AAI-based medoid clustering

The AAI clusters provide a good overview of the above-species structure of the datasets and facilitate taxonomic classification.

• AAI clade 1 medoid: Rahnella aceris GCF 011684115 1
• AAI clade 2 medoid: Sinorhizobium saheli GCF 001651875 1
• AAI clade 3 medoid: Oceanobacillus limi GCF 900111445 1
• AAI clade 4 medoid: Pseudomonas alcaligenes GCF 900455475 1
• AAI clade 5 medoid: Alkalibacterium pelagium GCF 007991315 1
• AAI clade 6 medoid: Stenotrophomonas nematodicola GCF 009467805 1
• AAI clade 7 medoid: Thermaerobacter marianensis DSM 12885 GCF 000184705 1
• AAI clade 8 medoid: Megamonas hypermegale DSM 1672 GCF 000423385 1
• AAI clade 9 medoid: Actinomyces gaoshouyii GCF 002072175 1
• AAI clade 10 medoid: Micromonospora sagamiensis GCF 014680085 1
• AAI clade 11 medoid: Nonomuraea indica GCF 002850745 1
• AAI clade 12 medoid: Jiella avicenniae GCF 021390325 1
• AAI clade 13 medoid: Chitinophaga terrae ex Kim and Jung 2007 GCF 900107795 1
• AAI clade 14 medoid: Zeimonas arvi GCF 008039575 1
• AAI clade 15 medoid: Cognatiyoonia koreensis GCF 900109295 1
• AAI clade 16 medoid: Legionella beliardensis GCF 900452395 1
• AAI clade 17 medoid: Dorea hominis GCF 014287705 1
• AAI clade 18 medoid: Massilia putida GCF 001941825 1
  • AAI clade 18-1 medoid: Burkholderia cepacia GCF 900446175 1
  • AAI clade 18-2 medoid: Roseateles asaccharophilus GCF 004362405 1
  • AAI clade 18-3 medoid: Acidovorax delafieldii GCF 007993815 1
    • AAI clade 18-3-1 medoid: Comamonas testosteroni GCF 900461225 1
    • AAI clade 18-3-2 medoid: Extensimonas vulgaris GCF 003337425 1
    • AAI clade 18-3-3 medoid: Hydrogenophaga pseudoflava NBRC 102511 GCF 001592285 1
    • AAI clade 18-3-4 medoid: Paracidovorax citrulli GCF 900100305 1
    • AAI clade 18-3-5 medoid: Lampropedia puyangensis GCF 004833285 1
    • AAI clade 18-3-6 medoid: Acidovorax delafieldii GCF 007993815 1
      • AAI clade 18-3-6-1 medoid: Curvibacter gracilis ATCC BAA 807 GCF 000518645 1
      • AAI clade 18-3-6-2 medoid: Simplicispira metamorpha GCF 003568725 2
      • AAI clade 18-3-6-3 medoid: Xylophilus ampelinus GCF 003217575 1
      • AAI clade 18-3-6-4 medoid: Acidovorax delafieldii GCF 007993815 1
        • AAI clade 18-3-6-4-1 medoid: Acidovorax carolinensis GCF 002157145 1
        • AAI clade 18-3-6-4-2 medoid: Acidovorax benzenivorans GCF 028680575 1
        • AAI clade 18-3-6-4-3 medoid: Acidovorax facilis GCF 023913775 1
        • AAI clade 18-3-6-4-4 medoid: Acidovorax kalamii GCF 002245625 1
        • AAI clade 18-3-6-4-5 medoid: Acidovorax soli GCF 900107605 1
        • AAI clade 18-3-6-4-6 medoid: Acidovorax temperans GCF 006716905 1
        • AAI clade 18-3-6-4-7 medoid: Comamonas antarctica GCF 013363755 1
        • AAI clade 18-3-6-4-8 medoid: Paenacidovorax monticola GCF 014489595 1
        • AAI clade 18-3-6-4-9 medoid: Verminephrobacter eiseniae EF01 2 GCF 000015565 1
          1 dataset: Verminephrobacter eiseniae EF01 2 GCF 000015565 1 (AAI: 100.0%)
      • AAI clade 18-3-6-5 medoid: Simplicispira sedimenti GCF 022760965 1
      • AAI clade 18-3-6-6 medoid: Simplicispira suum GCF 003008595 1
