ExPASy logo ExPASy Home page Site Map Search ExPASy Contact us HAMAP Swiss-Prot
Search for

Home Proteomes Families Documents Downloads Links
HAMAP: Fully sequenced bacteria/archaea that are known to interact with other organisms

Definitions
Avirulent strain: A strain of a normally pathogenic organism that is not pathogenic, often for unknown reasons. Avirulent strains have been historically studied because they are safer to manipulate and more recently studied to understand what causes virulence within groups of bacteria.
Commensal: An organism living in an external relationship with another, in which one partner may gain more than the other. Some commensal bacteria become pathogenic under certain growth conditions.
Endophyte: An organism living within the tissues of a plant without causing it substantive harm.
Endosymbiont: An organism living inside the cells of another. The association typically behaves as a single organism, producing a benefit not available to the individual partners for example nitogen-fixing bacteria and their host plants.
Epibiont: An organism which lives on the surface of another, in a non-obligatory, symbiotic association.
Parasite: An organism living in a symbiotic relationship with another in which the parasite benefits from the relationship while the host is harmed. Parasites can be extracellular or intracellular.
Pathogen: A disease producing bacterium. These can be intracellular or extracellular, obligate or not. Some organisms are only pathogenic under certain growth conditions.
Saprophyte: An organism living heterotrophically on dead organic matter.
Symbiont: An organism living in an intimate, external relationship with another, in which the mutual benefits usually outweigh the disadvantages.
[Animal commensal ] [Animal endosymbiont ] [Animal intracellular parasite ] [Animal pathogen ] [Animal symbiont ] [Archaeal commensal ] [Archaeal host for Naoarchaeum equitans ] [Archaeal pathogen ] [Avirulent strain ] [Dinoflagellate symbiont (obligate symbiont) ] [Phototrophic consortium epibiont ] [Plant commensal ] [Plant endophyte ] [Plant pathogen ] [Plant saprophyte ] [Plant symbiont ] [Protist endosymbiont ] [Saprophyte ]

Animal commensal
Host: Mammalia
ACTSZ Actinobacillus succinogenes (strain ATCC 55618 / 130Z)
AKKM8 Akkermansia muciniphila (strain ATCC BAA-835)
BACFN Bacteroides fragilis (strain ATCC 25285 / NCTC 9343)
BACTN Bacteroides thetaiotaomicron
BACV8 Bacteroides vulgatus (strain ATCC 8482 / DSM 1447 / NCTC 11154)
BIFLO Bifidobacterium longum
CAMC1 Campylobacter concisus (strain 13826)
CAMC5 Campylobacter curvus (strain 525.92)
CAMJD Campylobacter jejuni subsp. doylei (strain ATCC BAA-1458 / RM4099 / 269.97)
CAMJ8 Campylobacter jejuni subsp. jejuni serotype O:6 (strain 81116 / NCTC 11828)
CLOPE Clostridium perfringens
CLOP1 Clostridium perfringens (strain ATCC 13124 / NCTC 8237 / Type A)
CLOPS Clostridium perfringens (strain SM101 / Type A)
CORU7 Corynebacterium urealyticum (strain ATCC 43042 / DSM 7109)
ENTFA Enterococcus faecalis (Streptococcus faecalis)
ECODH Escherichia coli (strain DH10B)
ECOLI Escherichia coli (strain K12)
ECOHS Escherichia coli O9:H4 (strain HS)
FINM2 Finegoldia magna (strain ATCC 29328) (Peptostreptococcus magnus)
