Report from the First Snake Genomics and Integrative Biology Meeting

This report summarizes the proceedings of the 1st Snake Genomics and Integrative Biology Meeting held in Vail, CO USA, 5-8 October 2011. The meeting had over twenty registered participants, and was conducted as a single session of presentations. Goals of the meeting included coordination of genomic data collection and fostering collaborative interactions among researchers using snakes as model systems.Organismic and Evolutionary Biolog

Report from the First Snake Genomics and Integrative Biology Meeting

This report summarizes the proceedings of the 1st Snake Genomics and Integrative Biology Meeting held in Vail, CO USA, 5-8 October 2011. The meeting had over twenty registered participants, and was conducted as a single session of presentations. Goals of the meeting included coordination of genomic data collection and fostering collaborative interactions among researchers using snakes as model systems

Gain of cis-regulatory activities underlies novel domains of wingless gene expression in Drosophila.

動物の新しい特徴が進化する仕組みを解明 -ショウジョウバエのcis制御領域の獲得によるwingless発現領域の獲得-. 京都大学プレスリリース. 2015-06-02.Changes in gene expression during animal development are largely responsible for the evolution of morphological diversity. However, the genetic and molecular mechanisms responsible for the origins of new gene-expression domains have been difficult to elucidate. Here, we sought to identify molecular events underlying the origins of three novel features of wingless (wg) gene expression that are associated with distinct pigmentation patterns in Drosophila guttifera. We compared the activity of cis-regulatory sequences (enhancers) across the wg locus in D. guttifera and Drosophila melanogaster and found strong functional conservation among the enhancers that control similar patterns of wg expression in larval imaginal discs that are essential for appendage development. For pupal tissues, however, we found three novel wg enhancer activities in D. guttifera associated with novel domains of wg expression, including two enhancers located surprisingly far away in an intron of the distant Wnt10 gene. Detailed analysis of one enhancer (the vein-tip enhancer) revealed that it overlapped with a region controlling wg expression in wing crossveins (crossvein enhancer) in D. guttifera and other species. Our results indicate that one novel domain of wg expression in D. guttifera wings evolved by co-opting pre-existing regulatory sequences governing gene activity in the developing wing. We suggest that the modification of existing enhancers is a common path to the evolution of new gene-expression domains and enhancers

PLA2 genomic sequence contigs

These are the contigs extracted from a draft genome assembly that span PLA2 gene complexes. The following sequences are available:<div>C. scutulatus - type B contig 11133</div><div>C. helleri - type B contig 83108</div><div>C. horridus - type A contig 9803</div><div>C. horridus - type A contig 10004</div><div><br></div

SVMP BAC clone sequences

These are the fasta files associated with the assembled BAC clones that span the SVMP gene complexes.<div>The following clone sequences are available:</div><div>C. scutulatus - type A clone 125O12</div><div>C. scutulatus - type A clone 133D14</div><div>C. helleri -type A clone 46A6</div><div>C. helleri - type A clone 136F17</div><div>C. horridus - type B clone 27I13</div><div>C. horridus - type B clone 132M5</div><div>C. horridus - type B clone 145P9</div><div><br></div

SVMP genomic sequence contigs

These are the genomic sequences for SVMP contigs that have been extracted from draft genome assemblies. The following sequences are available:<div>C. scutulatus - type B contig 112058</div><div>C. horridus - type A contig 12944</div><div>C. horridus - type A contig 3724</div><div>C. horridus - type A contig 124679</div><div>C. helleri - type B (23 separate contigs with partial SVMP gene sequences in a single fasta file)</div><div> </div

PLA2 BAC clone sequences

These are the assembled BAC clone sequences that contain the PLA2 gene complexes. The clone sequences are the following: <div>C. scutulatus - type A clone 102I5<br><div>C. helleri - type A clone 85A17</div></div><div>C. horridus - type B clone 190H17</div

A Survey of 6,300 Genomic Fragments for cis-Regulatory Activity in the Imaginal Discs of Drosophila melanogaster

Over 6,000 fragments from the genome of Drosophila melanogaster were analyzed for their ability to drive expression of GAL4 reporter genes in the third-instar larval imaginal discs. About 1,200 reporter genes drove expression in the eye, antenna, leg, wing, haltere, or genital imaginal discs. The patterns ranged from large regions to individual cells. About 75% of the active fragments drove expression in multiple discs; 20% were expressed in ventral, but not dorsal, discs (legs, genital, and antenna), whereas ∼23% were expressed in dorsal but not ventral discs (wing, haltere, and eye). Several patterns, for example, within the leg chordotonal organ, appeared a surprisingly large number of times. Unbiased searches for DNA sequence motifs suggest candidate transcription factors that may regulate enhancers with shared activities. Together, these expression patterns provide a valuable resource to the community and offer a broad overview of how transcriptional regulatory information is distributed in the Drosophila genome

Repeatmasker annotation tables

These are tab-delimited text files containing the RepeatMasker annotation tables. These tables have been cleaned to remove parentheses from the strand information