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The transcriptome of golden hamster

ABSTRACT: The transcriptome of golden hamster

PROVIDER: PRJNA1006420 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR25679306_1.fastq.gz	Fastqsanger.gz
	SRR25679306_2.fastq.gz	Fastqsanger.gz
	SRR25679307_1.fastq.gz	Fastqsanger.gz
	SRR25679307_2.fastq.gz	Fastqsanger.gz
	SRR25679308_1.fastq.gz	Fastqsanger.gz

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Golden hamster

Project description:Golden hamster Metagenome

| PRJNA1182071 | ENA

Single-cell RNA sequencing of golden hamster upper respiratory tract (nasal mucosa and trachea), lung, kidney and small intestine

Project description:Full understanding of the pathophysiology of COVID-19 is critical for adequate treatment and development of vaccine and therapeutics. Although Golden hamster has been emerged as animal model of COVID-19, it is unknown how SARS-CoV-2 enters and infects targeted epithelial cells at molecular and cellular levels. Here, by applying single cell RNA sequencing in the upper respiratory tract, lung, kidney and intestine of golden hamster, we show that the expression profiles of host factors for SARS-CoV-2 infection in specific cell types are similar to that of human. These data can be applied to a larger investigation (data not provided here) into the expression patterns of host cell entry factors of SARS-CoV-2 in golden hamster organs.

2021-01-01 | GSE154564 | GEO

Lipoprotein profiles of human serum and golden hamster plasma

Project description:The lipoproteins of human serum and golden hamster plasma were deeper profiled by label-free proteomics and the shared proteins in lipoprotein particles from humans and golden hamsters were highlighted. The dynamic shared protein compositions of VLDL, LDL, and HDL from golden hamster plasma under normal and hyperlipidemic states were confirmed and compared by parallel reaction monitoring (PRM)-based targeted proteomics. This study was aimed to determine the relationship between the protein heterogeneity and functions of the three lipoproteins under normal conditions and explore the functional implication of protein dynamic change during the hyperlipidemic state.

2020-08-18 | PXD020963 |

Small and long RNAs profiling of testis, developing oocytes and early embryos wild-type and Pld6-deficient golden hamster

Project description:Small and long RNAs profiling of developing oocytes and early embryos in wild-type and Pld6-deficient golden hamster females, as well as profiling of testis of wild-types and Pld6-mutents

2022-02-03 | GSE195935 | GEO

The transcriptome of golden hamster

Project description:Cumulative research demonstrated that heart muscles in the dilated cardiomyopathy (DCM) patients are marked by down-regulated expression of α-myosin heavy chain (α-MHC) coding by MYH6 while it remains unknown whether this reduction contributes to DCM. In our work, we proved that the expression level of α-MHC was decreased in the heart of DCM patients compared to that of non-failure donors. We established two Myh6 down-expressed Syrian Hamster models: one with α-MHC deficiency across all systems, the other with α-MHC knockdown specifically in the heart by using adeno-associatedvirus (AAV). Besides the animal models, we also programmed MYH6 knockout human-induced pluripotent stem cells (hiPSCs) which differentiated later into cardiomyocytes (hiPS-CMs) in vitro. We found α-MHC deficiency in vivo or in vitro both resulted in DCM phenotypes, meanwhile we demonstrated α-MHC deficiency is a causative factor of DCM. We also proved that the DCM-associated α-MHC deficiency was mediated by the autophagy flux. At the same time, the DCM phenotypes were attenuated by rapamycin, an autophagy activator, and exacerbated by inhibiting autophagic activities. Transcriptomic and proteomics results revealed that cardiomyocytes with α-MHC deficiency apparently exhibited actin cytoskeleton dysfunction. Our data demonstrated that α-MHC deficiency influenced the actin cytoskeleton network to regulate the autophagy activity suggesting that overexpress α-MHC or regulating autophagy would be a promising therapeutic candidate for DCM.

2024-08-16 | GSE241117 | GEO

Andrographis paniculata standardized extract attenuates transcriptome, proteome, and metabolome changes caused by SARS-CoV-2 infection in golden hamster kidney

Project description:SARS-CoV-2 was the cause of the COVID-19 global pandemic that resulted in millions of deaths worldwide. SARS-CoV-2 infection is often accompanied by renal manifestations such as acute kidney injury and kidney fibrosis, however there is a lack of effective treatment options that also address renal involvement. In this study, golden hamsters were inoculated with Delta variant SARS- CoV-2, and given either vehicle or Andrographis paniculata (AP) standardized extract as treatment. Hamster kidney tissues were then subjected to transcriptomics, proteomics, and metabolomics analysis. Results showed that AP potentially ameliorates kidney fibrosis mediated by ECHS1-induced mTOR activation and LHX1-HDAC8 promotion. This was supported by observations of lipid metabolism alterations that may have been a result of mTOR activation in metabolomics study. Transcriptomics analysis revealed less enrichment of viral infection pathways in AP-treated groups. Overall, AP appears to attenuate SARS-CoV-2 infection and development of kidney fibrosis.

2024-07-09 | GSE271482 | GEO

piRNA pathway is essential for generating functional oocytes in golden hamster

Project description:piRNA pathway is essential for generating functional oocytes in golden hamster

| PRJNA716965 | ENA

Golden hamster piRNAs are essential for early development and establishment of spermatogonia [hamster_oocyte.small_RNAseq]

Project description:PIWI-associated RNAs (piRNAs) support germline by suppressing retrotransposons and genes. In mice, piRNAs are essential for spermatogenesis but not oogenesis. To test how this applies to other mammals, we deleted Mov10l1 helicase in golden hamsters whose piRNA pathway configuration is closer to other mammals than that of mice. Mov10l1–/– male hamsters showed impaired establishment of spermatogonia accompanied by transcriptome dysregulation and surge of MYSERV retrotransposon expression. The rare viable spermatogenic cells showed meiotic failure phenotype like Mov10l1–/– mice. Female Mov10l1–/–hamsters were sterile due to post-meiotic loss of developmental competence in zygotes. Unique phenotypes of Mov10l1–/– hamsters demonstrate adaptive nature of piRNA-mediated control of genes and retrotransposons, which enables confronting emerging genomic threats or acquiring new physiological roles.

2021-07-13 | GSE174819 | GEO

Golden hamster piRNAs are essential for early development and establishment of spermatogonia [hamster_testis.small_RNAseq]

2021-07-13 | GSE164654 | GEO

piRNA pathway is essential for generating functional oocytes in golden hamster

Project description:Piwi-interacting RNAs (piRNAs) are small RNAs predominantly expressed in germ cells that function in gametogenesis in various species. Notably, PIWI-deficient female mice are fertile and mouse oocytes express a panel of small RNAs that do not appear widely representative of mammals. Thus, the function of piRNAs in mammalian oogenesis remains largely elusive. Here, we generated PIWIL1- and MOV10L1-deficient golden hamsters and found that all female and male mutants were sterile, with severe defects in embryogenesis and spermatogenesis, respectively. PIWIL1-deficient oocytes displayed aberrant transposon accumulation and broad transcriptomic dysregulation, and maternal PIWIL1-deficient embryos had impaired zygotic genome activation (ZGA). Moreover, our results support that PIWIL1-piRNAs exert a non-redundant function in silencing endogenous retroviruses (ERVs) in oocytes. Together, our findings demonstrate that piRNAs are indispensable for generating functional germ cells in golden hamsters and show the informative value of this model species for functional and mechanistic investigations of piRNAs in gametogenesis, especially those related to female infertility.

2021-08-02 | GSE169528 | GEO

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