FUSNN Fusobacterium nucleatum subsp. nucleatum
HAEIN Haemophilus influenzae
HAEIE Haemophilus influenzae (strain PittEE)
HAEIG Haemophilus influenzae (strain PittGG)
HAES1 Haemophilus somnus (strain 129Pt) (Histophilus somni (strain 129Pt))
HAES2 Haemophilus somnus (strain 2336) (Histophilus somni (strain 2336))
KLEP7 Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)
LACAC Lactobacillus acidophilus
LACBA Lactobacillus brevis (strain ATCC 367 / JCM 1170)
LACC3 Lactobacillus casei (strain ATCC 334)
LACCB Lactobacillus casei (strain BL23)
LACDB Lactobacillus delbrueckii subsp. bulgaricus (strain ATCC BAA-365)
LACGA Lactobacillus gasseri (strain ATCC 33323 / DSM 20243)
LACPL Lactobacillus plantarum
LACRF Lactobacillus reuteri (strain ATCC 23272 / DSM 20016 / F275)
LACLS Lactococcus lactis subsp. cremoris (strain SK11)
MANSM Mannheimia succiniciproducens (strain MBEL55E)
METS3 Methanobrevibacter smithii (strain PS / ATCC 35061 / DSM 861)
METST Methanosphaera stadtmanae (strain DSM 3091)
MYCS2 Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
NEIMA Neisseria meningitidis serogroup A
NEIMB Neisseria meningitidis serogroup B
NEIM0 Neisseria meningitidis serogroup C (strain 053442)
NEIMF Neisseria meningitidis serogroup C / serotype 2a (strain ATCC 700532 / FAM18)
OCHA4 Ochrobactrum anthropi (strain ATCC 49188 / DSM 6882 / NCTC 12168)
PARD8 Parabacteroides distasonis (strain ATCC 8503 / DSM 20701 / NCTC 11152)
PASMU Pasteurella multocida
PEDPA Pediococcus pentosaceus (strain ATCC 25745 / 183-1w)
PROAC Propionibacterium acnes
STAES Staphylococcus epidermidis (strain ATCC 12228)
STAEQ Staphylococcus epidermidis (strain ATCC 35984 / RP62A)
STRA1 Streptococcus agalactiae serotype Ia
STRA3 Streptococcus agalactiae serotype III
STRGC Streptococcus gordonii (strain Challis / ATCC 35105 / CH1 / DL1 / V288)
STRPN Streptococcus pneumoniae
STRR6 Streptococcus pneumoniae (strain ATCC BAA-255 / R6)
STRPI Streptococcus pneumoniae (strain Hungary19A-6)
STRP2 Streptococcus pneumoniae serotype 2 (strain D39 / NCTC 7466)
STRTD Streptococcus thermophilus (strain ATCC BAA-491 / LMD-9)
UREP2 Ureaplasma parvum serovar 3 (strain ATCC 27815 / 27 / NCTC 11736)
WOLSU Wolinella succinogenes
YERP3 Yersinia pseudotuberculosis serotype O:1b (strain IP 31758)
YERPY Yersinia pseudotuberculosis serotype O:3 (strain YPIII)
Host: Shellfish
VIBPA Vibrio parahaemolyticus



Animal endosymbiont
Host: Acanthamoeba sp. (intracellular obligate)
PARUW Protochlamydia amoebophila (strain UWE25)
Host: Acanthamoeba sp. TUMSJ-321 (intracellular obligate)
AMOA5 Amoebophilus asiaticus (strain 5a2)
Host: Aphids (obligate endosymbiont)
BUCAI Buchnera aphidicola subsp. Acyrthosiphon pisum (Acyrthosiphon pisum symbiotic bacterium)
BUCBP Buchnera aphidicola subsp. Baizongia pistaciae
BUCCC Buchnera aphidicola subsp. Cinara cedri
BUCAP Buchnera aphidicola subsp. Schizaphis graminum
Host: Calyptogena magnifica (intracellular)
RUTMC Ruthia magnifica subsp. Calyptogena magnifica
Host: Camponotus floridanus (ant)
BLOFL Blochmannia floridanus
Host: Camponotus pennsylvanicus (ant)
BLOPB Blochmannia pennsylvanicus (strain BPEN)
Host: Cicadellidae
BAUCH Baumannia cicadellinicola subsp. Homalodisca coagulata
Host: Culex pipiens (mosquito) (obligate intracellular)
