list of human microbiota list of human microbiota this article lists some of the species recognized as belonging to the human microbiome. bacteroides spp. anaerobically cultured in blood agar medium yersinia enterocolitica colonies growing on xld agar plates whole-body distributed acinetobacter calcoaceticus burkholderia cepacia peptostreptococcus spp pseudomonas pseudoalcaligenes natural cavities eubacterium spp fusobacterium necrophorum microbacterium spp skin main article: skin flora staphylococcus aureus acinetobacter spp bacillus spp candida albicans candida parapsilosis corynebacterium parvum corynebacterium spp cutibacterium acnes demodex folliculorum enterobacter cloacae epidermophyton floccosum malassezia ovale micrococcus luteus micrococcus spp mycobacterium spp neisseria spp peptostreptococcus spp propionibacterium spp pseudomonas aeruginosa sarcina spp staphylococcus aureus staphylococcus epidermidis staphylococcus haemolyticus streptococcus viridans trichophyton spp hair follicles staphylococcus aureus external ear corynebacterium spp staphylococcus aureus staphylococcus epidermidis mucous membranes chlamydia trachomatis hemophilus influenzae staphylococcus aureus staphylococcus epidermidis eye chlamydophila pneumoniae haemophilus aegyptius haemophilus influenzae moraxella spp neisseria spp staphylococcus aureus staphylococcus epidermidis streptococcus viridans gastrointestinal tract main article: gut microbiota escherichia coli binomial namelocation achromobacter spp large intestine, small intestine (ileon) acidaminococcus fermentans large intestine acinetobacter calcoaceticus large intestine actinomyces spp mouth, small and large intestine actinomyces viscosus mouth actinomyces naeslundii mouth aeromonas spp large intestine, small intestine (ileon) aggregatibacter actinomycetemcomitans mouth anaerobiospirillum spp feces alcaligenes faecalis large intestine, small intestine (ileon) arachnia propionica mouth bacillus spp large intestine bacteroides spp mouth, gi tract bacteroides gingivalis mouth bacteroides fragilis general distribution bacteroides intermedius mouth bacteroides melaninogenicus mouth, feces bacteroides pneumosintes pharynx bacterionema matruchotii (corynebacterium matruchotii, new combination 1983 ijsb 33:438) gingiva bifidobacterium spp large intestine, feces buchnera aphidicola mouth butyriviberio fibrosolvens large intestine campylobacter spp large intestine campylobacter coli general distribution campylobacter sputorum mouth campylobacter upsaliensis mouth candida albicans mouth capnocytophaga spp mouth clostridium spp large intestine, small intestine (ileon) citrobacter freundii sputum clostridium difficile large intestine clostridium sordellii stomach, small intestine, large intestine, rectus, anus channel corynebacterium spp mouth cutibacterium acnes general distribution eikenella corrodens general distribution, mouth enterobacter cloacae general distribution enterococcus spp mouth, gi tract enterococcus faecalis general distribution enterococcus faecium general distribution escherichia coli general distribution eubacterium spp mouth, gi tract faecalibacterium spp large intestine, small intestine (ileon) flavobacterium spp large intestine, small intestine (ileon) fusobacterium spp mouth, gi tract fusobacterium nucleatum mouth gordonia spp sputum haemophilus parainfluenzae mouth haemophilus paraphrophilus mouth lactobacillus spp mouth, saliva, gi tract (known probiotic) leptotrichia buccalis mouth methanobrevibacter smithii intestines morganella morganii feces mycobacteria spp large intestine, small intestine (ileon) mycoplasma spp large intestine, small intestine (ileon) micrococcus spp mouth mycoplasma spp mouth mycobacterium chelonae sputum neisseria spp mouth neisseria sicca saliva, sputum peptococcus spp mouth, large intestine peptostreptococcus spp mouth, gi tract plesiomonas shigelloides general distribution porphyromonas gingivalis mouth propionibacterium spp large intestine providencia spp feces pseudomonas aeruginosa large intestine, small intestine (ileon) roseburia spp large intestine rothia dentocariosa mouth ruminococcus spp