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 2-1 medoid: Ochrobactrum gambitense gb CP098020
    • AAI clade 2-2 medoid: Roseibium algicola GCF 001999245 1
    • AAI clade 2-3 medoid: Rhizobium anhuiense GCF 003985145 1
    • AAI clade 2-4 medoid: Bartonella elizabethae F9251 ATCC 49927 GCF 000518165 1
    • AAI clade 2-5 medoid: Bradyrhizobium huanghuaihaiense GCF 007830635 1
    • AAI clade 2-6 medoid: Sinorhizobium chiapasense GCF 036488675 1
      • AAI clade 2-6-1 medoid: Sinorhizobium meliloti GCF 006539625 1
      • AAI clade 2-6-2 medoid: Sinorhizobium glycinis GCF 001651865 1
      • AAI clade 2-6-3 medoid: Shinella granuli GCF 004341885 1
      • AAI clade 2-6-4 medoid: Ensifer adhaerens GCF 013283195 1
        5 datasets: Ensifer adhaerens GCF 013283195 1 (AAI: 100.0%), Ensifer canadensis GCF 016865175 1 (AAI: 93.82%), Ensifer adhaerens GCF 000697965 2 (AAI: 80.71%), Ensifer oleiphilus GCF 013371465 1 (AAI: 95.8%), and Ensifer sesbaniae GCF 013283665 1 (AAI: 79.46%)
      • AAI clade 2-6-5 medoid: Hoeflea alexandrii GCF 024105735 1
      • AAI clade 2-6-6 medoid: Hoeflea prorocentri GCF 026735315 1
      • AAI clade 2-6-7 medoid: Martelella radicis GCF 014196625 1
      • AAI clade 2-6-8 medoid: Sinorhizobium chiapasense GCF 036488675 1
      • AAI clade 2-6-9 medoid: Rhizobium quercicola GCF 021168455 1
      • AAI clade 2-6-10 medoid: Pararhizobium haloflavum GCF 002750855 1
      • AAI clade 2-6-11 medoid: Hellea balneolensis DSM 19091 GCF 000428525 1
      • AAI clade 2-6-12 medoid: Rhizobium rhizolycopersici GCF 013378445 1
      • AAI clade 2-6-13 medoid: Pararhizobium polonicum GCF 001687365 1
      • AAI clade 2-6-14 medoid: Pararhizobium mangrovi GCF 006516965 1
      • AAI clade 2-6-15 medoid: Pseudohoeflea suaedae GCF 004354915 1
      • AAI clade 2-6-16 medoid: Rhizobium setariae GCF 016722925 1
      • AAI clade 2-6-17 medoid: Xaviernesmea oryzae GCF 900109605 1
    • AAI clade 2-7 medoid: Acetobacter cerevisiae DSM 14362 GCF 025996195 1
    • AAI clade 2-8 medoid: Mesorhizobium japonicum MAFF 303099 GCF 000009625 1
    • AAI clade 2-9 medoid: Methylobacterium radiotolerans GCF 007991055 1
    • AAI clade 2-10 medoid: Microvirga lotononidis GCF 000262405 1
    • AAI clade 2-11 medoid: Devosia salina GCF 019504385 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 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