Table 1. Pattern of sex linkage of loci on chromosome 4a in great reed warbler, common whitethroat, skylark, goldcrest and blue tit.
| Locus tag (tTgu4a) | Tgu4a (Mb) | Great reed warbler (N=2♂/3♀) | Seq (bp) | Common whitethroat (N=3♂/3♀) | Seq (bp) | Skylark (N=2♂/3♀) | Seq (bp) | Goldcrest (N=2♂/3♀) | Seq (bp) | Blue tit (N=3♂/3♀) | Seq (bp) |
|---|---|---|---|---|---|---|---|---|---|---|---|
| SYTL4 | 0.9 | Z(2)W(7) | 300 | Z(15)W(26) | 304 | Z(3)W(11) | 163 | a (2) | 398 | a (5) | 351 |
| DIAPH2 | 1.6 | Z(5) | 484 | Z(1)W(5) | 73 | Z(3)W(2) | 342 | a (7) | 780 | a (2) | 346 |
| PCDH11X | 2.7 | Z(m)W(4) | 75 | Z(2) | 570 | Z(3) | 563 | m | 564 | a (1) | 566 |
| DACH2 | 4 | Z(1)W(5) | 93 | NA | Z(1)W(4) | 107 | a (5) | 557 | a (4) | 560 | |
| ZNF711 | 4.4 | Z(1)W(4) | 607 | Z(1)W(1) | 631 | Z(5)W(10) | 620 | m | 617 | a (1) | 629 |
| RPS6KA6 | 4.7 | Z(m)W(12) | 223 | Z(1)W(6) | 254 | Z(m)W(10) | 246 | a (6) | 779 | a (8) | 766 |
| ITM2A | 5.3 | NA | Z(1)W(2) | 90 | Z(1)W(8) | 252 | a (4) | 475 | a (5) | 794 | |
| TAF9B | 5.5 | * | Z(25) | 482 | Z(6) | 170 | NA | a (6) | 115 | ||
| P2RY4 | 5.6 | Z(1)W(18) | 481 | W(36) | 482 | Z(4)W(22) | 426 | a (5) | 473 | a (2) | 291 |
| AR | 6.4 | Z(5)W(12) | 455 | Z(m)W(6) | 162 | Z(m)W(2) | 162 | a (4) | 324 | a (1) | 457 |
| ZC3H12B | 6.8 | Z(m)W(8) | 619 | Z(1)W(5) | 619 | Z(m)W(11) | 583 | a (1) | 618 | m | 629 |
| DDX26B | 7 | Z(1)W(4) | 154 | Z(1)W(3) | 78 | Z(1)W(4) | 93 | a (2) | 604 | a (8) | 320 |
| SLC9A6 | 7 | Z(m)W(1) | 29 | Z(4)W(7) | 437 | Z(7) | 860 | a (6) | 487 | a (2) | 827 |
| XP_002190721.1 | 7.9 | Z(m)W(7) | 51 | Z(1)W(6) | 112 | Z(m)W(6) | 97 | a (1) | 605 | a (2) | 720 |
| PLS3 | 8.1 | Z(1)W(4) | 97 | Z(2)W(14) | 243 | Z(5)W(10) | 180 | a (9) | 464 | a (8) | 655 |
| WDR44 | 8.4 | Z(m)W(2) | 50 | Z(6)W(18) | 204 | Z(m)W(5) | 50 | a (4) | 820 | a (2) | 73 |
| LONRF3 | 9.2 | Z(2) | 620 | Z(1)W(12) | 158 | Z(m)W(15) | 288 | a (4) | 668 | a (7) | 672 |
| CXorf56 | 9.4 | Z(1) | 604 | Z(m)W(1) | 40 | Z(5)W(25) | 230 | a (1) | 150 | a (3) | 586 |
| LAMP2 | 9.5 | Z(m)W(9) | 156 | Z(1)W(7) | 118 | Z(1)W(1) | 52 | a (2) | 137 | a (12) | 664 |
| THOC2 | 10.2 | a (5) | 558 | a (4) | 98 | a (10) | 580 | a (3) | 446 | a (3) | 575 |
| SMARCA1 | 11.6 | a (1) | 112 | a (8) | 192 | a (2) | 212 | a (3) | 282 | a (1) | 220 |
| RAB39B | 11.8 | m | 307 | a (1) | 302 | a (2) | 305 | a (1) | 307 | a (1) | 307 |
| IRS4 | 12.1 | a (2) | 230 | a (3) | 570 | a (7) | 580 | a (1) | 570 | NA | |
| HMGB3 | 13 | a (3) | 24 | a (5) | 192 | a (2) | 96 | a (4) | 450 | a (5) | 393 |
| MAMLD1 | 13.2 | a (1) | 426 | a (8) | 600 | a (13) | 547 | a (2) | 549 | a (3) | 549 |
| XP_002195404.1 | 16.5 | m | 553 | a (8) | 389 | a (12) | 576 | a (1) | 142 | a (2) | 458 |
| MTMR8 | 16.8 | NA | a (7) | 180 | a (11) | 310 | a (1) | 272 | a (4) | 645 | |
| SOX3 | 18.8 | a (1) | 553 | a (3) | 562 | a (3) | 549 | a (1) | 553 | m | 556 |
| GABRE | 19.2 | a (7) | 382 | a (6) | 310 | a (28) | 514 | a (1) | 334 | a (1) | 506 |
| TEX11 | 20.1 | a (10) | 744 | NA | a (11) | 746 | a (4) | 733 | a (2) | 460 | |
| HTR2C | 20.6 | a (2) | 424 | a (3) | 505 | a (1) | 419 | a (2) | 483 | a (1) | 438 |
Locus tag (Tgu4a) in the zebra finch genome; number of samples (N); sequence patterns (a, autosomal; m, monomorphic; NA, no amplification); length of sequence (Seq) comparable between males and females, through direct sequencing. In many cases, the analysable sequence corresponds to a subset of the total amplified product, due to the presence of indels. The total number of polymorphisms indicative of Z or W is shown within parentheses, for each locus. At locus TAF9B, we only obtained a readable sequence from a single great reed warbler female, and despite indication of sex linkage to the W chromosome (see main text), we excluded this locus from further analyses (*). The number of polymorphisms used for the positive assessment of autosomal location (a), that is, rejection of sex linkage, is also indicated within parentheses.