| Rahnella aceris | 114407T |
| Rahnella aquatilis | 105701T |
| Rahnella contaminans | 114406T |
| Rahnella laticis | 114723T |
| Rahnella sp. | 115564 |
| Ralstonia pickettii | 102503T, 111592 |
| Ramalina conduplicans | 113405 |
| Ramaria botrytis | 8337 |
| Ramaria flaccida | 7714 |
| Ramicandelaber brevisporus | 100469T |
| Ramicandelaber cf. longisporus | 102541, 102545 |
| Ramicandelaber longisporus | 33179T |
| Ramicandelaber sp. | 102543 |
| Ramichloridium cerophilum | 33249 |
| Ramichloridium schulzeri | 32390, 102321 |
| Ramichloridium schulzeri var. tritici | 32640 |
| Ramichloridium subulatum | 101149 |
| Ramlibacter sp. | 114488, 114489, 114839, 114862 |
| Ramularia primulae | 9423 |
| Ramularia rubella | 102210, 102237 |
| Ramularia sp. | 102215 |
| Ramulispora sorghi | 7414 |
| Raoultella electrica | 109676T |
| Raoultella ornithinolytica | 105727T |
| Raoultella planticola | 3317, 14939T |
| Raoultella sp. | 113967 |
| Raoultella terrigena | 14941T |
| Rarobacter faecitabidus | 14760T, 15233 |
| Rarobacter incanus | 101357T |
| Rasamsonia argillacea | 31128T |
| Rasamsonia cylindrospora | 31072 |
| Reichenbachiella agariperforans | 16625T |
| Reinekea aestuarii | 106079T |
| Reinekea sp. | 105631 |
| Reinekea thalattae | 113795T |
| Remispora hamata | 8621 |
| Remispora maritima | 8622 |
| Remispora sp. | 105290, 105293 |
| Renibacterium salmoninarum | 15589T |
| Reniforma strues | 112344T |
| Resinicium bicolor | 110186 |
| Reyranella graminifolii | 109813T |
| Reyranella soli | 108950T |
| Reyranella terrae | 111476T |
| Rheinheimera longhuensis | 105632T |
| Rheinheimera metallidurans | 115780T |
| Rheinheimera pacifica | 103167T |
| Rheinheimera sp. | 116227 |
| Rhinocladiella atrovirens | 9237, 32362, 110187 |
| Rhinocladiella ellisii | 101151 |
| Rhinocladiella sp. | 110939 |
| Rhinotrichella globulifera | 9418 |
| Rhinotrichum lanosum | 6534 |
| Rhizidium sp. | 103827 |
| Rhizobacter gummiphilus | 109400T |
| Rhizobacter profundi | 111169T, 111170, 111171 |
| Rhizobium albus | 110149T |
| Rhizobium daejeonense | 102494, 102495T |
| Rhizobium dioscoreae | 114257T |
| Rhizobium etli | 15573T |
| Rhizobium gallicum | 107134T |
| Rhizobium giardinii | 107135T |
| Rhizobium hainanense | 107132T |
| Rhizobium indigoferae | 100398T |
| Rhizobium leguminosarum | 13337, 13338, 14778T, 14784, 14995 |
| Rhizobium lemnae | 109339T |
| Rhizobium lupini | 100381T |
| Rhizobium mongolense | 107133T |
| Rhizobium naphthalenivorans | 107585T, 107586 |
| Rhizobium paknamense | 109338T |
| Rhizobium phaseoli | 14168, 14785T, 14994 |
| Rhizobium puerariae | 110722T |
| Rhizobium radiobacter | 12664, 12665, 12667, 13258, 13259, 13263, 13264, 13265, 13533, 14555, 15188, 15189, 15190, 15191, 15192, 15193, 15194, 15195, 15292, 15293, 15294, 15295, 15296, 15297, 101063, 102589 |
| Rhizobium rhizogenes | 13257T, 14793, 15196, 15197, 15198, 15199, 15200, 15201, 15202 |
| Rhizobium rubi | 13260, 13261T |
