Table 3.
Repeat motif, chromosome locations and locus variability of 24 Conserved Avian Microsatellite ( CAM ) loci
| Marker | Repeat motif type in ZF and CH β | Details of repeat motif in zebra finch and chicken β | Chr. location | Sp. typed | n | #A | Exp. length in ZF or CH (bp)^ | Minimum expected allele size in ZF or CH (bp)^ | Obs. allele size range in ZF or CH (bp) |
|---|---|---|---|---|---|---|---|---|---|
| CAM-01 |
CA |
ZF: (A)3 (CA)18 |
Tgu2: 42810182 |
ZF: |
12 |
6 |
323 |
284 |
306 – 345 |
| |
|
CH: (A)3 (CA)13 |
Gga2: 67828480 |
CH: |
4 |
2 |
323 |
294 |
323, 325 |
| CAM-02 |
CA |
ZF: (CA)16 |
Tgu7: 12381541 |
ZF: |
11 |
9 |
373 |
341 |
365 – 389 |
| |
|
CH: (CA)10 CG (CA)9 |
Gga7: 22132454 |
CH: |
4 |
1 |
350 |
310 |
346 |
| CAM-03 |
TG |
ZF: [(TG)5TC]2 (TG)3TC (TG)27 |
Tgu7: 9747717 |
ZF: |
12 |
11 |
209 |
123 |
168 – 269 |
| |
|
CH: (GA)2 CCTCCTC (TG)5 (TA)2 (TG)14 |
Gga7: 24391832 |
CH: |
4 |
2 |
(164) |
(111) |
153, 163 |
| CAM-04 |
GA |
ZF: (GA)11 |
Tgu1: 34220431 |
ZF: |
12 |
3 |
283 |
261 |
278 – 284 |
| |
|
CH: (GA)11 |
Gga1: 133721521 |
CH: |
4 |
1 |
(275) |
(253) |
275 |
| CAM-05 |
CA |
ZF: (CA)17 |
Tgu1A: 45129155 |
ZF: |
7 |
6 |
216 |
182 |
206 – 223 |
| |
|
CH: (CA)3 GACATA (CA)12 (C)4 GGCCG (A)13 CAACC (A)14 C(G)4 (A)7 |
Gga1: 47660443 |
CH: |
4 |
2 |
(198) |
(109) |
194, 197 |
| CAM-06 |
AT |
ZF: (AT)4 GT (AT)8 TTATGT (AT)7 |
Tgu1A: 49994076 |
ZF: |
8 |
5 |
284 |
190 |
283 – 295 |
| |
|
CH: (AT)11 (W)4 G (TA)6 (W)13 G(T)3 |
Gga1: 52304006 |
CH: |
4 |
1 |
278 |
190 |
278 |
| CAM-07 |
CT |
ZF: (CT)3 CC (CT)17 |
Tgu1A: 51267786 |
ZF: |
12 |
6 |
234 |
153 |
233 – 265 |
| |
|
CH: (CT)6 CC (CT)11 |
Gga1: 53412026 |
CH: |
3 |
1 |
234 |
166 |
235 |
| CAM-08 |
TA |
ZF: (T)6 (TA)9 AA (TA)6 |
Tgu10: 3390752 |
ZF: |
12 |
1 |
224 |
157 |
220 |
| |
|
CH: (T)5 (TA)8 AA (TA)6 |
Gga10: 516461 |
CH: |
4 |
1 |
(221) |
(186) |
219 |
| CAM-09 |
GT |
ZF: (GT)11 |
Tgu4A: 8999969 |
ZF: |
11 |
8 |
325 |
303 |
314 – 324 |
| |
|
CH: (GT)14 |
Gga4: 17039238 |
CH: |
4 |
(2) € |
(324) |
(294) |
(166, 193) € |
| CAM-10 |
GT |
ZF: (GT)22 |
Tgu13: 16024201 |
ZF: |
11 |
8 |
201 |
157 |
183 – 210 |
| |
|
CH: (GT)15 |
Gga13: 1070809 |
CH: |
2 |
1 |
(183) |
(153) |
186 |
| CAM-11 |
GT |
ZF: (GT)23 |
TguZ: 39096210 |
ZF: |
12 |
6 |
147 |
101 |
145 – 157 |
| |
|
CH: (GT)11 |
GgaZ: 7888318 |
CH: |
4 |
1 |
123 |
101 |
117 |
| CAM-12 |
CA |
ZF: (CA)20 |
Tgu2: 70094313 |
ZF: |
12 |
9 |
370 |
330 |
371 – 433 |
| |
|
CH: (CA)2 GA (CA)2 CGCGTG (CA)2 CG (CA)3 TA (CA)13 |
Gga2: 62785492 |
CH: |
3 |
2 |
(346) |
(290) |
346, 348 |
| CAM-13 |
TC |
ZF: (A)26 G(A)3 G(A)4 G(A)5 G(A)3 G(A)5 GCAAC (TG)2 (TC)6 TT (TC)12 C(T)10 |
Tgu6: 26899281 |
ZF: |
12 |
7 |
233 |
106 |
225 – 232 |
| |
|
CH: (TC)5 T (TC)16 (C)4 (T)13 |
Gga6: 28449965 |
CH: |
4 |
1 |
229 |
101 |
223 |
| CAM-14 |
CA |
ZF: (CA)24 TG (CA)6 |
Tgu9: 5387194 |
ZF: |
12 |
8 |
365 |
