Paper Report for: Richards_2005_Genome.Res_15_1 Reference
Title: Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution
Richards S , Liu Y , Bettencourt BR , Hradecky P , Letovsky S , Nielsen R , Thornton K , Hubisz MJ , Chen R and Gibbs RA <42 more author(s)>
Richards S , Liu Y , Bettencourt BR , Hradecky P , Letovsky S , Nielsen R , Thornton K , Hubisz MJ , Chen R , Meisel RP , Couronne O , Hua S , Smith MA , Zhang P , Liu J , Bussemaker HJ , van Batenburg MF , Howells SL , Scherer SE , Sodergren E , Matthews BB , Crosby MA , Schroeder AJ , Ortiz-Barrientos D , Rives CM , Metzker ML , Muzny DM , Scott G , Steffen D , Wheeler DA , Worley KC , Havlak P , Durbin KJ , Egan A , Gill R , Hume J , Morgan MB , Miner G , Hamilton C , Huang Y , Waldron L , Verduzco D , Clerc-Blankenburg KP , Dubchak I , Noor MA , Anderson W , White KP , Clark AG , Schaeffer SW , Gelbart W , Weinstock GM , Gibbs RA (- 42)
Ref: Genome Res,
15 :1, 2005 :
PubMed Abstract PubMedSearch: Richards 2005 Genome.Res 15 1 PubMedID: 15632085 Gene_locus related to this paper: drome-BEM46 ,
drome-GH02439 ,
drops-ACHE ,
drops-b5dhd2 ,
drops-b5di70 ,
drops-b5djn7 ,
drops-b5dk96 ,
drops-b5dm12 ,
drops-b5dpe3 ,
drops-b5drp9 ,
drops-b5du62 ,
drops-b5dud8 ,
drops-b5dwa7 ,
drops-b5dwa8 ,
drops-b5dy09 ,
drops-b5dz85 ,
drops-b5dz86 ,
drops-b5e1k7 ,
drops-CG4390 ,
drops-est5a ,
drops-est5b ,
drops-est5c ,
drops-nrtac ,
drops-q2lyp3 ,
drops-q2lyp4 ,
drops-q2lyu3 ,
drops-q2lz68 ,
drops-q2m0u9 ,
drops-q2m169 ,
drops-q28wj5 ,
drops-q28wt2 ,
drops-q28wt8 ,
drops-q28zi3 ,
drops-q28zz1 ,
drops-q29a22 ,
drops-q29ad8 ,
drops-q29ad9 ,
drops-q29ae0 ,
drops-q29ae1 ,
drops-q29ay7 ,
drops-q29ay8 ,
drops-q29ay9 ,
drops-q29bq2 ,
drops-q29br3 ,
drops-q29d59 ,
drops-q29dc9 ,
drops-q29dd7 ,
drops-q29dp4 ,
drops-q29dw3 ,
drops-q29dw4 ,
drops-q29e16 ,
drops-q29ew0 ,
drops-q29f35 ,
drops-q29f66 ,
drops-q29fi0 ,
drops-q29fw0 ,
drops-q29fw9 ,
drops-q29g93 ,
drops-q29gb0 ,
drops-q29gs6 ,
drops-q29h54 ,
drops-b5dmp7 ,
drops-q29hd2 ,
drops-q29hu2 ,
drops-q29hu3 ,
drops-q29hv0 ,
drops-q29i09 ,
drops-q29js9 ,
drops-q29jt5 ,
drops-q29jt6 ,
drops-q29jy5 ,
drops-q29k25 ,
drops-q29kd5 ,
drops-q29kd6 ,
drops-q29ke5 ,
drops-q29kq9 ,
drops-q29kr1 ,
drops-q29kr3 ,
drops-q29kr5 ,
drops-q29kr8 ,
drops-q29kr9 ,
drops-q29ks6 ,
drops-q29kz0 ,
drops-q29kz1 ,
drops-q29l31 ,
drops-q29lf8 ,
drops-q29lv0 ,
drops-q29m07 ,
drops-q29m08 ,
drops-q29m27 ,
drops-q29m66 ,
drops-q29m81 ,
drops-q29mj7 ,
drops-q29mv2 ,
drops-q29mx0 ,
drops-q29n87 ,
drops-q29na5 ,
drops-q29na6 ,
drops-q29pe4 ,
drops-q29pk4 ,
drops-q290i1 ,
drops-q290k3 ,
drops-q290v8 ,
drops-q290v9 ,
drops-q290w0 ,
drops-q290z8 ,
