<i>cis</i>-regulatory architecture of a short-range EGFR organizing center in the<i>Drosophila melanogaster</i>leg

Newcomb, Susan; Voutev, Roumen; Jory, Aurélie; Delker, Rebecca K; Slattery, Matthew; Mann, Richard S.

doi:10.1101/366948

Cited by 4 publications

(6 citation statements)

References 62 publications

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“…To more precisely locate putative enhancer element(s) within BER, we analyzed previously-published ChIP-Seq data from L3 leg discs (42) for binding sites for Dll, Sp1 and Hth proteins, known to regulate bab1 and/or bab2 expression in the developing legs (17, 42–44). Strong Dll binding is detected throughout BER, including over the bab1 promoter (Fig 5B, lane 10; see also S3B Fig).…”

Section: Resultsmentioning

confidence: 99%

“…To more precisely locate putative enhancer element(s) within BER, we analyzed previouslypublished ChIP-Seq data from L3 leg discs (42) for binding sites for Dll, Sp1 and Hth proteins, known to regulate bab1 and/or bab2 expression in the developing legs (17,(42)(43)(44) In summary, data mining indicates that BER includes a cluster of enhancer elements bound by Dll and Sp1 in leg discs and thus are good candidates for acting redundantly with LAE in regulating bab genes in a ventral limb-specific manner.…”

Section: Chromatin Features Predict Limb-specific Cis-regulatory Elements Within Bab1mentioning

confidence: 99%

“…The black boxes represent OCSs detected in the eye-antennal (EA) and leg but not in wing and haltere discs. OCS and Dll or Sp1-bound regions, as determined from peak calling (FAIRE-Seq GSE38727 and ChIP-Seq GSE113574 GEO dataset series, respectively), are from[40] and[42], respectively. ChIP-Seq data for Hth are from[78].…”

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confidence: 99%

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Tissue-specific versus pleiotropic enhancers within thebric-a-bractandem gene duplicates display differential regulatory activity and evolutionary conservation

Guillou

et al. 2021

Preprint

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During animal evolution, de novo emergence and modifications of pre-existing transcriptional enhancers have contributed to biological innovations, by implementing gene regulatory networks. The Drosophila melanogaster bric-a-brac ( bab ) complex, comprising the tandem paralogous genes bab1 - 2 , provides a paradigm to address how enhancers contribute and co-evolve to regulate jointly or differentially duplicated genes. We previously characterized an intergenic enhancer (named LAE) governing bab2 expression in leg and antennal tissues. We show here that LAE activity also regulates bab1 . CRISPR/Cas9-mediated LAE excision reveals its critical role for bab2 -specific expression along the proximo-distal leg axis, likely through paralog-specific interaction with the bab2 gene promoter. Furthermore, LAE appears involved but not strictly required for bab1 - 2 co-expression in leg tissues. Phenotypic rescue experiments, chromatin features and a gene reporter assay reveal a large “pleiotropic” bab1 enhancer (termed BER) including a series of cis -regulatory elements active in the leg, antennal, wing, haltere and gonadal tissues. Phylogenomics analyses indicate that (i) bab2 originates from bab1 duplication within the Muscomorpha sublineage, (ii) LAE and bab1 promoter sequences have been evolutionarily-fixed early on within the Brachycera lineage, while (iii) BER elements have been conserved more recently among muscomorphans. Lastly, we identified conserved binding sites for transcription factors known or prone to regulate directly the paralogous bab genes in diverse developmental contexts. This work provides new insights on enhancers, particularly about their emergence, maintenance and functional diversification during evolution.

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Section: Resultsmentioning

confidence: 99%

Section: Chromatin Features Predict Limb-specific Cis-regulatory Elements Within Bab1mentioning

confidence: 99%

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Tissue-specific versus pleiotropic enhancers within thebric-a-bractandem gene duplicates display differential regulatory activity and evolutionary conservation

Guillou

et al. 2021

Preprint

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“…Although multiple signaling pathways have been shown to be important in tissue regeneration and immune responses (Houtz et al, 2017;Jiang et al, 2009) and in Drosophila leg and eye development (Estella et al, 2008;Newcomb et al, 2018;Tomlinson and Struhl, 2001), we have little understanding how multiple signaling inputs might be coordinated for an integrated output.…”

Section: Discussionmentioning

confidence: 99%

Hedgehog produced by the Drosophila wing imaginal disc induces distinct responses in three target tissues

Hatori

Kornberg

2020

Development

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Hedgehog (Hh) is an evolutionarily conserved signaling protein that has essential roles in animal development and homeostasis. We investigated Hh signaling in the region of the Drosophila wing imaginal disc that produces Hh and is near the tracheal air sac primordium (ASP) and myoblasts. Hh distributes in concentration gradients in the anterior compartment of the wing disc, ASP, and myoblasts, and activates genes in each tissue. Some targets of Hh signal transduction are common to the disc, ASP, and myoblasts, whereas others are tissue-specific. Signaling in the three tissues is cytoneme-mediated and cytoneme-dependent. Some ASP cells project cytonemes that receive both Hh and Branchless (Bnl, a Drosophila FGF), and some targets regulated by Hh signaling in the ASP are also dependent on Bnl signal transduction. We conclude that the single source of Hh in the wing disc regulates cell type-specific responses in three discreet target tissues.

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Section: Discussionmentioning

confidence: 99%

Hedgehog produced by the Drosophila wing imaginal disc induces distinct expression responses in three target tissues

Hatori

Kornberg

2020

Preprint

View full text Add to dashboard Cite

Hedgehog (Hh) is an evolutionarily conserved signaling protein that has essential roles in animal development and homeostasis. We investigated Hh signaling in the region of the Drosophila wing imaginal disc that produces Hh and is near the tracheal air sac primordium (ASP) and myoblasts. Hh distributes in concentration gradients in the wing disc anterior compartment, ASP, and myoblasts and activates different sets of genes in each tissue. Some transcriptional targets of Hh signal transduction are common to the disc, ASP, and myoblasts, whereas others are tissuespecific. Signaling in the three tissues is cytoneme-mediated and cytoneme-dependent. We conclude that a single source of Hh in the wing disc regulates cell type-specific responses in three discreet target tissues.

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cis-regulatory architecture of a short-range EGFR organizing center in theDrosophila melanogasterleg

Cited by 4 publications

References 62 publications

Tissue-specific versus pleiotropic enhancers within thebric-a-bractandem gene duplicates display differential regulatory activity and evolutionary conservation

Tissue-specific versus pleiotropic enhancers within thebric-a-bractandem gene duplicates display differential regulatory activity and evolutionary conservation

Hedgehog produced by the Drosophila wing imaginal disc induces distinct responses in three target tissues

Hedgehog produced by the Drosophila wing imaginal disc induces distinct expression responses in three target tissues

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