Release Notes for RDP 7.1 (September 17, 1999) ********************************************** This file describes the changes that occur in the listed directories with the 7.1 release of the RDP. In this document, directory names are indicated as: ++++++++++++++++ +++++++++++++++++++++++ subdirectory names are indicated as: + + +++++++++++++++++++++++ and file names contained within the subdirectory are indicated as: ******************* ** ** ******************* ++++++++++++ + LSU_rRNA + ++++++++++++ No changes have occurred for the aligned or unaligned LSU data. ++++++++++++ + SSU_rRNA + ++++++++++++ New sequences have been added to the SSU_Prok alignment and the SSU_Unal.gb files. A listing of new and changed sequences occurs in the alignments directory section. Some minor format changes have occurred in the SSU.alpha and SSU_Prok.* files have changed. The header lines which contain the date and the title of the file have been removed. The SSU_Prok.alpha and SSU_Prok.phylo files no longer contain an index number to correlate where the sequence occurs in the tree and in the SSU_Prok.alpha or SSU_Prok.phylo files. Since no changes have occurred in the SSU_Euk.* or SSU_Mito.* files, these files still contain index numbers. These numbers are _NOT_ RDP accession numbers nor are they permanent, fixed numbers. The SSU_Unal data have been updated. Subdirectories (sequences) in the alignments and unaligned directories have been updated to contain files for each individual sequence. See the respective sections in the 00RELEASE_NOTES.7.1 file. AE2 alignment files are no longer being created beginning with Release 7.0. This is because the number of sequences is greater than the capacity of current versions of the AE2 editor. AE2 files of subsets of data can still be obtained for the near future from the RDP mail and WWW servers. ******************************* ** SSU_Prok.phylo.headings ** ******************************* The SSU_Prok.phylo.headings file has been updated. It contains only the taxonomic level numbers and names for the SSU_Prok alignment. **************************** ** SSU_Prok.phylo.stats ** **************************** The SSU_Prok.phylo.headings file has been updated. It contains statistics about each taxonomic level for the SSU_Prok alignment. ******************** ** SSU_Unal.acc ** ******************** This file was not generated for Release 7.1. ********************** ** SSU_Unal.alpha ** ********************** This file was not generated for Release 7.1. ************************** ** SSU_rep_Prok.phylo ** ************************** This file is not yet generated for Release 7.1. ++++++++++++++ + alignments + ++++++++++++++ New sequences have been added ONLY to the SSU_Prok alignment. See the respective data file section for a listing of the new and changed sequences. Release 7.1 includes more than 850 new type strain 16S sequences. Files comprising only type strain data have been added. The representative SSU_Prok GenBank file name has been changed from SSU_rep_Prok.gb to SSU_Prok.rep.gb. The directory (sequences) and subdirectories (A-Z) contain the SSU sequences in individual files with the file name following the format of _gb. Sequences which exist in the SSU_Prok alignment and overlap with the SSU_Euk and SSU_Mito alignment files are exceptions to this rule, e.g., E.coli, Rhb.legum6, Trit.aes_M, etc. ******************* ** SSU_Prok.gb ** ******************* The number of sequences included in the SSU_Prok.gb (small subunit prokaryotic organisms - GenBank format) file increases from 6205 to 7322. (1117 sequences were added.) The characters '~' and '-' represent alignment gap characters. The character '.' represents missing data. The character 'N' represents the presence of a nucleotide of undetermined composition. See the SSU_rRNA/SSU_Prok.alpha file for more information about the following new organisms: RDP short-ID Organism (genus species) ------------ ----------------------------------------- A.feroxidn Acidimicrobium ferrooxidans Aab.hydfor Acidaminobacter hydrogenoformans Aba.intmed Acetobacter intermedius Aba.oboedi Acetobacter oboediens Aba.pomorm Acetobacter pomorum Abb.purpu2 Amoebobacter purpureus Abb.purpur Amoebobacter purpureus Abi.alniph Actinobispora alaniniphila Abi.aurant Actinobispora aurantiaca Abi.xinjia Actinobispora xinjiangensis Abi.yunna2 Actinobispora yunnanensis Abi.yunnan Actinobispora yunnanensis Abl.schaa2 Actinobaculum schaalii Abl.schaal Actinobaculum schaalii Abs.sucprd Anaerobiospirillum succiniciproducens Abt.balaen Abiotrophia balaenopterae Abt.elegan Abiotrophia elegans Acb.muris1 Actinobacillus muris Acb.succin Actinobacillus succinogenes Acb.suis2 Actinobacillus suis Acdp.acphl Acidiphilium acidophilum Acdp.mltvr Acidiphilium multivorum Ach.araba3 Acetohalobium arabaticum Acn.calco6 Acinetobacter calcoaceticus Acr.herbid Actinocorallia herbida Act.europa Actinomyces europaeus Act.graeve Actinomyces graevenitzii Adi.ambiv3 Acidianus ambivalens Adi.infer3 Acidianus infernus Af.agile1 Anaerofilum agile Af.pentosv Anaerofilum pentosovorans Afp.broom2 Afipia broomeae Ag.vitis5 Agrobacterium vitis Ah.kielien Ahrensia kielensis Alc.defrag Alcaligenes defragrans Alc.latus1 Alcaligenes latus Alm.minsim Allochromatium minutissimum Alm.warmng Allochromatium warmingii Aln.borkum Alcanivorax borkumensis Alr.undcol Allorhizobium undicola Alt.agrlyt Alterococcus agarolyticus Altm.disti Alteromonas distincta Altm.elyak Alteromonas elyakovii Altm.fulig Alteromonas fuliginea Amb.aganoe Aminobacter aganoensis Amb.amnvor Aminobacter aminovorans Amb.niigat Aminobacter niigataensis Amd.frmosn Actinomadura formosensis Amd.madur3 Actinomadura madurae Amd.madur4 Actinomadura madurae Amd.viridi Actinomadura viridis Amh.xylanu Amphibacillus xylanus Amm.oxaliv Ammoniphilus oxalivorans Amr.kaplic Amaricoccus kaplicensis Amr.macaue Amaricoccus macauensis Amr.tamwor Amaricoccus tamworthensis Amr.verone Amaricoccus veronensis Amy.alba1 Amycolatopsis alba Amy.colora Amycolatopsis coloradensis Amy.orien3 Amycolatopsis orientalis Amy.sulphu Amycolatopsis sulphurea Anb.helthr Antarctobacter heliothermus Anbn.cyli2 "Anabaena cylindrica" Anr.thmter Anaerobaculum thermoterrenum Ap.pernix2 Aeropyrum pernix Aqa.citrph Aquabacterium citratiphilum Aqa.commun Aquabacterium commune Aqa.parvum Aquabacterium parvum Aqsp.delic Aquaspirillum delicatum Aqsp.graci Aquaspirillum gracile Aqsp.metam Aquaspirillum metamorphum Aqsp.psych Aquaspirillum psychrophilum Aqsp.sinos Aquaspirillum sinuosum Arb.creati Arthrobacter creatinolyticus Arg.fulgi3 Archaeoglobus fulgidus Arg.venefi Archaeoglobus veneficus Arm.janda3 Aeromonas jandaei Arm.popoff Aeromonas popoffii Arm.salm11 Aeromonas salmonicida Armb.eryt5 Aeromicrobium erythreum Asc.bipro2 Asticcacaulis biprosthecium Asc.bipros Asticcacaulis biprosthecium Asc.excen2 Asticcacaulis excentricus Asc.excen3 Asticcacaulis excentricus Asc.excent Asticcacaulis excentricus Atb.bakii1 Acetobacterium bakii Atb.carbin Acetobacterium carbinolicum Atb.fimetr Acetobacterium fimetarium Atb.malicu Acetobacterium malicum Atb.paludo Acetobacterium paludosum Atb.wierin Acetobacterium wieringae Atb.woodii Acetobacterium woodii Aub.resist Aureobacterium resistens Av.avenave Acidovorax avenae Av.avencat Acidovorax avenae Av.avencit Acidovorax avenae Av.delfldi Acidovorax delafieldii Av.facilis Acidovorax facilis Av.konjaci Acidovorax konjaci Av.tempran Acidovorax temperans Azc.anaero Azoarcus anaerobius Azc.commu3 Azoarcus communis Azc.indig2 Azoarcus indigens Azs.largom Azospirillum largomobile B.benzoev2 Bacillus benzoevorans B.edaphicu Bacillus edaphicus B.horti1 Bacillus horti B.mucilagi Bacillus mucilaginosus B.silvestr Bacillus silvestris B.simplex3 Bacillus simplex B.thleovo2 Bacillus thermoleovorans B.thsphaer Bacillus thermosphaericus Bac.caccae Bacteroides caccae Bac.fragi3 Bacteroides fragilis Bac.merdae Bacteroides merdae Bac.ovatu2 Bacteroides ovatus Bac.stercr Bacteroides stercoris Bar.alsati Bartonella alsatica Bar.trbcor Bartonella tribocorum Bdr.japo11 Bradyrhizobium japonicum Bdr.japo12 Bradyrhizobium japonicum Bg.caseily Bogoriella caseilytica Bla.natato Blastomonas natatoria Blb.denit2 Blastobacter denitrificans Bln.alpica Balneatrix alpica Bn.alni1 Brenneria alni Bn.nigrif1 Brenneria nigrifluens Bn.nigrif2 Brenneria nigrifluens Bn.paradis Brenneria paradisiaca Bn.quercin Brenneria quercina Bn.rubrif2 Brenneria rubrifaciens Bn.rubrifa Brenneria rubrifaciens Bn.salici2 Brenneria salicis Bn.salicis Brenneria salicis Br.vesicu1 Brevundimonas vesicularis Br.vesicu2 Brevundimonas vesicularis Br.vesicu3 Brevundimonas vesicularis Brb.mcbrel Brevibacterium mcbrellneri Brb.otidit Brevibacterium otitidis Btv.fbr_17 Butyrivibrio fibrisolvens Bur.caribn Burkholderia caribensis Bur.cepac8 Burkholderia cepacia Bur.gladi4 Burkholderia gladioli Bur.glath1 Burkholderia glathei Bur.glath2 