillum"
[379] "Methanothermobacter" "Methylocella"
[381] "Methylococcus" "Methylophilaceae"
[383] "Methylotenera" "Methylovorus"
[385] "Moraxella" "Mycobacterium"
[387] "Myxococcus" "Nakamurella"
[389] "Nanoarchaeum" "Natranaerobius"
[391] "Natrialba" "Natronomonas"
[393] "Nautilia" "Neorickettsia"
[395] "Nitratiruptor" "Nitrobacter"
[397] "Nocardioides" "Nocardiopsis"
[399] "Novosphingobium" "Ochrobactrum"
[401] "Oenococcus" "Orientia"
[403] "Parachlamydia" "Persephonella"
[405] "Petrotoga" "Phenylobacterium"
[407] "Phyllobacteriaceae" "Picrophilus"
[409] "Pirellula" "Planctomyces"
[411] "Propionivibrio" "Proteobacteria"
[413] "Pseudoalteromonas" "Psychrobacter"
[415] "Psychromonas" "Pyrobaculum"
[417] "Pyrococcus" "Renibacterium"
[419] "Rhizobiales" "Rhodobacter"
[421] "Rhodobacteraceae" "Rhodocista"
[423] "Rhodocyclaceae" "Rhodopirellula"
[425] "Rhodopseudomonas" "Rhodospirillaceae"
[427] "Rhodothermus" "Robiginitalea"
[429] "Roseobacter" "Roseomonas"
[431] "Rubrobacter" "Ruegeria"
[433] "Saccharomonospora" "Saccharophagus"
[435] "Salinibacter" "Salinispora"
[437] "Sanguibacter" "Sebaldella"
[439] "Segniliparus" "Silicibacter"
[441] "Sorangium" "Sphaerobacter"
[443] "Sphingobacteriales" "Sphingomonas"
[445] "Sphingopyxis" "Spirosoma"
[447] "Staphylothermus" "Starkeya"
[449] "Streptosporangium" "Sulfolobus"
[451] "Sulfurihydrogenibium" "Sulfurimonas"
[453] "Sulfurospirillum" "Sulfurovum"
[455] "Syntrophobacter" "Teredinibacter"
[457] "Thermoanaerobacteraceae" "Thermobifida"
[459] "Thermobispora" "Thermococcus"
[461] "Thermocrinis" "Thermodesulfovibrio"
[463] "Thermofilum" "Thermomicrobia"
[465] "Thermomicrobium" "Thermomonospora"
[467] "Thermoplasma" "Thermoplasmatales"
[469] "Thermoprotei" "Thermosipho"
[471] "Thermosphaera" "Thermotoga"
[473] "Thiomicrospira" "Tropheryma"
[475] "Truepera" "Tsukamurella"
[477] "Ureaplasma" "Waddlia"
[479] "Wolinella" "Xanthobacter"
[481] "Xylella" "Zymomonas"
[483] "Papillibacter" "Anaerovorax"
[485] "Parasporobacterium" "Chrysiogenes"
[487] "Solobacterium" "Sarcina"
[489] "Olsenella" "Lachnobacterium"
[491] "Anaeroglobus" "Dysgonomonas"
[493] "Megamonas" "Gallicola"
[495] "Sneathia" "Victivallis"
[497] "Varibaculum" "Solirubrobacter"
[499] "Allisonella" "Tepidibacter"
[501] "Hespellia" "Bryantella"
[503] "Mahella" "Ethanoligenens"
[505] "Soehngenia" "Acetanaerobacterium"
[507] "Peptococcus" "Carnobacterium"
[509] "Rikenella" "Odoribacter"
[511] "Acetitomaculum" "Phascolarctobacterium"
[513] "Coriobacterium" "Microbacterium"
[515] "Acetobacterium" "Luteococcus"
[517] "Geosporobacter" "Barnesiella"
[519] "Zymophilus" "Howardella"
[521] "Sutterella" "Succiniclasticum"
[523] "Lactonifactor" "Moryella"
[525] "Sporobacter" "Oscillibacter"
[527] "Pseudobutyrivibrio" "Cloacibacillus"
