Assessing the impact of comparative genomic sequence data on the functional annotation of the Drosophilagenome

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AudienciaPúblico en generales_ES
CoberturaMéxicoes_ES
Fecha de ingreso2026-10-05T16:34:28Z
Fecha de publicación2002-01-01
ResumenBackground: It is widely accepted that comparative sequence data can aid the functional annotation of genome sequences; however, the most informative species and features of genome evolution for comparison remain to be determined. Results: We analyzed conservation in eight genomic regions (apterous, even-skipped, fushi tarazu, twist, and Rhodopsins 1, 2, 3 and 4) from four Drosophila species (D. erecta, D. pseudoobscura, D. willistoni, and D. littoralis) covering more than 500 kb of the D. melanogaster genome. All D. melanogaster genes (and 78-82% of coding exons) identified in divergent species such as D. pseudoobscura show evidence of functional constraint. Addition of a third species can reveal functional constraint in otherwise non-significant pairwise exon comparisons. Microsynteny is largely conserved, with rearrangement breakpoints, novel transposable element insertions, and gene transpositions occurring in similar numbers. Rates of amino-acid substitution are higher in uncharacterized genes relative to genes that have previously been studied. Conserved non-coding sequences (CNCSs) tend to be spatially clustered with conserved spacing between CNCSs, and clusters of CNCSs can be used to predict enhancer sequences. Conclusions: Our results provide the basis for choosing species whose genome sequences would be most useful in aiding the functional annotation of coding and cis-regulatory sequences in Drosophila. Furthermore, this work shows how decoding the spatial organization of conserved sequences, such as the clustering of CNCSs, can complement efforts to annotate eukaryotic genomes on the basis of sequence conservation alone.es_ES
Doihttps://doi.org/10.1186/gb-2002-3-12-research0086es_ES
URIhttps://riuat.uat.edu.mx/handle/123456789/6228
Idiomaenes_ES
EditorialBioMed Central Ltdes_ES
RelaciónGenome Biologyes_ES
URL relacionadohttps://doi.org/10.1186/gb-2002-3-12-research0086es_ES
DerechosAcceso abierto (Metadatos de producción científica)es_ES
Licenciahttp://purl.org/coar/access_right/c_abf2es_ES
FuenteGenome Biology
Palabra claveAdditional Data Filees_ES
Palabra claveDivergent Specieses_ES
Palabra claveDrosophila Genomees_ES
Palabra claveFunctional Constraintes_ES
Palabra claveGenus Drosophilaes_ES
TítuloAssessing the impact of comparative genomic sequence data on the functional annotation of the Drosophilagenomees_ES
TipoArtículoes_ES
ArbitradoHa sido Arbitradoes_ES
AutorBergman, Casey M
AutorPfeiffer, Barret D
AutorRincón-Limas, Diego E
AutorHoskins, Roger A
AutorGnirke, Andreas
AutorMungall, Chris J
AutorWang, Adrienne M
AutorKronmiller, Brent
AutorPacleb, Joanne
AutorPark, Soo
AutorStapleton, Mark
AutorWan, Kenneth
AutorGeorge, Reed A
Autorde Jong, Pieter J
AutorBotas, Juan
AutorRubin, Gerald M
AutorCelniker, Susan E
AutorBergman, Casey Mes_ES
AutorPfeiffer, Barret Des_ES
AutorRincón-Limas, Diego Ees_ES
AutorHoskins, Roger Aes_ES
AutorGnirke, Andreases_ES
AutorMungall, Chris Jes_ES
AutorWang, Adrienne Mes_ES
AutorKronmiller, Brentes_ES
AutorPacleb, Joannees_ES
AutorPark, Sooes_ES
AutorStapleton, Markes_ES
AutorWan, Kennethes_ES
AutorGeorge, Reed Aes_ES
Autorde Jong, Pieter Jes_ES
AutorBotas, Juanes_ES
AutorRubin, Gerald Mes_ES
AutorCelniker, Susan Ees_ES
InstituciónUniversidad Autónoma de Tamaulipas
InstituciónUniversidad Autónoma de Tamaulipases_ES
Número12es_ES
URL relacionadahttps://doi.org/10.1186/gb-2002-3-12-research0086
Tipo de artículoIndexado
Tipo de artículoIndexadoes_ES
Volumen3es_ES

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