Burkholderia glathei Bur.glumae Burkholderia glumae Bur.gramin Burkholderia graminis Bur.norimb Burkholderia norimbergensis Bur.phenaz Burkholderia phenazinium Bur.plant2 Burkholderia plantarii Bur.planta Burkholderia plantarii Bur.pyrroc Burkholderia pyrrocinia Bur.thaila Burkholderia thailandensis Bur.vietn1 Burkholderia vietnamiensis Bur.vietn2 Burkholderia vietnamiensis C.acetired Clostridium acetireducens C.auranti2 Clostridium aurantibutyricum C.josui1 Clostridium josui C.pardoxu2 Clostridium paradoxum Cap.canim2 Capnocytophaga canimorsus Cap.cynod2 Capnocytophaga cynodegmi Cap.granu3 Capnocytophaga granulosa Cap.haemo2 Capnocytophaga haemolytica Cat.japon5 Catenuloplanes japonicus Cau.bacte2 Caulobacter bacteroides Cau.fusfo2 Caulobacter fusiformis Cau.fusfo3 Caulobacter fusiformis Cau.fusfor Caulobacter fusiformis Cau.halbac Caulobacter halobacteroides Cau.henri2 Caulobacter henricii Cau.henri3 Caulobacter henricii Cau.henric Caulobacter henricii Cau.inter2 Caulobacter intermedius Cau.interm Caulobacter intermedius Cau.leidy1 Caulobacter leidyi Cau.leidy2 Caulobacter leidyi Cau.leidy3 Caulobacter leidyi Cau.maris1 Caulobacter maris Cau.subvi2 Caulobacter subvibrioides Cau.subvi3 Caulobacter subvibrioides Cau.variab Caulobacter variabilis Cb.ceti1 Cetobacterium ceti Ccp.caeru2 Couchioplanes caeruleus Ccp.caeru3 Couchioplanes caeruleus Ccs.lactoa Caldicellulosiruptor lactoaceticus Ccs.owense Caldicellulosiruptor owensensis Chd.abort1 Chlamydophila abortus Chd.abort2 Chlamydophila abortus Chd.caviae Chlamydophila caviae Chd.felis1 Chlamydophila felis Chd.pecorm Chlamydophila pecorum Chd.pneum6 Chlamydophila pneumoniae Chd.pneumo Chlamydophila pneumoniae Chd.psitt5 Chlamydophila psittaci Chd.psitta Chlamydophila psittaci Chl.limic3 Chlorobium limicola Chr.okeni2 Chromatium okenii Cht.pinens Chitinophaga pinensis Cit.braaki Citrobacter braakii Cit.farmer Citrobacter farmeri Cit.koseri Citrobacter koseri Cit.rodent Citrobacter rodentium Cit.sedlak Citrobacter sedlakii Cit.werkma Citrobacter werkmanii Cllm.biaz2 Cellulomonas biazotea Cllm.cllu2 Cellulomonas cellulans Cllm.clse2 Cellulomonas cellasea Cllm.ferm2 Cellulomonas fermentans Cllm.fimi2 Cellulomonas fimi Cllm.flav2 Cellulomonas flavigena Cllm.geli2 Cellulomonas gelida Cllm.turb1 Cellulomonas turbata Cllm.uda2 Cellulomonas uda Clm.murdar Chlamydia muridarum Clm.suis1 Chlamydia suis Clm.trach2 Chlamydia trachomatis Clm.trach4 Chlamydia trachomatis Clv.mich13 Clavibacter michiganense Clv.xyli2 Clavibacter xyli Clw.maris1 Colwellia maris Clw.peryt2 Colwellia psychroerythrea Clw.peryt3 Colwellia psychroerythrea Clw.psytrp Colwellia psychrotropica Cmb.granu1 Calymmatobacterium granulomatis Cmb.granu2 Calymmatobacterium granulomatis Cmb.granu3 Calymmatobacterium granulomatis Cno.anatin Coenonia anatina Com.terrig Comamonas terrigena Cor.auris2 Corynebacterium auris Cor.campor Corynebacterium camporealensis Cor.confu1 Corynebacterium confusum Cor.durum1 Corynebacterium durum Cor.falsen Corynebacterium falsenii Cor.jeike3 Corynebacterium jeikeium Cor.krpnst Corynebacterium kroppenstedtii Cor.mucifa Corynebacterium mucifaciens Cor.riegel Corynebacterium riegelii Cor.singul Corynebacterium singulare Cor.sundsv Corynebacterium sundsvallense Cow.rumin5 Cowdria ruminantium Cs.arvum1 Cryptosporangium arvum Cs.japonic Cryptosporangium japonicum Ctm.platen Coprothermobacter platensis Cya.SAJ708 Cyanothece sp Cya.SAJ715 Cyanothece sp Dbb.elonga Desulfobulbus elongatus Dbb.rhabdo Desulfobulbus rhabdoformis Dct.matsu2 Dactylosporangium matsuzakiense Df.acvoran Delftia acidovorans Dfb.acetox Desulfobacca acetoxidans Dfm.acetox Desulfotomaculum acetoxidans Dfm.aerona Desulfotomaculum aeronauticum Dfm.geoth2 Desulfotomaculum geothermicum Dfm.guttoi Desulfotomaculum guttoideum Dfm.haloph Desulfotomaculum halophilum Dfm.kuznet Desulfotomaculum kuznetsovii Dfm.luciae Desulfotomaculum luciae Dfm.putei1 Desulfotomaculum putei Dfm.rumin3 Desulfotomaculum ruminis Dfm.thacet Desulfotomaculum thermoacetoxidans Dfm.thben2 Desulfotomaculum thermobenzoicum Dfm.thcist Desulfotomaculum thermocisternum Dfm.thsap2 Desulfotomaculum thermosapovorans Dfn.lacust Desulfonatronum lacustre Dh.ethenog Dehalococcoides ethenogenes Dhb.retba2 Desulfohalobium retbaense Dlc.sp8305 Dactylococcopsis sp Dm.terragn Demetria terragena Dmb.apsher Desulfomicrobium apsheronum Dmb.bacul2 Desulfomicrobium baculatum Ds.orienti Desulfosporosinus orientis Dsb.vibrio Desulfobacter vibrioformis Dsc.thiozy Desulfocapsa thiozymogenes Dsf.limico Desulfonema limicola Dsf.magnum Desulfonema magnum Dsm.thioph Desulfuromonas thiophila Dsn.hyvora Desulfonatronovibrio hydrogenovorans Dsp.joerge Desulfospira joergensenii Dsr.kamcha Desulfurella kamchatkensis Dsr.multip Desulfurella multipotens Dsr.propio Desulfurella propionica Dsv.afric2 Desulfovibrio africanus Dsv.alvora Desulfovibrio alcoholovorans Dsv.amphil Desulfovibrio aminophilus Dsv.burkbn Desulfovibrio burkinensis Dsv.cuneat Desulfovibrio cuneatus Dsv.frvora Desulfovibrio fructosovorans Dsv.halph2 Desulfovibrio halophilus Dsv.litora Desulfovibrio litoralis Dsv.senezi Desulfovibrio senezii Dsv.zoster Desulfovibrio zosterae Dsz.incert Desemzia incerta Dv.riboflv Devosia riboflavina Eco.asini1 Enterococcus asini Eco.faeca1 Enterococcus faecalis Eco.faeci3 Enterococcus faecium Enb.aeroge Enterobacter aerogenes Enb.amnige Enterobacter amnigenus Enb.asburi Enterobacter asburiae Enb.cancer Enterobacter cancerogenus Enb.dissol Enterobacter dissolvens Enb.gergov Enterobacter gergoviae Enb.interm Enterobacter intermedius Enb.nimipr Enterobacter nimipressuralis Enb.pyrinu Enterobacter pyrinus Enb.sakaza Enterobacter sakazakii Er.amylvo2 Erwinia amylovora Er.amylvo3 Erwinia amylovora Er.bllingi Erwinia billingiae Er.mallotv Erwinia mallotivora Er.persici Erwinia persicina Er.rhapon2 Erwinia rhapontici Er.rhapont Erwinia rhapontici Er.trachep Erwinia tracheiphila Erb.litor2 Erythrobacter litoralis Ers.rhusi2 Erysipelothrix rhusiopathiae Ers.tonsi2 Erysipelothrix tonsillarum Ery.ursinc Erythromonas ursincola Eub.acidam Eubacterium acidaminophilum Eub.callan Eubacterium callanderi Eub.minut1 Eubacterium minutum Eub.minut2 Eubacterium minutum Eub.rumina Eubacterium ruminantium Exs.viridi Excellospora viridilutea Fac.homini Facklamia hominis Fac.sourek Facklamia sourekii Flt.doroth Flexithrix dorotheae Fn.jadensi Fundibacter jadensis Frr.placid Ferroglobus placidus Frt.aurant Frateuria aurantia Fus.aloci2 Fusobacterium alocis Fus.nucle7 Fusobacterium nucleatum Fus.sulci1 Fusobacterium sulci Gab.xylsuc Gluconacetobacter xylinus Gem.sangui Gemella sanguinis Gm.harbnen Glycomyces harbinensis Gm.tenuis1 Glycomyces tenuis Gmt.obscu4 Gemmata obscuriglobus Grb.haltol Gracilibacillus halotolerans Grd.hirsut Gordonia hirsuta Gv.ferredu Geovibrio ferrireducens Han.aceth2 Haloanaerobium acetoethylicum Han.congol Haloanaerobium congolense Han.praev2 Haloanaerobium praevalens Han.sacsa3 Haloanaerobium saccharolyticum Han.sacse2 Haloanaerobium saccharolyticum Har.hispan Haloarcula hispanica Hbac.halo3 Halobacteroides halobius Hbn.felis1 Haemobartonella felis Hbn.felis2 Haemobartonella felis Hbn.felis3 Haemobartonella felis Hbn.muris1 Haemobartonella muris Hbs.cretac Herbidospora cretacea Hc.sacchar Halococcus saccharolyticus Hc.salifo2 Halococcus salifodinae Hch.salexi Halochromatium salexigens Hcl.cellyt Halocella cellulolytica Her.geyser Herpetosiphon geysericola Hg.borinqu Halogeometricum borinquense Hgh.thlute Hydrogenophilus thermoluteolus Hgp.flava1 Hydrogenophaga flava Hgp.palle2 Hydrogenophaga palleronii Hgp.paller Hydrogenophaga palleronii Hgp.psflav Hydrogenophaga pseudoflava Hgp.taensp Hydrogenophaga taeniospiralis Hgv.marinu Hydrogenovibrio marinus Hla.chitn2 Haloanaerobacter chitinovorans Hla.lacun3 Haloanaerobacter lacunaris Hla.salinr Haloanaerobacter salinarius Hlb.bizzoz Helicobacter bizzozeronii Hlb.cholec Helicobacter cholecystus Hlb.rodent Helicobacter rodentium Hlb.salomn Helicobacter salomonis Hld.filfor Holdemania filiformis Hlm.desdra Halomonas desiderata Hlm.pantel Halomonas pantelleriensis Hr.distrib Halorubrum distributum Hr.vacuola Halorubrum vacuolatum Hs.serpedi Herbaspirillum seropedicae Ht.turkmen Haloterrigena turkmenica Hym.hirsch Hyphomonas hirschiana Hym.janna2 Hyphomonas jannaschiana Hym.neptun Hyphomonas neptunium Hym.oceani Hyphomonas oceanitis Hyp.dnitri Hyphomicrobium denitrificans Hyp.facil2 Hyphomicrobium facile Hyp.facil3 Hyphomicrobium facile Hyp.facile Hyphomicrobium facile Hyp.hollnd Hyphomicrobium hollandicum Hyp.mvorum Hyphomicrobium methylovorum Hyp.zavarz Hyphomicrobium zavarzinii Ic.buderiT Isochromatium buderi Ig.ruoffia Ignavigranum ruoffiae Iso.palli3 Isosphaera pallida Isp.calvum Intrasporangium calvum Jan.limosu Janibacter limosus Jb.lividum Janthinobacterium lividum Jns.denit2 Jonesia denitrificans K.oxytoca1 Klebsiella oxytoca K.oxytoca2 Klebsiella