Table 1.

Microsatellite markers tested in this study and polymorphic alleles among seven Plasmodium yoelii isolates and Plasmodium berghei k173

Marker	Forward primer	Reverse primer	Chr.	Size (bp)	Number of alleles
Py1003	5′AAATATAGAAACACCTCTGT3′	5′AAAAGAAATTCTGGTACTATT3′	9	158	4
Py1006-1	5′AGCAAGATGAGTAGCTAC3′	5′CAGAGCTTAAGTAGTTGC3′	6	157	2(0)
Py1015	5′CAATAACTACTTATCCAGC3′	5′AGGAATGGAAGGAATGCT3′	?	119	2(0)
Py1063	5′ATATCCAGCAGAAGGAGA3′	5′TCCATTCCATAAGCTTCC3′	9	127	4*
Py1084	5′GCATATCCAGTGACGCTA3′	5′CAATCGATTTGGGTGCTA3′	13	160	3
Py1121	5′TGTTCTCTGACTACAGCA3′	5′CAACATACAAACATGTACC3′	6	222	2(0)
Py1188	5′ATTATTTCGAGGGATATACT3′	5′CAACAATTGCTGTTGCCA3′	4	185	1(0,0)
Py1193	5′AATGAATAAGGACGTGGTA3′	5′CTTTTCACACTAAGAAATCA3′	?	184	3*
Py1199	5′TTACCTCTGTATAATGGCA3′	5′TTGCATAGATGAAGAAACAT3′	14	156	3
Py1213	5′AGGAGGGAACAATAGGTA3′	5′TTGTCTGATAACATTGAATC3′	11	159	4
Py1308	5′GAAATGAGCGCATTACCA3′	5′CAACTATAGTATGCTTACC3′	2	205	2(0)
Py1331	5′GGTCAATAATTCGGATTCT3′	5′TAGCACGTTGAATCTGGT3′	12	207	2(0)
Py1346	5′ACAGAACCGTCCTTCGAA3′	5′GATGTTACGAGTTGTGGA3′	1	125	3
Py1356	5′TTTACGGTTACTTTGGGCA3′	5′TGTGTATCTAGCTATCTAAT3′	11	165	3
Py1385	5′AGCCAAGCAAGAAACAGA3′	5′TTATGTACTTCTTCTCTGTA3′	9	105	2(0)
Py1414	5′AACAAAACAGGTAGCAACA3′	5′ATCATGGTTTATATTCACAG3′	4	207	2(0)
Py1418-1	5′TTACTGTCTATATATCACGT3′	5′AATAGACGTGCATATGGC3′	11	198	2(0)
Py1432	5′ACCCTTAATTAAAGGAAGC3′	5′AGAGAGAGAAATTGTAATTC3′	11	137	2
Py1481	5′TCATAGGGTAAGAATAAAGT3′	5′TAGTCCATTGTGCAAAGG3′	9	130	1(0,0)
Py1516	5′TTAAAATGTCGTAAAGCAAC3′	5′AAGGGAACATTTCATGTGT3′	1	122	3
Py1535	5′AACGGATCCTGATGGAAA3′	5′ACTGTTTGTGTTACTAATCA3′	9	238	3
Py1556	5′AAGGAATTTTATATTCTCTGA3′	5′GTATATAGCAAGGTTATCG3′	9	165	1(0,0)
Py1615	5′GGACCAAATAAGTCACCA3′	5′CTATTGGATTAGGAATATCT3′	4	140	2(0)
Py1659	5′GAATCACGAAAGCAAAGAA3′	5′CCAAGTTTATATCCTTACTA3′	9	134	3
Py1710	5′GAATAAGTTGATATCTAAGC3′	5′TAGTAATACTACCAAGCGT3′	?	152	2(0)
Py174	5′AATTCAACGCCAATACCAA3′	5′GATCCCAGTAGCATTACA3′	7	104	2(0)
Py1836	5′CTTACTATTCGCAAAGTTG3′	5′ATCTTCTTGTAGGTTTCGA3′	10	172	2(0)
Py1841	5′TGGTAAATCATATGAAGAAC3′	5′CTATTCAAATATGCAGAGAT3′	14	145	3
Py1858	5′GTCAAACAATAAAAACAGAG3′	5′CAAAACTAGCGAATGTTGA3′	13	171	3
Py1861	5′GCATACACATATGTTGAGA3′	5′ACGGATGGAAACATTACAA3′	?	112	3*
Py1873	5′CATTAAACCAACATGGGAT3′	5′GCAAATAAAACAGCTTGTC3′	4	195	2(0)
Py1885-1	5′TGAGCTAAACAAAAAGGCT3′	5′TTCTGTCTCAAGTGTGTC3′	9	115	1(0,0)
Py1902	5′TCGGGATTCCAATACTTG3′	5′TCGAGATTGTGCATGTATT3′	?	222	1(0,0)
Py1914	5′GGAGACCTATAAATAAATAC3′	5′GGAGCAATAGAGAATGTAT3′	1	147	2(0)
Py1925	5′ATTATGTGATCTAGGATACA3′	5′GCTTAGTGGAGAACGTCA3′	6	124	2(0)
Py2081	5′AAGTATCACAATTTGCAAGA3′	5′CTAGAAATGTAGAGAATCTA3′	13	146	3
Py2092	5′CATTTGTAAATCGTAGAAAG3′	5′GGCTTATCAAAAATAAGCAT3′	13	170	3
Py2101	5′TAACACGAGCGCACCAAA3′	5′TTGTATGGACATATTCATCA3′	11	143	3
Py2181	5′ATATTGTGTAAAAGTATTGCT3′	5′AATAAATGTATATGCAATTTGT3′	4	128	2*
Py2246	5′ATTTAGTGTACTTTCGGTG3′	5′TGTTGTTTTTACGCGACAA3′	4	146	3
Py2355	5′GCAAAGCAAATATCAAGGA3′	5′AAAACGTATGTGGGCACA3′	11	192	2(0)
Py2370	5′ATTCATTTGTATATTCCCATT3′	5′TTATCCAACGGTGTTTTATT3′	8	176	2
