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The following are varieties of bacteria, fungi, and viruses. A longer list of 9000 names can be searched with the search box above.

Dictionaries agree that genus names should be capitalized when referring to a particular species (Staphylococcus aureus) and lower case when not identifying a particular species, like "salmonella and shigella" or "staphylococcus species." However a Google search shows "Staphylococcus species" capitalized on 95 hits out of 100, "Salmonella and Shigella" capitalized 85 hits out of 100.

acid-fast bacilli
acid-fast bacillus
acid-fast organisms
Acinetobacter
Acinetobacter baumannii
Acinetobacter calcoaceticus
Acinetobacter haemolyticus
Acinetobacter lwoffii
acinetobacter species (lower case preferred)
Actinobacillus
Actinobacillus hominis
Actinobacillus muris
Actinomyces
Actinomyces bovis
Actinomyces canis
Actinomyces israelii
Actinomycetales
adenovirus
aerobes
aerobes and anaerobes
aerobic and anaerobic microorganisms
aerobic and anaerobic bacteria
aerobic bacteria
aerobic microorganisms
Aeromonadaceae
Aeromonas
Aeromonas media
Aeromonas punctata
AFB (acid-fast bacilli)
Agromonas
Alcaligenes
Alcaligenes faecalis
Alcaligenes latus
alpha-hemolytic streptococcus
alpha streptococcus
Alternaria
Alternaria alternata
Alternaria mali
Alternaria panax
Amanita
anaerobes
anaerobic bacteria
anaerobic microorganisms
anaerobics
arbovirus
Aspergillus
Aspergillus candidus
Aspergillus fumigatus
Aspergillus niger
Aspergillus versicolor
Auricularia
avian adeno-associated virus
avian encephalomyelitis-like virus
avian erythroblastosis virus
avian myeloblastosis virus
bacille Calmette-Guerin
Bacillus acidovorans
Bacillus anthracis
Bacillus cereus
Bacillus flexus
Bacillus fragilis
Bacillus intermedius
Bacillus lentus
Bacillus mycoides
Bacillus pallidus
Bacteriovorax
Bacteroides
Bacteroides fragilis
Bacteroides ureolyticus
Bartonella
Bartonella henselae
BCG (bacille Calmette-Guerin)
beta-hemolytic strep (streptococcus)
beta-hemolytic streptococci
beta-hemolytic streptococcus
beta strep (streptococcus)
beta strep group B (streptococcus)
beta streptococcus
beta streptococcus group A
Bifidobacterium
Bifidobacterium asteroides
Bifidobacterium bifidum
Bifidobacterium cuniculi
Bifidobacterium gallinarum
Bifidobacterium magnum
Bifidobacterium minimum
Bipolaris
Blastomyces
Bordetella
Borrelia
Borrelia burgdorferi
Borrelia lusitaniae
Borrelia sinica
Brevundimonas
Brevundimonas alba
Brevundimonas bacteroides
Brevundimonas diminuta
Brevundimonas intermedia
Brucella
Burkholderia
Burkholderia cepacia
Burkholderia mallei
Burkholderia pseudomallei
Burkholderia tropicalis
C. diff (Clostridium difficile)
California encephalitis virus
Campylobacter
Campylobacter-like organism
Campylobacter gracilis
Campylobacter hominis
Campylobacter jejuni
Campylobacter lari
Candida
Candida albicans
Candida glabrata
Candida parapsilosis
candida species (lower case preferred)
Candida tropicalis
Chlamydia
Chlamydia trachomatis
Chrysosporium
Citrobacter
Citrobacter amalonaticus
Citrobacter freundii
Citrobacter koseri
Cladosporium
Clostridium
Clostridium aceticum