oxytoca K.plantic3 Klebsiella planticola K.plantic4 Klebsiella planticola K.plantico Klebsiella planticola K.pneumon4 Klebsiella pneumoniae K.pneuozae Klebsiella pneumoniae K.pneupneu Klebsiella pneumoniae K.pneurhin Klebsiella pneumoniae K.terrigen Klebsiella terrigena Kc.rosea2 Kocuria rosea Klu.cochle Kluyvera cochleae Klu.georgi Kluyvera georgiana Kr.flavida Kribbella flavida Kr.sndrmyc Kribbella sandramycini Ks.aurant2 Kineosporia aurantiaca Ks.aurant3 Kineosporia aurantiaca Ks.rhamno2 Kineosporia rhamnosa Ks.rhizoph Kineosporia rhizophila Ks.succine Kineosporia succinea Kt.virido2 Kutzneria viridogrisea Kts.azatic Kitasatospora azatica Kts.cheeri Kitasatospora cheerisanensis Kts.cystar Kitasatospora cystarginea Kts.pcochl Kitasatospora paracochleata Kts.phosa2 Kitasatospora phosalacinea Kts.setae2 Kitasatospora setae L.amylytic Lactobacillus amylolyticus L.collinoi Lactobacillus collinoides L.crispat2 Lactobacillus crispatus L.delbruc3 Lactobacillus delbrueckii L.johnsoni Lactobacillus johnsonii L.lindneri Lactobacillus lindneri L.manihotv Lactobacillus manihotivorans L.salivar2 Lactobacillus salivarius L.zeae1 Lactobacillus zeae Lbc.komag2 Leucobacter komagatae Lc.carnosu Leuconostoc carnosum Lc.mesent2 Leuconostoc mesenteroides Lc.pmesent Leuconostoc pseudomesenteroides Lcs.paste2 Lactosphaera pasteurii Leg.eryth2 Legionella erythra Leg.lytic3 Legionella lytica Leg.taurin Legionella taurinensis Lew.cohaer Lewinella cohaerens Lew.nigric Lewinella nigricans Lew.persic Lewinella persica Lis.grayi2 Listeria grayi Lis.innoc3 Listeria innocua Lis.ivano2 Listeria ivanovii Lis.ivano3 Listeria ivanovii Lis.welsh2 Listeria welshimeri Lp.koalaru Lonepinella koalarum Lpc.rosprs Lamprocystis roseopersicina Lpt.bucca3 Leptotrichia buccalis Lptx.mobil Leptothrix mobilis Lut.japon2 Luteococcus japonicus Lut.japon3 Luteococcus japonicus Lyb.antbio Lysobacter antibioticus Lyn.cnfrvo Lyngbya confervoides M.adleri1 Mycoplasma adleri M.auris1 Mycoplasma auris M.cottewii Mycoplasma cottewii M.yeatsii1 Mycoplasma yeatsii Mac.caseo2 Macrococcus caseolyticus Mac.caseol Macrococcus caseolyticus Mb.espanol Methanobacterium espanolae Mb.ivanovi Methanobacterium ivanovii Mb.palustr Methanobacterium palustre Mb.subterr Methanobacterium subterraneum Mb.thaggre Methanobacterium thermaggregans Mbb.curvat Methanobrevibacter curvatus Mbb.cuticl Methanobrevibacter cuticularis Mbb.filfor Methanobrevibacter filiformis Mbb.smithi Methanobrevibacter smithii Mbm.argaly Microbacterium arabinogalactanolyticum Mbm.aurant Microbacterium aurantiacum Mbm.choclt Microbacterium chocolatum Mbm.flaves Microbacterium flavescens Mbm.haloph Microbacterium halophilum Mbm.homini Microbacterium hominis Mbm.kerly2 Microbacterium keratanolyticum Mbm.kerlyt Microbacterium keratanolyticum Mbm.ketred Microbacterium ketosireducens Mbm.luteol Microbacterium luteolum Mbm.saperd Microbacterium saperdae Mbm.schlfr Microbacterium schleiferi Mbm.thlass Microbacterium thalassium Mbm.trrgns Microbacterium terregens Mbm.trtecl Microbacterium trichothecenolyticum Mbsp.mphil Microbispora mesophila Mbsp.rosea Microbispora rosea Mbt.dfluvi Methanothermobacter defluvii Mbt.thflex Methanothermobacter thermoflex Mbt.thphil Methanothermobacter thermophilus Mc.inferns Methanococcus infernus Mcd.ferven Methanocaldococcus fervens Mcd.vulcan Methanocaldococcus vulcanius Mch.purpu2 Marichromatium purpuratum Mch.purpur Marichromatium purpuratum Mcr.bavar2 Methanocorpusculum bavaricum Mcr.bavarc Methanocorpusculum bavaricum Mcr.labre2 Methanocorpusculum labreanum Mcr.sinens Methanocorpusculum sinense Mcu.olent2 Methanoculleus olentangyi Mcu.palmol Methanoculleus palmolei Mei.cerber Meiothermus cerbereus Mei.chliar Meiothermus chliarophilus Mei.silva2 Meiothermus silvanus Met.hanson Methylosphaera hansonii Mf.liminat Methanofollis liminatans Mf.tationi Methanofollis tationis Mlc.thphil Methylococcus thermophilus Mln.rubra1 Malonomonas rubra Mms.chalc2 Micromonospora chalcea Mms.chalce Micromonospora chalcea Mms.echns4 Micromonospora echinospora Mnh.gluco2 Mannheimia glucosida Mnh.glucos Mannheimia glucosida Mnh.granul Mannheimia granulomatis Mnh.haemly Mannheimia haemolytica Mnh.rumina Mannheimia ruminalis Mnh.varign Mannheimia varigena Mp.marina2 Methylophaga marina Mp.slfidvo Methylophaga sulfidovorans Mpi.capsul Methylopila capsulata Mpl.petrlr Methanoplanus petrolearius Mrb.aquaeo Marinobacter aquaeolei Mrb.hycla4 Marinobacter hydrocarbonoclasticus Mrc.halop2 Marinococcus halophilus Mrh.multiv Methylorhabdus multivorans Mrl.glycer Moorella glycerini Mrs.minutl Marinospirillum minutulum Mrx.bovis1 Moraxella bovis Mrx.cavia2 Moraxella caviae Ms.mulpar2 Microsphaera multipartita Msk.mulcid Mitsuokella multacida Mso.amorph Mesorhizobium amorphae Mso.plrfar Mesorhizobium plurifarium Mso.tians2 Mesorhizobium tianshanense Mso.tiansh Mesorhizobium tianshanense Msr.barke2 Methanosarcina barkeri Msr.mazei4 Methanosarcina mazei Mtt.glauc3 Microtetraspora glauca Mvr.ardntf Microvirgula aerodenitrificans Myb.alvei1 Mycobacterium alvei Myb.ausafr Mycobacterium austroafricanum Myb.duvali Mycobacterium duvalii Myb.farci2 Mycobacterium farcinogenes Myb.hdlbrg Mycobacterium heidelbergense Myb.novcas Mycobacterium novocastrense Myb.peregr Mycobacterium peregrinum Myb.pfortu Mycobacterium parafortuitum Myb.smegm2 Mycobacterium smegmatis Myb.trivi2 Mycobacterium triviale Na.pallidu Natrinema pallidum Na.pelrubm Natrinema pellirubrum Ncr.albus2 Nocardioides albus Ncr.nitrph Nocardioides nitrophenolicus Ncr.plant3 Nocardioides plantarum Ncr.simpl4 Nocardioides simplex Nm.ferrugi Nonomuria ferruginea Nm.pusilla Nonomuria pusilla Nnr.bangen Natronorubrum bangense Noc.aster6 Nocardia asteroides Noc.crasso Nocardia crassostreae Noc.psbra2 Nocardia pseudobrasiliensis Noc.salmo2 Nocardia salmonicida Nost.punct Nostoc punctiforme Npm.nphthv Neptunomonas naphthovorans Nrp.dasso2 Nocardiopsis dassonvillei Nrp.synmtf Nocardiopsis synnemataformans Ntm.pharao Natronomonas pharaonis Nv.ramosa1 Nevskia ramosa O.marismor Orenia marismortui Ocb.intmed Ochrobactrum intermedium Occ.oeni1 Oenococcus oeni Oct.arctic Octadecabacter arcticus Osp.beipel Oceanospirillum beijerinckii Osp.janna2 Oceanospirillum jannaschii Osp.krieg2 Oceanospirillum kriegii Osp.marmar Oceanospirillum maris Osp.marwil Oceanospirillum maris Osp.multi2 Oceanospirillum multiglobuliferum Osp.pusil2 Oceanospirillum pusillum Oxa.formi2 Oxalobacter formigenes Oxl.oxali2 Oxalophagus oxalicus Pab.slcylt Pseudaminobacter salicylatoxidans Pae.campin Paenibacillus campinasensis Pae.lenti3 Paenibacillus lentimorbus Pae.popill Paenibacillus popilliae Pal.baclyt Pseudoalteromonas bacteriolytica Pal.pisci2 Pseudoalteromonas piscicida Par.alkenf Paracoccus alkenifer Par.denit3 Paracoccus denitrificans Par.denit4 Paracoccus denitrificans Par.denit5 Paracoccus denitrificans Par.pnttro Paracoccus pantotrophus Par.versu4 Paracoccus versutus Pas.aerog2 Pasteurella aerogenes Pas.mairii Pasteurella mairii Pb.immobil Phenylobacterium immobile Pcb.caratr Pectobacterium carotovorum Pcb.carbe2 Pectobacterium carotovorum Pcb.carbet Pectobacterium carotovorum Pcb.carca2 Pectobacterium carotovorum Pcb.carcar Pectobacterium carotovorum Pcb.carodo Pectobacterium carotovorum Pcb.carwas Pectobacterium carotovorum Pcb.chrys2 Pectobacterium chrysanthemi Pcb.chrysn Pectobacterium chrysanthemi Pcb.cypri2 Pectobacterium cypripedii Pcb.cyprip Pectobacterium cypripedii Pch.acanth Parachlamydia acanthamoebae Ped.damnos Pediococcus damnosus Ped.dextrn Pediococcus dextrinicus Ped.parvul Pediococcus parvulus Pet.mobili Petrotoga mobilis Phb.iliopi Photobacterium iliopiscarium Pir.stale3 Pirellula staleyi Plc.mcmeek Planococcus mcmeekinii Pln.brasi2 Planctomyces brasiliensis Pln.brasi3 Planctomyces brasiliensis Pln.maris2 Planctomyces maris Pls.europa Pelistega europaea Plt.mira1 Planotetraspora mira Pn.agglom2 Pantoea agglomerans Pn.agglom3 Pantoea agglomerans Pn.agglomr Pantoea agglomerans Pn.ananas1 Pantoea ananatis Pn.ananat2 Pantoea ananatis Pn.ananati Pantoea ananatis Pn.stewind Pantoea stewartii Pn.stewst2 Pantoea stewartii Pn.stewstw Pantoea stewartii Pps.harei1 Peptostreptococcus harei Pps.ivorii Peptostreptococcus ivorii Pps.octavi Peptostreptococcus octavius Pr.lumine4 Photorhabdus luminescens Prl.rugosa Prauserella rugosa Prp.avidu2 Propionibacterium avidum Prp.freud4 Propionibacterium freudenreichii Prp.granu2 Propionibacterium granulosum Prp.lymph2 Propionibacterium lymphophilum Prp.propi2 Propionibacterium propionicus Prsb.dbont Prosthecobacter debontii Prsb.djong Prosthecobacter dejongeii Prsb.fusfm Prosthecobacter fusiformis Prsb.vnnrv Prosthecobacter vanneervenii Prst.aestu Prosthecochloris aestuarii Prv.albens Prevotella albensis Prv.brevis Prevotella brevis Prv.bryant Prevotella bryantii Prv.enoeca Prevotella enoeca Prv.pallen Prevotella pallens Prv.tanner Prevotella tannerae Ps.aerugi7 