Py2391	5′ATTGACCTTAGCATAATAGT3′	5′TATCACGAGTTATGAGCAT3′	10	189	1(0,0)
Py2401	5′ATAATGGTAAAATAGAGGGT3′	5′AAAACGGTGAGAATAATGAA3′	13	218	3
Py2423	5′CTTATTCAGACGGAACATT3′	5′GCAAACACTAGTATAGCAT3′	13	135	3*
Py2426	5′TGGGAACCTTAACATGATA3′	5′TCTCATTAATCATATTTGCTA3′	1	142	2(0)
Py2455	5′GAAAATATCGAATGGAGAAA3′	5′GAGAGCTAAACTAAACGC3′	9	125	–
Py2572	5′TGAATTGTAGATTTGGAGTT3′	5′TATATGCATGACCATGCAT3′	10	158	–
Py260	5′TGTACACATTGTGACATGT3′	5′TTCTCTCAATTATGATATACT3′	14	170	2(0)
Py2609	5′CTCATATTTAAGTTTTTCTCT3′	5′TAGGAAGACGATCTCGCT3′	13	183	3
Py2673	5′CGTATACGAATATCCTTCA3′	5′CCAAAGGGAAAGAAACTG3′	2	140	2(0)
Py2742	5′TGCCAAGCAAATTCAGTG3′	5′TAACTGCACACAACATTAG3′	4	164	3
Py279	5′ATGCATGTGTACGCACAT3′	5′TAGGGAATGCATATGCATC3′	13	160	3
Py282	5′ATGAGAGGCACAGAATATT3′	5′ATTGTATACTTAAAATCCCTT3′	10	187	3*
Py2830	5′TTGGGGTTCCATTTTACAT3′	5′TAACAGCGGTCTCGCTAC3′	7	128	3(0)
Py348	5′GTATACGCGCAAAGTGGA3′	5′TCCTGGTTAGCTCTATGA3′	8	171	2(0)
Py353	5′TTGAAGGGGTTGACAGGT3′	5′GAATAAAGATAACTAACTGG3′	14	189	3(0)
Py378	5′CGAATGTTTTCAATCCCTT3′	5′TTCGTATTTGCTATTCATGT3′	2	214	3
Py385	5′TCCAATTCCAAGTGTATAG3′	5′AAATGTGTTAATATGGCGAT3′	2	176	1(0,0)
Py453	5′GGTTGGAACACTAAAACG3′	5′AGCTGGAATTACCGACTG3′	10	89	2(0)
Py455	5′CCAAAACCCCAAAAAATAC3′	5′TGAATTCAATATCCATGCAA3′	?	237	2*(0)
Py468	5′AAAGCAGCACAGTAGCTA3′	5′TGAAAATATAAGCATGGGAA3′	6	94	4
Py477	5′ACTTGATAAATGCGATATGA3′	5′GAATTTCTTTACGTCCACA3′	3	122	3(0)
Py517-2	5′TTCAAACGTGATATCTCATT3′	5′CGATTAATGTGGAAATATGT3′	13	150	4
Py523	5′AACTCTTATGTAATGTATGC3′	5′TCTTAACAAATTTCAAGAGC3′	13	161	3*
Py630	5′TACCCATACGATTTATGCT3′	5′TACTAACATGTACAGTTCAT3′	12	133	1(0,0)
Py658	5′CAATCGATCAATATCTCGA3′	5′GTATCAATCAAAATGTTCAC3′	8	140	2(0)
Py72	5′ATATATGTATCCTTGTATGTT3′	5′ATAACAACATATACAATGTTG3′	8	241	–
Py747	5′AAGACTAAGACGGCTATG3′	5′TTTCCATTAATTGTGTGCAT3′	9	197	–
Py762	5′ACAGGTTGGCTACATCAA3′	5′TAATGCCAATGATAGGCAA3′	9	221	2(0)
Py763	5′AAGAGTAGATAGATGACCA3′	5′TTTATGCTGATAAAGACCAT3′	14	111	1(0,0)
Py826	5′AATGTGCTTCATAAACATGT3′	5′TATACATGTAAAGACGTGTT3′	9	178	3
Py845-3	5′GATGTGAATGGATGCGAA3′	5′ATTACATGACTTGCAACCA3′	3	153	2(0)
Py928	5′TTTTAGATTGACATTAGTCTT3′	5′CGCACACTATATATTACTG3′	11	173	3
Py951	5′TCAAGCATAACACAATAGTA3′	5′TCACTTCCTGAATCAATCA3′	12	149	1(0)
Py952	5′TTGGTCCAAAAATATGTTGT3′	5′TTTTGTATGCACGTGATAG3′	?	173	3
Py984	5′TGGGTATGTCCATCACTT3′	5′TATCCTATGCCTTACTTAC3′	8	189	1(0)

Note: Chr, chromosome; Size, allele sizes in base pairs based on Py-17XNL genome sequence; Number of alleles, numbers of alleles observed among the seven P. yoelii isolates and P. berghei; (0) indicates no product from P. berghei; (0,0), indicates no products from P. berghei and one of the two P. yoelii groups; * indicates more than one allele in one of the parasites when typed with individually labeled primers; ?, chromosomal location could not be determined. Markers in bold were also tested using individually labeled primers; and those underlined were markers that did not produce any PCR products in all cycling protocols.

Chromosome assignment of the markers was based on reference [26].