Evolutionary Analysis and Lateral Gene Transfer of Two-Component Regulatory Systems Associated

Evolutionary analysis and lateral gene transfer of two-component regulatory systems associated with heavy-metal tolerance in bacteria

Juan L. Bouzat and Matthew J. Hoostal

Department of Biological Sciences

Bowling Green State University

Bowling Green OH, 43402

Supplementary Materials 1

Structural (CzcA, CzB, CopA and CopB) and regulatory (CzcR, CopR, CzcS and CopS) proteins associated with heavy-metal resistance genes analyzed in this study. Phylogenetic relationships among these sequences are presented in Figures 1 and 2 of the manuscript. Branch tips of these phylogenies are labeled with the first letter of the genus followed by the first three letters of the species names.The list includes GenBank accession numbers, putative function, and species for which the sequence was reported. An asterisk (*) under the function column indicates that the protein has been functionally characterized. Disulfide isomerases, including scsB and cutA2were used as outgroup for the structural efflux proteins phylogeny (see Figure 1).

CzcA Efflux Protein Homologs

Accession numberProteinFunctionSpecies

YP581789CzcAEfflux of cadmium, zinc, cobalt*Ralstonia metallidurans

YP004682537CzcAEfflux of cadmium, zinc, cobaltCupriavidus necator

YP001712256CzcAEfflux of cadmium, zinc, cobaltAcinetobacter baumanii

YP004996947CzcAEfflux of cadmium, zinc, cobaltAcinetobacter calcoaceticus

ADU98005CzcAEfflux of cadmium, zinc, cobalt Alicycliphilus denitrificans

YP004753172CzcAEfflux of cadmium, zinc, cobaltCollimonas fungivorans

YP412793CzcAEfflux of cadmium, zinc, cobalt Nitrosospira multiformis

CCA87697CzcAEfflux of cadmium, zinc, cobaltRalstonia syzygii

253996846CzcAEfflux of cadmium, zinc, cobalt Methylotenera mobilis

YP001352482CzcAEfflux of cadmium, zinc, cobalt Janthinobacterium sp.

