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Table 1 Frequency of ortholog occurrence of annotated ‘essential’ Lcr genes in 13 selected uncultured bacteria

From: A synthetic ‘essentialome’ for axenic culturing of ‘Candidatus Liberibacter asiaticus’

Organism

Occurrence/disease

Genbank/EMBL/DDBJ Acc. #

Genome (bp)

Orthologs* of Lcr genes present

‘Ca. Phytoplasma australiense’

Phytopathogen; papaya dieback, grapevine yellows

AM422018

879,959

9/65

Phytoplasma mali

Phytopathogen; apple proliferation disease

CU469464

601,943

8/65

‘Ca. Phytoplasma asteris’ OY-M

Phytopathogen; onion yellows phytoplasma

AP006628

853,092

8/65

Maize bushy stunt phytoplasma

Phytopathogen; stunted growth and witches’ broom in maize

NZ_CP015149

576,118

7/65

‘Ca. Carsonella ruddii’

Obligate primary endosymbiont of Asian citrus psyllid (Diaphorina citri)

AP023214

173,853

5/65

‘Ca. Profftella armatura’

Obligate primary endosymbiont of Asian citrus psyllid (D. citri)

AP023215

469,264

6/65

Wolbachia spp.

Intracellular, secondary endosymbiont of most arthropods and filarial nematodes

NC_021084

1,301,823

24/65

Wigglesworthia glossinidia

Obligate primary endosymbiont of tsetse fly (Glossina morsitans morsitans)

CP003315

697,724

17/65

‘Ca. Baumannia cicadellinicola’

Obligate endosymbiont of glassy-winged (Homalodisca itripennis) sharpshooter

CP000238

686,194

21/65

‘Ca. Methanoplasma termitum’

Methanogenic; present in higher termite gut (Cubitermes ugandensis)

NZ_CP010070

1,488,669

5/65

Orientia tsutsugamushi

Obligate intracellular human pathogen; scrub typhus

NZ_LS398548

2,469,803

15/65

Rickettsia str. Iowa

Obligate intracellular human pathogen; rocky mountain spotted fever

NC_010263

1,268,201

32/65

‘Ca. Brocadia sinica’

Environmental; anaerobic ammonia oxidizing

GCA_000949635

4,077,002

24/65

  1. *Orthologs for the following 19 ‘essentialL. crescens genes are missing across all of the above bacterial genomes: B488_RS00140 (gtrA, transmembrane translocation of bactoprenol-linked glucose); B488_RS00510 (thiS, thiamine-pyrophosphate biosynthesis); B488_RS00825 (tetratricopeptide repeat containing lipoprotein); B488_RS00940 (DUF4354 family protein); B488_RS01155 (HAD family hydrolase); B488_RS01485 (DUF1344 domain-containing protein); B488_RS03185 (YqcI/YcgG family protein); B488_RS03190 (dTDP-sugar isomerase, biosynthesis of L-rhamnose); B488_RS03535 (ATP synthase subunit B); B488_RS03555 (3-deoxy-7-phosphoheptulonate synthase; aromatic amino acid biosynthesis); B488_RS03865 (dihydroneopterin aldolase, folate biosynthesis); B488_RS04330 (RNase H fold-containing effector); B488_RS05025 (DUF1134 domain-containing protein); B488_RS05105 (GAF domain containing protein); B488_RS05600 (porin family); B488_RS05940 (DUF4164 domain-containing protein); B488_RS06280 (Flp family type IVb pilin); B488_RS06535 (alcohol dehydrogenase); B488_RS06655 (HPr family phosphocarrier protein, energy metabolism regulation)