Pseudomonas aeruginosa Ps.agaric2 Pseudomonas agarici Ps.alcali2 Pseudomonas alcaligenes Ps.amygda2 Pseudomonas amygdali Ps.amygda3 Pseudomonas amygdali Ps.anguill Pseudomonas anguilliseptica Ps.aspleni Pseudomonas asplenii Ps.chlrap2 Pseudomonas chlororaphis Ps.chlrap3 Pseudomonas chlororaphis Ps.cichori Pseudomonas cichorii Ps.citrone Pseudomonas citronellolis Ps.echinoi Pseudomonas echinoides Ps.fluore7 Pseudomonas fluorescens Ps.gramini Pseudomonas graminis Ps.margina Pseudomonas marginalis Ps.mendoc7 Pseudomonas mendocina Ps.monteil Pseudomonas monteilii Ps.oleovo2 Pseudomonas oleovorans Ps.psalcal Pseudomonas pseudoalcaligenes Ps.putid10 Pseudomonas putida Ps.resinov Pseudomonas resinovorans Ps.rhodesi Pseudomonas rhodesiae Ps.syring6 Pseudomonas syringae Ps.tolaas2 Pseudomonas tolaasii Ps.veronii Pseudomonas veronii Ps.viridif Pseudomonas viridiflava Psan.bicep Pseudoanabaena biceps Psc.alni2 Pseudonocardia alni Psc.asacch Pseudonocardia asaccharolytica Psc.hphob2 Pseudonocardia halophobica Psc.slfoxy Pseudonocardia sulfidoxydans Psf.torqui Psychroflexus torquis Psh.burton Psychroserpens burtonensis Psr.salmo4 Piscirickettsia salmonis Psy.frgdcl Psychrobacter frigidicola Psy.glacin Psychrobacter glacincola Psy.phpyru Psychrobacter phenylpyruvicus Psy.uratov Psychrobacter urativorans Pyl.fumari Pyrolobus fumari Ral.gilard Ralstonia gilardii Rbb.radto3 Rubrobacter radiotolerans Rc.marinum Rhabdochromatium marinum Rcl.grylli Rickettsiella grylli Rco.coprp3 Rhodococcus coprophilus Rco.globe5 Rhodococcus globerulus Rg.atlanti Ruegeria atlantica Rg.gelatin Ruegeria gelatinovorans Rhb.galli2 Rhizobium gallicum Rhb.gallic Rhizobium gallicum Rhb.giardi Rhizobium giardinii Rhb.hainnn Rhizobium hainanense Rhb.huautl Rhizobium huautlense Rhb.mongol Rhizobium mongolense Rhb.trop10 Rhizobium tropici Rhn.lndcls Rhodanobacter lindaniclasticus Rhv.iodosm Rhodovulum iodosum Rhv.robign Rhodovulum robiginosum Rie.anati3 Riemerella anatipestifer Ros.gallci Roseobacter gallaeciensis Rpl.globi2 Rhodopila globiformis Rst.dpoly2 Roseateles depolymerans Rst.dpolym Roseateles depolymerans Rtb.toxicu Rathayibacter toxicus Ruc.albus2 Ruminococcus albus Ruc.bromi2 Ruminococcus bromii Ruc.calli2 Ruminococcus callidus Ruc.flvfa3 Ruminococcus flavefaciens Ruc.gnavu2 Ruminococcus gnavus Ruc.gnavu3 Ruminococcus gnavus Ruc.hygeno Ruminococcus hydrogenotrophicus Ruc.lactar Ruminococcus lactaris Ruc.obeum2 Ruminococcus obeum Ruc.produ2 Ruminococcus productus Ruc.produ3 Ruminococcus productus Ruc.schink Ruminococcus schinkii Ruc.torqu2 Ruminococcus torques Rum.amylo2 Ruminobacter amylophilus Rv.toleran Roseovarius tolerans S.bongori1 Salmonella bongori S.typhi2 Salmonella typhi Sa.salexig Salibacillus salexigens San.sibiri Sandaracinobacter sibiricus Sav.costi3 Salinivibrio costicola Scm.xinji2 Saccharomonospora xinjiangensis Scp.hirhir Saccharopolyspora hirsuta Scp.spinos Saccharopolyspora spinosa Scp.spnstr Saccharopolyspora spinosporotrichia Scp.taberi Saccharopolyspora taberi Sct.austr2 Saccharothrix australiensis Ser.ficari Serratia ficaria Ser.liqfac Serratia liquefaciens Ser.rubida Serratia rubidaea Sfb.acidop Sulfobacillus acidophilus Sfr.ohwaku Sulfurisphaera ohwakuensis Sfs.arcach Sulfurospirillum arcachonense Sfs.arseno Sulfurospirillum arsenophilum Sfs.barnes Sulfurospirillum barnesii Sfs.deleyi Sulfurospirillum deleyianum Sft.medter Sulfitobacter mediterraneus Sft.pntiac Sulfitobacter pontiacus Sgb.inuli2 Sanguibacter inulinus Sgb.keddie Sanguibacter keddieii She.algaVe Shewanella algae She.algae4 Shewanella algae She.amznen Shewanella amazonensis She.baltic Shewanella baltica She.frgmar Shewanella frigidimarina She.gelmar Shewanella gelidimarina She.haned2 Shewanella hanedai She.oneidn Shewanella oneidensis She.woody2 Shewanella woodyi Shi.flxne2 Shigella flexneri Skm.paroon Skermanella parooensis Sl.azoric2 Stygiolobus azoricus Slk.exigua Slackia exigua Slk.hlitrn Slackia heliotrinireducens Sln.rumin4 Selenomonas ruminantium Slp.zillig Sulfophobococcus zilligii Smc.hybenz Sporotomaculum hydroxybenzoicum Smt.propio Smithella propionica Snp.fumrox Syntrophobacter fumaroxidans Snp.pfnngi Syntrophobacter pfennigii Spg.chlor3 Sphingomonas chlorophenolica Spg.mali2 Sphingomonas mali Spg.pruni2 Sphingomonas pruni Spi.africa Spirochaeta africana Spi.alkali Spirochaeta alkalica Spi.asiati Spirochaeta asiatica Spi.smarag Spirochaeta smaragdinae Ssp.albida Spirillospora albida Sta.stellu Stappia stellulata Stc.agala4 Streptococcus agalactiae Stc.alact2 Streptococcus alactolyticus Stc.bovis3 Streptococcus bovis Stc.canis2 Streptococcus canis Stc.crstat Streptococcus cristatus Stc.dysga3 Streptococcus dysgalactiae Stc.dysga4 Streptococcus dysgalactiae Stc.equi3 Streptococcus equi Stc.equi4 Streptococcus equi Stc.gallyt Streptococcus gallolyticus Stc.gordo3 Streptococcus gordonii Stc.hyoin2 Streptococcus hyointestinalis Stc.hyovag Streptococcus hyovaginalis Stc.infant Streptococcus infantis Stc.macedn Streptococcus macedonicus Stc.mitis2 Streptococcus mitis Stc.mitis3 Streptococcus mitis Stc.orali3 Streptococcus oralis Stc.perori Streptococcus peroris Stc.pneum4 Streptococcus pneumoniae Stc.porci2 Streptococcus porcinus Stc.pyoge3 Streptococcus pyogenes Stc.suis2 Streptococcus suis Stc.suis3 Streptococcus suis Stc.thralt Streptococcus thoraltensis Stc.uberi2 Streptococcus uberis Ste.malto2 Stenotrophomonas maltophilia Ste.malto3 Stenotrophomonas maltophilia Stm.armen1 Streptomyces armeniacus Stm.armen2 Streptomyces armeniacus Stm.armen3 Streptomyces armeniacus Stm.aureof Streptomyces aureofaciens Stm.grise2 Streptomyces griseus Stm.lave12 Streptomyces lavendulae Stm.lydicu Streptomyces lydicus Stm.seouln Streptomyces seoulensis Stm.thalca Streptomyces thermoalcalitolerans Stm.thcarb Streptomyces thermocarboxydus Stm.thdia2 Streptomyces thermodiastaticus Stm.thdia3 Streptomyces thermodiastaticus Stm.thgris Streptomyces thermogriseus Stm.virgi3 Streptomyces virginiae Stm.virgi7 Streptomyces virginiae Stp.arlet2 Staphylococcus arlettae Stp.aure10 Staphylococcus aureus Stp.aureu8 Staphylococcus aureus Stp.auric4 Staphylococcus auricularis Stp.capit3 Staphylococcus capitis Stp.capra2 Staphylococcus caprae Stp.capra3 Staphylococcus caprae Stp.carno2 Staphylococcus carnosus Stp.chromo Staphylococcus chromogenes Stp.cndmnt Staphylococcus condimenti Stp.cohni2 Staphylococcus cohnii Stp.cohni3 Staphylococcus cohnii Stp.delphn Staphylococcus delphini Stp.epide9 Staphylococcus epidermidis Stp.equor2 Staphylococcus equorum Stp.equor3 Staphylococcus equorum Stp.felis1 Staphylococcus felis Stp.gallin Staphylococcus gallinarum Stp.haemo4 Staphylococcus haemolyticus Stp.hyicus Staphylococcus hyicus Stp.intme2 Staphylococcus intermedius Stp.kloos2 Staphylococcus kloosii Stp.lentus Staphylococcus lentus Stp.lugdu2 Staphylococcus lugdunensis Stp.paste2 Staphylococcus pasteuri Stp.pasteu Staphylococcus pasteuri Stp.pisci2 Staphylococcus piscifermentans Stp.piscif Staphylococcus piscifermentans Stp.pulve2 Staphylococcus pulvereri Stp.sapro4 Staphylococcus saprophyticus Stp.schle5 Staphylococcus schleiferi Stp.simuln Staphylococcus simulans Stp.succin Staphylococcus succinus Stp.vitulu Staphylococcus vitulinus Stp.xylos2 Staphylococcus xylosus Str.hygen2 Stetteria hydrogenophila Str.hygeno Stetteria hydrogenophila Sul.metal2 Sulfolobus metallicus Syn.7003 Synechococcus sp T.scotoduc Thermus scotoductus Ta.dichoto Thermoactinomyces dichotomicus Ta.vulgari Thermoactinomyces vulgaris Tab.mathra Thermoanaerobacter mathranii Tab.slfphl Thermoanaerobacter sulfurophilus Tar.marian Thermaerobacter marianensis Tav.pedfrm Thiolamprovum pedioforme Tbf.alba1 Thermobifida alba Tbf.alba2 Thermobifida alba Tbf.fusca1 Thermobifida fusca Tbf.fusca2 Thermobifida fusca Tc.aggrgan Thermococcus aggregans Tc.barophl Thermococcus barophilus Tc.chitnph Thermococcus chitonophagus Tc.guaymas Thermococcus guaymasensis Tc.hythrml Thermococcus hydrothermalis Tc.pacific Thermococcus pacificus Tc.profun3 Thermococcus profundus Tc.stette2 Thermococcus stetteri Tcl.modest Thermocladium modestius Tco.pfnnig Thiococcus pfennigii Tcp.penden Thiocapsa pendens Tcp.rosea1 Thiocapsa rosea Tcp.rosea2 Thiocapsa rosea Tcp.rosprs Thiocapsa roseopersicina Tcr.ruber1 Thermocrinis ruber Tgc.halop2 Tetragenococcus halophilus Tgc.haloph Tetragenococcus halophilus Tha.linalo Thauera linaloolentis Tha.terpen Thauera terpenica Thc.gelati Thiocystis gelatinosa Thc.minor1 Thiocystis minor Thc.vlacea Thiocystis violacea Thc.vlscen Thiocystis violascens Thh.haloph Thiohalocapsa halophila Thm.aggreg Thermosphaera aggregans Thp.neutro Thermoproteus neutrophilus Ths.bispo2 Thermobispora bispora Ths.bispo3 Thermobispora bispora Ths.bispo4 Thermobispora bispora Ths.bispo5 Thermobispora bispora Ths.bispor Thermobispora bispora Tmms.chrm2 Thermomonospora chromogena Tmms.chrmg Thermomonospora chromogena Tmms.curv2 Thermomonospora