| algeria | | enterocytozoon bieneusi | species | 18 | 0 |
| argentina | | enterocytozoon bieneusi | species | 6 | 0 |
| australia | | enterocytozoon bieneusi | species | 29 | 0 |
| australia | new south wales | enterocytozoon bieneusi | species | 4 | 1 |
| australia | tasmania | enterocytozoon bieneusi h348 | no rank | 2 | 0 |
| austria | | enterocytozoon bieneusi | species | 6 | 0 |
| bangladesh | | enterocytozoon bieneusi | species | 19 | 0 |
| brazil | | enterocytozoon bieneusi | species | 78 | 0 |
| brazil | minas gerais | enterocytozoon bieneusi | species | 0 | 2 |
| brazil | rio de janeiro | enterocytozoon bieneusi | species | 0 | 3 |
| cameroon | | enterocytozoon bieneusi | species | 7 | 0 |
| cameroon | centre region | enterocytozoon bieneusi | species | 0 | 1 |
| central african republic | | enterocytozoon bieneusi | species | 8 | 0 |
| central african republic | sangha-mbaere | enterocytozoon bieneusi | species | 0 | 1 |
| china | | enterocytozoon bieneusi | species | 2885 | 0 |
| china | | enterocytozoon hepatopenaei | species | 6 | 0 |
| china | | enterocytozoon sp. | species | 4 | 0 |
| china | anhui | enterocytozoon bieneusi | species | 4 | 0 |
| china | beijing | enterocytozoon bieneusi | species | 0 | 3 |
| china | chongqing | enterocytozoon bieneusi | species | 6 | 0 |
| china | gansu | enterocytozoon bieneusi | species | 0 | 1 |
| china | guangdong | enterocytozoon bieneusi | species | 0 | 1 |
| china | guangxi | enterocytozoon bieneusi | species | 5 | 3 |
| china | guizhou | enterocytozoon bieneusi | species | 2 | 0 |
| china | hainan | enterocytozoon bieneusi | species | 12 | 0 |
| china | hebei | enterocytozoon bieneusi | species | 0 | 1 |
| china | heilongjiang | enterocytozoon bieneusi | species | 2 | 9 |
| china | henan | enterocytozoon bieneusi | species | 34 | 11 |
| china | hubei | enterocytozoon bieneusi | species | 0 | 1 |
| china | inner mongolia | enterocytozoon bieneusi | species | 0 | 2 |
| china | jiangsu | enterocytozoon bieneusi | species | 0 | 1 |
| china | jiangsu | enterocytozoon hepatopenaei | species | 26 | 0 |
| china | jilin | enterocytozoon bieneusi | species | 20 | 6 |
| china | liaoning | enterocytozoon bieneusi | species | 0 | 2 |
| china | ningxia | enterocytozoon bieneusi | species | 0 | 1 |
| china | qinghai | enterocytozoon bieneusi | species | 0 | 1 |
| china | shaanxi | enterocytozoon bieneusi | species | 131 | 2 |
| china | shandong | enterocytozoon bieneusi | species | 14 | 1 |
| china | shanghai shi | enterocytozoon bieneusi | species | 0 | 4 |
| china | shanxi | enterocytozoon bieneusi | species | 30 | 0 |
| china | sichuan | enterocytozoon bieneusi | species | 43 | 2 |
| china | xinjiang | enterocytozoon bieneusi | species | 34 | 2 |
| china | yunnan | enterocytozoon bieneusi | species | 45 | 1 |
| colombia | | enterocytozoon bieneusi | species | 4 | 0 |
| colombia | antioquia department | enterocytozoon bieneusi | species | 0 | 1 |
| colombia | captial district | enterocytozoon bieneusi | species | 0 | 2 |
| czech republic | | enterocytozoon bieneusi | species | 35 | 0 |
| democratic republic of the congo | | enterocytozoon bieneusi | species | 1 | 0 |
| democratic republic of the congo | kinshasa city | enterocytozoon bieneusi | species | 0 | 2 |
| ecuador | | enterocytozoon hepatopenaei | species | 19 | 0 |
| egypt | | enterocytozoon bieneusi | species | 2 | 0 |
| ethiopia | | enterocytozoon bieneusi | species | 27 | 0 |
| ethiopia | addis ababa | enterocytozoon bieneusi | species | 0 | 2 |
| france | | enterocytozoon bieneusi | species | 45 | 0 |
| france | ile-de-france region | enterocytozoon bieneusi | species | 0 | 1 |
| gabon | | enterocytozoon bieneusi | species | 7 | 0 |
| germany | | enterocytozoon bieneusi | species | 7 | 0 |
| germany | | enterocytozoon hepatopenaei | species | 2 | 0 |
| germany | berlin | enterocytozoon bieneusi | species | 0 | 1 |
| guatemala | guatemala department | enterocytozoon bieneusi | species | 0 | 1 |
| honduras | | enterocytozoon hepatopenaei | species | 1 | 0 |
| india | | enterocytozoon bieneusi | species | 75 | 0 |
| india | | enterocytozoon hepatopenaei | species | 44 | 0 |
| india | andhra pradesh | enterocytozoon hepatopenaei | species | 0 | 2 |
| india | odisha | enterocytozoon hepatopenaei | species | 0 | 1 |
| india | tamil nadu | enterocytozoon hepatopenaei | species | 4 | 1 |
| indonesia | | enterocytozoon bieneusi | species | 1 | 0 |
| indonesia | | enterocytozoon hepatopenaei | species | 3 | 0 |
| indonesia | south sulawesi province | enterocytozoon bieneusi | species | 1 | 0 |
