HOM-C evolution in Drosophila: is there a need for Hox gene clustering?

Negre, Bàrbara; Ruíz, Alfredo

doi:10.1016/j.tig.2006.12.001

Cited by 65 publications

(77 citation statements)

References 35 publications

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“…In contrast, genes in the human β-globin cluster are lined in the order of temporal timing of expression (Jane and Cunningham, 1996;Li et al, 2006). Several models to explain the regulatory mechanism of this concerted expression have been proposed (Kmita and Duboule, 2003;Li et al, 2006;Negre and Ruiz, 2007). With the CPR genes, there was no coordinated regulation of genes in tandem arrays except for the subsets of some RR-2 genes that are found in sequence clusters.…”

Section: Coordination Of Regulationmentioning

confidence: 99%

Developmental expression patterns of cuticular protein genes with the R&R Consensus from Anopheles gambiae

Togawa

Dunn

Emmons

et al. 2008

Insect Biochemistry and Molecular Biology

106

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CPR proteins are the largest cuticular protein family in arthropods. The whole genome sequence of Anopheles gambiae revealed 156 genes that code for proteins with the R&R Consensus and named CPRs. This protein family can be divided into RR-1 and RR-2 subgroups, postulated to contribute to different regions of the cuticle. We determined the temporal expression patterns of these genes throughout post-embryonic development by means of real-time qRT-PCR. Based on expression profiles, these genes were grouped into 21 clusters. Most of the genes were expressed with sharp peaks at single or multiple periods associated with molting. Genes coding for RR-1 and RR-2 proteins were found together in several co-expression clusters. Twenty-five genes were expressed exclusively at one metamorphic stage. Five out of six X-linked genes showed equal expression in males and females, supporting the presence of a gene dosage compensation system in An. gambiae. Many RR-2 genes are organized into sequence clusters whose members are extremely similar to each other and generally closely associated on a chromosome. Most genes in each sequence cluster are expressed with the same temporal expression pattern and at the same level, suggesting a shared mechanism to regulate their expression.

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Section: Coordination Of Regulationmentioning

confidence: 99%

Developmental expression patterns of cuticular protein genes with the R&R Consensus from Anopheles gambiae

Togawa

Dunn

Emmons

et al. 2008

Insect Biochemistry and Molecular Biology

106

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show abstract

“…These two families are the largest in animals, with .100 members each in humans, Drosophila, and Caenorhabditis. In animals, HB TFs function as homeotic genes that control the formation and differentiation of different body parts (Garcia-Fernandez 2005;Negre and Ruiz 2007). In contrast, in plants homeotic functions are carried out by TFs of the MADS-box family (Irish 2003).…”

Section: Transcription Factors In Eukaryotesmentioning

confidence: 99%

Green Transcription Factors: A Chlamydomonas Overview

et al. 2008

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Transcription factors (TFs) control gene expression by interacting with cis-elements in target gene promoters. Transcription regulators (TRs) assist in controlling gene expression through interaction with TFs, chromatin remodeling, or other mechanisms. Both types of proteins thus constitute master controllers of dynamic transcriptional networks. To uncover such control elements in the photosynthetic green alga Chlamydomonas reinhardtii, we performed a comprehensive analysis of its genome sequence. In total, we identified 234 genes encoding 147 TFs and 87 TRs of $40 families. The set of putative TFs and TRs, including their transcript and protein sequences, domain architectures, and supporting information about putative orthologs, is available at http:/ /plntfdb.bio.uni-potsdam.de/v2.0/. Twelve of 34 plant-specific TF families were found in at least one algal species, indicating their early evolutionary origin. Twenty-two plant-specific TF families and one plant-specific TR family were not observed in algae, suggesting their specific association with developmental or physiological processes characteristic to multicellular plants. We also analyzed the occurrence of proteins that constitute the light-regulated transcriptional network in angiosperms and found putative algal orthologs for most of them. Our analysis provides a solid ground for future experimental studies aiming at deciphering the transcriptional regulatory networks in green algae.

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“…Cluster organisation can even vary between closely related species in the same genus. For example Drosophila clusters are broken in different places (reviewed in Negre & Ruiz, 2007). An alternative to evolution via gene expression alterations can be via gene gain or loss.…”

Section: Genome Evolutionmentioning

confidence: 99%

Annelids in evolutionary developmental biology and comparative genomics

et al. 2008

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Summary :Annelids have had a long history in comparative embryology and morphology, which has helped to establish them in zoology textbooks as an ideal system to understand the evolution of the typical triploblastic, coelomate, protostome condition. In recent years there has been a relative upsurge in embryological data, particularly with regard to the expression and function of developmental control genes. Polychaetes, as well as other annelids such as the parasitic leech, are now also entering the age of comparative genomics. All of this comparative data has had an important impact on our views of the ancestral conditions at various levels of the animal phylogeny, including the bilaterian ancestor and the nature of the annelid ancestor. Here we review some of the recent advances made in annelid comparative development and genomics, revealing a hitherto unsuspected level of complexity in these ancestors. It is also apparent that the transition to a parasitic lifestyle leads to, or requires, extensive modifications and derivations at both the genomic and embryological levels.

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HOM-C evolution in Drosophila: is there a need for Hox gene clustering?

Cited by 65 publications

References 35 publications

Developmental expression patterns of cuticular protein genes with the R&R Consensus from Anopheles gambiae

Developmental expression patterns of cuticular protein genes with the R&R Consensus from Anopheles gambiae

Green Transcription Factors: A Chlamydomonas Overview

Annelids in evolutionary developmental biology and comparative genomics

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