YP001099897CzcAEfflux of cadmium, zinc, cobalt Herminiimonas arsenicoxydans

CAJ97189CzcAEfflux of cadmium, zinc, cobalt Alcaligenes eutropha

NP771577CzcAEfflux of cadmium, zinc, cobalt Bradyrhizobium japonicum

YP001562744CzcAEfflux of cadmium, zinc, cobalt Delftia acidovorans

BAA11061CzcAEfflux of cadmium, zinc, cobalt Alcaligenes sp.strain CT14

YP111047CzcAEfflux of cadmium, zinc, cobaltBurkholderia pseudomallei

YP439571CzcAEfflux of cadmium, zinc, cobalt Burkholderia thailandensis

YP315085CzcAEfflux of cadmium, zinc, cobalt Thiobacillus denitrificans

YP105698CzcAEfflux of cadmium, zinc, cobalt Burkholderia mallei

EAP720888CzcAEfflux of cadmium, zinc, cobalt Ralstonia solanacearum

NP742213CzcAEfflux of cadmium, zinc, cobaltPseudomonas putida

NP790224CzcAEfflux of cadmium, zinc, cobaltPseudomonas syringae

AAG09629CztAEfflux of cadmium, zinc*Pseudomonas fluorescens

YP546657CzcA Efflux of cadmium, zinc, cobalt Methylobacillus flagellates

YP343437CzcAEfflux of cadmium, zinc, cobaltNitrosococcus oceanii

YP607661CzcAEfflux of cadmium, zinc, cobalt Pseudomonas entomophila

NP639375CzcAEfflux of cadmium, zinc, cobalt Xanthomonas campestris

YP746720CzcAEfflux of cadmium, zinc, cobalt Nitrosomonas eutropha

CAD85549CzcAEfflux of cadmium, zinc, cobalt Nitrosomonas europaea

NP421519CzcAEfflux of cadmium, zinc, cobalt Caulobacter crescentus

CAB56471CzrAEfflux of cadmium, zinc*Pseudomonas aeruginosa

NP251210CzcAEfflux of cadmium, zinc, cobaltPseudomonas aeruginosa

NP644459CzcAEfflux of cadmium, zinc, cobalt Xanthomonas axonopodis

YP497419CzcAEfflux of cadmium, zinc, cobalt Novosphingobium aromaticivorans

AAA65106NccAEfflux of cadmium, nickel, cobalt*Achromobacter xylosoxidans

P37972CnrAEfflux of cadmium, nickel*Ralstonia metallidurans

YP617618CzcAEfflux of cadmium, zinc, cobalt Sphingopyxis alaskensis

YP002130288CzcAEfflux of cadmium, zinc, cobaltPhenylobacterium zucineum

YP002289415CzcAEfflux of cadmium, zinc, cobalt Oligotropha carboxidovorans

YP002008800CzcAEfflux of cadmium, zinc, cobaltCupriavidus taiwanensis

YP457776CzcAEfflux of cadmium, zinc, cobalt Erythrobacter litoralis

YP003980705CzcAEfflux of cadmium, zinc, cobaltAchromobacter xylosoxidans

YP003280424CzcAEfflux of cadmium, zinc, cobaltComamonas testosterone

YP0025536CzcAEfflux of cadmium, zinc, cobalt Acidovorax ebreus

YP554596CzcAEfflux of cadmium, zinc, cobaltBurkholderia xenovorans

YP002233336CzcAEfflux of cadmium, zinc, cobaltBurkholderia cenocepacia

AEA85402CzcAEfflux of cadmium, zinc, cobaltPseudomonas stutzeri

ABM95313.1CzcA Efflux of cadmium, zinc, cobaltMethylibium petroleiphilum

CzcB Efflux Protein Homologs

Accession numberProteinFunctionSpecies

P13510CzcBEfflux of cadmium, zinc, cobalt*Ralstonia metallidurans

YP004682538CzcBEfflux of cadmium, zinc, cobaltCupriavidus necator

EGU03571CzcBEfflux of cadmium, zinc, cobaltAcinetobacter baumanii

YP04996948CzcBEfflux of cadmium, zinc, cobaltAcinetobacter calcoaceticus

YP004124894CzcBEfflux of cadmium, zinc, cobalt Alicycliphilus denitrificans

YP004753173CzcBEfflux of cadmium, zinc, cobaltCollimonas fungivorans

YP412792CzcBEfflux of cadmium, zinc, cobalt Nitrosospira multiformis

CCA87696CzcBEfflux of cadmium, zinc, cobaltRalstonia syzygii

YP003048911CzcBEfflux of cadmium, zinc, cobalt Methylotenera mobilis

YP001353461CzcBEfflux of cadmium, zinc, cobalt Janthinobacterium sp.