curvata Tmms.curv3 Thermomonospora curvata Tmn.cuprin Thiomonas cuprina Tms.chilns Thiomicrospira chilensis Tms.frisia Thiomicrospira frisia Tms.kuenen Thiomicrospira kuenenii Tms.thyas2 Thiomicrospira thyasirae Trc.minor1 Thiorhodococcus minor Trp.amylvr Treponema amylovorum Trp.scrbuc Treponema socranskii Trp.scrpar Treponema socranskii Trp.scrsoc Treponema socranskii Trr.luteus Terracoccus luteus Trs.sibiri Thiorhodospira sibirica Trv.wingr2 Thiorhodovibrio winogradskyi Trv.wingr3 Thiorhodovibrio winogradskyi Tsc.bndign Tessaracoccus bendigoensis Tsi.melane Thermosipho melanesiensis Tss.creatn Tissierella creatinophila Tsu.pauro7 Tsukamurella paurometabola Tt.hypogea Thermotoga hypogea V.diabolic Vibrio diabolicus V.pectenic Vibrio pectenicida V.tapetis1 Vibrio tapetis Ver.VeGlc2 Verrucomicrobium sp Ver.spino2 Verrucomicrobium spinosum Vg.indigfr Vogesella indigofera Vs.gifhorn Verrucosispora gifhornensis Wd.chndrph Waddlia chondrophila Wei.helle2 Weissella hellenica Wei.pmese2 Weissella paramesenteroides Wlb.melphg Wolbachia melophagi Wlm.murali Williamsia muralis Xan.trnslu Xanthomonas translucens Xen.beddn2 Xenorhabdus beddingii Xen.bovie2 Xenorhabdus bovienii Xen.japon2 Xenorhabdus japonicus Xen.japoni Xenorhabdus japonicus Xen.nemph3 Xenorhabdus nematophilus Xen.poina2 Xenorhabdus poinarii Xp.ampelin Xylophilus ampelinus env.01Ad37 clone O1Ad37 env.11_14 clone 11-14 env.11_24 clone 11-24 env.11_25 clone 11-25 env.21a clone 21a env.32_11 clone 32-11 env.32_20 clone 32-20 env.41a clone 41a env.4211 clone 4211 env.53a clone 53a env.A35o clone A35o env.A54n AEspoe hard rock 10-626m below ground surface DNA clone A54n env.AAN036 AEspoe hard rock 10-626m below ground surface DNA clone AAN036 env.AmzM10 clone M10 env.AmzM13 clone M13 env.AmzM26 clone M26 env.AmzM43 clone M43 env.AmzM_1 clone M1 env.AmzP12 clone P12 env.AmzP15 clone P15 env.AmzP19 clone P19 env.AmzP28 clone P28 env.AmzP36 clone P36 env.AmzP_8 clone P8 env.AzC002 clone C002 env.AzC019 clone C019 env.AzC028 clone C028 env.AzC105 clone C105 env.AzC112 clone C112 env.AzS023 clone S023 env.AzS027 clone S027 env.AzS111 clone S111 env.AzS125 clone S125 env.Bai138 clone 400-138 env.DA008 clone DA008 env.DA023 clone DA023 env.DA052 clone DA052 env.DA101 clone DA101 env.G41 Bangombe boreholes at depth of 5-105m DNA clone G41 env.H1_2_f clone H1.2.f env.H1_43f clone H1.43.f env.H1_4_f clone H1.4.f env.H3_93 clone H3.93 env.LGd10 clone LGd10 env.LGd14 clone LGd14 env.LGd15 clone LGd15 env.LGd17 clone LGd17 env.LGd_1 clone LGd1 env.LGd_2 clone LGd2 env.LGd_5 clone LGd5 env.LGd_6 clone LGd6 env.LGd_8 clone LGd8 env.LGd_9 clone LGd9 env.NTd42 clone NTd42 env.NTd43 clone NTd43 env.OPB12 clone OPB12 env.OPB35 clone OPB35 env.OPB45 clone OPB45 env.OPB46 clone OPB46 env.OPB50 clone OPB50 env.OPB56 clone OPB56 env.OPB65 clone OPB65 env.OPB72 clone OPB72 env.OPB80 clone OPB80 env.OPB92 clone OPB92 env.OPB95 clone OPB95 env.OPB_2 clone OPB2 env.OPB_3 clone OPB3 env.OPB_5 clone OPB5 env.OPB_7 clone OPB7 env.OPB_9 clone OPB9 env.OPS107 clone OPS107 env.OPS128 clone OPS128 env.OPS136 clone OPS136 env.OPS145 clone OPS145 env.OPd3 clone OPd3 env.RB126 clone RB126 env.RB_24 clone RB24 env.RB_25 clone RB25 env.RB_27 clone RB27 env.RB_30 clone RB30 env.RB_40 clone RB40 env.RB_41 clone RB41 env.RBay01 clone RB01 env.RBay02 clone RB02 env.RBay03 clone RB03 env.RBay14 clone RB14 env.RBay21 clone RB21 env.RBay35 clone RB35 env.RBay39 clone RB39 env.RBay41 clone RB41 env.SB2096 clone SBR2096 env.T1_152 clone Ep_T1.152 env.T1_153 clone Ep_T1.153 env.T1_154 clone Ep_T1.154 env.T1_185 clone Ep_T1.185 env.TG13 clone TG13 env.TG14 clone TG14 env.TM_10 clone TM10 env.TM_18 clone TM18 env.TM_21 clone TM21 env.TM_29 clone TM29 env.TM__1 clone TM1 env.TM__2 clone TM2 env.TM__5 clone TM5 env.TM__6 clone TM6 env.TM__7 clone TM7 env.TRB82 clone TRB82 env.WCH201 clone WCHA2-01 env.WCHA09 clone WCHA1-09 env.WCHA11 clone WCHA1-11 env.WCHA13 clone WCHA2-13 env.WCHA16 clone WCHA1-16 env.WCHA20 clone WCHA1-20 env.WCHA24 clone WCHA1-24 env.WCHA26 clone WCHA2-26 env.WCHA33 clone WCHA1-33 env.WCHA39 clone WCHA1-39 env.WCHA48 clone WCHA1-48 env.WCHA78 clone WCHA1-78 env.WCHA79 clone WCHA1-79 env.WCHA80 clone WCHA1-80 env.WCHA83 clone WCHA1-83 env.WCHA89 clone WCHA1-89 env.WCHB01 clone WCHB1-01 env.WCHB02 clone WCHB1-02 env.WCHB03 clone WCHB1-03 env.WCHB05 clone WCHB1-05 env.WCHB06 clone WCHB1-06 env.WCHB07 clone WCHB1-07 env.WCHB11 clone WCHB1-11 env.WCHB15 clone WCHB1-15 env.WCHB25 clone WCHB1-25 env.WCHB26 clone WCHB1-26 env.WCHB31 clone WCHB1-31 env.WCHB41 clone WCHB1-41 env.WCHB43 clone WCHB1-43 env.WCHB50 clone WCHB1-50 env.WCHB56 clone WCHB1-56 env.WCHB58 clone WCHB1-58 env.WCHB62 clone WCHB1-62 env.WCHB63 clone WCHB1-63 env.WCHB64 clone WCHB1-64 env.WCHD88 clone WCHD3-88 env.WFeA35 clone WFeA1-35 env.WFeA59 clone WFeA1-59 env.WsCH12 clone WsCH12 env.ii3_36 clone ii3-36 env.iii1_8 clone iii1-8 env.kb2426 clone kb2426 env.mb1228 clone mb1228 env.pB1114 clone pB1-114 env.pB1121 clone pB1-121 env.pN1__3 clone pN1-3 env.slT62 clone T62 env.slT78 clone T78 env.t0_6_f clone t0.6.f env.t0_8_f clone t0.8.f env.tunS36 clone S-36 env.vaBA07 clone vadinBA07 str.Berln1 unnamed organism str.Berln2 unnamed organism str.Berln3 unnamed organism str.Berln5 unnamed organism str.Berln7 unnamed organism Changes in short-ID and/or full names are listed below (RDP short-ID:full name): RDP Release 7.0 RDP Release 7.1 -------------------------------------- ------------------------------------- Aba.diaztr:Acetobacter diazotrophicus Gab.diaztr:Gluconacetobacter diazotrophicus Aba.europa:Acetobacter europaeus Gab.europa:Gluconacetobacter europaeus Aba.hansen:Acetobacter hansenii Gab.hansen:Gluconacetobacter hansenii Aba.liqfac:Acetobacter liquefaciens Gab.liqfac:Gluconacetobacter liquefaciens Aba.xylinm:Acetobacter xylinum Gab.xylxyl:Gluconacetobacter xylinus Acb.pleuro:Actinobacillus pleuropneumoniae Acb.plpneu:Actinobacillus pleuropneumoniae Acdp.crytp:Acidiphilium cryptum Acdp.crypt:Acidiphilium cryptum Act.bernrd:Actinomyces bernardiae Abc.bernrd:Arcanobacterium bernardiae Act.pyoge3:Actinomyces pyogenes Abc.pyoge3:Arcanobacterium pyogenes Act.pyogen:Actinomyces pyogenes Abc.pyogen:Arcanobacterium pyogenes Act.suis:Actinomyces suis Abl.suis:Actinobaculum suis Acv.celsol:Acetivibrio cellulosolvens Acv.celly2:Acetivibrio cellulolyticus Ag.tumefa7:Agrobacterium tumefaciens Ag.rhizog3:Agrobacterium rhizogenes Alc.dnitrf:Alcaligenes denitrificans Amo.xylden:Achromobacter xylosoxidans Amd.globos:Actinomadura glomerata Amd.glomer:Actinomadura glomerata Amc.petrop:Amycolata nitrificans Amc.petrop:Amycolata petrophilea Ant.vesicu:"Antarcticum vesiculatum" Plr.irgens:Polaribacter irgensii Arm.hydrop:Aeromonas hydrophila Arm.hphil2:Aeromonas hydrophila Aub.Mainz:Aureobacterium sp. Mbm.Mainz:Microbacterium sp. Aub.barker:Aureobacterium barkeri Mbm.barker:Microbacterium barkeri Aub.estaro:Aureobacterium esteraromaticum Mbm.estaro:Microbacterium esteraromaticum Aub.liqfac:Aureobacterium liquefaciens Mbm.liqfac:Microbacterium liquefaciens Aub.testac:Aureobacterium testaceum Mbm.testac:Microbacterium testaceum Azs.brazil:Azospirillum brasilense Azs.brasil:Azospirillum brasilense B.lentimor:Bacillus lentimorbus Pae.lentim:Paenibacillus lentimorbus B.popillia:Bacillus popilliae Pae.popil2:Paenibacillus popilliae B.pantoth2:Bacillus pantothenticus Vr.pantot2:Virgibacillus pantothenticus B.pantothe:Bacillus pantothenticus Vr.pantoth:Virgibacillus pantothenticus B.sp14:Bacillus sp. Grb.dipsau:Gracilibacillus dipsosauri B.sphaer11:Bacillus sp. B.spL38655:Bacillus sp. B.thaeroph:Bacillus thermoaerophilus Ab.thaerph:Aneurinibacillus thermoaerophilus Bar.bacil2:Bartonella vinsonii Bar.bacil2:Bartonella bacilliformis Bar.bacil3:Bartonella vinsonii Bar.bacil3:Bartonella bacilliformis Bar.bacill:Bartonella vinsonii Bar.bacill:Bartonella bacilliformis Bar.spCatG:Bartonella vinsonii Bar.vinso6:Bartonella vinsonii Bar.vinso5:Bartonella vinsonii Bar.vinso5:Bartonella bacilliformis Bde.bactM4:Bdellovibrio sp. Bde.spBM_4:Bdellovibrio sp. Bde.bacte2:Bdellovibrio starrii Bde.starri:Bdellovibrio starrii Bde.bacteW:Bdellovibrio sp. Bde.W27047:Bdellovibrio sp. Bdr.10324:Bradyrhizobium sp. Bdr.10324:Bradyrhizobium japonicum Bif.pseudo:Bifidobacterium pseudolongum Bif.plonpl:Bifidobacterium pseudolongum Blb.natatr:Blastobacter natatorius Bla.natat2:Blastomonas natatoria Bor.borg22:Borrelia burgdorferi Bor.burg22:Borrelia burgdorferi Bor.spHT31:Borrelia sp. Bor.miyamo:Borrelia miyamotoi Brb.acetyl:Brevibacterium acetylicum Exg.acety2:Exiguobacterium acetylicum Bru.aborts:Brucella abortus Bru.melte2:Brucella melitensis Bru.canis:Brucella canis Bru.melte3:Brucella melitensis Bru.neotom:Brucella neotomae Bru.melte4:Brucella melitensis Bru.ovis:Brucella ovis Bru.melte5:Brucella melitensis Bru.suis:Brucella suis Bru.melte6:Brucella melitensis Bur.cocovn:Burkholderia