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Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori

ABSTRACT: Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori

PROVIDER: PRJNA949627 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR23995241_1.fastq.gz	Fastqsanger.gz
	SRR23995241_2.fastq.gz	Fastqsanger.gz
	SRR23995244_1.fastq.gz	Fastqsanger.gz
	SRR23995244_2.fastq.gz	Fastqsanger.gz
	SRR23995852_1.fastq.gz	Fastqsanger.gz

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Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori [RNA-seq]

Project description:Genome organization in diverse eukaryotes follows conserved principles including the formation of chromosome territories (CT), chromatin compartments, and TADs. Here, we describe the 3D architecture of holocentric chromosomes in the silkworm Bombyx mori. At the genome-wide scale, B. mori chromosomes are highly territorial lacking any visible trans contact pattern. At the chromosomal scale, B. mori chromosomes segregate into three chromatin compartments: an active A and an inactive B as described in other eukaryotes, and a third type, X, with a unique contact pattern. Compartment X is strongly enriched for short-range interactions and depleted of long-range interactions, hosts a specific combination of genetic and epigenetic features and localizes towards the periphery of CT. Biophysical simulations reveal the necessity of the combined effects of affinity-based compartmentalization and activity-based loop extrusion to lead to the unique interaction patterns observed. Our analyses contribute to our understanding how chromosomes fold highlighting the evolutionary plasticity of 3D genome organization.

2023-09-17 | GSE228398 | GEO

Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori [ChIP-seq]

2023-09-17 | GSE228397 | GEO

Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori [Hi-C embryo]

2023-09-17 | GSE228400 | GEO

Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori [Hi-C head]

2023-09-17 | GSE228399 | GEO

Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori [ChIP-seq]

Project description:Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori [ChIP-seq]

| PRJNA949631 | ENA

Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori [RNA-seq]

Project description:Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori [RNA-seq]

| PRJNA949630 | ENA

Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori [Hi-C embryo]

Project description:Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori [Hi-C embryo]

| PRJNA949632 | ENA

Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori [Hi-C head]

Project description:Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori [Hi-C head]

| PRJNA949633 | ENA

Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori

Project description:This SuperSeries is composed of the SubSeries listed below.

2023-09-17 | GSE228401 | GEO

Complete dosage compensation and sex-biased gene expression in Manduca sexta

Project description:Using 4 replicate males and 4 replicate females this experiment examined dosage compensation and sex-biased gene expression. Briefly we performed a de novo assembly of the Manduca sexta transcriptome using all sequenced libraries, quantified genes expression, identified the physical locations of genes through orthology to the moth Bombyx mori and examine expression differences between autosomal and Z-linked genes between males and females. Further, we examined sex-biased gene expression using the replicated data.

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