YP001098860CzcBEfflux of cadmium, zinc, cobalt Herminiimonas arsenicoxydans

YP298169CzcBEfflux of cadmium, zinc, cobalt Alcaligenes eutropha

NP771576CzcBEfflux of cadmium, zinc, cobalt Bradyrhizobium japonicum

YP001562118CzcBEfflux of cadmium, zinc, cobalt Delftia acidovorans

BAA11060CzcBEfflux of cadmium, zinc, cobalt Alcaligenes sp.strain CT14

YP111048CzcBEfflux of cadmium, zinc, cobaltBurkholderia pseudomallei

YP439570CzcBEfflux of cadmium, zinc, cobalt Burkholderia thailandensis

YP315086CzcBEfflux of cadmium, zinc, cobalt Thiobacillus denitrificans

YP105699CzcBEfflux of cadmium, zinc, cobalt Burkholderia mallei

EAP72087CzcBEfflux of cadmium, zinc, cobalt Ralstonia solanacearum

NP742214CzcBEfflux of cadmium, zinc, cobaltPseudomonas putida

NP790225CzcBEfflux of cadmium, zinc, cobaltPseudomonas syringae

AAG09628CztBEfflux of cadmium, zinc*Pseudomonas fluorescens

YP546673CzcB Efflux of cadmium, zinc, cobalt Methylobacillus flagellates

YP343364CzcBEfflux of cadmium, zinc, cobaltNitrosococcus oceanii

YP607660CzcBEfflux of cadmium, zinc, cobalt Pseudomonas entomophila

XP002128757CzcBEfflux of cadmium, zinc, cobalt Populus trichocarpa

YP746719CzcBEfflux of cadmium, zinc, cobalt Nitrosomonas eutropha

NP841673CzcBEfflux of cadmium, zinc, cobalt Nitrosomonas europaea

NP421519CzcBEfflux of cadmium, zinc, cobalt Caulobacter crescentus

CAB56470CzrBEfflux of cadmium, zinc*Pseudomonas aeruginosa

ABJ11700CzcBEffluxof cadmium, zinc, cobaltPseudomonas aeruginosa

YP497420CzcBEfflux of cadmium, zinc, cobalt Novosphingobium aromaticivorans

AAA65105NccBEfflux of cadmium, nickel, cobalt*Achromobacter xylosoxidans

CAB82452CnrBEfflux of cadmium, nickel*Ralstonia metallidurans

YP617607CzcBEfflux of cadmium, zinc, cobalt Sphingopyxis alaskensis

YP002128757CzcBEfflux of cadmium, zinc, cobaltPhenylobacterium zucineum

YP002287747CzcBEfflux of cadmium, zinc, cobalt Oligotropha carboxidovorans

YP001796417CzcBEfflux of cadmium, zinc, cobaltCupriavidus taiwanensis

YP457777CzcBEfflux of cadmium, zinc, cobalt Erythrobacter litoralis

YP003980706CzcBEfflux of cadmium, zinc, cobaltAchromobacter xylosoxidans

YP003280425CzcBEfflux of cadmium, zinc, cobaltComamonas testosterone

ACM33649CzcBEfflux of cadmium, zinc, cobalt Acidovorax ebreus

YP554597CzcBEfflux of cadmium, zinc, cobaltBurkholderia xenovorans

YP002233335CzcBEfflux of cadmium, zinc, cobaltBurkholderia cenocepacia

YP001173894CzcBEfflux of cadmium, zinc, cobaltPseudomonas stutzeri

AMB95313CzcB Efflux of cadmium, zinc, cobaltMethylibium petroleiphilum

CopA Efflux Protein Homologs

Accession numberProteinFunctionSpecies

P12374CopACopper tolerance*Pseudomonas syringae

YP609036CopACopper tolerancePseudomonas entomophila

AAP88295CopACopper tolerancePseudomonas putida

YP349539CopACopper tolerancePseudomonas fluorescens

AEC46567CopACopper tolerance*Xanthomonas alfalfae

YP004355839CopACopper tolerancePseudomonas brassicacearum

ADR70747CopACopper toleranceXanthomonas citri

AEI81119CopACopper toleranceCupriavidus necator

AAT07754CopACopper toleranceXanthomonas perforans

YP003981759CopACopper toleranceAchromobacter xylosidans

CAA58525PcoACopper tolerance*Escherichia coli

AAN52531CopACopper toleranceKlebsiella pneumonia

NP941223CopACopper toleranceSerratia marcescens

AAN52530McoAFerroxidase*Pseudomonas aeruginosa

ZP00415273CopACopper toleranceAzotobacter vinelandii

AAA72013CopACopper tolerance*Xanthomonas campestris

YP001982300CopACopper toleranceCellvibrio japonicas

YP001633209CopACopper toleranceBordetella petrii

YP001972230CopACopper toleranceStenotrophomonas maltophilia

YP001173853CopACopper tolerancePseudomonas stutzeri

AAT07754CopACopper tolerance*Xanthomonas axonopodis

YP001098875CopACopper toleranceHerminiimonas arsenicoxydans

YP001353413CopACopper toleranceJanthinobacterium sp.