| Rhizobium sp. | 13714, 14547, 101870, 101871, 104344, 104345, 104346, 104347, 104348, 104349, 104350, 106742, 106743, 108633, 108899, 111945, 112081, 114644, 115229 |
| Rhizobium terricola | 112711T |
| Rhizobium tropici | 15247T |
| Rhizobium viscosum | 103061T |
| Rhizobium vitis | 15140T, 15141, 15142, 15143, 15144, 15145 |
| Rhizochromulina sp. (class: Dictyochophyceae) | 103298 |
| Rhizoclosmatium cf. globosum | 102553 |
| Rhizocola hellebori | 109834T |
| Rhizoctonia candida | 7032, 7033 |
| Rhizoctonia oryzae | 32363 |
| Rhizoctonia repens | 114897 |
| Rhizoctonia sp. | 116903, 116904, 116905, 116906, 116907, 116908, 116909, 116910, 116911, 116912, 116913 |
| Rhizodermea veluwensis | 111722 |
| Rhizohabitans arisaemae | 114594T |
| Rhizomucor pusillus | 4578, 4579, 4580, 9740, 9741, 9742, 9743, 9744, 9745, 9856 |
| Rhizophila marina | 101466, 101467, 101468 |
| Rhizophlyctis cf. rosea | 103831 |
| Rhizophlyctis rosea | 105426 |
| Rhizophydium cf. brooksianum | 103829 |
| Rhizophydium sp. | 103825, 103826, 103828, 105437 |
| Rhizopogon luteolus | 100327 |
| Rhizopogon rubescens | 32804, 32812, 32813, 33151, 33152, 33153, 101639 |
| Rhizopogon togasawariana | 113764 |
| Rhizopogon yakushimensis | 113761, 113762, 113763 |
| Rhizopus azygosporus | 31989T |
| Rhizopus delemar | 4697, 4698, 4726, 4730, 4732, 4734, 4735, 4736, 4746, 4747, 4749, 4754, 4756, 4757, 4759, 4770, 4771, 4773, 4775, 4776, 4801, 4810, 5406, 5441, 5442, 109447 |
| Rhizopus microsporus var. chinensis | 4737, 4768, 30499, 31988 |
| Rhizopus microsporus var. microsporus | 32995, 32996 |
| Rhizopus microsporus var. oligosporus | 8631, 31987, 32002, 32003 |
| Rhizopus microsporus var. rhizopodiformis | 32997 |
| Rhizopus microsporus var. tuberosus | 100014T |
| Rhizopus oryzae | 4705, 4706, 4707, 4716, 4744, 4758, 4766, 4772, 4780, 4783, 4785, 4798, 4804, 4809, 5318, 5319, 5378, 5379, 5380, 5384, 5413, 5414, 5418, 5438, 5440, 5780, 6155, 9364, 30795, 31005 |
| Rhizopus stolonifer | 112077 |
| Rhizopus stolonifer var. lyococcus | 32998 |
| Rhizopus stolonifer var. stolonifer | 4781, 5411, 5781, 6154, 6188, 6300, 30816 |
| Rhizorhapis suberifaciens | 15211T |
| Rhizosaccharibacter radicis | 114898T |
| Rhizoscyphus ericae | 111719 |
| Rhodanobacter fulvus | 103168T |
| Rhodanobacter ginsengisoli | 106405T |
| Rhodanobacter ginsenosidimutans | 106411T |
| Rhodanobacter glycinis | 105007T |
| Rhodanobacter humi | 112473T |
| Rhodanobacter hydrolyticus | 112685T |
| Rhodanobacter rhizosphaerae | 111845T |
| Rhodanobacter terrae | 106404T |
| Rhodella maculata (class: Rhodellophyceae) | 102933 |
| Rhodella sp. (class: Rhodellophyceae) | 102763, 102771, 102830, 102934, 102935, 102936, 102940, 102969 |
| Rhodella violacea (class: Rhodellophyceae) | 102932 |
| Rhodobacter capsulatus | 16435T, 16581 |
| Rhodobacter sp. | 113843 |
| Rhodobacter sphaeroides | 12203T, 100037, 100038 |
| Rhodobacter viridis | 108864T |
| Rhodocista centenaria | 16667T |
| Rhodocista sp. | 103410 |