[529] "Hallella" "Anaerofilum"
[531] "Asaccharobacter" "Xylanibacter"
[533] "Escherichia" "Butyricimonas"
[535] "Paraprevotella" "Parasutterella"
[537] "Enterorhabdus" "Butyricicoccus"
[539] "Robinsoniella" "Hydrogenoanaerobacterium"
[541] "Thermotalea" "Paraeggerthella"
[543] "Anaerobacter" "Desulfocurvus"
[545] "Fusibacter" "Actinobaculum"
[547] "Asticcacaulis" "Succinispira"
[549] "Butyrivibrio" "Desulfonispora"
[551] "Syntrophococcus" "Mogibacterium"
[1] NA
[2] "Sulfolobaceae"
[3] "SAGMA-X"
[4] "Cenarchaeaceae"
[5] "Nitrososphaeraceae"
[6] "Halobacteriaceae"
[7] "Methanosaetaceae"
[8] "Methanosarcinaceae"
[9] "Methanocorpusculaceae"
[10] "MarinegroupIII"
[11] "MOB7-9"
[12] "WCHD3-02"
[13] "pMC2A33"
[14] "MarinegroupII"
[15] "WSA2"
[16] "MSBL1"
[17] "Methanobacteriaceae"
[18] "Propionibacteriaceae"
[19] "Nocardioidaceae"
[20] "Microthrixaceae"
[21] "ZA3409c"
[22] "TK06"
[23] "ZA3612c"
[24] "ntu14"
[25] "JdFBGBact"
[26] "SC3-41"
[27] "wb1_P06"
[28] "AKIW874"
[29] "Iamiaceae"
[30] "CL500-29"
[31] "Acidimicrobiaceae"
[32] "EB1017"
[33] "Euzebiaceae"
[34] "Thermomonosporaceae"
[35] "Nocardiopsaceae"
[36] "Streptosporangiaceae"
[37] "Pseudonocardiaceae"
[38] "Actinosynnemataceae"
[39] "Micromonosporaceae"
[40] "Glycomycetaceae"
[41] "Actinopolysporaceae"
[42] "Catenulisporaceae"
[43] "Actinospicaceae"
[44] "Streptomycetaceae"
[45] "ACK-M1"
[46] "Frankiaceae"
[47] "Sporichthyaceae"
[48] "Geodermatophilaceae"
[49] "Nakamurellaceae"
[50] "Cryptosporangiaceae"
[51] "Kineosporiaceae"
[52] "Microbacteriaceae"
[53] "Intrasporangiaceae"
[54] "Dermabacteraceae"
[55] "Dermatophilaceae"
[56] "Dermacoccaceae"
[57] "Cellulomonadaceae"
[58] "Sanguibacteraceae"
[59] "Promicromonosporaceae"
[60] "Beutenbergiaceae"
[61] "Bogoriellaceae"
[62] "Rarobacteraceae"
[63] "Jonesiaceae"
[64] "Actinomycetaceae"
[65] "Brevibacteriaceae"
[66] "Micrococcaceae"
[67] "Yaniellaceae"
[68] "Dietziaceae"
[69] "Corynebacteriaceae"
[70] "Nocardiaceae"
[71] "Williamsiaceae"
[72] "Gordoniaceae"
[73] "Segniliparaceae"
[74] "Tsukamurellaceae"
[75] "Mycobacteriaceae"
[76] "Bifidobacteriaceae"
[77] "SHA-116"
[78] "SHA-4"
[79] "Spirochaetaceae"
[80] "Leptospiraceae"
[81] "Desulfohalobiaceae"
[82] "Desulfonatronumaceae"
[83] "Desulfovibrionaceae"
[84] "Desulfomicrobiaceae"
[85] "Fusobacteriaceae"
[86] "Spiroplasmataceae"
[87] "Entomoplasmataceae"
[88] "Mycoplasmataceae"
[89] "Anaeroplasmataceae"
[90] "Acholeplasmataceae"
[91] "Erysipelotrichaceae"
[92] "vadinHA31"
[93] "Chlamydomonadaceae"
[94] "Mamiellaceae"
[95] "Chlorarachniophyceae"
[96] "Trebouxiophyceae"
[97] "Acaryochloridaceae"
[98] "Pseudanabaenaceae"
[99] "Phormidiaceae"
[100] "Xenococcaceae"
[101] "Spirulinaceae"
[102] "Cyanobacteriaceae"
[103] "Microcystaceae"
[104] "Gomphosphaeriaceae"
[105] "Oscillatoriaceae"