YP001561481CopACopper toleranceDelftia acidovorans

CAI89062CopACopper tolerance Pseudoalteromonas haloplanktis

NP886245CopACopper toleranceBordetella parapertussis

NP891112CopACopper toleranceBordetella bronchiseptica

NP881853CopACopper toleranceBordetella pertussis

YP199395CopACopper toleranceXanthomonas oryzae

ZP00652188CopACopper toleranceXylella fastidiosa

YP145682CopACopper toleranceRalstonia metallidurans

YP315082CopACopper toleranceThiobacillus denitrificans

CAG19394CopACopper tolerancePhotobacterium profundum

AAF32269CopACopper toleranceAeromonas veronii

CAD17807CopACopper toleranceRalstonia solanacearum

ABD26575CopACopper tolerance Novosphingobium aromaticivorans

YP001440265CopACopper toleranceCronobacter sakazakii

NP419780CopACopper tolerance Caulobacter crescentus

YP457811CopACopper toleranceErythrobacter litoralis

CopB Efflux Protein Homologs

Accession numberProteinFunctionSpecies

P12375CopBCopper tolerance*Pseudomonas syringae

YP609037CopBCopper tolerancePseudomonas entomophila

AAP88296CopBCopper tolerancePseudomonas putida

EEE51040CopBCopper toleranceOryiza sativa

ABA75549CopBCopper tolerancePseudomonas fluorescens

AEC46568CopBCopper tolerance*Xanthomonas alfalfae

YP004355840CopBCopper tolerancePseudomonas brassicacearum

ADR70748CopBCopper tolerance*Xanthomonas citri

AEI81118CopBCopper toleranceCupriavidus necator

AAT07755CopBCopper toleranceXanthomonas perforans

YP003981760CopBCopper toleranceAchromobacter xylosidans

CAA58526PcoBCopper tolerance*Escherichia coli

AAR07825CopBCopper toleranceKlebsiella pneumonia

CAE51680CopBCopper toleranceSerratia marcescens

ABJ11249CopBCopper tolerancePseudomonas aeruginosa

ZP00415272CopBCopper toleranceAzotobacter vinelandii

AAA72014CopBCopper tolerance*Xanthomonas campestris

YP001982301CopBCopper toleranceCellvibrio japonicas

YP001633208CopBCopper toleranceBordetella petrii

YP001972229CopBCopper toleranceStenotrophomonas maltophilia

YP001173851CopBCopper tolerancePseudomonas stutzeri

AAT07755CopBCopper tolerance*Xanthomonas axonopodis

YP001099841CopBCopper toleranceHerminiimonas arsenicoxydans

YP001353414CopBCopper toleranceJanthinobacterium sp.

