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Unravelling the developmental and functional significance of an ancient Argonaute duplication

ABSTRACT: Unravelling the developmental and functional significance of an ancient Argonaute duplication

PROVIDER: PRJNA603059 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10960909.fastq.gz	Fastqsanger.gz
	SRR10960910.fastq.gz	Fastqsanger.gz
	SRR10960911.fastq.gz	Fastqsanger.gz
	SRR10960912.fastq.gz	Fastqsanger.gz
	SRR10960913.fastq.gz	Fastqsanger.gz

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Unravelling the developmental and functional significance of an ancient Argonaute duplication.

Project description:MicroRNAs (miRNAs) base-pair to messenger RNA targets and guide Argonaute proteins to mediate their silencing. This target regulation is considered crucial for animal physiology and development. However, this notion is based exclusively on studies in bilaterians, which comprise almost all lab model animals. To fill this phylogenetic gap, we characterize the functions of two Argonaute paralogs in the sea anemone Nematostella vectensis of the phylum Cnidaria, which is separated from bilaterians by ~600 million years. Using genetic manipulations, Argonaute-immunoprecipitations and high-throughput sequencing, we provide experimental evidence for the developmental importance of miRNAs in a non-bilaterian animal. Additionally, we uncover unexpected differential distribution of distinct miRNAs between the two Argonautes and the ability of one of them to load additional types of small RNAs. This enables us to postulate a novel model for evolution of miRNA precursors in sea anemones and their relatives, revealing alternative trajectories for metazoan miRNA evolution.

| S-EPMC7713132 | biostudies-literature

Unravelling the developmental and functional significance of an ancient Argonaute duplication

Project description:Knockdown of NveAGO1 and NveAGO2 in Nematostella results in severe developmental defects. NveAGO1 and NveAGO2 immunoprecipitation reveals subfunctionalization for differential miRNA sorting as well as siRNA specialization.

2020-10-13 | GSE144203 | GEO

Malawi Duplication 20091207

Project description:Malawi Duplication 20091207

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Drosophila Duplication 20091218

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ISAba1 mediated intrinsic chromosomal oxacillinase duplication conveys carbapenem resistance

Project description:Tandem duplication of carbapenemase genes amplifies the gene copy number and enhances carbapenem resistance. These amplifications are often heterogenous, transient, locate in plasmids, which often also contribute to heteroresistance. The duplication is especially important for low-hydrolysis activity enzymes, which is often overlooked or even under controversy. Here we reported an intrinsic oxacillinase duplication mediated by two neighbor ISAba1inserted in the same orientation. The duplication is relatively stable, located in chromosome, and the duplication times is up to twenty-five, much larger than previous reports. We provided genomic, transcriptomic, and proteomic evidence that the duplication resulted oxacillinase overproduction and thus contribute to carbapenem resistance. No other possible carbapenem resistance related changes (point mutations of oxaAb, disturbed expression of porin protein and efflux pump) were found during the duplication process. Furthermore, introducing oxaAb flanked by two ISAba1 to A. baumannii via plasmids, mimicked the in vivo duplication process under carbapenem stress. Taken together, ISAba1 mediated duplication of low activity intrinsic antibiotic hydrolysis enzymes could lead to antibiotic resistance for advanced-generation antibiotics.

2023-01-17 | PXD039528 |

Distinct Functions of Argonaute Slicer in siRNA Maturation and Heterochromatin Formation

Project description:Small-RNA (sRNA)-guided transcriptional gene silencing by Argonaute (Ago)-containing complexes is fundamental to genome integrity and epigenetic inheritance. The RNA cleavage (“Slicer”) activity of Argonaute has been implicated in both sRNA maturation and target RNA cleavage. Typically, Argonaute slices and releases the passenger strand of duplex sRNA to generate active silencing complexes, but it remains unclear whether slicing of target nascent RNAs, or other RNAi components, also contributes to downstream transcriptional silencing. Here, we develop a strategy for loading the fission yeast Ago1 with a single-stranded sRNA guide, which bypasses the requirement for slicer activity in generation of active silencing complexes. We show that slicer-defective Ago1 can mediate secondary sRNA generation, H3K9 methylation, and silencing similar to or better than wild-type and associates with chromatin more efficiently. The results define an ancient and minimal sRNA-mediated chromatin silencing mechanism, which resembles the germline-specific sRNA-dependent transcriptional silencing pathways in Drosophila and mammals. This SuperSeries is composed of the SubSeries listed below.

2016-12-19 | GSE81734 | GEO

Analyses of transcriptome sequences reveal multiple ancient large-scale duplication events in the ancestor of Sphagnopsida (Bryophyta)

Project description:Analyses of transcriptome sequences reveal multiple ancient large-scale duplication events in the ancestor of Sphagnopsida (Bryophyta)

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Molecular insights into an ancient bone disorder

Project description:DE microRNAs between normal bone and ancient osteosarcoma

2019-06-21 | GSE118540 | GEO

Structural venomics reveals evolution of a complex venom by duplication and diversification of an ancient peptide-encoding gene

Project description:Structural venomics reveals evolution of a complex venom by duplication and diversification of an ancient peptide-encoding gene

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Analyses of transcriptome sequences reveal multiple ancient large-scale duplication events in the ancestor of Sphagnopsida (Bryophyta)

Project description:Illumina RNA-seq data were generated for nine taxa in Sphagnopsida (Bryophyta). Analyses of frequency plots for synonymous substitutions per synonymous site (Ks) between paralogous gene pairs were conducted to look for signals of large scale or genome-wide duplication events in each transcriptome. Raw data for four of the nice species studied are provided here. The data for the remaining species are provided elsewhere (see pape for details).

2018-03-05 | E-MTAB-4112 | biostudies-arrayexpress

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