WOLPP Wolbachia pipientis subsp. Culex pipiens (strain wPip)
Host: Drosophila (obligate endosymbiont)
WOLPM Wolbachia pipientis wMel
Host: Eisenia foetida
VEREI Verminephrobacter eiseniae (strain EF01-2)
Host: Euplotes aediculatus (intracellular obligate)
POLNS Polynucleobacter necessarius (strain STIR1)
Host: Glossina (tsetse fly)
SODGM Sodalis glossinidius (strain morsitans)
Host: Glossina (tsetse fly) (obligate endosymbiont)
WIGBR Wigglesworthia glossinidia brevipalpis
Host: Psyllid
CARRP Carsonella ruddii (strain PV)
Host: nematode Brugia malayi (obligate endosymbiont)
WOLTR Wolbachia sp. subsp. Brugia malayi (strain TRS)



Animal intracellular parasite
LAWIP Lawsonia intracellularis (strain PHE/MN1-00)
MYCA5 Mycoplasma arthritidis (strain 158L3-1)
MYCHJ Mycoplasma hyopneumoniae (strain J / ATCC 25934 / NCTC 10110)



Animal pathogen
Host: Aves
BORA1 Bordetella avium (strain 197N)
ECOK1 Escherichia coli O1:K1 / APEC
LISMO Listeria monocytogenes
LISMF Listeria monocytogenes serotype 4b (strain F2365)
MYCGA Mycoplasma gallisepticum
PASMU Pasteurella multocida
Host: Fish
AERS4 Aeromonas salmonicida (strain A449)
FLAPJ Flavobacterium psychrophilum (strain JIP02/86 / ATCC 49511)
LISMO Listeria monocytogenes
LISMF Listeria monocytogenes serotype 4b (strain F2365)
MYCMO Mycoplasma mobile
RENSM Renibacterium salmoninarum (strain ATCC 33209 / DSM 20767 / IFO 15589)
Host: Insecta
BACAH Bacillus thuringiensis (strain Al Hakam)
BACHK Bacillus thuringiensis subsp. konkukian
LYSSC Lysinibacillus sphaericus (strain C3-41)
PHOLL Photorhabdus luminescens subsp. laumondii
PSEAB Pseudomonas aeruginosa (strain UCBPP-PA14)
PSEE4 Pseudomonas entomophila (strain L48)
Host: Mammali
CORU7 Corynebacterium urealyticum (strain ATCC 43042 / DSM 7109)
HAES2 Haemophilus somnus (strain 2336) (Histophilus somni (strain 2336))
NEIM0 Neisseria meningitidis serogroup C (strain 053442)
Host: Mammalia
ACIBT Acinetobacter baumannii (strain ATCC 17978 / NCDC KC 755)
ACIBY Acinetobacter baumannii (strain AYE)
ACTPJ Actinobacillus pleuropneumoniae serotype 3 (strain JL03)
ACTP2 Actinobacillus pleuropneumoniae serotype 5b (strain L20)
ACTP7 Actinobacillus pleuropneumoniae serotype 7 (strain AP76)
ANAPZ Anaplasma phagocytophilum (strain HZ)
ARCB4 Arcobacter butzleri (strain RM4018)
BACAN Bacillus anthracis
BACC1 Bacillus cereus (strain ATCC 10987)
BACCR Bacillus cereus (strain ATCC 14579 / DSM 31)
BACCZ Bacillus cereus (strain ZK / E33L)
BACCN Bacillus cereus subsp. cytotoxis (strain NVH 391-98)
BACFN Bacteroides fragilis (strain ATCC 25285 / NCTC 9343)
BARBK Bartonella bacilliformis (strain ATCC 35685 / KC583)
BARHE Bartonella henselae (Rochalimaea henselae)
BARQU Bartonella quintana (Rochalimaea quintana)
BART1 Bartonella tribocorum (strain CIP 105476 / IBS 506)
BORBR Bordetella bronchiseptica (Alcaligenes bronchisepticus)
BORPA Bordetella parapertussis
BORPE Bordetella pertussis
BORAP Borrelia afzelii (strain PKo)
BORBU Borrelia burgdorferi (Lyme disease spirochete)
BORGA Borrelia garinii
BORHD Borrelia hermsii (strain DAH)
BORT9 Borrelia turicatae (strain 91E135)
BRUAB Brucella abortus
BRUA2 Brucella abortus (strain 2308)
BRUA1 Brucella abortus (strain S19)
BRUC2 Brucella canis (strain ATCC 23365 / NCTC 10854)
BRUME Brucella melitensis