YP001561480CopBCopper toleranceDelftia acidovorans

YP341507CopBCopper tolerance Pseudoalteromonas haloplanktis

NP886244CopBCopper toleranceBordetella parapertussis

NP891111CopBCopper toleranceBordetella bronchiseptica

NP881854CopBCopper toleranceBordetella pertussis

YP199394CopBCopper toleranceXanthomonas oryzae

NP297426CopBCopper toleranceXylella fastidiosa

YP145681CopBCopper toleranceRalstonia metallidurans

YP315083CopBCopper toleranceThiobacillus denitrificans

YP129195CopBCopper tolerancePhotobacterium profundum

AAF32270CopBCopper toleranceAeromonas veronii

NP522218CopBCopper toleranceRalstonia solanacearum

YP498199CopBCopper tolerance Novosphingobium aromaticivorans

YP001440266CopBCopper toleranceCronobacter sakazakii

YP457812CopBCopper toleranceErythrobacter litoralis

Disulfide isomerases

Accession numberProteinFunctionSpecies

P36655CutA2Disulfide isomerase*Escherichia coli

YP003518690CycZDisulfide isomerasePantoea ananatis

AAD38449CycZDisulfide isomerase*Pantoea citrea

YP410564CycZDisulfide isomeraseShigella boydii

YP048735CycZDisulfide isomeraseErwinia carotovora

YP153192CycZDisulfide isomeraseSalmonella enterica

NP760176CycZDisulfide isomeraseVibrio vulgaris

NP931329CycZDisulfide isomerasePhotobacter luminescens

YP004296571CycZDisulfide isomeraseYersinia enterocolitica

CBA74426CycZDisulfide isomeraseArsenophonus nasoniae

Q8ZIY9CycZDisulfide isomeraseYersinia pestis

YP001402635CycZDisulfide isomeraseYersinia pseudotuberculosis

YP405814CycZDisulfide isomeraseShigella dysenteriae

NP463187CycZDisulfide isomeraseSalmonella typhimurium

YP691577CycZDisulfide isomeraseShigella flexneri

YP003739816CycZDisulfide isomeraseErwinia billingiae

YP048735CycZDisulfide isomerasePectobacterium atrosepticum

YP003042592CycZDisulfide isomerasePhotorhabdus asymbiotica

NP799244CycZDisulfide isomeraseVibrio parahaemolyticus

YP001908903CycZDisulfide isomeraseErwinia tasmaniensis

YP002150211ScsBDisulfide isomeraseProteus mirabilis

AAC45601ScsBDisulfide isomerase*Salmonella typhimurium

YP001005621ScsBDisulfide isomeraseYersinia enterocolitica

CBA72384ScsBDisulfide isomeraseArsenophonus nasoniae

YP004391179ScsBDisulfide isomeraseAeromonas veronii

YP003612440ScsBDisulfide isomeraseEnterobacter cloacae

AAO69428ScsBDisulfide isomeraseSalmonella enterolytica

YP002236638ScsBDisulfide isomeraseKlebsiellla pneumonia

Response regulators

Accession numberProteinFunctionSpecies

Q44006CzcRResponse regulator*Ralstonia metallidurans

CCA87692CzcRResponse regulatorRalstonia syzygii

YP001633212CzcRResponse regulatorBordetella petrii

YP_004682352CopRResponse regulatorRalstonia metallidurans

YP004681828CopRResponse regulatorCupriavidus necator

YP_004681828CzcRResponse regulatorCupriavidus necator

YP_004995982CzcRResponse regulatorAcinetobacter calcoaceticus

YP_004127359CzcRResponse regulatorAlicycliphilus denitrificans

YP_004753177CzcRResponse regulatorCollimonas fungivorans

YP576724CzcRResponse regulatorNitrobacter hamburgensis

YP317819CzcRResponse regulatorNitrobacter winogradsky

YP004538122CzcRResponse regulatorNovosphingobium aromaticivorans

ABF67806PcoRResponse regulator*Escherichia coli

AAG09631CztRResponse regulator*Pseudomonas fluorescens

YP001714983CzcRResponse regulatorAcinetobacter baumanii

AAZ61180CzcRResponse regulatorAlcaligenes eutropha

CAB56468CzrRResponse regulator*Pseudomonas aeruginosa

YP002553641CzcRResponse regulatorAcidovorax ebreus

YP001633212CopRResponse regulatorBordetella petrii

YP001972461CopRResponse regulatorStenotrophomonas maltophilia

YP12199CzcRResponse regulatorPhotobacterium profundum

YP158149CzcRResponse regulatorAromatoleum aromaticum

YP777866CzcRResponse regulatorBurkholderia cepacia

YP438572CzcRResponse regulatorBurkholderia thailandensis

YP105697CzcRResponse regulatorBurkholderia mallei

YP004352985CzcRResponse regulatorPseudomonas brassicacearum

AAB92482CzcRResponse regulatorBurkholderia pseudomallei

YP00109831CzcRResponse regulatorHerminiimonas arsenicoxydans

YP001354044CzcRResponse regulatorJanthinobacterium sp.

YP001352484CopRResponse regulatorJanthinobacterium sp.

