Papilionoidea
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1168666 | ENA |
REPOSITORIES: ENA
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Project description:Background: We studied the chromatin accessibility landscsape in wings during butterfly metamorphosis, and investigate which transcription factors might be driving changes in accessibility Methods: We sequencing the Junonia coenia genome, and we studied chromatin accessibility using ATAC seq in multiple stages of wing development in both forewings and hindwings. For sites showing a large change in accessibility, we investigate which motifs are enriched, and correlate this with changes in gene expression of associated transcription factors. We confirm promising candidates with ChIP-seq Results: We find a highly dynamic landscape, with multiple peaks showing a double increase in accessibility throughout development. We show that transcription factor spineless, but not ecdysone receptor, is highly predictive of opening sites Conclusions: This work provides a characterization of the chromatin dynamics of insect wing metamorphosis, identifies novel candidate chromatin remodeling factors in insects, and provides the first genome assembly of the model butterfly Junonia coenia, with gene and cis-regulatory element annotations
2019-04-30 | GSE121541 | GEO
Project description:Background: We studied the chromatin accessibility landscsape in wings during butterfly metamorphosis, and investigate which transcription factors might be driving changes in accessibility Methods: We sequencing the Junonia coenia genome, and we studied chromatin accessibility using ATAC seq in multiple stages of wing development in both forewings and hindwings. For sites showing a large change in accessibility, we investigate which motifs are enriched, and correlate this with changes in gene expression of associated transcription factors. We confirm promising candidates with ChIP-seq Results: We find a highly dynamic landscape, with multiple peaks showing a double increase in accessibility throughout development. We show that transcription factor spineless, but not ecdysone receptor, is highly predictive of opening sites Conclusions: This work provides a characterization of the chromatin dynamics of insect wing metamorphosis, identifies novel candidate chromatin remodeling factors in insects, and provides the first genome assembly of the model butterfly Junonia coenia, with gene and cis-regulatory element annotations
2019-05-07 | GSE121542 | GEO
Project description:This paper presents an updated checklist of the butterflies of Europe, together with their original name combinations, and their occurrence status in each European country. According to this checklist, 496 species of the superfamily Papilionoidea occur in Europe. Changes in comparison with the last version (2.6.2) of Fauna Europaea are discussed. Compared to that version, 16 species are new additions, either due to cryptic species most of which have been discovered by molecular methods (13 cases) or due to discoveries of Asian species on the eastern border of the European territory in the Ural mountains (three cases). On the other hand, nine species had to be removed from the list, because they either do not occur in Europe or lost their species status due to new evidence. In addition, three species names had to be changed and 30 species changed their combination due to new evidence on phylogenetic relationships. Furthermore, minor corrections were applied to some authors' names and years of publication. Finally, the name Polyommatusottomanus Lefèbvre, 1831, which is threatened by its senior synonym Lycaenalegeri Freyer, 1830, is declared a nomen protectum, thereby conserving its name in the current combination Lycaenaottomana.
| S-EPMC6323101 | biostudies-literature
Project description:The mitogenome of the species belonging to the Papilionodea (Lepidoptera) is a double stranded circular molecule containing the 37 genes shared by Metazoa. Eight mitochondrial gene orders are known in the Papilionoidea. MIQGO is the plesiomorphic gene order for this superfamily, while other mitochondrial arrangements have a very limited distribution. 2S1GO gene order is an exception and is present in several Lycaenidae and one species of Hesperiidae. We studied the macrostructural changes generating the gene orders of butterflies by analysing a large data set (611 taxa) containing 5 new mitochondrial sequences/assemblies and 87 de novo annotated mitogenomes. Our analysis supports a possible origin of the intergenic spacer trnQ-nad2, characterising MIQGO, from trnM. We showed that the homoplasious gene order IMQGO, shared by butterflies, species of ants, beetles and aphids, evolved through different transformational pathways. We identify a complicated evolutionary scenario for 2S1GO in Lycaenidae, characterised by multiple events of duplication/loss and change in anticodon of trnS1. We show that the gene orders ES1GO and S1NGO originated through a tandem duplication random loss mechanism. We describe two novel gene orders. Ampittia subvittatus (Hesperiidae) exhibits the gene order 2FFGO, characterised by two copies of trnF, one located in the canonical position and a second placed in the opposite strand between trnR and trnN. Bhutanitis thaidina (Papilionidae) exhibits the gene order 4QGO, characterised by the quadruplication of trnQ.
| S-EPMC9031222 | biostudies-literature
Project description:Lipomyces genome scale model based on the Lipomyces starkeyi NRRL-11557 genome.
Published in:
Genome-Scale Model Development and Genomic Sequencing of the Oleaginous Clade Lipomyces
Frontiers in Bioengineering and Biotechnology
Industrial Biotechnology
Volume 12 - 2024 | doi: 10.3389/fbioe.2024.1356551
2024-03-20 | MODEL2403190001 | BioModels