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ABSTRACT: Population genomics of the anhydrobiotic midge Polypedilum vanderplanki (Diptera: Chironomidae)

PROVIDER: PRJNA996125 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR25320319_1.fastq.gz	Fastqsanger.gz
	SRR25320319_2.fastq.gz	Fastqsanger.gz
	SRR25320320_1.fastq.gz	Fastqsanger.gz
	SRR25320320_2.fastq.gz	Fastqsanger.gz
	SRR25320321_1.fastq.gz	Fastqsanger.gz

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Project description:WGS data of the anhydrobiotic midge Polypedilum pembai (Diptera:Chironomidae)

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Transcriptomic analysis of Pv11 cells derived from Polypedilum vanderplanki

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Regulation of gene expression under extreme desiccation: hijacking of heat shock regulatory system.

Project description:Polypedilum vanderplanki is а striking and unique example of an insect that can survive almost complete water loss. Its genome and series of dehydration-rehydration transcriptomes, together with the genome of P. nubifer (congeneric desiccation-sensitive midge), were recently released. Here, using series of data reflecting detailed transcriptome changes in the process of anhydrobiosis, as well as developmental series, we have identified hundreds of new genes and have demonstrated that up to 53% of genes undergo alternative splicing (AS) and that AS plays a prominent role in the desiccation response. We have shown that the TCTAGAA DNA motif, which closely resembles the binding motif of the D. melanogaster heat shock transcription activator (HSTF), is significantly enriched in promoter regions of desiccation-induced genes, such as LEA, thioredoxins or trehalose metabolism-related genes in P. vanderplanki, but not in P. nubifer. Unlike desiccation-senseitive P. nubifer, P. vanderplanki exhibits double TCTAGAA sites upstream of the HSTF gene, that is a likely explanation for the much stronger activation of HSTF in P. vanderplanki compared to P. nubifer under desiccation. Thus, our results show that rewiring of the heat shock regulatory system is an important evolutionary mechanism of desiccation adaptation in P. vanderplanki.

2018-06-30 | GSE78799 | GEO

Polypedilum sp. strain:Yukawa River

Project description:Identification of microbiota associated with Polypedilum sp. (Diptera Chironomidae), a midge adapted to extremely acidic environment

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Polypedilum vanderplanki

Project description:Polypedilum vanderplanki overview

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Polypedilum vanderplanki

Project description:Transcriptomic analysis of anhydrobiotic gene regulatory network for cultured cell line, Pv11, from Polypedilum vanderplanki

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Polypedilum vanderplanki isolate:Genomic line

Project description:Chromosome level genome of Polypedilum vanderplanki.

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Polypedilum vanderplanki

Project description:Polypedilum vanderplanki transcriptome during desiccation-rehydration cycle

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Identification of Genomic Safe Harbors in the Anhydrobiotic Cell Line, Pv11

Project description:Genomic safe harbors (GSHs) are utilized as an ideal integration site for generating transgenic organisms and cells. Discovery of GSHs is one of the crucial factors for the advancement of basic and applied biology in the species. Such GSHs were discovered in Pv11 (Polypedilum vanderplanki) cell line, which can survive extreme desiccation. To identify the integration sites, high-molecular-weight genomic DNAs were extracted. The DNA libraries were prepared and sequenced with a Nanopore MinION sequencer. In the way to confirm that GSHs loci are localized in open chromatin regions we prepared ATAC-seq libraries, which were sequenced in Illumina HiSeq2500.

2022-03-01 | GSE190481 | GEO

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