drops-q291d5 ,
drops-q291e8 ,
drops-q291y3 ,
drops-q292f5 ,
drops-q292g6 ,
drops-q293n1 ,
drops-q293n4 ,
drops-q293n5 ,
drops-q293n6 ,
drops-q293y7 ,
drops-q294n3 ,
drops-q294n6 ,
drops-q294n7 ,
drops-q294n9 ,
drops-q294p0 ,
drops-q294p1 ,
drops-q294p3 ,
drops-q294p4 ,
drops-q294u9 ,
drops-q295h3 ,
drops-q296h2 ,
drops-q296x1 ,
drops-q296x2 ,
drops-q297h5 ,
drops-q298u8 ,
drope-b4gkk1 Abstract
We have sequenced the genome of a second Drosophila species, Drosophila pseudoobscura, and compared this to the genome sequence of Drosophila melanogaster, a primary model organism. Throughout evolution the vast majority of Drosophila genes have remained on the same chromosome arm, but within each arm gene order has been extensively reshuffled, leading to a minimum of 921 syntenic blocks shared between the species. A repetitive sequence is found in the D. pseudoobscura genome at many junctions between adjacent syntenic blocks. Analysis of this novel repetitive element family suggests that recombination between offset elements may have given rise to many paracentric inversions, thereby contributing to the shuffling of gene order in the D. pseudoobscura lineage. Based on sequence similarity and synteny, 10,516 putative orthologs have been identified as a core gene set conserved over 25-55 million years (Myr) since the pseudoobscura/melanogaster divergence. Genes expressed in the testes had higher amino acid sequence divergence than the genome-wide average, consistent with the rapid evolution of sex-specific proteins. Cis-regulatory sequences are more conserved than random and nearby sequences between the species--but the difference is slight, suggesting that the evolution of cis-regulatory elements is flexible. Overall, a pattern of repeat-mediated chromosomal rearrangement, and high coadaptation of both male genes and cis-regulatory sequences emerges as important themes of genome divergence between these species of Drosophila.
        
Related information
Gene_Locus | drome-BEM46 , drome-GH02439 , drops-ACHE , drops-b5dhd2 , drops-b5di70 , drops-b5djn7 , drops-b5dk96 , drops-b5dm12 , drops-b5dpe3 , drops-b5drp9 , drops-b5du62 , drops-b5dud8 , drops-b5dwa7 , drops-b5dwa8 , drops-b5dy09 , drops-b5dz85 , drops-b5dz86 , drops-b5e1k7 , drops-CG4390 , drops-est5a , drops-est5b , drops-est5c , drops-nrtac , drops-q2lyp3 , drops-q2lyp4 , drops-q2lyu3 , drops-q2lz68 , drops-q2m0u9 , drops-q2m169 , drops-q28wj5 , drops-q28wt2 , drops-q28wt8 , drops-q28zi3 , drops-q28zz1 , drops-q29a22 , drops-q29ad8 , drops-q29ad9 , drops-q29ae0 , drops-q29ae1 , drops-q29ay7 , drops-q29ay8 , drops-q29ay9 , drops-q29bq2 , drops-q29br3 , drops-q29d59 , drops-q29dc9 , drops-q29dd7 , drops-q29dp4 , drops-q29dw3 , drops-q29dw4 , drops-q29e16 , drops-q29ew0 , drops-q29f35 , drops-q29f66 , drops-q29fi0 , drops-q29fw0 , drops-q29fw9 , drops-q29g93 , drops-q29gb0 , drops-q29gs6 , drops-q29h54 , drops-b5dmp7 , drops-q29hd2 , drops-q29hu2 , drops-q29hu3 , drops-q29hv0 , drops-q29i09 , drops-q29js9 , drops-q29jt5 , drops-q29jt6 , drops-q29jy5 , drops-q29k25 , drops-q29kd5 , drops-q29kd6 , drops-q29ke5 , drops-q29kq9 , drops-q29kr1 , drops-q29kr3 , drops-q29kr5 , drops-q29kr8 , drops-q29kr9 , drops-q29ks6 , drops-q29kz0 , drops-q29kz1 , drops-q29l31 , drops-q29lf8 , drops-q29lv0 , drops-q29m07 , drops-q29m08 , drops-q29m27 , drops-q29m66 , drops-q29m81 , drops-q29mj7 , drops-q29mv2 , drops-q29mx0 , drops-q29n87 , drops-q29na5 , drops-q29na6 , drops-q29pe4 , drops-q29pk4 , drops-q290i1 , drops-q290k3 , drops-q290v8 , drops-q290v9 , drops-q290w0 , drops-q290z8 , drops-q291d5 , drops-q291e8 , drops-q291y3 , drops-q292f5 , drops-q292g6 , drops-q293n1 , drops-q293n4 , drops-q293n5 , drops-q293n6 , drops-q293y7 , drops-q294n3 , drops-q294n6 , drops-q294n7 , drops-q294n9 , drops-q294p0 , drops-q294p1 , drops-q294p3 , drops-q294p4 , drops-q294u9 , drops-q295h3 , drops-q296h2 , drops-q296x1 , drops-q296x2 , drops-q297h5 , drops-q298u8 , drope-b4gkk1
Citations formats
Richards S, Liu Y, Bettencourt BR, Hradecky P, Letovsky S, Nielsen R, Thornton K, Hubisz MJ, Chen R, Meisel RP, Couronne O, Hua S, Smith MA, Zhang P, Liu J, Bussemaker HJ, van Batenburg MF, Howells SL, Scherer SE, Sodergren E, Matthews BB, Crosby MA, Schroeder AJ, Ortiz-Barrientos D, Rives CM, Metzker ML, Muzny DM, Scott G, Steffen D, Wheeler DA, Worley KC, Havlak P, Durbin KJ, Egan A, Gill R, Hume J, Morgan MB, Miner G, Hamilton C, Huang Y, Waldron L, Verduzco D, Clerc-Blankenburg KP, Dubchak I, Noor MA, Anderson W, White KP, Clark AG, Schaeffer SW, Gelbart W, Weinstock GM, Gibbs RA (2005) Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolutionGenome Res 15 : 1-18 Richards S, Liu Y, Bettencourt BR, Hradecky P, Letovsky S, Nielsen R, Thornton K, Hubisz MJ, Chen R, Meisel RP, Couronne O, Hua S, Smith MA, Zhang P, Liu J, Bussemaker HJ, van Batenburg MF, Howells SL, Scherer SE, Sodergren E, Matthews BB, Crosby MA, Schroeder AJ, Ortiz-Barrientos D, Rives CM, Metzker ML, Muzny DM, Scott G, Steffen D, Wheeler DA, Worley KC, Havlak P, Durbin KJ, Egan A, Gill R, Hume J, Morgan MB, Miner G, Hamilton C, Huang Y, Waldron L, Verduzco D, Clerc-Blankenburg KP, Dubchak I, Noor MA, Anderson W, White KP, Clark AG, Schaeffer SW, Gelbart W, Weinstock GM, Gibbs RA (2005) Genome Res 15 : 1-18