cocovenenans Bur.gladi3:Burkholderia gladioli C.botulinG:Clostridium botulinum C.argenti3:Clostridium argentinense Cam.hyolei:Campylobacter hyoilei Cam.coli4:Campylobacter coli Cam.laridi:Campylobacter lari Cam.lari2:Campylobacter lari Cam.mucos2:Campylobacter sp. Cam.spmuco:Campylobacter sp. Cau.cres2:Caulobacter crescentus Cau.vibri2:Caulobacter vibrioides Cau.cres3:Caulobacter crescentus Cau.vibri3:Caulobacter vibrioides Cau.cres4:Caulobacter crescentus Cau.vibri4:Caulobacter vibrioides Cau.cresc5:Caulobacter crescentus Cau.vibri5:Caulobacter vibrioides Cau.cresc6:Caulobacter crescentus Cau.vibri6:Caulobacter vibrioides Cau.cresc7:Caulobacter crescentus Cau.vibri7:Caulobacter vibrioides Cau.cresc8:Caulobacter crescentus Cau.vibri8:Caulobacter vibrioides Chr.gracil:Chromatium gracile Mch.gracil:Marichromatium gracile Chr.tepidm:Chromatium tepidum Tch.tepidm:Thermochromatium tepidum Chr.vinosm:Chromatium vinosum Alm.vinosm:Allochromatium vinosum Clm.pneum2:Chlamydia pneumoniae Chd.pneum2:Chlamydophila pneumoniae Clm.pneum3:Chlamydia pneumoniae Chd.pneum3:Chlamydophila pneumoniae Clm.pneum4:Chlamydia pneumoniae Chd.pneum4:Chlamydophila pneumoniae Clm.pneumo:Chlamydia pneumoniae Chd.pneum7:Chlamydophila pneumoniae Clm.psitt2:Chlamydia psittaci Chd.psitt2:Chlamydophila psittaci Clm.psitt3:Chlamydia psittaci Chd.psitt3:Chlamydophila psittaci Clm.psitta:Chlamydia psittaci Chd.psitt4:Chlamydophila psittaci Clm.spSFPD:Chlamydia sp. Clm.murda2:Chlamydia muridarum Clv.mich10:Clavibacter michiganensis Clv.mich10:Clavibacter michiganense Clv.mich11:Clavibacter michiganensis Clv.mich11:Clavibacter michiganense Clv.mich12:Clavibacter michiganensis Clv.mich12:Clavibacter michiganense Clv.michg2:Clavibacter michiganensis Clv.michg2:Clavibacter michiganense Clv.michg4:Clavibacter michiganensis Clv.michg4:Clavibacter michiganense Clv.michg5:Clavibacter michiganensis Clv.michg5:Clavibacter michiganense Clv.michg6:Clavibacter michiganensis Clv.michg6:Clavibacter michiganense Clv.michg7:Clavibacter michiganensis Clv.michg7:Clavibacter michiganense Clv.michg8:Clavibacter michiganensis Clv.michg8:Clavibacter michiganense Clv.michg9:Clavibacter michiganensis Clv.michg9:Clavibacter michiganense Clv.michgn:Clavibacter michiganensis Clv.michgn:Clavibacter michiganense Clw.peryth:Colwellia psychroerythrus Clw.peryth:Colwellia psychroerythrea Cor.ulcer3:Corynebacterium diphtheriae Cor.ulcer3:Corynebacterium ulcerans Cub.psychp:Curtobacterium psychrophilum Cry.psychp:Cryobacterium psychrophilum Cy.aprica:Cytophaga aprica Flv.aprica:Flammeovirga aprica Cy.difflu2:Cytophaga diffluens Prb.diffl2:Persicobacter diffluens Cy.difflue:Cytophaga diffluens Prb.difflu:Persicobacter diffluens Cyb.marinu:Cyclobacterium marinus Cyb.marinu:Cyclobacterium marinum Dfm.orient:Desulfotomaculum orientis Ds.orient2:Desulfosporosinus orientis Dmb.bacul:Desulfomicrobium baculatus Dmb.bacul:Desulfomicrobium baculatum Dmb.escamb:Desulfomicrobium escambium Dmb.escamb:Desulfomicrobium escambiense Drh.acthrm:Desulforhabdus acetothermus Tdr.norveg:Thermodesulforhabdus norvegicus Dsv.desuN4:Desulfovibrio desulfuricans Dmb.norveg:Desulfomicrobium norvegicum Dsv.lonrch:Desulfovibrio longreachii Dsv.lonrch:Desulfovibrio longreachensis Ec.halochl:Ectothiorhodospira halochloris Hrh.halch2:Halorhodospira halochloris Ec.halophi:Ectothiorhodospira halophila Hrh.halph3:Halorhodospira halophila Eco.seriol:Enterococcus seriolicida Lcc.garvi2:Lactococcus garvieae Er.carotov:Erwinia carotovora Pcb.carca3:Pectobacterium carotovorum Er.herbic2:Erwinia herbicola Pn.agglom5:Pantoea agglomerans Er.herbic3:Erwinia herbicola Pn.agglom6:Pantoea agglomerans Er.herbic4:Erwinia herbicola Pn.agglom7:Pantoea agglomerans Er.herbic5:Erwinia herbicola Pn.agglom8:Pantoea agglomerans Er.herbico:Erwinia herbicola Pn.agglom4:Pantoea agglomerans Eub.SC87K2:Eubacterium sp. Eub.tardum:Eubacterium tardum Eub.SC87K:Eubacterium sp. Eub.tardu2:Eubacterium tardum Eub.W14712:Eubacterium sp. Eub.infir2:Eubacterium infirmum Eub.W1471:Eubacterium sp. Eub.infirm:Eubacterium infirmum Eub.lentum:Eubacterium lentum Eg.lenta1:Eggerthella lenta F.ameridie:Flavobacterium ameridies F.hibernum:Flavobacterium hibernum F.gondwane:Flavobacterium gondwanense Psf.gondwn:Psychroflexus gondwanensis F.marinoty:Flavobacterium marinotypicum Mbm.martyp:Microbacterium maritypicum F.okeanoko:Flavobacterium okeanokoites Plc.okeano:Planococcus okeanokoites F.yabuuchi:Flavobacterium yabuuchiae Sph.sprvo3:Sphingobacterium spiritivorum Flc.glomer:Flectobacillus glomeratus Plr.glomer:Polaribacter glomeratus Fnc.tula18:Francisella novicida Fnc.novic2:Francisella novicida Fnc.tular3:Francisella novicida Fnc.novici:Francisella novicida Glc.sangui:Globicatella sanguis Glc.sangui:Globicatella sanguinis Gor.aichi2:Gordona aichiensis Grd.aichi2:Gordonia aichiensis Gor.aichie:Gordona aichiensis Grd.aichie:Gordonia aichiensis Gor.amara2:Gordona amarae Grd.amara2:Gordonia amarae Gor.amara3:Gordona amarae Grd.amara3:Gordonia amarae Gor.amarae:Gordona amarae Grd.amarae:Gordonia amarae Gor.bronc2:Gordona bronchialis Grd.bronc2:Gordonia bronchialis Gor.bronc3:Gordona bronchialis Grd.bronc3:Gordonia bronchialis Gor.bronc4:Gordona bronchialis Grd.bronc4:Gordonia bronchialis Gor.bronch:Gordona bronchialis Grd.bronch:Gordonia bronchialis Gor.hyphob:Gordona hydrophobica Grd.hyphob:Gordonia hydrophobica Gor.rubpe2:Gordona rubropertinctus Grd.rubpe2:Gordonia rubropertincta Gor.rubper:Gordona rubropertinctus Grd.rubper:Gordonia rubropertincta Gor.sputi2:Gordona sputi Grd.sputi2:Gordonia sputi Gor.sputi3:Gordona sputi Grd.sputi3:Gordonia sputi Gor.sputi4:Gordona sputi Grd.sputi4:Gordonia sputi Gor.sputi:Gordona sputi Grd.sputi:Gordonia sputi Gor.terra2:Gordona terrae Grd.terra2:Gordonia terrae Gor.terra3:Gordona terrae Grd.terra3:Gordonia terrae Gor.terrae:Gordona terrae Grd.terrae:Gordonia terrae Hbac.aceet:Halobacteroides acetoethylicus Han.aceth3:Haloanaerobium acetoethylicum Hel.fasci2:Heliobacterium fasciatum Hph.fasci2:Heliophilum fasciatum Hel.fascia:Heliobacterium fasciatum Hph.fascia:Heliophilum fasciatum Hel.mobili:Heliobacillus mobilis Hbc.mobil2:Heliobacillus mobilis Hel.modcal:Heliobacterium modestocaldum Hel.modcal:Heliobacterium modesticaldum Hel.spIce1:Heliobacterium sp. Hel.spIce1:Heliobacterium modesticaldum Hlb.aci908:Helicobacter acinonyx Hlb.aci908:Helicobacter acinonychis Hlb.acinyx:Helicobacter acinonyx Hlb.acinyc:Helicobacter acinonychis L.casei_al:Lactobacillus casei L.prcasei2:Lactobacillus paracasei L.casei_pp:Lactobacillus casei L.prcasei3:Lactobacillus paracasei L.casei_to:Lactobacillus casei L.prcas_to:Lactobacillus paracasei L.kefir2:Lactobacillus kefir L.kefiri2:Lactobacillus kefiri L.kefir:Lactobacillus kefir L.kefiri1:Lactobacillus kefiri L.lactis:Lactobacillus delbrueckii L.delbruc4:Lactobacillus delbrueckii L.sake:Lactobacillus sake L.sakeisak:Lactobacillus sakei L.sanf5668:Lactobacillus sanfrancisco L.sanf5668:Lactobacillus sanfranciscensis L.sanfran2:Lactobacillus sanfrancisco L.sanfran2:Lactobacillus sanfranciscensis L.sanfran3:Lactobacillus sanfrancisco L.sanfran3:Lactobacillus sanfranciscensis L.sanfranc:Lactobacillus sanfrancisco L.sanfranc:Lactobacillus sanfranciscensis L.vermifor:Lactobacillus sp. L.spL_343:Lactobacillus sp. Lc.cremori:Leuconostoc mesenteroides Lc.mesencr:Leuconostoc mesenteroides Lcc.cremo2:Lactococcus lactis Lcc.laccr2:Lactococcus lactis Lcc.cremor:Lactococcus lactis Lcc.laccre:Lactococcus lactis Lc.oenos2:Leuconostoc oenos Occ.oeni2:Oenococcus oeni Lc.oenos:Leuconostoc oenos Occ.oeni3:Oenococcus oeni Leg.cherr2:Fluoribacter bozemanae Leg.cherr2:Legionella cherrii Leg.gorman:Legionella gormanii Flu.gorma2:Fluoribacter gormanii Lis.murray:Listeria murrayi Lis.grayi3:Listeria grayi Lyn.7419:Lyngbya sp. Lyn.7419:Lyngbya confervoides M.leocaptv:Mycoplasma leocaptivus M.leocaptv:Mycoplasma leonicaptivi M.sturnida:Mycoplasma sturnidae M.sturniT:Mycoplasma sturni M.sualvi3:Mycoplasma sualvi M.alvi1:Mycoplasma alvi Mb.thfCB12:Methanobacterium thermoformicicum Mb.tauCB12:Methanobacterium thermoautotrophicum Mb.thfCSM3:Methanobacterium thermoformicicum Mb.tauCSM3:Methanobacterium thermoautotrophicum Mb.thfZ245:Methanobacterium thermoformicicum Mb.tauZ245:Methanobacterium thermoautotrophicum Mb.thfoFF1:Methanobacterium thermoformicicum Mb.tautFF1:Methanobacterium thermoautotrophicum Mb.thfoFF3:Methanobacterium thermoformicicum Mb.tautFF3:Methanobacterium thermoautotrophicum Mb.thfoFTF:Methanobacterium thermoformicicum Mb.tautFTF:Methanobacterium thermoautotrophicum Mb.thfoHN4:Methanobacterium thermoformicicum Mb.tautHN4:Methanobacterium thermoautotrophicum Mb.thfoSF4:Methanobacterium thermoformicicum Mb.tautSF4:Methanobacterium thermoautotrophicum Mb.thfoTHF:Methanobacterium thermoformicicum Mb.tautTHF:Methanobacterium thermoautotrophicum Mb.thformi:Methanobacterium thermoformicicum Mb.tautfor:Methanobacterium thermoautotrophicum