Clostridium botulinum
Clostridium difficile
Clostridium magnum
Clostridium perfringens
Clostridium putrefaciens
Clostridium septicum
coagulase-negative staphylococcus
coagulase-negative staphylococci
cocci
cocci in chains
cocci in clusters
cocci in pairs
Coccidioides
Coccidioides immitis
Comamonas
Corynebacterium
Corynebacterium amycolatum
Corynebacterium auris
Corynebacterium bovis
Corynebacterium cervicis
Corynebacterium durum
Corynebacterium glucuronolyticum
Corynebacterium jeikeium
Corynebacterium nigricans
Corynebacterium pseudodiphtheriticum
Corynebacterium simulans
Corynebacterium striatum
Corynebacterium urealyticum
Corynebacterium xerosis
Coxiella
Coxiella burnetii
Coxsackie virus (or coxsackievirus)
coxsackievirus (or Coxsackie virus)
Cryptococcus
Cryptococcus neoformans
Cryptosporangium
cytomegalovirus
dengue virus
Desulfovibrio
Desulfovibrio gracilis
Desulfovibrio intestinalis
Desulfuromonas
diplococci
diplococcus
dsDNA viruses
E. coli (Escherichia coli)
eastern equine encephalitis virus
Ebola-like viruses
ECHO virus (or echovirus)
echovirus (or ECHO virus)
Ehrlichia
Ehrlichia bovis
Ehrlichia canis
Ehrlichia muris
Eikenella
Eikenella corrodens
Enterobacter
Enterobacter aerogenes
Enterobacter aerogenes, Cipro-sensitive
Enterobacter agglomerans
Enterobacter amnigenus
Enterobacter cloacae
Enterobacter gergoviae
enterobacter species (lower case preferred)
Enterobacteriaceae
enterococci
Enterococcus
Enterococcus avium
Enterococcus cecorum
Enterococcus columbae
Enterococcus durans
Enterococcus faecalis
Enterococcus faecium
Enterococcus gallinarum
enterococcus species (lower case preferred)
enterohemorrhagic Escherichia coli
enterotoxigenic Escherichia coli
enterovirus
Epstein-Barr virus
Erwinia
Escherichia
Escherichia coli
Escherichia coli, Cipro-sensitive
Escherichia fergusonii
Eubacterium
Eubacterium sulci
Eubacterium tortuosum
Exophiala
Friedlander's bacillus
Fusarium
Fusobacterium
Fusobacterium nucleatum
Fusobacterium varium
Gardnerella
Gardnerella vaginalis
Geotrichum
Giardia
Giardia lamblia
Giardia lamblia virus
Gliocladium
gonococci (Neisseria gonorrhoeae)
gram-negative bacilli
gram-negative bacteria
gram-negative cocci
gram-negative diplococci
gram-negative organism
gram-negative organisms
gram-negative rods
gram-negatives
gram-positive bacilli
gram-positive cocci
gram-positive cocci in chains
gram-positive cocci in clusters
gram-positive cocci in pairs
gram-positive organisms
gram-positive rods
gram-positive staphylococcus
gram-positive Staphylococcus aureus
gram positive cocci in chains
group A strep (streptococcus)
group A streptococcus
group B strep (streptococcus)
group B streptococcus
group D enterococcus
H. flu (Haemophilus influenzae)
H. influenzae (Haemophilus influenzae)
H. pylori (Helicobacter pylori)
Haemophilus
Haemophilus ducreyi
Haemophilus haemolyticus
Haemophilus influenzae
Haemophilus influenzae type b
Haemophilus somnus
Hafnia
Hafnia alvei
Hantaan virus
hantavirus
Helicobacter
Helicobacter bilis
Helicobacter canis
Helicobacter hepaticus
Helicobacter pylori
Helminthosporium
Hepadnaviridae
hepatitis A virus
hepatitis B virus
hepatitis C virus