YP621384CzcRResponse regulatorBurkholderia cenocepacia

NP522050CzcRResponse regulatorRalstonia solanacearum

NP522216CopRResponse regulatorRalstonia solanacearum

YP236444CzcRResponse regulatorPseudomonas syringae

YP746275CopRResponse regulatorNitrosomonas eutropha

NP886144CopRResponse regulatorBordetella parapertussis

NP891076CopRResponse regulatorBordetella bronchiseptica

NP879051CopRResponse regulatorBordetella pertussis

YP315507CopRResponse regulatorThiobacillus denitrificans

NP747484CopRResponse regulatorPseudomonas putida

NP743596CzcRResponse regulatorPseudomonas putida

YP001561482CzcRResponse regulatorDelftia acidovorans

YP341509CopRResponse regulator Pseudoalteromonas haloplanktis

NP250128CzcRResponse regulatorPseudomonas aerugnosa

YP609756CzcRResponse regulatorPseudomonas entomophila

YP609212CopRResponse regulatorPseudomonas entomophila

NP76977CzcRResponse regulatorBradyrhizobium japonicum

YP234585CopRResponse regulator*Pseudomonas syringae

NP421553CzcRResponse regulatorCaulobacter crescentus

AAG06197CopRResponse regulatorPseudomonas aeruginosa

YP001338357CopRResponse regulatorKlebsiella pneumonia

CAE51683CopRResponse regulatorSerratia marcescens

AAP42072CopRResponse regulator*Xanthomonas campestris

ZP00417461CopRResponse regulatorAzotobacter vinelandii

YP003280427CzcRResponse regulatorComamonas testosterone

ZP00241824CzcRResponse regulator Rubrivivax gelatinosus

90108540PrrAResponse regulator*Mycrobacterium tuberculosis

CAA73958RegX3Response regulator*Mycrobacterium tuberculosis

CAQ72053CzcRResponse regulatorCupriavidus taiwanensis

YP553925CzcRResponse regulatorBurkholderia xenovorans

BEAC97510CopRResponse regulatorVibrio vulnificus

AEA85144CzcRResponse regulatorPseudomonas stutzeri

YP001173860CopRResponse regulatorPseudomonas stutzeri

CCD13874CopRResponse regulatorTrypsanosoma congolense

EEF12309CzcRResponse regulatorPopulus trichocarpa

YP003977180CzcRResponse regulatorAchromobacter xylosidans

YP527421CzcRResponse regulatorSaccharophagus degradans

YP259084CopRResponse regulatorPseudomonas fluorescens

YP001099843CopRResponse regulator Herminiimonas arsenicoxydans

Histidine kinase sensors

Accession numberProteinFunctionSpecies

CAA67087CzcSHistidine kinase sensor*Ralstonia metallidurans

CCA87691CzcSHistidine kinase sensorRalstonia syzygii

YP001633228CzcSHistidine kinase sensorBordetella petrii

CAC07977CopSHistidine kinase sensorRalstonia metallidurans

YP004682352CopSHistidine kinase sensorCupriavidus necator

YP004681827CzcSHistidine kinase sensorCupriavidus necator

YP04995981CzcSHistidine kinase sensorAcinetobacter calcoaceticus

YP004389252CzcSHistidine kinase sensorAlicycliphilus denitrificans

YP004753178CzcSHistidine kinase sensorCollimonas fungivorans

YP576729CzcSHistidine kinase sensorNitrobacter hamburgensis

YP317812CzcSHistidine kinase sensorNitrobacter winogradsky

YP004534349CzcSHistidine kinase sensor Novosphingobium aromaticivorans

CAA58530PcoSHistidine kinase sensor*Escherichia coli

AAG09630CztSHistidine kinase sensor*Pseudomonas fluorescens

YP001714984CzcSHistidine kinase sensorAcinetobacter baumanii

YP841161CzcSHistidine kinase sensorAlcaligenes eutropha

ZP01367903CzrSHistidine kinase sensorPseudomonas aeruginosa