[106] "Chamaesiphonaceae"
[107] "Scytonemataceae"
[108] "Nostocaceae"
[109] "Rivulariaceae"
[110] "Gomontiellaceae"
[111] "Synechococcaceae"
[112] "Helicobacteraceae"
[113] "Campylobacteraceae"
[114] "Mariprofundaceae"
[115] "Hydrogenophilaceae"
[116] "Burkholderiaceae"
[117] "Alcaligenaceae"
[118] "Neisseriaceae"
[119] "Procabacteriaceae"
[120] "Methylophilaceae"
[121] "Nitrosomonadaceae"
[122] "Gallionellaceae"
[123] "Rhodocyclaceae"
[124] "Oxalobacteraceae"
[125] "Comamonadaceae"
[126] "Xanthomonadaceae"
[127] "Cardiobacteriaceae"
[128] "Halothiobacillaceae"
[129] "Chromatiaceae"
[130] "Alteromonadaceae"
[131] "Pseudoalteromonadaceae"
[132] "Psychromonadaceae"
[133] "Celerinatantimonadaceae"
[134] "Idiomarinaceae"
[135] "Colwelliaceae"
[136] "Vibrionaceae"
[137] "Moritellaceae"
[138] "Shewanellaceae"
[139] "Ferrimonadaceae"
[140] "Aeromonadaceae"
[141] "Pasteurellaceae"
[142] "Enterobacteriaceae"
[143] "Succinivibrionaceae"
[144] "Moraxellaceae"
[145] "Halomonadaceae"
[146] "Oceanospirillaceae"
[147] "FCPT525"
[148] "SUP05"
[149] "Piscirickettsiaceae"
[150] "Alcanivoracaceae"
[151] "125ds10"
[152] "OM60"
[153] "J115"
[154] "HTCC2089"
[155] "ZA3412c"
[156] "211ds20"
[157] "HTCC2188"
[158] "Hahellaceae"
[159] "Litincolaceae"
[160] "Saccharospirillaceae"
[161] "Endozoicimonaceae"
[162] "HOC21"
[163] "Oleiphilaceae"
[164] "Pseudomonadaceae"
[165] "Methylococcaceae"
[166] "Crenotrichaceae"
[167] "Thiotrichaceae"
[168] "Coxiellaceae"
[169] "Legionellaceae"
[170] "Endoecteinascidiaceae"
[171] "Francisellaceae"
[172] "Ectothiorhodospiraceae"
[173] "Sinobacteraceae"
[174] "Salinisphaeraceae"
[175] "Rickettsiaceae"
[176] "Phyllobacteriaceae"
[177] "Rhizobiaceae"
[178] "Bartonellaceae"
[179] "Brucellaceae"
[180] "Aurantimonadaceae"
[181] "Rhodobiaceae"
[182] "Hyphomicrobiaceae"
[183] "Methylocystaceae"
[184] "Xanthobacteraceae"
[185] "Bradyrhizobiaceae"
[186] "Methylobacteriaceae"
[187] "Beijerinckiaceae"
[188] "Cohaesibacteraceae"
[189] "Rhodobacteraceae"
[190] "Hyphomonadaceae"
[191] "Caulobacteraceae"
[192] "Rhodospirillaceae"
[193] "Acetobacteraceae"
[194] "Sphingomonadaceae"
[195] "Erythrobacteraceae"
[196] "Kiloniellaceae"
[197] "Kordiimonadaceae"
[198] "Syntrophaceae"
[199] "Syntrophobacteraceae"
[200] "Desulfobacteraceae"
[201] "Desulfobulbaceae"
[202] "Syntrophorhabdaceae"
[203] "Bdellovibrionaceae"
[204] "Bacteriovoracaceae"
[205] "MND4"
[206] "JTB38"
[207] "NB1-i"
[208] "Polyangiaceae"
[209] "Haliangiaceae"
[210] "Nannocystaceae"
[211] "Myxococcaceae"
[212] "Cystobacteraceae"
[213] "Geobacteraceae"
[214] "Pelobacteraceae"
[215] "Desulfuromonadaceae"
[216] "Ignavibacteriaceae"
[217] "Balneolaceae"
[218] "Flammeovirgaceae"
[219] "Flavobacteriaceae"
[220] "Blattabacteriaceae"
[221] "Cryomorphaceae"
[222] "Marinilabiaceae"
[223] "Porphyromonadaceae"