herpes simplex virus
Herpesviridae
herpesvirus
Histoplasma
HIV (human immunodeficiency virus)
"HIV virus" (human immunodeficiency virus)
HPV (human papilloma virus)
HPV (human papillomavirus)
HTLV-1 (human T-lymphotropic virus type 1)
HTLV-I (human T-lymphotropic virus type I)
human enterovirus
human immunodeficiency virus
human papilloma virus (or human papillomavirus)
human papillomavirus (or human papilloma virus)
human respiratory syncytial virus
human rhinovirus
Ideonella
Ideonella dechloratans
inovirus
Japanese encephalitis virus
Klebsiella
Klebsiella aerogenes
Klebsiella oxytoca
Klebsiella ozaenae
Klebsiella pneumoniae
Kluyvera
Kluyvera ascorbata
Lactobacillus
Lactobacillus acidophilus
Lactobacillus casei
Lactobacillus gallinarum
Lactobacillus mali
Lactobacillus mucosae
Lactobacillus psittaci
Lactobacillus salivarius
lactobacillus species (lower case preferred)
Legionella
Legionella pneumophila
Leptospira
Leuconostoc
Leuconostoc lactis
Listeria
Listeria monocytogenes
measles virus
methicillin-resistant Staphylococcus aureus
methicillin-sensitive Staphylococcus aureus
Micrococcus
Micrococcus luteus
Microsporum
Microsporum canis
Molluscum contagiosum virus
Monilia
Moraxella
Moraxella bovis
Moraxella canis
Moraxella catarrhalis
Moraxella cuniculi
Morbillivirus
Morganella
Morganella morganii
MRSA (methicillin-resistant Staphylococcus aureus)
mumps virus
Mycobacterium
Mycobacterium abscessus
Mycobacterium agri
Mycobacterium alvei
Mycobacterium avium
Mycobacterium avium-intracellulare
Mycobacterium avium complex
Mycobacterium bovis
Mycobacterium chelonae
Mycobacterium fortuitum
Mycobacterium gallinarum
Mycobacterium gordonae
Mycobacterium immunogen
Mycobacterium intracellulare
Mycobacterium kansasii
Mycobacterium lactis
Mycobacterium malmoense
Mycobacterium marinum
Mycobacterium septicum
Mycobacterium tuberculosis
Mycoplasma
Mycoplasma agalactiae
Mycoplasma auris
Mycoplasma bovis
Mycoplasma buccale
Mycoplasma canis
Mycoplasma collis
Mycoplasma conjunctivae
Mycoplasma faucium
Mycoplasma gallinarum
Mycoplasma hominis
Mycoplasma mobile
Mycoplasma muris
Mycoplasma mycoides
Mycoplasma pneumoniae
Mycoplasma pneumophila
Mycoplasma putrefaciens
Myxoma virus
Neisseria
Neisseria canis
Neisseria gonorrhoeae
Neisseria meningitidis
Neisseria sicca
Neotyphodium
Nocardia
Nocardia abscessus
Nocardia asteroides
Nocardia nova
Oligella
Oligella ureolytica
Oligella urethralis
orphan virus
Paecilomyces
Pantoea
papillomavirus
parvovirus B19
Pasteurella
Pasteurella canis
Pasteurella gallinarum
Pasteurella multocida
Peptostreptococcus
Peptostreptococcus asaccharolyticus
Peptostreptococcus lacrimalis
Peptostreptococcus micros
Peptostreptococcus octavius
Peptostreptococcus vaginalis
Phascolarctobacterium
Phascolarctobacterium faecium
Plesiomonas
pneumococcus (Staphylococcus pneumoniae)
Pneumocystis
Pneumocystis carinii
Propionibacterium
Propionibacterium acnes
Propionibacterium granulosum
Proteus
Proteus mirabilis
Proteus mirabilis, Cipro-sensitive
Proteus penneri
proteus species (lower case preferred)
Proteus vulgaris
Providencia
Providencia rettgeri
Providencia stuartii
Pseudallescheria
Pseudallescheria boydii