YP002553642CzcSHistidine kinase sensorAcidovorax ebreus

YP001633228CopSHistidine kinase sensorBordetella petrii

ACF51870CopSHistidine kinase sensorStenotrophomonas maltophilia

YP129200CzcSHistidine kinase sensorPhotobacterium profundum

YP158148CzcSHistidine kinase sensorAromatoleum aromaticum

YP777068CzcSHistidine kinase sensorBurkholderia cepacia

YP439573CzcSHistidine kinase sensorBurkholderia thailandensis

YP105696CzcSHistidine kinase sensorBurkholderia mallei

YP004356033CzcSHistidine kinase sensorPseudomonas brassicacearum

YP111045CzcSHistidine kinase sensorBurkholderia pseudomallei

YP001098932CzcSHistidine kinase sensorHerminiimonas arsenicoxydans

YP001354043CzcSHistidine kinase sensorJanthinobacterium sp.

YP001353411CopSHistidine kinase sensorJanthinobacterium sp.

ZP00978616CzcSHistidine kinase sensorBurkholderia cenocepacia

YP841161CzcSHistidine kinase sensorRalstonia solanacearum

NP522215CopSHistidine kinase sensorRalstonia solanacearum

YP275454CzcSHistidine kinase sensor*Pseudomonas syringae

YP746274CopSHistidine kinase sensorNitrosomonas eutropha

NP886145CopSHistidine kinase sensorBordetella parapertussis

NP891077CopSHistidine kinase sensorBordetella bronchiseptica

NP879050CopSHistidine kinase sensorBordetella pertussis

YP315508CopSHistidine kinase sensorThiobacillus denitrificans

ZP00899470CopSHistidine kinase sensorPseudomonas putida

YP001265403CzcSHistidine kinase sensorPseudomonas putida

YP001561483CzcSHistidine kinase sensorDelftia acidovorans

YP341510CopSHistidine kinase sensor Pseudoalteromonas haloplanktis

ZP01367903CzcSHistidine kinase sensorPseudomonas aerugnosa

YP609757CzcSHistidine kinase sensorPseudomonas entomophila

YP609213CopSHistidine kinase sensorPseudomonas entomophila

NP769772CzcSHistidine kinase sensorBradyrhizobium japonicum

YP234586CopSHistidine kinase sensor*Pseudomonas syringae

NP421551CzcSHistidine kinase sensorCaulobacter crescentus

NP251500CopSHistidine kinase sensorPseudomonas aeruginosa

NP943471CopSHistidine kinase sensorKlebsiella pneumonia

CAE1684CopSHistidine kinase sensorSerratia marcescens

AAP42071CopSHistidine kinase sensor*Xanthomonas campestris

ZP00417462CopSHistidine kinase sensorAzotobacter vinelandii

YP003278541CzcSHistidine kinase sensorComamonas testosterone

ZP00241823CzcSHistidine kinase sensor Rubrivivax gelatinosus

YP002008108CzcSHistidine kinase sensorCupriavidus taiwanensis

YP553568CzcSHistidine kinase sensorBurkholderia xenovorans

YP004191610CopSHistidine kinase sensorVibrio vulnificus

YP001173589CzcSHistidine kinase sensorPseudomonas stutzeri

YP004713609CopSHistidine kinase sensorPseudomonas stutzeri

YP003976566CzcSHistidine kinase sensorAchromobacter xylosidans

YP527421CzcSHistidine kinase sensorSaccharophagus degradans

YP259083CopSHistidine kinase sensorPseudomonas fluorescens

YP001098873CopSHistidine kinase sensorHerminiimonas arsenicoxydans

Supplementary Information 2

Species names and corresponding abbreviations used for phylogenetic analyses. Phylogenetic relationships among these sequences are presented in Figures 1 and 2 of the manuscript. Abbreviations are composed of the first letter of the genus followed by the first three letters of the species names, or in the case of Alcaligenes sp., by the strain name.

