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 1-1 medoid: Serratia entomophila GCF 021462285 1
    • AAI clade 1-2 medoid: Citrobacter freundii ATCC 8090 MTCC 1658 NBRC 12681 GCF 011064845 1
    • AAI clade 1-3 medoid: Enterobacter chuandaensis GCF 003594915 1
      • AAI clade 1-3-1 medoid: Klebsiella pneumoniae GCF 006364295 1
      • AAI clade 1-3-2 medoid: Enterobacter chuandaensis GCF 003594915 1
      • AAI clade 1-3-3 medoid: Cronobacter sakazakii NBRC 102416 GCF 000684935 1
      • AAI clade 1-3-4 medoid: Klebsiella michiganensis GCF 002925905 1
      • AAI clade 1-3-5 medoid: Kosakonia sacchari GCF 900100995 1
      • AAI clade 1-3-6 medoid: Silvania hatchlandensis GCF 025564065 1
      • AAI clade 1-3-7 medoid: Lelliottia nimipressuralis GCF 004115925 1
      • AAI clade 1-3-8 medoid: Raoultella planticola GCF 004345285 1
      • AAI clade 1-3-9 medoid: Yokenella regensburgei ATCC 49455 GCF 000735455 1
      • AAI clade 1-3-10 medoid: Atlantibacter subterranea GCF 027853245 1
      • AAI clade 1-3-11 medoid: Buttiauxella warmboldiae GCF 003818135 1
      • AAI clade 1-3-12 medoid: Cedecea neteri NBRC 105707 ATCC 33855 GCF 001571265 1
      • AAI clade 1-3-13 medoid: Franconibacter daqui GCF 014644275 1
      • AAI clade 1-3-14 medoid: Pseudescherichia vulneris GCF 900450975 1
      • AAI clade 1-3-15 medoid: Scandinavium hiltneri GCF 024764835 1
      • AAI clade 1-3-16 medoid: Siccibacter colletis GCF 000696575 1
      • AAI clade 1-3-17 medoid: Tenebrionibacter intestinalis GCF 016632365 1
      • AAI clade 1-3-18 medoid: Enterobacter lignolyticus SCF1 GCF 000164865 1
      • AAI clade 1-3-19 medoid: Entomohabitans teleogrylli GCF 001484765 1
      • AAI clade 1-3-20 medoid: Jejubacter calystegiae GCF 005671395 1
      • AAI clade 1-3-21 medoid: Mangrovibacter plantisponsor GCF 003182475 1
        2 datasets: Mangrovibacter phragmitis GCF 001655675 1 (AAI: 97.22%) and Mangrovibacter plantisponsor GCF 003182475 1 (AAI: 100.0%)
      • AAI clade 1-3-22 medoid: Phytobacter massiliensis JC163 GCF 000321045 1
      • AAI clade 1-3-23 medoid: Pluralibacter gergoviae ATCC 33028 NBRC 105706 GCF 001598855 1
      • AAI clade 1-3-24 medoid: Pseudocitrobacter vendiensis GCF 943590815 1
      • AAI clade 1-3-25 medoid: Trabulsiella guamensis ATCC 49490 GCF 000734965 1
    • AAI clade 1-4 medoid: Vibrio rotiferianus CAIM 577 LMG 21460 GCF 002741985 1
    • AAI clade 1-5 medoid: Aeromonas veronii bv veronii GCF 001908535 1
    • AAI clade 1-6 medoid: Pectobacterium polonicum GCF 005497185 1
    • AAI clade 1-7 medoid: Photorhabdus caribbeanensis GCF 018448885 1
    • AAI clade 1-8 medoid: Vibrio crassostreae GCF 001048535 1
    • AAI clade 1-9 medoid: Yersinia alsatica GCF 902170305 1
    • AAI clade 1-10 medoid: Pantoea astica asm GCA 002434205 1
    • AAI clade 1-11 medoid: Dickeya fangzhongdai GCF 002812485 1
    • AAI clade 1-12 medoid: Limnobaculum allomyrinae GCF 016649425 1
    • AAI clade 1-13 medoid: Photobacterium alginatilyticum GCF 009910675 1
    • AAI clade 1-14 medoid: Providencia hangzhouensis GCF 029193595 2
    • AAI clade 1-15 medoid: Xenorhabdus thuongxuanensis GCF 001908095 1
    • AAI clade 1-16 medoid: Grimontia indica GCF 000333895 2
    • AAI clade 1-17 medoid: Rahnella variigena GCF 003602185 1
    • AAI clade 1-18 medoid: Oceanimonas doudoroffii GCF 002242685 1
    • AAI clade 1-19 medoid: Proteus alimentorum GCF 002607735 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 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