Pseudaminobacter
Pseudomonas
Pseudomonas aeruginosa
Pseudomonas alcaligenes
Pseudomonas borealis
Pseudomonas fluorescens
Pseudomonas marginalis
Pseudomonas oryzihabitans
Pseudomonas putida
Pseudomonas stutzeri
Pyrenochaeta
Pyrenochaeta terrestris
rabies virus
respiratory syncytial virus
Reston Ebola virus
Reticuloendotheliosis virus
retrovirus
rhinovirus
Rhizopus
Rickettsia
Rickettsia typhi
Rickettsiales
rotavirus
Rothia
Rothia dentocariosa
Rous sarcoma virus
RSV (respiratory syncytial virus)
rubella virus
S. aureus (Staphylococcus aureus)
Saccharomyces
Saccharomyces cerevisiae
Saccharomyces fragilis
Salmonella
salmonella and shigella
Sarcina
Sarcina ventriculi
Scedosporium
Sendai virus
Serratia
Serratia fonticola
Serratia liquefaciens
Serratia marcescens
Shigella
Shigella boydii
Shigella sonnei
Sida golden mosaic virus
simian immunodeficiency virus
Spirillum
Spirulina
Sporobolomyces
Sporothrix
Sporothrix schenckii
ssDNA viruses
St. Louis encephalitis virus (or Saint)
Stachybotrys
Stachybotrys atra
Staph aureus (Staphylococcus aureus)
Staph epi (Staphylococcus epidermidis)
Staph epidermidis (Staphylococcus epidermidis)
staphylococci
Staphylococcus
Staphylococcus arlettae
Staphylococcus aureus
Staphylococcus aureus resistant to Cipro
Staphylococcus aureus, Cipro-sensitive
Staphylococcus aureus, methicillin-resistant
Staphylococcus auricularis
Staphylococcus capitis
staphylococcus coagulase negative
Staphylococcus epidermidis
Staphylococcus gallinarum
Staphylococcus haemolyticus
Staphylococcus hominis
Staphylococcus intermedius
Staphylococcus lentus
Staphylococcus lugdunensis
Staphylococcus mutans
Staphylococcus saprophyticus
Staphylococcus sciuri
Staphylococcus simulans
staphylococcus species (lower case preferred)
Staphylococcus warneri
Staphylococcus xylosus
Stenotrophomonas
Stenotrophomonas maltophilia
strep A (streptococcus)
strep B (streptococcus)
strep group A (streptococcus)
strep group B (streptococcus)
Strep viridans (Streptococcus)
streptococci
Streptococcus
Streptococcus agalactiae
Streptococcus bovis
Streptococcus canis
Streptococcus didelphis
Streptococcus entericus
Streptococcus faecalis
streptococcus group A
streptococcus group B
streptococcus group D
Streptococcus milleri
Streptococcus mitis
Streptococcus mutans
Streptococcus oralis
Streptococcus pleomorphus
Streptococcus pneumoniae
Streptococcus pyogenes
Streptococcus salivarius
streptococcus species (lower case preferred)
Streptococcus vestibularis
Streptococcus viridans
Torulopsis
Torulopsis glabrata
Treponema
Treponema pallidum
Trichophyton
Trichophyton rubrum
Ureaplasma
Ureaplasma urealyticum
Vaccinia virus
vancomycin-resistant enterococci
vancomycin-resistant enterococcus
varicella virus
variola virus
Vibrio
Vibrio lentus
Vibrio vulnificus
virus
viruses
West Nile virus
western equine encephalitis virus
Xanthomonas
Xanthomonas maltophilia
yellow fever virus
Yersinia
Yersinia enterocolitica
Yersinia intermedia
Yersinia pestis

Additional links that may be useful are:
NAL Agricultural Thesaurus 2002
List of Bacterial Names with Standing in Nomenclature
DSMZ
Index of Viruses
A D I O S


Copyright Will Sandberg 2003