cecum, large intestine ruminococcus bromii large intestine sarcina spp large intestine staphylococcus aureus mouth, large intestine, small intestine (ileon) staphylococcus epidermidis mouth streptococcus anginosus general distribution streptococcus mutans teeth: dental plaque streptococcus oralis teeth: dental plaque streptococcus pneumoniae nasopharynx streptococcus sobrinus teeth: dental plaque streptococcus viridans mouth, large intestine, small intestine (ileon) torulopsis glabrata mouth treponema denticola mouth treponema refringens mouth veillonella spp mouth, large intestine vibrio spp large intestine, small intestine (ileon) vibrio sputorum mouth wolinella succinogenes mouth yersinia enterocolitica large intestine respiratory tract further information: lung microbiome color-enhanced scanning electron micrograph showing salmonella typhimurium (red) invading cultured human cells binomial namelocation acinetobacter spp nasopharynx burkholderia cepacia complex lung campylobacter sputorum nasopharynx candida albicans pharynx cardiobacterium spp nose chlamydophila pneumoniae lung citrobacter freundii throat eikenella corrodens general distribution haemophilus spp nasopharynx haemophilus parainfluenzae pharynx haemophilus paraphrophilus pharynx kingella spp upper respiratory tract kingella kingae upper respiratory tract moraxella spp nasopharynx moraxella catarrhalis nasopharynx mycoplasma orale oropharynx mycoplasma pneumoniae respiratory epithelium neisseria spp nasopharynx neisseria cinerea nasopharynx neisseria elongata pharynx neisseria gonorrhoeae pharynx neisseria lactamica nasopharynx neisseria meningitidis nasopharynx neisseria mucosa nasopharynx neisseria sicca nasopharynx peptococcus spp upper respiratory tract peptostreptococcus spp pharynx pseudomonas aeruginosa lung selenomonas sputigena nasopharynx staphylococcus aureus nose streptobacillus spp throat, nasopharynx streptococcus constellatus oropharynx streptococcus intermedius oropharynx streptococcus mitis general distribution streptococcus pyogenes upper respiratory tract streptococcus viridans pharynx urogenital tract binomial namelocation acinetobacter spp anterior urethra bacteroides spp external genitalia candida albicans anterior urethra, external genitalia corynebacterium spp anterior urethra, external genitalia enterobacteriaceae anterior urethra, external genitalia streptococcus viridans anterior urethra, external genitalia eikenella corrodens general distribution streptococcus anginosus general distribution staphylococcus aureus perineum vagina further information: list of microbiota species of the lower reproductive tract of women further information: list of bacterial vaginosis microbiota the vaginal microbiota in pregnancy varies markedly during the entire time of gestation. the species and diversity of the microorganisms may be related to the various levels of hormones during pregnancy. placenta further information: placental microbiome uterus the healthy uterine microbiome has been identified and over 278 genera have been sequenced. ovarian follicle the ovarian follicle microbiome has been studied using standard culturing techniques. it has been associated with the outcomes of assisted reproductive technologies and birth outcomes. positive outcomes are related to the presence of lactobacilli spp while the presence of propionibacterium and actinomyces were related to negative outcomes. the microbiome can vary from one ovary to the other. studies are ongoing in the further identification of those bacteria present. male reproductive tract the microbiome present in seminal fluid has been evaluated. using traditional culturing techniques the microbiome differs between men who have acute prostatitis and those who have chronic prostatitis. identification of the seminal fluid microbiome has become one of the diagnostic tools used in treating infertility in men that do not display symptoms of infection or disease. the taxa pseudomonas, lactobacillus, and prevotella display a negative effect on the quality of sperm. the presence of lactobacillus spp in semen samples is associated with a very high normal sperm count.