Table 2 C. parvum subtype families and subtypes identified in Sweden from 2018 to 2022
Subtype family (n) | Subtype (n)1,2 | GenBank acc. no.3 | Comment4,5 |
|---|---|---|---|
IIa (692) | IIaA12G1R1r1 (1) | OR491776 | New subtype 2018 |
IIaA13G1R1 (14) | GU111578 | Only detected in Halland County | |
IIaA13G2R1 (3) | KU852706 | - | |
IIaA13R1 (8) | KU852702 | - | |
IIaA14R1 (25) | JX183797 | Associated with a local outbreak 2022 (n = 4) | |
IIaA14G1R1 (14) | KF128737 | - | |
IIaA14G1R1r1 (14) | KU852703 | Associated with a local outbreak 2022 (n = 2) | |
IIaA15G1R1 (2) | OL598550 | 2018 | |
IIaA15G1R1 (1) | OL598568 | 2019 | |
IIaA15G1R1 (2) | JF727794 | 2021 | |
IIaA15G1R1_variant (5) | KU852704 | 2022 | |
IIaA15G1R1r1_variant (1) | OR491775 | New subtype 2022 | |
IIaA15G2R1 (216) | AF164490 | Associated with a local outbreak in 2022 (n = 2) and a national outbreak in 2022 (n = 107) | |
IIaA16G1R1b (163) | EU647727 | Associated with a local outbreak in 2019 (n = 4) and 2021 (n = 1) | |
IIaA16G1R1b_variant (7) | KT895368 | - | |
IIaA16G2R1 (4) | DQ192505 | - | |
IIaA16G3R1 (1) | DQ192506 | 2018 | |
IIaA17G1R1 (4) | GQ983359 | - | |
IIaA17G1R1c (71) | JX183801 | Associated with a local outbreak in 2020 (n = 7) | |
IIaA17G1R1c_variant (8) | AF403168 | - | |
IIaA17G2R1 (4) | AF164493 | - | |
IIaA17G2R1_variant (1) | OR491772 | New subtype 2020 | |
IIaA17R1 (4) | JX183800 | - | |
IIaA18G1R1b (11) | KF289039 | - | |
IIaA18G1R1b_variant (18) | KT895369 | Associated with a local outbreak in 2021 (n = 3) | |
IIaA18G1R1d (5) | JX183803 | Only detected in Uppsala County | |
IIaA18G2R1 (1) | DQ630515 | 2018 | |
IIaA18G3R1 (1) | DQ192508 | 2019 | |
IIaA18G5R1 (1) | MF142037 | 2019 | |
IIaA18R1 (1) | KU852705 | 2022 | |
IIaA19G1R1 (2) | KC679056 | 2022 | |
IIaA19G2R1 (1) | DQ630514 | 2021 | |
IIaA19R1 (3) | OL598555 | New subtype | |
IIaA20G1R1 (20) | JX183804 | - | |
IIaA20G1R1 (1) | OL598549 | 2018 | |
IIaA20G1R1 (1) | OL598553 | 2019 | |
IIaA20G1R1_variant (1) | OL598567 | New subtype 2019 | |
IIaA20R1 (1) | JQ028867 | 2021 | |
IIaA21G1R1 (27) | FJ917373 | - | |
IIaA21R1 (1) | OL598556 | 2019 | |
IIaA22G1R1 (14) | JX183806 | - | |
IIaA22G1R1 (1) | OL598539 | 2018 | |
IIaA23G1R1 (4) | KC995126 | - | |
IIaA24G1R1 (4) | OR491777 | Only detected in Halland County May in 2019 | |
IIc (4) | IIcA5G3j (1) | HQ005749 | 2022 |
IIcA5G3o (3) | KU670812 | Only detected in Halland County in 2021 | |
IId (663) | IIdA7 (1) | OR491780 | New subtype 2022 |
IIdA16G1 (13) | JX183808 | - | |
IIdA16G1b (9)6 | FJ17372 | - | |
IIdA17G1 (6) | KU852708 | - | |
IIdA18G1 (4) | KU852709 | - | |
IIdA18G1 (2) | EF576975 | - | |
IIdA18G1 (1) | MH796389 | - | |
IIdA19G1 (18) | DQ280496 | Associated with a local outbreak in 2022 (n = 1) | |
IIdA19G1 (4) | OR491778 | - | |
IIdA20G1 (3) | OL598548 | - | |
IIdA20G1b (2) | AY738185 | - | |
IIdA20G1d (1) | AY738186 | 2018 | |
IIdA20G1e (72) | JQ028866 | Associated with a local outbreak in 2019 (n = 2) | |
IIdA21G1 (12) | DQ280497 | - | |
IIdA21G1 (48) | OL598545 | Associated with local outbreaks in 2019 (n = 2), 2020 (n = 4) and 2021 (n = 1) | |
IIdA22G1 (15) | AY166806 | Associated with a local outbreak in 2019 (n = 4) | |
IIdA22G1 (5) | KR349103 | - | |
IIdA22G1 (3) | OR491774 | - | |
IIdA22G1c (211) | FJ917374 | Associated with a national outbreak 2019 (n = 122) and a local outbreak 2022 (n = 2) | |
IIdA23G1 (17) | EU868625 | Associated with a local outbreak in 2021 (n = 12) | |
IIdA23G1 (12) | FJ917376 | - | |
IIdA23G1 (2) | KR349095 | - | |
IIdA23G1 (1) | KP997136 | 2021 | |
IIdA24G1 (160) | JQ028865 | Associated with a national outbreak in 2019 (n = 65) | |
IIdA24G1 (2) | EU549714 | 2018 | |
IIdA24G1c (1) | JX183810 | 2018 | |
IIdA25G1 (23) | JX043492 | - | |
IIdA25G1 (1) | OL598537 | 2018 | |
IIdA26G1b (1) | JX183811 | 2019 | |
IIdA27G1 (7) | OL598546 | Only detected in Östergötland County | |
IIdA27G1_variant (2) | OL598571 | New subtype 2020 | |
IIdA28G1 (4) | OL598551 | New subtype | |
IIe (8) | IIeA11G1 (5) | OL598540 | Only detected in Stockholm County |
IIeA11G1 (1) | OL598561 | 2019 | |
IIeA11G1 (1) | OL598572 | 2022 | |
IIeA14G1 (1) | OR491779 | New subtype 2019 | |
IIl (3) | IIlA16R2 (2) | AM937007 | - |
IIlA17R2 (1) | OL598577 | 2021 | |
IIy7(2) | IIyA23G1R1 (2) | OL598564 | New subtype family |
IIz7(2) | IIzA14R2 (2) | OL598569 | New subtype family |