| Rhodococcoides corynebacterioides | 14404T |
| Rhodococcoides fascians | 12155T |
| Rhodococcoides kroppenstedtii | 103113T |
| Rhodococcoides yunnanense | 103083T |
| Rhodococcus aetherivorans | 106353 |
| Rhodococcus baikonurensis | 100611T, 107577 |
| Rhodococcus coprophilus | 100603T |
| Rhodococcus erythropolis | 12320, 12322, 12324, 12385, 12386, 12387, 12436, 12437, 12438, 12538, 12539, 12540, 12650, 12682, 13135, 13148, 13164, 13179, 13269, 13914, 15567T, 16296, 100887, 110906, 114673 |
| Rhodococcus globerulus | 14531T |
| Rhodococcus humicola | 111581T |
| Rhodococcus jostii | 16295T, 108803 |
| Rhodococcus koreensis | 100607T |
| Rhodococcus maanshanensis | 100610T |
| Rhodococcus marinonascens | 14363T |
| Rhodococcus opacus | 108011 |
| Rhodococcus pedocola | 111580T |
| Rhodococcus percolatus | 100626T |
| Rhodococcus pyridinivorans | 100608T |
| Rhodococcus rhodnii | 100604T |
| Rhodococcus rhodochrous | 3338, 14894, 15564, 16069T |
| Rhodococcus ruber | 13171, 15591T |
| Rhodococcus sp. | 12116, 12187, 12926, 13161, 13163, 13499, 14426, 101291, 105241, 105354, 107729, 107730, 107731, 108552, 108554, 108555, 108764, 109378, 109728, 114692, 114758 |
| Rhodococcus triatomae | 103116T |
| Rhodococcus tukisamuensis | 100609T |
| Rhodococcus wratislaviensis | 100605T |
| Rhodococcus zopfii | 100606T |
| Rhodocollybia butyracea | 30747 |
| Rhodocyclales sp. | 114223 |
| Rhodoferax fermentans | 16659T |
| Rhodoferax lacus | 112709T |
| Rhodoferax mekongensis | 116415T, 116416 |
| Rhodoferax potami | 116413T, 116414 |
| Rhodoglobus aureus | 104579T |
| Rhodoglobus vestalii | 103084T |
| Rhodomicrobium lacus | 113803T |
| Rhodomicrobium udaipurense | 109057T |
| Rhodomicrobium vannielii | 100050 |
| Rhodomonas sp. (class: Cryptophyceae) | 102758 |
| Rhodophyllus hirtipes | 7634 |
| Rhodophyllus sericellus | 100093 |
| Rhodopirellula caenicola | 110016T |
| Rhodoplanes azumiensis | 112816T |
| Rhodoplanes cryptolactis | 102048 |
| Rhodoplanes elegans | 16660T |
| Rhodoplanes oryzae | 109406T |
| Rhodoplanes piscinae | 107574 |
| Rhodoplanes pokkaliisoli | 104972T |
| Rhodoplanes serenus | 102049T |
| Rhodoplanes tepidamans | 104267T |
| Rhodoplanes tepidicaeni | 112815T |
| Rhodopseudomonas palustris | 16661, 100246, 105869 |
| Rhodopseudomonas parapalustris | 106083T |
| Rhodopseudomonas pentothenatexigens | 108862T |
| Rhodopseudomonas pseudopalustris | 100419T |
| Rhodopseudomonas telluris | 107609T |
| Rhodopseudomonas thermotolerans | 108863T |
| Rhodosorus sp. (class: Stylonematophyceae) | 102944, 103308 |
| Rhodospirillum rubrum | 3986 |
| Rhodosporidium kratochvilovae | 10493T, 10494 |
| Rhodosporidium sphaerocarpum | 1438, 1937T, 1938, 1939, 105059 |
| Rhodotorula acuta | 1912T, 10699 |
| Rhodotorula araucariae | 10053, 10054T |
| Rhodotorula aurantiaca | 0754T, 0951 |
| Rhodotorula bacarum | 10768T |
| Rhodotorula bogoriensis | 1966T, 111047, 111055 |
| Rhodotorula buffonii | 10268T |
| Rhodotorula chungnamensis | 100405T |