136 |
346 – 377 |
| |
|
CH: (CA)13 |
Gga9: 5323789 |
CH: |
4 |
2 |
353 |
327 |
352, 354 |
| CAM-15 |
GA |
ZF: (GA)13 |
Tgu1A: 61859791 |
ZF: |
12 |
3 |
266 |
240 |
260 – 266 |
| |
|
CH: (GA)7 GG (GA)2 GG (GA)13 |
Gga1: 73032096 |
CH: |
4 |
2 |
(273) |
(178) |
247, 249 |
| CAM-16 |
CA |
ZF: (CA)16 |
Tgu17: 4369074 |
ZF: |
11 |
5 |
290 |
258 |
287 – 301 |
| |
|
CH: (CA)15 |
Gga17: 4598995 |
CH: |
3 |
1 |
(310) |
(280) |
301 |
| CAM-17 |
TG |
ZF: (T)9 G(GT)4 CC (TG )2 (TC)3 (TG)12 |
Tgu3: 2816652 |
ZF: |
12 |
6 |
209 |
132 |
205 – 218 |
| |
|
CH: (T)3 (TG)14 (CG)4 (TG)2 CGG (TG)4 |
Gga3: 10551236 |
CH: |
3 |
2 |
207 |
153 |
204, 208 |
| CAM-18 |
TA & TG |
ZF: (TA)11 T(TA)5 (TG)7 & (AT)6 |
Tgu3: 31630754 |
ZF: |
12 |
6 |
342 |
159 |
336 – 348 |
| |
|
CH: (TA)10 T (TA)5 (TG)11 & (TA)4 |
Gga3: 31888225 |
CH: |
2 |
1 |
347 |
185 |
348 |
| CAM-19 |
GT |
ZF: (GA)3 (GT)6 TT (GT)9 |
Tgu1: 112898014 |
ZF: |
12 |
6 |
231 |
180 |
227 – 248 |
| |
|
CH: (T)3 (GT)20 |
Gga1: 199733800 |
CH: |
4 |
1 |
228 |
156 |
227 |
| CAM-20 |
AT |
ZF: (AT)5 TT (AT)11 & (A)12 G(A)7 |
Tgu24: 5214087 |
ZF: |
12 |
6 |
194 |
61 |
185 – 193 |
| |
|
CH: (AT)3 AA (AT)9 & (AT)5 & (A)14 |
Gga24: 2939427 |
CH: |
2 |
1 |
187 |
75 |
182 |
| CAM-21 |
TG |
ZF: (TG)13 |
Tgu2: 2028140 |
ZF: |
12 |
4 |
277 |
251 |
265 – 274 |
| |
|
CH: (TG)12 |
Gga2: 2408229 |
CH: |
4 |
1 |
(287) |
(263) |
287 |
| CAM-22 |
GT |
ZF: (A)8 &(GT)13 |
Tgu18: 10770012 |
ZF: |
12 |
5 |
137 |
95 |
134 – 152 |
| |
|
CH: (A)5 & (A)6 &(GT)12 |
Gga18: 6214289 |
CH: |
4 |
2 |
(134) |
(88) |
126, 131 |
| CAM-23 |
TG |
ZF: (TG)18 (AG)5 GC (AG)3 |
Tgu6: 30010998 |
ZF: |
12 |
5 |
147 |
93 |
140 – 151 |
| |
|
CH: (TG)5 TC (TG)11 TT (AG)9 |
Gga6: 31243934 |
CH: |
4 |
1 |
(147) |
(93) |
149 |
| CAM-24 |
CA |
ZF: (CA)3 (CG)2 (CA)13 |
Tgu1A: 1456627 |
ZF: |
12 |
6 |
119 |
86 |
111 – 125 |
| CH: (GA)4 (CA)2 CG (CA)2 CG CACT (CA)15 | Gga1: 2092872 | CH: | 4 | 1 | 121 | 67 | 111 |
bp, base pairs
ZF, zebra finch Taeniopygia guttata;
CH, chicken Gallus gallus;
β, The repeats shown in bold indicate those possessing the longest string of uninterrupted dinucleotide repeats;
Sp, species;
Exp. length in ZF or CH (bp), expected PCR product size based on the pure zebra finch (ZF) or pure chicken sequence (CH);
^, those expected allele sizes in parentheses assume that a product is amplified in spite of the additional mismatches between the primer bases and the chicken genome.
Minimum expected allele size in ZF or CH (bp), is based on the same sequences as above but after the deletion of the repeat region and repeat-like regions;
n, number of individuals genotyped (of species stated);
#A, number of alleles observed in the individuals genotyped;
€, same two alleles amplified in all individuals. Based on difference between the expected and observed allele sizes we suspected a different locus is amplifying in chicken;