BRUO2 Brucella ovis (strain ATCC 25840 / 63/290 / NCTC 10512)
BRUSU Brucella suis
BRUSI Brucella suis (strain ATCC 23445 / NCTC 10510)
BURCA Burkholderia cenocepacia (strain AU 1054)
BURCH Burkholderia cenocepacia (strain HI2424)
BURM1 Burkholderia multivorans (strain ATCC 17616 / 249)
BURPS Burkholderia pseudomallei (Pseudomonas pseudomallei)
BURP0 Burkholderia pseudomallei (strain 1106a)
BURP1 Burkholderia pseudomallei (strain 1710b)
BURP6 Burkholderia pseudomallei (strain 668)
CAMC1 Campylobacter concisus (strain 13826)
CAMC5 Campylobacter curvus (strain 525.92)
CAMFF Campylobacter fetus subsp. fetus (strain 82-40)
CAMJE Campylobacter jejuni
CAMJR Campylobacter jejuni (strain RM1221)
CAMJD Campylobacter jejuni subsp. doylei (strain ATCC BAA-1458 / RM4099 / 269.97)
CAMJJ Campylobacter jejuni subsp. jejuni serotype O:23/36 (strain 81-176)
CAMJ8 Campylobacter jejuni subsp. jejuni serotype O:6 (strain 81116 / NCTC 11828)
CHLFF Chlamydophila felis (strain Fe/C-56)
CITK8 Citrobacter koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696)
CLOBA Clostridium botulinum (strain Alaska E43 / type E3)
CLOB1 Clostridium botulinum (strain ATCC 19397 / Type A)
CLOBB Clostridium botulinum (strain Eklund 17B / type B)
CLOBH Clostridium botulinum (strain Hall / ATCC 3502 / NCTC 13319 / Type A)
CLOBL Clostridium botulinum (strain Langeland / NCTC 10281 / Type F)
CLOBM Clostridium botulinum (strain Loch Maree / Type A3)
CLOBK Clostridium botulinum (strain Okra / Type B1)
CLOD6 Clostridium difficile (strain 630)
CLOPE Clostridium perfringens
CLOP1 Clostridium perfringens (strain ATCC 13124 / NCTC 8237 / Type A)
CLOPS Clostridium perfringens (strain SM101 / Type A)
CLOTE Clostridium tetani
CORDI Corynebacterium diphtheriae
CORJK Corynebacterium jeikeium (strain K411)
COXBN Coxiella burnetii (strain Dugway 5J108-111)
COXBR Coxiella burnetii (strain RSA 331 / Henzerling II)
DICNV Dichelobacter nodosus (strain VCS1703A)
EHRCR Ehrlichia chaffeensis (strain Arkansas)
EHRRG Ehrlichia ruminantium (strain Gardel)
EHRRW Ehrlichia ruminantium (strain Welgevonden)
ENTS8 Enterobacter sakazakii (strain ATCC BAA-894)
ENTFA Enterococcus faecalis (Streptococcus faecalis)
ECOUT Escherichia coli (strain UTI89 / UPEC)
ECO24 Escherichia coli O139:H28 (strain E24377A / ETEC)
ECO57 Escherichia coli O157:H7
ECOL6 Escherichia coli O6
ECOL5 Escherichia coli O6:K15:H31 (strain 536 / UPEC)
FINM2 Finegoldia magna (strain ATCC 29328) (Peptostreptococcus magnus)
FRAP2 Francisella philomiragia subsp. philomiragia (strain ATCC 25017)
FRATF Francisella tularensis subsp. holarctica (strain FTA)
FRATH Francisella tularensis subsp. holarctica (strain LVS)
FRATN Francisella tularensis subsp. novicida (strain U112)
FRATT Francisella tularensis subsp. tularensis
FRAT1 Francisella tularensis subsp. tularensis (strain FSC 198)
GRABC Granulibacter bethesdensis (strain ATCC BAA-1260 / CGDNIH1)
HAEDU Haemophilus ducreyi
HAEI8 Haemophilus influenzae (strain 86-028NP)
HAEIE Haemophilus influenzae (strain PittEE)
HAEIG Haemophilus influenzae (strain PittGG)
HAES1 Haemophilus somnus (strain 129Pt) (Histophilus somni (strain 129Pt))
HELAH Helicobacter acinonychis (strain Sheeba)
HELHP Helicobacter hepaticus
HELPY Helicobacter pylori (Campylobacter pylori)