| Rhodotorula dairenensis | 0415T, 1501 |
| Rhodotorula diffluens | 1521, 1522, 1523, 1524, 1525, 1526, 10328T |
| Rhodotorula diobovata | 0667, 0688, 1828, 1829, 1830T |
| Rhodotorula ferulica | 10769T |
| Rhodotorula foliorum | 10410T, 111266, 111283 |
| Rhodotorula fragaria | 10411T |
| Rhodotorula glutinis | 0395, 0695, 0697, 1099, 1125T, 1240, 1241, 1503, 111102 |
| Rhodotorula graminis | 0190, 10747T, 116271, 116278 |
| Rhodotorula hordea | 10412T |
| Rhodotorula hylophila | 10414T |
| Rhodotorula ingeniosa | 10002T |
| Rhodotorula javanica | 10285T, 111267 |
| Rhodotorula kratochvilovae | 0389 |
| Rhodotorula lactosa | 1423T, 1424 |
| Rhodotorula marina | 0928T |
| Rhodotorula mucilaginosa | 0001, 0002, 0003, 0004, 0382, 0696, 0714, 0870, 0889, 0891, 0892, 0893, 0894, 0901, 0902, 0907, 0908, 0909T, 0910, 0911, 0912, 0913, 0914, 0915, 0916, 0917, 0918, 0919, 0929, 1100, 1101, 1433, 1502, 1536, 1537, 1538, 1539, 110331, 110343, 111035, 111320, 111330, 111341, 114155, 114835 |
| Rhodotorula muscorum | 10298T |
| Rhodotorula nothofagi | 105060, 115897 |
| Rhodotorula pacifica | 114156, 116925T |
| Rhodotorula paludigena | 10547T, 10548, 105057, 105058, 111313, 116959 |
| Rhodotorula philyla | 10417T, 111352 |
| Rhodotorula pilati | 10244T |
| Rhodotorula pustula | 10248T |
| Rhodotorula sonckii | 10420T |
| Rhodotorula sp. | 1421, 1432, 105035, 107976, 107977, 107978, 107979, 107980, 107981, 107982, 109573, 110403 |
| Rhodotorula toruloides | 0388, 0559, 0871, 0880, 1236, 1535, 1636, 1637, 1638, 8766T, 8767, 10032, 10033, 10034, 10075, 10076, 10512, 10513, 11012, 11013, 11014, 111067, 111083, 111084, 111086, 111094, 111096, 111098, 111099, 111101, 114833 |
| Rhodotorula tropicalis | 111576 |
| Rhodotorula vanillica | 111345 |
| Rhodotorula yarrowii | 10765T |
| Rhodovastum atsumiense | 104268T |
| Rhodovulum lacipunicei | 104147T |
| Rhodovulum phaeolacus | 107649T |
| Rhodovulum salis | 108898T |
| Rhodovulum sp. | 105747, 105749 |
| Rhodovulum strictum | 16662T |
| Rhodovulum viride | 109122T |
| Rhynchogastrema glucofermentans | 112340T |
| Rhynchogastrema visegradensis | 112341T |
| Rhynchosporina tridentis | 9018 |
| Rhynchosporium orthosporum | 6700 |
| Rhynchosporium secalis | 5290 |
| Rhytidhysteron rufulum | 107022, 107023 |
| Riessia semiophora | 9380 |
| Rigidoporus lineatus | 106843 |
| Robertmurraya korlensis | 107688T |
| Robiginitalea myxolifaciens | 104240T |
| Robiginitomaculum antarcticum | 103098T |
| Robiginosimarina momoshimaensis | 101843 |
| Roesleria subterranea | 108276 |
| Rollandina capitata | 9194T, 30589, 31219 |
| Rollandina hyalinospora | 9193 |
| Roseateles saccharophilus | 103037T |
| Roseateles sp. | 114001 |
| Roseibacillus ishigakijimensis | 103926T |
| Roseibacillus persicicus | 103928T, 103929, 103930 |
| Roseibacillus ponti | 103927T |
| Roseibacterium sp. | 114190 |
| Roseibium aestuarii | 112946T |
| Roseibium denhamense | 16782T |
| Roseibium hamelinense | 16783T |
