Table 1 Reconstruction obtained by reduction to ILP for mitochondrial chromosome structures in sporozoan class Aconoidasida. The data in the tree leaves are in the lines marked by (l) after the species name. It was obtained from genomes represented in GenBank

Plasmodium fragile – Babesia bovis

*ls5 ls6 ls2 (L) ss4 ss6 ls7 ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb ls1 (C)

Theileria annulata – Babesia bovis

cox1 *cox3 ls1 *ls3 *cytb *ls5 ls4 (L)

Theileria annulata – Theileria parva

cox1 *cox3 ls1 *ls3 *cytb *ls5 ls4 (L)

Theileria annulata (l)

cox1 *cox3 ls1 *ls3 *cytb *ls5 ls4 (L)

Theileria parva (l)

cox1 *cox3 ls1 *ls3 *ls2 *cytb *ls5 ls4 (L)

Babesia bovis (l)

cox1 *cox3 ls1 *ls2 *ls3 *cytb *ls4 ls5 (L)

Plasmodium fragile – Plasmodium berghei

ss4 ss6 ls7 ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb ls1 (C) ls2 (L)

Plasmodium juxtanucleare – Plasmodium berghei

ls1 ss4 ss6 ls7 ls6 ss3 ls3 ls9 ss2 ls4 ls5 *cox3 ls8 ss5 ss1 cox1 cytb ls2 (L)

Plasmodium juxtanucleare – Leucocytozoon sabrazesi

ls1 ss4 ss6 ls7 ls6 ss3 ls3 ls9 ss2 ls4 ls5 *cox3 ls8 ss5 ss1 cox1 cytb ls2 (L)

Plasmodium juxtanucleare – Plasmodium gallinaceum

ls1 ss4 ss6 ls7 ls6 ss3 ls3 ls9 ss2 ls4 ls5 *cox3 ls8 ss5 ss1 cox1 cytb ls2 (L)

Plasmodium juxtanucleare (l)

ls1 ss4 ss6 ls7 ls6 ss3 ls3 ls9 ss2 ls4 ls5 *cox3 ls8 ss5 ss1 cox1 cytb ls2 (L)

Plasmodium gallinaceum (l)

ls1 ss4 ss6 ls7 ls6 ss3 ls3 ls9 ss2 ls4 ls5 *cox3 ls8 ss5 ss1 cox1 cytb ls2 (L)

Leucocytozoon sabrazesi (l)

ls1 ss4 ss6 ls7 ls6 ss3 ls3 ls9 ss2 ls4 ls5 *cox3 ls8 ss5 ss1 cox1 cytb ls2 (L)

Plasmodium berghei (l)

ls1 ss4 ss6 ls7 ls6 ss3 ls3 ls9 ss2 ls4 ls5 *cox3 ls8 ss5 ss1 cox1 cytb ls2 (L)

Plasmodium fragile – Plasmodium relictum

ss4 ss6 ls7 ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb ls1 (C) ls2 (L)

Plasmodium reichenowi – Plasmodium relictum

ss4 ss6 ls7 ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb ls1 (C) ls2 (L)

Plasmodium floridense – Plasmodium relictum

ls7 ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb ls1 ss6 (C)

Plasmodium floridense (l)

ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb ls1 ss4 ss6 ls7 (L)

Plasmodium relictum (l)

ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb ls1 ss4 ss6 ls7 (C)

Plasmodium reichenowi – Plasmodium mexicanum

ss3 ls3 ls9 ss2 *cox3 ls8 ss5 ss1 cox1 cytb ls1 ss4 ss6 ls7 (L)

Plasmodium reichenowi – Plasmodium falciparum

ss3 ls3 ls9 ss2 *cox3 ls8 ss5 ss1 cox1 cytb ls1 ss4 ss6 ls7 (L)

Plasmodium reichenowi (l)

ss3 ls3 ls9 ss2 *cox3 ls8 ss5 ss1 cox1 cytb ls1 ss4 ss6 ls7 (L)

Plasmodium falciparum (l)

ss3 ls3 ls9 ss2 *cox3 ls8 ss5 ss1 cox1 cytb ls1 ss4 ss6 ls7 (L)

Plasmodium mexicanum (l)

ss3 ls3 ls9 ss2 *cox3 ls8 ss5 ss1 cox1 cytb ls1 ss4 ss6 ls7 (L)

Plasmodium fragile – Plasmodium simium

ss4 ss6 ls7 ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb ls1 (C)

Plasmodium fragile – Leucocytozoon fringillinarum

ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb ls1 ss4 ss6 ls7 (L)

Plasmodium fragile – Plasmodium vivax

ls1 ss6 ls7 ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb (C)

Plasmodium fragile – Plasmodium knowlesi

ls1 ss6 ls7 ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb (C)

Plasmodium fragile – Leucocytozoon majoris

ls1 ss6 ls7 ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb (C)

Plasmodium fragile (l)

ls1 ss6 ls7 ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb (C)

Leucocytozoon majoris (l)

ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb ls1 ss6 ls7 (C)

Plasmodium knowlesi (l)

ls1 ss6 ls7 ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb (C)

Plasmodium vivax (l)

ls1 ss6 ls7 ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb (C)

Leucocytozoon fringillinarum (l)

ss3 ls3 ls9 ss2 ls4 *cox3 ls8 ss5 ss1 cox1 cytb ls1 ss6 ls7 ss4 (C)

Plasmodium simium (l)

ls1 ss6 ls7 ss3 ls3 ls9 ss2 ls4 *cox3 cox1 cytb ls8 ss5 ss1 (C)