[224] "Bacteroidaceae"
[225] "Prevotellaceae"
[226] "Rikenellaceae"
[227] "Sphingobacteriaceae"
[228] "Cyclobacteriaceae"
[229] "Flexibacteraceae"
[230] "Saprospiraceae"
[231] "Rhodothermaceae"
[232] "Chlorobiaceae"
[233] "A714017"
[234] "AEGEAN_185"
[235] "SHAS460"
[236] "Thermaceae"
[237] "Deinococcaceae"
[238] "Gemmatimonadaceae"
[239] "Fibrobacteraceae"
[240] "Entotheonellaceae"
[241] "Elusimicrobiaceae"
[242] "Methylomirabiliaceae"
[243] "Koribacteraceae"
[244] "Acidobacteriaceae"
[245] "Solibacteraceae"
[246] "Holophagaceae"
[247] "Thermodesulfovibrionaceae"
[248] "Nitrospiraceae"
[249] "FW"
[250] "Nitrospinaceae"
[251] "PRR-10"
[252] "Puniceicoccaceae"
[253] "Opitutaceae"
[254] "Methylacidiphilaceae"
[255] "LD19"
[256] "Verrucomicrobiaceae"
[257] "Spartobacteriaceae"
[258] "Verrucomicrobiasubdivision3"
[259] "Victivallaceae"
[260] "Lentisphaeraceae"
[261] "Waddliaceae"
[262] "Parachlamydiaceae"
[263] "Simkaniaceae"
[264] "Rhabdochlamydiaceae"
[265] "kpj58rc"
[266] "Kueneniaceae"
[267] "Pirellulaceae"
[268] "Planctomycetaceae"
[269] "Gemmataceae"
[270] "Isosphaeraceae"
[271] "Phycisphaeraceae"
[272] "At425_EubF1"
[273] "Coriobacteriaceae"
[274] "Solirubrobacteraceae"
[275] "Patulibacteraceae"
[276] "Rubrobacteraceae"
[277] "Halobacteroidaceae"
[278] "Halanaerobiaceae"
[279] "Chthonomonadaceae"
[280] "Armatimonadaceae"
[281] "WD294"
[282] "F16"
[283] "Oscillochloridaceae"
[284] "Kouleothrixaceae"
[285] "AKYH910"
[286] "FFCH4570"
[287] "5B-12"
[288] "Dolo_23"
[289] "Dehalococcoidaceae"
[290] "Caldilineaceae"
[291] "S47"
[292] "KNA6-EB22"
[293] "Anaerolinaceae"
[294] "SHA-31"
[295] "Clostridiaceae"
[296] "Eubacteriaceae"
[297] "Peptostreptococcaceae"
[298] "ClostridialesFamilyXIII.IncertaeSedis"
[299] "ClostridialesFamilyXII.IncertaeSedis"
[300] "ClostridialesFamilyXI.IncertaeSedis"
[301] "Catabacteriaceae"
[302] "Ruminococcaceae"
[303] "Lachnospiraceae"
[304] "Symbiobacteriaceae"
[305] "Thermoanaerobacteraceae"
[306] "Thermicanaceae"
[307] "Paenibacillaceae"
[308] "Bacillaceae"
[309] "Sporolactobacillaceae"
[310] "Planococcaceae"
[311] "Listeriaceae"
[312] "Gemellaceae"
[313] "Turicibacteraceae"
[314] "Haloplasmataceae"
[315] "Carnobacteriaceae"
[316] "Enterococcaceae"
[317] "Aerococcaceae"
[318] "Leuconostocaceae"
[319] "Streptococcaceae"
[320] "Lactobacillaceae"
[321] "Staphylococcaceae"
[322] "Exiguobacteraceae"
[323] "Pasteuriaceae"
[324] "Thermoactinomycetaceae"
[325] "Alicyclobacillaceae"
[326] "Syntrophomonadaceae"
[327] "Desulfitobacteraceae"
[328] "BSV43"
[329] "Veillonellaceae"
[330] "Peptococcaceae"
[331] "Dehalobacteriaceae"
[332] "Thermotogaceae"
[333] "Synergistaceae"
[334] "Dethiosulfovibrionaceae"
[335] "Thermodesulfobiaceae"
Warning message:
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