| Roseiconus lacunae | 113875T |
| Roseiconus nitratireducens | 113879T |
| Roseiflexus castenholzii | 100045T |
| Roseihalotalea indica | 116371T |
| Roseimaritima sediminicola | 113926T |
| Roseimicrobium gellanilyticum | 108606T |
| Roseivirga marina | 111589T |
| Roseivivax halodurans | 16685T |
| Roseivivax halotolerans | 16686T |
| Rosellinia aquila | 32360, 32361 |
| Rosellinia necatrix | 5954, 9420, 32537, 32538, 107795 |
| Rosellinia sp. | 33096 |
| Roseobacter cerasinus | 114115T |
| Roseobacter denitrificans | 15277T |
| Roseobacter insulae | 115155T |
| Roseobacter litoralis | 15278T |
| Roseobacter ponti | 112431T |
| Roseobacter sp. | 109118 |
| Roseococcus sp. | 116539 |
| Roseomonas aceris | 109410T |
| Roseomonas aerilata | 106435T |
| Roseomonas aerophila | 108923T |
| Roseomonas aestuarii | 105654T |
| Roseomonas elaeocarpi | 107871T |
| Roseomonas mucosa | 115778 |
| Roseomonas musae | 107870T |
| Roseomonas oryzicola | 109439T |
| Roseomonas radiodurans | 112872T |
| Roseomonas soli | 109097T |
| Roseomonas sp. | 113512, 113982, 113983, 114316, 114481, 114482, 114490, 114495, 114496, 114497, 114498, 116281 |
| Roseomonas terricola | 111477T |
| Roseovarius aestuariivivens | 112420T |
| Roseovarius scapharcae | 111226T |
| Roseovarius sp. | 108865, 108866, 108867, 116074, 116075 |
| Roseovarius tolerans | 16695T, 16696 |
| Rossellomorea vietnamensis | 101237T |
| Rothia dentocariosa | 12531T, 12532 |
| Rothia kristinae | 15354T |
| Rothia mucilaginosa | 15673T |
| Roumegueriella rufula | 9642, 31782 |
| Roussoella sp. | 106245 |
| Roussoellopsis sp. | 106246 |
| Ruania albidiflava | 106322T |
| Rubellimicrobium aerolatum | 106433T |
| Rubellimicrobium rubrum | 114054T |
| Rubidimonas crustatorum | 107717T |
| Rubinisphaera brasiliensis | 103401T |
| Rubricoccus marinus | 107124T |
| Rubrimonas cliftonensis | 100047T |
| Rubritalea halochordaticola | 107102T |
| Rubritalea spongiae | 104204T |
| Rubritalea squalenifaciens | 103619T |
| Rubritalea tangerina | 104205T |
| Rubrivirga marina | 108815, 108816T |
| Rubrivirga profundi | 110607T |
| Rubrivirga sp. | 116172, 116463 |
| Rubrivivax gelatinosus | 16663T, 100245 |
| Rubrobacter radiotolerans | 14777T |
| Rubrobacter xylanophilus | 100952T |
| Rudaeicoccus suwonensis | 109091T |
| Rudaibacter terrae | 108754T |
| Rudanella lutea | 106408T |
| Ruegeria atlantica | 15792T, 15793 |
| Ruegeria sp. | 113693, 115114, 116589 |
| Rufibacter glacialis | 109705T |
| Rufibacter sediminis | 113030T |
| Rugamonas sp. | 115982, 115983, 115984 |
| Rugosimonospora acidiphila | 104874T |
| Rugosimonospora africana | 104875T |
| Rugositalea sp. | 109316 |
| Ruminococcus gnavus | 114413 |
| Rummeliibacillus pycnus | 101231T |
| Rummeliibacillus stabekisii | 12622, 104870T, 104892 |
| Runella rosea | 113116T |
| Runella soli | 112817T |
| Runella sp. | 15128, 15129, 15147 |
| Rutstroemia bulgarioides | 109856 |
| Rutstroemia cuniculi | 9671 |
| Rutstroemia paludosa | 9672 |