Species name / Abbreviation
Achromobacter xylosoxidans / Axyl
Acidovorax ebreus / Aebr
Acinetobacter baumanii / Abau
Acinetobacter calcoaceticus / Acal
Aeromonas veronii / Aver
Alcaligenes eutropha / Aeut
Alcaligenes sp.strain CT14 / ACT14
Alicycliphilus denitrificans / Aden
Aromatoleum aromaticum / Aaro
Arsenophonus nasoniae / Anas
Azotobacter vinelandii / Avin
Bordetella bronchiseptica / Bbro
Bordetella parapertussis / Bpar
Bordetella pertussis / Bper
Bordetella petrii / Bpet
Bradyrhizobium japonicum / Bjap
Burkholderia cenocepacia / Bcen
Burkholderia cepacia / Bcep
Burkholderia mallei / Bmal
Burkholderia pseudomallei / Bpse
Burkholderia thailandensis / Btha
Burkholderia xenovorans / Bxen
Caulobacter crescentus / Ccre
Cellvibrio japonicas / Cjap
Collimonas fungivorans / Cfun
Comamonas testosterone / Ctes
Cronobacter sakazakii / Csak
Cupriavidus necator / Cnec
Cupriavidus taiwanensis / Ctai
Delftia acidovorans / Daci
Enterobacter cloacae / Eclo
Erwinia billingiae / Ebil
Erwinia carotovora / Ecar
Erwinia tasmaniensis / Etas
Erythrobacter litoralis / Elit
Escherichia coli / Ecol
Herminiimonas arsenicoxydans / Hars
Janthinobacterium sp. / Jant
Klebsiella pneumonia / Kpne
Methylibium petroleiphilum / Mpet
Methylobacillus flagellates / Mfla
Methylotenera mobilis / Mmob
Mycrobacterium tuberculosis / Mtub
Nitrobacter hamburgensis / Nham
Nitrobacter winogradsky / Nwin
Nitrosococcus oceanii / Noce
Nitrosomonas europaea / Neur
Nitrosomonas eutropha / Neut
Nitrosospira multiformis / Nmul
Novosphingobium aromaticivorans / Naro
Oligotropha carboxidovorans / Ocar
Oryiza sativa / Osat
Pantoea ananatis / Pana
Pantoea citrea / Pcit
Pectobacterium atrosepticum / Patr
Phenylobacterium zucineum / Pzuc
Photobacter luminescens / Plum
Photobacterium profundum / Ppro
Photorhabdus asymbiotica / Pasy
Populus trichocarpa / Ptri
Proteus mirabilis / Pmir
Pseudoalteromonas haloplantis / Phal
Pseudomonas aeruginosa / Paer
Pseudomonas brassicacearum / Pbra
Pseudomonas entomophila / Pent
Pseudomonas fluorescens / Pflu
Pseudomonas putida / Pput
Pseudomonas stutzeri / Pstu
Pseudomonas syringae / Psyr
Ralstonia metallidurans / Rmet
Ralstonia solanacearum / Rsol
Ralstonia syzygii / Rsyz
Rubrivivax gelatinosus / Rgel
Saccharophagus degradans / Sdeg
Salmonella enterolytica / Sent
Salmonella typhimurium / Styp
Serratia marcescens / Smar
Shigella boydii / Sboy
Shigella dysenteriae / Sdys
Shigella flexneri / Sfle
Sphingopyxis alaskensis / Sala
Stenotrophomonas maltophilia / Smal
Thiobacillus denitrificans / Tden
Trypsanosoma congolense / Tcon
Vibrio parahaemolyticus / Vpar
Vibrio vulgaris / Vvul
Xanthomonas alfalfae / Xalf
Xanthomonas axonopodis / Xaxo
Xanthomonas campestris / Xcam
Xanthomonas citri / Xcit
Xanthomonas oryzae / Xory
Xanthomonas perforans / Xper
Xylella fastidiosa / Xfas
Yersinia enterocolitica / Yent
Yersinia pestis / Ypes
Yersinia pseudotuberculosis / Ypse