| iran | | enterocytozoon bieneusi | species | 123 | 0 |
| iran | | enterocytozoon sp. | species | 89 | 0 |
| iran | east azerbaijan province | enterocytozoon bieneusi | species | 1 | 0 |
| iran | fars province | enterocytozoon bieneusi | species | 7 | 0 |
| iran | tehran province | enterocytozoon bieneusi | species | 0 | 1 |
| ivory coast | | enterocytozoon bieneusi | species | 1 | 0 |
| japan | | enterocytozoon bieneusi | species | 1 | 0 |
| japan | kanagawa prefecture | enterocytozoon bieneusi | species | 1 | 0 |
| japan | osaka prefecture | enterocytozoon bieneusi | species | 10 | 0 |
| kenya | | enterocytozoon bieneusi | species | 26 | 0 |
| malawi | | enterocytozoon bieneusi | species | 6 | 0 |
| malaysia | | enterocytozoon bieneusi | species | 56 | 0 |
| malaysia | | enterocytozoon hepatopenaei | species | 3 | 0 |
| malaysia | pahang | enterocytozoon bieneusi | species | 0 | 1 |
| maldives | | enterocytozoon bieneusi | species | 0 | 1 |
| mali | bamako region | enterocytozoon bieneusi | species | 0 | 2 |
| mozambique | | enterocytozoon bieneusi | species | 4 | 0 |
| netherlands | | enterocytozoon bieneusi | species | 3 | 0 |
| netherlands | north holland province | enterocytozoon bieneusi | species | 0 | 2 |
| niger | | enterocytozoon bieneusi | species | 1 | 0 |
| niger | niamey region | enterocytozoon bieneusi | species | 0 | 2 |
| nigeria | | enterocytozoon bieneusi | species | 95 | 0 |
| nigeria | kaduna | enterocytozoon bieneusi | species | 0 | 1 |
| nigeria | lagos | enterocytozoon bieneusi | species | 0 | 2 |
| peru | | enterocytozoon bieneusi | species | 328 | 0 |
| peru | lima region | enterocytozoon bieneusi | species | 0 | 2 |
| peru | lima region | enterocytozoon bieneusi | species | 0 | 2 |
| poland | | enterocytozoon bieneusi | species | 34 | 0 |
| portugal | | enterocytozoon bieneusi | species | 3 | 0 |
| russia | saint petersburg | enterocytozoon bieneusi | species | 0 | 2 |
| rwanda | | enterocytozoon bieneusi | species | 9 | 0 |
| slovakia | | enterocytozoon bieneusi | species | 8 | 0 |
| south africa | limpopo province | enterocytozoon bieneusi | species | 0 | 1 |
| south korea | | enterocytozoon bieneusi | species | 30 | 0 |
| south korea | | enterocytozoon hepatopenaei | species | 7 | 0 |
| spain | | enterocytozoon bieneusi | species | 40 | 0 |
| spain | canary islands | enterocytozoon bieneusi | species | 0 | 1 |
| spain | galicia | enterocytozoon bieneusi | species | 0 | 1 |
| spain | madrid | enterocytozoon bieneusi | species | 0 | 2 |
| spain | murcia | enterocytozoon bieneusi | species | 0 | 1 |
| sweden | | enterocytozoon bieneusi | species | 3 | 0 |
| thailand | | enterocytozoon bieneusi | species | 48 | 0 |
| thailand | | enterocytozoon hepatopenaei | species | 63 | 0 |
| thailand | bangkok | enterocytozoon bieneusi | species | 20 | 3 |
| thailand | phra nakhon si ayutthaya province | enterocytozoon bieneusi | species | 0 | 3 |
| tunisia | | enterocytozoon bieneusi | species | 4 | 0 |
| turkey | | enterocytozoon bieneusi | species | 40 | 0 |
| turkey | samsun province | enterocytozoon bieneusi | species | 3 | 0 |
| uganda | | enterocytozoon bieneusi | species | 1 | 0 |
| united arab emirates | | enterocytozoon bieneusi | species | 2 | 0 |
| united arab emirates | abu dhabi | enterocytozoon bieneusi | species | 0 | 1 |
| united kingdom | | enterocytozoon bieneusi | species | 2 | 0 |
| united kingdom | england | enterocytozoon bieneusi | species | 0 | 2 |
| united states | | enterocytozoon bieneusi | species | 39 | 0 |
| united states | florida | enterocytozoon bieneusi | species | 0 | 7 |
| united states | maryland | enterocytozoon bieneusi | species | 0 | 9 |
| united states | massachusetts | enterocytozoon bieneusi | species | 9 | 2 |
| united states | michigan | enterocytozoon bieneusi | species | 0 | 1 |
| united states | new york | enterocytozoon bieneusi | species | 12 | 6 |
| united states | north carolina | enterocytozoon bieneusi | species | 0 | 5 |
| united states | pennsylvania | enterocytozoon bieneusi | species | 0 | 5 |
| united states | south carolina | enterocytozoon bieneusi | species | 0 | 1 |
| united states | vermont | enterocytozoon bieneusi | species | 0 | 4 |
| united states | virginia | enterocytozoon bieneusi | species | 0 | 5 |
| venezuela | zulia | enterocytozoon bieneusi | species | 0 | 1 |
| vietnam | | enterocytozoon bieneusi | species | 2 | 0 |
| vietnam | | enterocytozoon hepatopenaei | species | 32 | 0 |
| vietnam | ha noi city | enterocytozoon bieneusi | species | 0 | 2 |
| zimbabwe | harare province | enterocytozoon bieneusi | species | 0 | 2 |