Mbc.bovis:Methylobacter bovis Mbc.luteu3:Methylobacter luteus Mbc.capsul:Methylobacter capsulatus Mbc.whtbu2:Methylobacter whittenburyi Mbc.vinlan:Methylobacter vinelandii Mbc.whtbu3:Methylobacter whittenburyi Mbsp.aerat:Microbispora aerata Mbsp.rose2:Microbispora rosea Mbsp.ameth:Microbispora amethystogenes Mbsp.rose3:Microbispora rosea Mbsp.chrom:Microbispora chromogenes Mbsp.rose4:Microbispora rosea Mbsp.diast:Microbispora diastatica Mbsp.rose5:Microbispora rosea Mbsp.parva:Microbispora parva Mbsp.rose6:Microbispora rosea Mbsp.thdia:Microbispora thermodiastatica Mbsp.rose7:Microbispora rosea Mbsp.thros:Microbispora thermorosea Mbsp.rose8:Microbispora rosea Mc.deltae:Methanococcus deltae Mc.maripa7:Methanococcus maripaludis Mc.deltae2:Methanococcus deltae Mc.maripa6:Methanococcus maripaludis Mg.tationi:Methanogenium tationis Mf.tation2:Methanofollis tationis Mrt.marinu:Vibrio marinus Mrt.marin5:Moritella marina Nis.ovis:Neisseria ovis Mrx.ovisBr:Moraxella (branhamella) Mrx.phpyru:Moraxella phenylpyruvica Psy.phpyr2:Psychrobacter phenylpyruvicus Mtt.africa:Microtetraspora africana Nm.african:Nonomuria africana Mtt.angios:Microtetraspora angiospora Nm.angiosp:Nonomuria angiospora Mtt.fastid:Microtetraspora fastidiosa Nm.fastidi:Nonomuria fastidiosa Mtt.helvat:Microtetraspora helvata Nm.helvata:Nonomuria helvata Mtt.plychr:Microtetraspora polychroma Nm.plychrm:Nonomuria polychroma Mtt.pusill:Microtetraspora pusilla Nm.pusill2:Nonomuria pusilla Mtt.rectic:Microtetraspora recticatena Nm.rectica:Nonomuria recticatena Mtt.roseol:Microtetraspora roseola Nm.roseola:Nonomuria roseola Mtt.salmo2:Microtetraspora salmonea Nm.salmon2:Nonomuria salmonea Mtt.salmon:Microtetraspora salmonea Nm.salmone:Nonomuria salmonea Mtt.spiral:Microtetraspora spiralis Nm.spirali:Nonomuria spiralis Myb.int937:Mycobacterium sp. Myb.sp3937:Mycobacterium sp. Myb.chromo:Mycobacterium sp. Myb.sp_chr:Mycobacterium sp. Noc.pinens:Nocardia pinensis Sk.pinifrm:Skermania piniformis Nost.73102:Nostoc sp. Nost.73102:Nostoc punctiforme Nrp.alba2:Nocardiopsis alba Nrp.prasin:Nocardiopsis prasina Nrp.albrub:Nocardiopsis alborubida Nrp.dasso3:Nocardiopsis dassonvillei Nrp.antarc:Nocardiopsis antarctica Nrp.dasso4:Nocardiopsis dassonvillei Nsc.ocean2:Nitrosococcus oceanus Nsc.ocean2:Nitrosococcus oceani Nsc.oceanu:Nitrosococcus oceanus Nsc.oceani:Nitrosococcus oceani Nss.multi2:Nitrosospira sp. Nss.multi2:Nitrosospira multiformis Nss.multi3:Nitrosospira sp. Nss.multi3:Nitrosospira multiformis Nss.sp1:Nitrosospira sp. Nss.multi5:Nitrosospira multiformis Ntr.magadi:Natronobacterium magadii Nat.magadi:Natrialba magadii Osp.commun:Oceanospirillum commune Mrm.commu2:Marinomonas communis Osp.minutu:Oceanospirillum minutulum Mrs.minut2:Marinospirillum minutulum Pae.aligin:Paenibacillus aliginolyticus Pae.algily:Paenibacillus alginolyticus Pae.ahiben:Paenibacillus ahibensis Pae.chiben:Paenibacillus chibensis Pae.durum:Paenibacillus durum Pae.azofi3:Paenibacillus azotofixans Pas.haem24:Pasteurella haemolytica Mnh.haem24:Mannheimia haemolytica Pas.haemo2:Pasteurella haemolytica Mnh.haeml2:Mannheimia haemolytica Pas.haemo3:Pasteurella haemolytica Mnh.haeml3:Mannheimia haemolytica Pas.haemo4:Pasteurella haemolytica Mnh.haeml4:Mannheimia haemolytica Pas.haemo5:Pasteurella haemolytica Mnh.haeml5:Mannheimia haemolytica Pas.haemo6:Pasteurella haemolytica Mnh.haeml6:Mannheimia haemolytica Pas.haemo7:Pasteurella haemolytica Mnh.haeml7:Mannheimia haemolytica Pas.haemo8:Pasteurella haemolytica Mnh.haeml8:Mannheimia haemolytica Pas.haemol:Pasteurella haemolytica Mnh.haeml9:Mannheimia haemolytica Plec.borya:Leptolyngbya boryanum Llb.borya2:Leptolyngbya boryanum Ppm.salvos:Porphyromonas salivosa Ppm.macac2:Porphyromonas macacae Prv.rumco5:Prevotella ruminicola Prv.brevi2:Prevotella brevis Prv.rumco7:Prevotella ruminicola Prv.alben2:Prevotella albensis Ps.aureofa:Pseudomonas aureofaciens Ps.chlrap4:Pseudomonas chlororaphis Ps.nautica:Pseudomonas nautica Mrb.hycla3:Marinobacter hydrocarbonoclasticus Psc.autotr:Clostridium kluyveri Psc.autotr:Pseudonocardia autotrophica R.fulvum2:Rhodospirillum fulvum Phs.fulvu2:Phaeospirillum fulvum R.fulvum:Rhodospirillum fulvum Phs.fulvum:Phaeospirillum fulvum R.molischi:Rhodospirillum molischianum Phs.molsch:Phaeospirillum molischianum R.salexig2:Rhodospirillum salexigens Rt.salexi2:Rhodothalassium salexigens R.salexige:Rhodospirillum salexigens Rt.salexig:Rhodothalassium salexigens R.salinar2:Rhodospirillum salinarum Rdv.salna2:Rhodovibrio salinarum R.salinarm:Rhodospirillum salinarum Rdv.salnar:Rhodovibrio salinarum Rb.blasti2:Rhodobacter blastica Rb.blasti2:Rhodobacter blasticus Rb.blastic:Rhodobacter blastica Rb.blastic:Rhodobacter blasticus Rco.chbuen:Rhodococcus chubuensis Grd.sputi5:Gordonia sputi Rco.luteus:Rhodococcus luteus Rco.fasci5:Rhodococcus fascians Rco.rhodo3:Rhodococcus roseus Rco.rhodo3:Rhodococcus rhodochrous Rco.roseus:Rhodococcus roseus Rco.roseus:Rhodococcus rhodochrous Rhb.ciceri:Rhizobium ciceri Mso.ciceri:Mesorhizobium ciceri Rhb.huaku2:Rhizobium huakuii Mso.huaku2:Mesorhizobium huakuii Rhb.huaku4:Rhizobium huakuii Mso.huaku4:Mesorhizobium huakuii Rhb.huakui:Rhizobium huakuii Mso.huakui:Mesorhizobium huakuii Rhb.leg899:Rhizobium leguminosarum Rhb.trop11:Rhizobium tropici Rhb.loti2:Rhizobium loti Mso.loti2:Mesorhizobium loti Rhb.loti3:Rhizobium loti Mso.loti3:Mesorhizobium loti Rhb.loti4:Rhizobium loti Mso.loti4:Mesorhizobium loti Rhb.loti5:Rhizobium loti Mso.loti5:Mesorhizobium loti Rhb.loti:Rhizobium loti Mso.loti1:Mesorhizobium loti Rhb.medter:Rhizobium mediterraneum Mso.medter:Mesorhizobium mediterraneum Rhb.sp7834:Rhizobium sp. Srh.teran2:Sinorhizobium terangae Rhb.sp7836:Rhizobium sp. Mso.plrfa2:Mesorhizobium plurifarium Rhb.sp8310:Rhizobium sp. Srh.sahel2:Sinorhizobium saheli Rhb.tiansh:Rhizobium tianshanense Mso.tians3:Mesorhizobium tianshanense Rhb.tropi6:Rhizobium leguminosarum Rhb.tropi6:Rhizobium tropici Rht.obamae:Rhodothermus obamae Rht.obamen:Rhodothermus obamensis Rhv.MB-G2:Rhodovulum sp. Rhv.strict:Rhodovulum strictum Rhv.sulfi3:Rhodovulum sulfidophilus Rhv.sulfi3:Rhodovulum sulfidophilum Ric.canad2:Rickettsia canada Ric.canad2:Rickettsia canadensis Ric.canada:Rickettsia canada Ric.canadn:Rickettsia canadensis Ros.algic2:Roseobacter algicola Rg.algico2:Ruegeria algicola Ros.algic3:Roseobacter algicola Rg.algico3:Ruegeria algicola Ros.algico:Roseobacter algicola Rg.algicol:Ruegeria algicola Rps.virid2:Rhodopseudomonas viridis Bl.viridi2:Blastochloris viridis Rps.virid3:Rhodopseudomonas viridis Bl.viridi3:Blastochloris viridis Rps.viridi:Rhodopseudomonas viridis Bl.viridis:Blastochloris viridis She.algaBr:Shewanella alga She.algaBr:Shewanella algae She.algaFe:Shewanella alga She.algaFe:Shewanella algae Spg.sangui:Sphingomonas sanguis Spg.sangui:Sphingomonas sanguinis Spg.spB1:Sphingomonas sp. Spg.yano10:Sphingomonas yanoikuyae Spg.spCFO6:Sphingomonas sp. Spg.spCF06:Sphingomonas sp. Sph.heparn:Sphingobacterium heparinum Pd.heprins:Pedobacter heparinus Spp.sp.DW1:Spiroplasma sp. Spp.poulsn:Spiroplasma poulsonii Srp.hyoB78:Serpulina hyodysenteriae Brs.hyoB78:Brachyspira hyodysenteriae Srp.hyoNIV:Serpulina hyodysenteriae Brs.hyoNIV:Brachyspira hyodysenteriae Srp.hyodA1:Serpulina hyodysenteriae Brs.hyodA1:Brachyspira hyodysenteriae Srp.hyodR1:Serpulina hyodysenteriae Brs.hyodR1:Brachyspira hyodysenteriae Srp.hyody3:Serpulina hyodysenteriae Brs.hyody3:Brachyspira hyodysenteriae Srp.hyody4:Serpulina hyodysenteriae Brs.hyody4:Brachyspira hyodysenteriae Srp.hyody5:Serpulina hyodysenteriae Brs.hyody5:Brachyspira hyodysenteriae Srp.hyody6:Serpulina hyodysenteriae Brs.hyody6:Brachyspira hyodysenteriae Srp.hyody7:Serpulina hyodysenteriae Brs.hyody7:Brachyspira hyodysenteriae Srp.hyodys:Serpulina hyodysenteriae Brs.hyodys:Brachyspira hyodysenteriae Srp.inno10:Serpulina innocens Brs.inno10:Brachyspira innocens Srp.inno11:Serpulina innocens Brs.inno11:Brachyspira innocens Srp.inno12:Serpulina innocens Brs.inno12:Brachyspira innocens Srp.inno13:Serpulina innocens Brs.inno13:Brachyspira innocens Srp.inno14:Serpulina innocens Brs.inno14:Brachyspira innocens Srp.inno15:Serpulina innocens Brs.inno15:Brachyspira innocens Srp.inno16:Serpulina innocens Brs.inno16:Brachyspira innocens Srp.inno17:Serpulina innocens Brs.inno17:Brachyspira innocens Srp.inno18:Serpulina innocens Brs.inno18:Brachyspira innocens Srp.inno19:Serpulina innocens Brs.inno19:Brachyspira innocens Srp.inno20:Serpulina innocens Brs.inno20:Brachyspira innocens Srp.inno22:Serpulina innocens Brs.inno22:Brachyspira innocens Srp.inno23:Serpulina innocens Brs.inno23:Brachyspira innocens Srp.inno24:Serpulina innocens Brs.inno24:Brachyspira innocens Srp.inno71:Serpulina innocens Brs.inno71:Brachyspira innocens Srp.innoC1:Serpulina innocens Brs.innoC1:Brachyspira innocens Srp.innoc2:Serpulina innocens Brs.innoc2:Brachyspira innocens Srp.innoc3:Serpulina innocens