Table 2.
Allele and protein variants of Tp5–8 and Tp10 observed in the buffalo- and cattle- derived T. parva stabilates
| Sample ID | Stabilate name | Tp5 | Tp6 | Tp7 | Tp8 | Tp10 | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Allele TP02_0767a | Protein XP_765334 | Allele TP01_0188 | Protein XP_765715 | Allele TP02_0244 | Protein XP_764810 | Allele TP02_0140 | Protein XP_764709 | Allele TP04_0772 | Protein XP_764408 | ||
| Buffalo-derived T. parva | |||||||||||
| BD1 | Mara 3 | 3b | 1 | 13 | 1 | 7 | 2 | 12 | 7 | 11 | 1 |
| BD2 | Mara 4 | 1 | 1 | 3 | 2 | 8.1, 2.1c | 2d | – | – | – | – |
| BD3 | Mara 18 | 1 | 1 | 6 | 1 | 3 | 2 | – | – | 10 | 1 |
| BD4 | Mara 30 | 2*e | 1* | 7 | 1 | 2 | 2 | 2 | 4 | 10.1 | 1 |
| BD5 | Mara 32 | 1* | 1* | 8 | 1 | 7 | 2 | 12 | 7 | 6 | 5 |
| BD6 | Mara 42 | 1 | 1 | 13.1 | 1.1 | 2 | 2 | 11 | 7 | 1 | 1 |
| BD7 | Mara 6998 | 4 | 2 | 1 | 1 | 8 | 2 | 6 | 6 | 12 | 5 |
| BD8 | Mara 6999 | 1 | 1 | 2 | 1 | 7 | 2 | 5 | 6 | 7 | 2 |
| BD9 | Mara 7001 | 1 | 1 | 4 | 1 | 7 | 2 | – | – | 10 | 1 |
| BD10 | Mara 7546 | 1 | 1 | 5 | 1 | 7 | 2 | – | – | 11 | 1 |
| BD14 | Buffalo 7014 | 1 | 1 | 9 | 1 | 8 | 2 | 11 | 7 | 13*e | 1.1, 4.1, 5.1, 6.1*f |
| BD15 | Buffalo 7698 | 3 | 1 | 12 | 1 | 8* | 2* | 4 | 5 | 3 | 4 |
| BD16 | Buffalo 7344 | – | – | 11 | 1 | 8 | 2 | 6 | 6 | – | – |
| BD17 | Mara 41 | – | – | – | – | 5.1 | 2d | 2 | 4 | 10 | 1 |
| BD18 | Buffalo 4740 | – | – | 12.1g | 1 | 2 | 2 | 3 | 3 | 10 | 1 |
| BD19 | Buffalo 5012 | 1* | 1* | 9.1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| BD20 | Buffalo 5489 | – | – | 13 | 1 | 7 | 2 | 7 | 2 | 6 | 1.1, 4.1, 5.1, 6.1f |
| BD21 | Buffalo 6666 | – | – | 13 | 1 | 7 | 2 | 9 | 7 | 5*e | 1.1, 4.1, 5.1, 6.1*f |
| BD22 | Buffalo 6807 | 1* | 1* | – | – | 5 | 2 | 10.1, 11.1 | 6.1, 7.1 | 9*e | 1.1, 4.1, 5.1, 6.1*f |
| BD23 | Buffalo 6818 | 6*e | 1* | 13 | 1 | 8.1 | 2 | 10 | 7 | – | – |
| BD24 | Buffalo 6819 | 5*e | 3*e | 10 | 1 | 9.1g | 3d | 11 | 7 | 8 | 3 |
| BD25 | 6998 cl. 11 | – | – | 11 | 1 | 8 | 2 | 6 | 6 | 11 | 1 |
| BD26 | Buffalo 7065 | – | – | 13* | 1* | 6 | 2 | 11 | 7 | – | – |
| Cattle-derived T. parva | |||||||||||
| CD16 | Tc867 BT 106 | – | – | 1 | 1 | – | – | 1 | 1 | 1 | 1 |
| CD17 | Tc841 IL 57 | – | – | 1 | 1 | 1* | 1* | 1 | 1 | 2 | 6 |
| CD28 | Tc120 F344 | – | – | – | – | 4*e | 1* | 8 | 7 | 4 | 1.1, 4.1, 5.1, 6.1f |
The letters-numbers in this row indicate the reference sequence in the NCBI Genbank.
Newly identified alleles and protein variants are in boldface.
A variant with 0.1 after the variant number indicates a sequence which is identical to the parent variant but has 1–4 unresolved nucleotides which prevents its being regarded as completely identical to the parent allele (e.g. 8 if labelled 8.1, as in BD2, Tp7).
Although the nucleotide sequence had unknown (mixed) nucleotides (i.e. S = C or G, R = A or G, Y = C or T), upon translation, these nucleotides resulted in synonymous protein sequence.
Unique, validated alleles or protein variants obtained from partial sequences which are their own variant.
These sequences were shorter than the rest and could have been any of the variants noted in the table above as these sequence areas were an identical overlap with variants 1, 4, 5 and 6.
Although we were unable to determine if the sequence is novel due to unknown (mixed) nucleotides, the sequence is considered novel due to unique nucleotides in other sequence regions.
Partial sequence as defined by only having either the forward or reverse sequence of the allele available for analysis, if also labelled with *.