Basal X chromosome segments present on Dp(1;Y)BSC chromosomes. - Cook, K.; Garton, R.; Brown, A.; Ward, M.; Deal, J.; Kaufman, T.; Cook, K. (2011)
Basal X chromosome segments present on Dp(1;Y)BSC chromosomes Kim Cook, Russell Garton, Adam Brown, Megan Ward, Jennifer Deal, Megan Deal, Thom Kaufman & Kevin Cook Bloomington Drosophila Stock Center Indiana University We have generated Y-linked duplications of X chromosomal segments by irradiating an attached-XY (C(1;Y)N12) with an inversion in the X chromosome. Irradiation produces a Dp(1;Y) chromosome by inducing a large deletion in the progenitor chromosome with one breakpoint within the inversion and another breakpoint in X heterochromatin or basal X euchromatin. The region distal to the deletion on a Dp(1;Y) consists of two parts: X tip genes distal to the inversion and genes from the middle of the X moved near the end of the X by the inversion. The distal and medial duplicated segments present on particular Dp(1;Y)BSC chromosomes have been described in other personal communications to FlyBase. The region of a Dp(1;Y) proximal to the deletion will carry no basal euchromatic genes if the proximal deletion breakpoint falls in X heterochromatin. When the proximal deletion breakpoint falls in basal X euchromatin, however, basal euchromatic genes will be present. This personal communication describes the basal X segments present on a group of Dp(1;Y)s. We mapped the distal extents of the basal segments to ~10 gene intervals defined by PCR primers using the following approach. Males carrying a Dp(1;Y) were crossed to females carrying a transposable element insertion in a basal X position. Primers flanking the insertion sites of the transposable elements were used to amplify fragments from DNA isolated from male progeny. With short extension times, fragments are amplified only if the site of the transposable element insertion is present on the Dp(1;Y). The following transposable elements and primer pairs were used in mapping: Insertion: PEPgy2EY09781 Forward primer: CGCACAGGTCTTGAAGGCATTGCC (X:21443126..21443149) Reverse primer: GTTTCTAGCAGCCCCCTTCGCACCG (X:21443688..21443712) Insertion: PMae-UAS.6.11CG14619[GG01842] Forward primer: CATCGCTCGCGCGCACAATCTCGGC (X:21858117..21858141) Reverse primer: GTGCCGCCAGGCTGTCTACGCTCC (X:21858613..21858636) Insertion: PGT1BG01274 Forward primer: CTAGTGTATTTGCCTTCACCATAATCG (X:21961730..21961756) Reverse primer: GAGCGAGGAATATCTGATATGCGG (X:21962214..21962237) Insertion: PBacWHf02323 Forward primer: GATGGCGGTGTCCTTGTCTCTGGC (X:22366703..22366726) Reverse primer: CCTGTGACATTAATGCAGGCGACGG (X:22367213..22367237) The following basal segments are present on Dp(1;Y)s (Release 5 coordinates and predicted cytologies). These Dp(1;Y)s carry basal euchromatic genes: Dp(1;Y)BSC283 X:21443126--21858117;h28--h29 (20A3-20C1;h28--h29) Dp(1;Y)BSC291 X:21443126--21858117;h28--h29 (20A3-20C1;h28--h29) Dp(1;Y)BSC309 X:21443126--21858117;h28--h29 (20A3-20C1;h28--h29) Dp(1;Y)BSC321 X:21443126--21858117;h28--h29 (20A3-20C1;h28--h29) Dp(1;Y)BSC323 X:21443126--21858117;h28--h29 (20A3-20C1;h28--h29) PBacWHf02323, an insertion immediately distal to stnA in 20F3, was the most basal transposon insertion site we tested by PCR. The following Dp(1;Y)s do not carry this insertion site and, consequently, do not duplicate basal euchromatic genes distal to stnA. Dp(1;Y)BSC277 Dp(1;Y)BSC278 Dp(1;Y)BSC279 Dp(1;Y)BSC280 Dp(1;Y)BSC281 Dp(1;Y)BSC282 Dp(1;Y)BSC284 Dp(1;Y)BSC285 Dp(1;Y)BSC286 Dp(1;Y)BSC287 Dp(1;Y)BSC288 Dp(1;Y)BSC289 Dp(1;Y)BSC290 Dp(1;Y)BSC292 Dp(1;Y)BSC293 Dp(1;Y)BSC294 Dp(1;Y)BSC295 Dp(1;Y)BSC313 Dp(1;Y)BSC314 Dp(1;Y)BSC296 Dp(1;Y)BSC297 Dp(1;Y)BSC298 Dp(1;Y)BSC299 Dp(1;Y)BSC300 Dp(1;Y)BSC301 Dp(1;Y)BSC302 Dp(1;Y)BSC303 Dp(1;Y)BSC304 Dp(1;Y)BSC305 Dp(1;Y)BSC306 Dp(1;Y)BSC307 Dp(1;Y)BSC308 Dp(1;Y)BSC310 Dp(1;Y)BSC311 Dp(1;Y)BSC312 Dp(1;Y)BSC315 Dp(1;Y)BSC316 Dp(1;Y)BSC317 Dp(1;Y)BSC318 Dp(1;Y)BSC319 Dp(1;Y)BSC320 Dp(1;Y)BSC322 Dp(1;Y)BSC324 Dp(1;Y)BSC325 Dp(1;Y)BSC326 Dp(1;Y)BSC327 Dp(1;Y)BSC328