      • AAI clade 18-3-6-7 medoid: Verminephrobacter aporrectodeae subsp. tuberculatae At4 GCF 000193225 1
    • AAI clade 18-3-7 medoid: Melaminivora suipulveris GCF 003008575 1
    • AAI clade 18-3-8 medoid: Rhodoferax fermentans GCF 002017865 1
    • AAI clade 18-3-9 medoid: Rhodoferax bucti GCF 005876985 1
    • AAI clade 18-3-10 medoid: Tepidimonas thermarum GCF 007556705 1
    • AAI clade 18-3-11 medoid: Brachymonas chironomi DSM 19884 GCF 000374625 1
    • AAI clade 18-3-12 medoid: Caenimonas soli GCF 013155545 1
    • AAI clade 18-3-13 medoid: Ramlibacter cellulosilyticus GCF 014297465 1
    • AAI clade 18-3-14 medoid: Comamonas jiangduensis GCF 030162955 1
    • AAI clade 18-3-15 medoid: Diaphorobacter ruginosibacter GCF 014395975 1
    • AAI clade 18-3-16 medoid: Limnohabitans planktonicus II D5 GCF 001270065 2
    • AAI clade 18-3-17 medoid: Malikia granosa GCF 002980595 1
    • AAI clade 18-3-18 medoid: Tepidicella baoligensis GCF 013432195 1
    • AAI clade 18-3-19 medoid: Ottowia testudinis GCF 017498525 1
    • AAI clade 18-3-20 medoid: Polaromonas naphthalenivorans CJ2 GCF 000015505 1
    • AAI clade 18-3-21 medoid: Variovorax paradoxus NBRC 15149 GCF 001591365 1
    • AAI clade 18-3-22 medoid: Pseudorhodoferax aquiterrae GCF 014652235 1
    • AAI clade 18-3-23 medoid: Ramlibacter henchirensis GCF 004682015 1
  • AAI clade 18-4 medoid: Morococcus cerebrosus GCF 000813705 1
  • AAI clade 18-5 medoid: Paraburkholderia caffeinilytica GCF 902859905 1
  • AAI clade 18-6 medoid: Ralstonia wenshanensis GCF 021173085 1
  • AAI clade 18-7 medoid: Chromobacterium piscinae GCF 021129175 1
  • AAI clade 18-8 medoid: Massilia puerhi GCF 009861485 1
  • AAI clade 18-9 medoid: Cupriavidus alkaliphilus GCF 900094595 1
  • AAI clade 18-10 medoid: Pandoraea sputorum GCF 000814845 2
  • AAI clade 18-11 medoid: Paraburkholderia acidiphila GCF 009789655 1
  • AAI clade 18-12 medoid: Caballeronia zhejiangensis GCF 000698575 1
  • AAI clade 18-13 medoid: Silvimonas iriomotensis GCF 014645535 1
  • AAI clade 18-14 medoid: Corallococcus coralloides DSM 2259 GCF 000255295 1
  • AAI clade 18-15 medoid: Methylovorus mays GCF 020531915 1
  • AAI clade 18-16 medoid: Polynucleobacter corsicus GCF 018688255 1
• AAI clade 19 medoid: Phycicoccus avicenniae GCF 018139485 1
• AAI clade 20 medoid: Lelliottia steviae GCF 015209785 1
• AAI clade 21 medoid: Natrarchaeobaculum aegyptiacum GCF 002156705 1
• AAI clade 22 medoid: Aquifex aeolicus VF5 GCF 000008625 1
• AAI clade 23 medoid: Campylobacter showae GCF 004803815 1
• AAI clade 24 medoid: Mannheimia bovis GCF 014541205 1
• AAI clade 25 medoid: Solobacterium moorei DSM 22971 GCF 000425005 1
• AAI clade 26 medoid: Neptunicella marina GCF 014270035 1
• AAI clade 27 medoid: Sphingomonas sabuli GCF 014352855 1
• AAI clade 28 medoid: Luteolibacter marinus GCF 014904755 1
• AAI clade 29 medoid: Mycoplasmoides genitalium GCF 036689675 1
• AAI clade 30 medoid: Brevundimonas huaxiensis GCF 014218725 1
• AAI clade 31 medoid: Lysobacter spongiicola DSM 21749 GCF 900167055 1
• AAI clade 32 medoid: Glycomyces dulcitolivorans GCF 003265355 1
• AAI clade 33 medoid: Methylovulum miyakonense HT12 GCF 000384075 1
• AAI clade 34 medoid: Candidatus Fiminaster equi GCA 018064745 1