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Reduced representation bisulfite sequencing (RRBS) of haploid, diploid and triploid hESCs

ABSTRACT: Reduced representation bisulfite sequencing (RRBS) of haploid, diploid and triploid hESCs

PROVIDER: PRJEB51174 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR8958130.fastq.gz	Fastqsanger.gz
	ERR8958131.fastq.gz	Fastqsanger.gz
	ERR8958122.fastq.gz	Fastqsanger.gz
	ERR8958132.fastq.gz	Fastqsanger.gz
	ERR8958123.fastq.gz	Fastqsanger.gz

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Reduced representation bisulfite sequencing (RRBS) of haploid, diploid and triploid hESCs

Project description:To test the differences in genome-wide DNA methylation signatures of haploid, diploid and triploid hESCs, we extracted genomic DNA from these cells and performed RRBS.

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Differential gene expression profilings between diploid and triploid Fujian Oyster

Project description:The systematic deep sequencing analysis provided a comprehensive understanding of the transcriptome complexity of 2n and 3n Fujian oyster. This information broadens our understanding of the mechanisms of C.angulata polyploidization and contributes to molecular and genetic research by enriching the oyster database. This is the first report on genome-wide transcriptional analysis of adductor muscle of diploid and triploid Fujian oyster and has demonstrated triploid oysters are morphologically almost identical to their diploid counterparts, but have faster growth, due to the reorientation of energetic allocation from gametogenesis to somatic investment. This study provides a foundation for further analysis of the gene expression patterns and signaling pathways which regulate the molecular mechanisms of diploid and triploid oyster.

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A transcriptomic analysis of diploid and triploid Atlantic salmon lenses with and without cataracts

Project description:To avoid negative environmental impacts of escapees and potential inter-breeding with wild populations, the Atlantic salmon farming industry has and continues to extensively test triploid fish that are sterile. However, they often show differences in performance, physiology, behavior and morphology compared to diploid fish, with increased prevalence of vertebral deformities and ocular cataracts as two of the most severe disorders. Here, we investigated the mechanisms behind the higher prevalence of cataracts in triploid salmon, by comparing the transcriptional patterns in lenses of diploid and triploid Atlantic salmon, with and without cataracts. We assembled and characterized the Atlantic salmon lens transcriptome and used RNA-seq to search for the molecular basis for cataract development in triploid fish. Transcriptional screening showed only modest differences in lens mRNA levels in diploid and triploid fish, with few uniquely expressed genes. In total, there were 165 differentially expressed genes (DEGs) between the cataractous diploid and triploid lens. Of these, most were expressed at lower levels in triploid fish. Differential expression was observed for genes encoding proteins with known function in the retina (phototransduction) and proteins associated with repair and compensation mechanisms. The results suggest a higher susceptibility to oxidative stress in triploid lenses, and that mechanisms connected to the ability to handle damaged proteins are differentially affected in cataractous lenses from diploid and triploid salmon.

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Responses to ethanol in haploid and diploid strain

Project description:Diploid and haploid strains often exhibit different tolerance to variety of stresses. Transcriptome of acclimation to ethanol stress in diploid and haploid strain of Saccharomyces cerevisiae was analyzed. We analyzed transcriptome profiles of diploid and haploid strains in the presence of ethanol.

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Expression data from haploid and diploid epiblast stem cells

Project description:Haploid pluripotent stem cells, such as haploid embryonic stem cells (haESCs), facilitate the genetic study of recessive traits. In vitro, fish haESCs maintain haploidy in both undifferentiated and differentiated states, but whether mammalian haESCs can preserve pluripotency in the haploid state has not been tested. Here, we report that mouse haESCs can differentiate in vitro into haploid epiblast stem cells (haEpiSCs), which maintain an intact haploid genome, unlimited self-renewal potential, and durable pluripotency to differentiate into various tissues in vitro and in vivo. Mechanistically, the maintenance of self-renewal potential depends on the Activin/bFGF pathway. We further show that haEpiSCs can differentiate in vitro into haploid progenitor-like cells.

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Candida glabrata haploid and diploid

Project description:Candida glabrata haploid and diploid

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