Brs.innoc3:Brachyspira innocens Srp.innoc4:Serpulina innocens Brs.innoc4:Brachyspira innocens Srp.innoc5:Serpulina innocens Brs.innoc5:Brachyspira innocens Srp.innoc6:Serpulina innocens Brs.innoc6:Brachyspira innocens Srp.innoc7:Serpulina innocens Brs.innoc7:Brachyspira innocens Srp.innoc8:Serpulina innocens Brs.innoc8:Brachyspira innocens Srp.innoc9:Serpulina innocens Brs.innoc9:Brachyspira innocens Srp.innocn:Serpulina innocens Brs.innocn:Brachyspira innocens Stc.angin2:Streptococcus anginosus Stc.const2:Streptococcus constellatus Stc.angin3:Streptococcus anginosus Stc.const3:Streptococcus constellatus Stc.angin9:Streptococcus anginosus Stc.constl:Streptococcus constellatus Stc.cricet:Streptococcus cricetus Stc.cricet:Streptococcus criceti Stc.gordo2:Streptococcus gordonii Stc.mitis4:Streptococcus mitis Stc.parasa:Streptococcus parasanguis Stc.parasa:Streptococcus parasanguinis Stc.rattus:Streptococcus rattus Stc.ratti1:Streptococcus ratti Stc.sangu2:Streptococcus sanguis Stc.sangu2:Streptococcus sanguinis Stc.sangui:Streptococcus sanguis Stc.sangui:Streptococcus sanguinis Stm.baldac:Streptomyces baldaccii Stm.rosver:Streptomyces roseoverticillatus Stm.diast2:Streptomyces diastatochromogenes Stm.dichrm:Streptomyces diastatochromogenes Stm.grislo:Streptomyces griseolosporeus Kts.griseo:Kitasatospora griseola Stm.phosal:Streptomyces phosalacineus Kts.phosal:Kitasatospora phosalacinea Stm.scabi2:Streptomyces scabies Stm.scabi2:Streptomyces scabiei Stm.scabi3:Streptomyces scabies Stm.scabi3:Streptomyces scabiei Stm.scabie:Streptomyces scabies Stm.scabie:Streptomyces scabiei Stm.setae:Streptomyces setae Kts.setae1:Kitasatospora setae Stm.thnitr:Streptomyces thermonitrificans Stm.thvul2:Streptomyces thermovulgaris Stp.caseol:Staphylococcus caseolyticus Mac.caseo3:Macrococcus caseolyticus Stp.sp1:Staphylococcus sp. Stp.lutrae:Staphylococcus lutrae Sul.spB12:Sulfolobus sp. Sul.spB12:Sulfolobus shibatae T.thermoph:Thermus thermophilus T.thmophl3:Thermus thermophilus T.thmophl:Thermus thermophilus T.thmophls:Thermus thermophilus Tab.aceet3:Thermobacteroides acetoethylicus Tab.aceet3:Thermoanaerobacter acetoethylicus Tab.aceeth:Thermobacteroides acetoethylicus Tab.aceeth:Thermoanaerobacter acetoethylicus Tc.spSM2:Thermococcus sp. Tc.peptph4:Thermococcus peptonophilus Thb.acido2:Thiobacillus acidophilus Acdp.acph3:Acidiphilium acidophilum Thb.acidop:Thiobacillus acidophilus Acdp.acph2:Acidiphilium acidophilum Thb.perome:Thiobacillus perometabolis Tmn.perome:Thiomonas perometabolis Thb.sp051:Thiobacillus sp. Pab.dfluvi:Pseudaminobacter defluvii Thb.thsulf:Thiobacillus thermosulfatus Tmn.thsulf:Thiomonas thermosulfata Tsu.pauro2:Tsukamurella paurometabolum Tsu.pauro2:Tsukamurella paurometabola Tsu.pauro3:Tsukamurella paurometabolum Tsu.pauro3:Tsukamurella paurometabola Tsu.pauro4:Tsukamurella paurometabolum Tsu.pauro4:Tsukamurella paurometabola Tsu.pauro5:Tsukamurella paurometabolum Tsu.pauro5:Tsukamurella paurometabola Tsu.pauro6:Tsukamurella paurometabolum Tsu.pauro6:Tsukamurella paurometabola Tsu.paurom:Tsukamurella paurometabolum Tsu.paurom:Tsukamurella paurometabola V.carchar2:Vibrio carchariae V.harveyi8:Vibrio harveyi V.carchari:Vibrio carchariae V.harveyi7:Vibrio harveyi V.ilpiscar:Vibrio iliopiscarius Phb.iliop2:Photobacterium iliopiscarium V.marinus2:Vibrio marinus Mrt.marin2:Moritella marina V.marinus3:Vibrio marinus Mrt.marin3:Moritella marina V.marinus4:Vibrio marinus Mrt.marin4:Moritella marina V.marinus:Vibrio marinus Mrt.marina:Moritella marina V.spDSJ4:Vibrio sp. Phb.profnd:Photobacterium profundum V.spDSK1:Vibrio sp. Mrt.japoni:Moritella japonica V.spDSS12:Vibrio sp. She.violac:Shewanella violacea Xan.oryzae:Xanthamonas oryzae Xan.oryzae:Xanthomonas oryzae Xan.phased:Xanthomonas phasedi Xan.phaseo:Xanthomonas phaseoli Zoo.ramig1:Zoogloea ramigera Dg.zooglo1:Duganella zoogloeoides Zoo.ramig2:Zoogloea ramigera Dg.zooglo2:Duganella zoogloeoides Zoo.ramig3:Zoogloea ramigera Dg.zooglo3:Duganella zoogloeoides Zoo.ramig4:Zoogloea ramigera Dg.zooglo4:Duganella zoogloeoides Zoo.ramig5:Zoogloea ramigera Dg.zooglo5:Duganella zoogloeoides Zoo.ramig6:Zoogloea ramigera Dg.zooglo6:Duganella zoogloeoides Zoo.ramig7:Zoogloea ramigera Dg.zooglo7:Duganella zoogloeoides env.Aspo2:clone Aspo2 Dsv.aespoe:Desulfovibrio aespoeensis env.BDA-1:Sargasso Sea env.BDA1-1:Sargasso Sea env.BDA-5:Sargasso Sea env.BDA1-5:Sargasso Sea str.1015:str. SBR1015 env.SB1015:unnamed organism str.1095:str. SBR1095 env.SB1095:unnamed organism str.1120:str. SBR1120 env.SB1120:unnamed organism str.2003:str. SBR2003 env.SB2003:unnamed organism str.2014:str. SBR2014 env.SB2014:unnamed organism str.2052:str. SBR2052 env.SB2052:unnamed organism str.301:str. 301 Plr.franzm:Polaribacter franzmannii str.307:str. 307 Oct.antarc:Octadecabacter antarcticus str.34P:str. 34-P Po.vacuola:Polaromonas vacuolata str.BN3201:str. BN Hch.glycol:Halochromatium glycolicum str.H58:str. H58 str.H58Hat:str. H58 str.H61:str. H61 str.H61Hat:str. H61 str.S10:str. S10 str.S10Shi:str. S10 str.S11:str. S11 str.S11Shi:str. S11 str.S12:str. S12 str.S12Shi:str. S12 str.S13:str. S13 str.S13Shi:str. S13 str.S14:str. S14 str.S14Shi:str. S14 str.S18:str. S18 str.S18Hat:str. S18 str.S23:str. S23 str.S23Shi:str. S23 str.S25:str. S25 str.S25Shi:str. S25 str.S26:str. S26 str.S26Shi:str. S26 str.S2:str. S2 str.S2_Shi:str. S2 str.S36:str. S36 str.S36Shi:str. S36 str.S51-W:str. Colwellia-like Clw.rossen:Colwellia rossensis str.S7:str. S7 str.S7_Shi:str. S7 str.Z:str. Z Smk.negevn:Simkania negevensis str.purple:unnamed organism Pal.tunica:Pseudoalteromonas tunicata sym.Ricket:unclassified endosymbiont sym.Dirfim:symbiont of Changes in nucleotide sequence: Organism -------------------------------------------------------------- Clm.psitta (Now represented by RDP shortid Chd.psitt4) E.coli10 Stc.miller *********************** ** SSU_Prok.rep.gb ** *********************** This file has been updated to reflect the Release 7.1 SSU_Prok alignment and contains 98 sequences. It is in alphabetical order. A revised list of representative SSU_Prok sequences that would more accurately reflect the currently known diversity in bacterial sequences is being investigated. ************************ ** SSU_Prok.type.gb ** ************************ This file contains 3324 16S rRNA sequences from bacterial type strains. More than one sequence for a given type strain may exist. The data are in taxonomic order. ++++++++++++++++++++++++++ + alignments/sequences + ++++++++++++++++++++++++++ The directories (sequences) and subdirectories (A-Z) have been updated to contain the SSU sequences in individual files with the file name following the format of _gb. For example, the aligned sequence for RDP shortid Tc.celer is in the directory /alignments/sequences/T and the file name is Tc.celer_gb. RDP shortids which begin with a lower case letter (e.g., env.SBAR16) are in the same subdirectory as RDP shortids which begin with a capitalized letter (i.e. env.SBAR16_gb would be in /alignments/sequences/E). ++++++++++++++++ + sec_struct + ++++++++++++++++ Files have been renamed for those sequences which have had their shortids changed: Release 7.0 Release 7.1 -------------- -------------- Clm.psitta_ssu Chd.psitt4_ssu T.thermoph_ssu T.thmophl3_ssu +++++++++++++ + trees + +++++++++++++ The tree for small subunit prokaryotic organisms has been updated to contain 7322 sequences. *********************** ** SSU_Prok.newick ** *********************** The SSU_Prok.newick file no longer contains an index number to correlate where the sequence occurs in the tree and in the SSU_Prok.alpha or SSU_Prok.phylo files. Some other format changes also have occurred in the SSU_Prok.newick file. ************************** ** SSU_Prok.printable ** ************************** This file was not generated for Release 7.1. ******************* ** SSU_Prok.ps ** ******************* This file was not generated for Release 7.1. ********************** ** SSU_Prok.rep.* ** ********************** Only the SSU_Prok.rep.newick tree file was generated for Release 7.1; it contains 98 sequences. *************************** ** SSU_Prok.taxnodes.* ** *************************** The SSU_Prok.taxnodes.* files were not generated for Release 7.1. **************************** ** SSU_Prok.type.newick ** **************************** A newick format tree file for the 3324 identified type strains has been created. ******************************* ** SSU_Prok_short.*.newick ** ******************************* Newick format tree files containing only the RDP shortids have been created for use in other software programs. +++++++++++++ + unaligned + +++++++++++++ The SSU_Unal.gb file has been updated. It contains 21,476 sequences. Many of the duplicate sequences contained in the Release 7.0 SSU_Unal.gb file have been removed. =============================================================================