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TRANSCRIPTOMIC ANALYSIS OF BOVINE ENDOMETRIUM WITH SHORT UTERINE TRACT LEADING TO INFERTILITY

ABSTRACT: TRANSCRIPTOMIC ANALYSIS OF BOVINE ENDOMETRIUM WITH SHORT UTERINE TRACT LEADING TO INFERTILITY

PROVIDER: PRJNA862119 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR20630453_1.fastq.gz	Fastqsanger.gz
	SRR20630453_2.fastq.gz	Fastqsanger.gz
	SRR20630454_1.fastq.gz	Fastqsanger.gz
	SRR20630454_2.fastq.gz	Fastqsanger.gz
	SRR20630455_1.fastq.gz	Fastqsanger.gz

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TRANSCRIPTOMIC ANALYSIS OF BOVINE ENDOMETRIUM WITH SHORT UTERINE TRACT LEADING TO INFERTILITY

Project description:Purpose: Perform RNA-seq study on short bovine endometrial tissues to reveal important genes and biological pathways related to uterine development and physiology Methods:RNA sequencings were done using Illumina platform. Single-end reads in the FASTQ format were explored using FastQC, low-quality reads were trimmed from both 3’ and 5’ ends until a base pair of Phred quality score of 30 (99.9% accurate) or greater was found, reads having a mean quality score less than 30 and length below 30 nucleotides were filtered out. Cleaned reads were aligned against the bovine reference genome (Bos_taurus.ARS-UCD1.2) using HiSAT2. The resulting SAM files were sorted, converted to BAM files using SAMtools. Read counts mapped to bovine gene models were generated using htseq-count script from HTSeq package. Bioconductor DESeq2 was used to get the differentially expressed genes among short vs normal uterine tract groups Conclusions: Heifers with short uterine tract had significantly decreased endometrial layers, uterine glands, and altered transcriptomic profiles. The decrease in uterine glands probably resulted in lower uterine secretions necessary to support embryo growth and development. As a result, heifers with short uteri were infertile even when they were bred by fertile bulls.

2022-07-28 | GSE209699 | GEO

Spatial transcriptomics reveals tanscriptional perturbations leading to uterine squamous metaplasia, atrophy, and infertility in a mouse model of RTHa

Project description:This study identifies an unknown role for KLF9 signaling in normal uterine development, which is decreased in a mouse model of resistance to thyroid hormone (RTHa), resulting in infertility through ectopic IL-33 expression produced by abnormally differentiated, KLF9-deficient endometrial cells. Utilizing a combination of genetically engineered mouse models, histopathology, spatial transcriptomics, and pharmacological inhibitors, we revealed that infertility in RTHa results from abnormal endometrial differentiation mediated by KLF9 suppression. These abnormally differentiated endometrial cells were the source of ectopic IL-33 overexpression. Increased endometrial IL-33 led to T-cell infiltration, destruction of glands, and endometrial fibrosis, which culminated in infertility. This study uncovers a link between TRa1 and KLF9 signaling for normal endometrial differentiation, reveals a mechanism for ectopic uterine IL-33 in female fertility, and provides new insights on the impact of hypothyroidism in female reproduction.

2024-08-29 | GSE273927 | GEO

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Project description:Uterine microbiota involving infertility

| PRJNA1098009 | ENA

Uterine infection-induced transcriptomic changes in the bovine endometrium

Project description:Purpose: Perform RNA-seq study on infectious bovine endometrial tissues to reveal important genes and biological pathways regulating uterine physiology following uterine infections Methods:RNA sequencings were done using Illumina platform. Single-end reads in the FASTQ format were explored using FastQC, low-quality reads were trimmed from both 3’ and 5’ ends until a base pair of Phred quality score of 30 (99.9% accurate) or greater was found, reads having a mean quality score less than 30 and length below 30 nucleotides were filtered out. Cleaned reads were aligned against the bovine reference genome (Bos_taurus.ARS-UCD1.2) using HiSAT2. The resulting SAM files were sorted, converted to BAM files using SAMtools. Read counts mapped to bovine gene models were generated using htseq-count script from HTSeq package. Bioconductor DESeq2 was used to get the differentially expressed genes among infectious vs normal uterine tract groups Conclusions: The study demonstrated that uterine infections altered several genes and pathways related to inflammatory response, immune response, uterine physiology, uterine enviroment and fertility in the intercaruncular region of bovine endometrium.

2022-07-28 | GSE209700 | GEO

Spatial transcriptomics reveals tanscriptional perturbations leading to uterine squamous metaplasia, atrophy, and infertility in a mouse model of RTHa

Project description:Spatial transcriptomics reveals tanscriptional perturbations leading to uterine squamous metaplasia, atrophy, and infertility in a mouse model of RTHa

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Loss of GRB2 results in nonreceptive endometrium and female infertility.

Project description:Loss of GRB2 results in nonreceptive endometrium and female infertility.

| PRJNA1081904 | ENA

Comparative DNA methylome analysis of endometrioid adenocarcinoma, uterine papillary serous carcinoma, and normal endometrium

Project description:Classically, there are two types of endometrial cancer, endometrioid adenocarcinoma (EAC), or Type I; and uterine papillary serous carcinoma (UPSC), or Type II. These two types of cancers exhibit distinct DNA methylation levels in promoters of many genes. In EAC, many tumor suppressor genes were silenced due to DNA hypermethylation at their promoter region. However, promoters of many of these genes remained unmethylated in UPSC. Here, we described complete DNA methylome maps of endometrioid adenocarcinoma, uterine papillary serous carcinoma, and normal endometrium, by applying a combined strategy of methylated DNA immunoprecipitation sequencing (MeDIP-seq) and methylation-sensitive restriction enzyme sequencing (MRE-seq). We took a complementary and orthogonal approach to identify DNA methylation changes unique to the two endometrial cancer subtypes in an unbiased fashion. We generated complete DNA methylome maps for endometrioid adenocarcinoma (EAC, three samples), uterine papillary serous carcinomas (UPSC, three samples), and normal endometrium (pooled samples) by integrating data from methylated DNA immunoprecipitation sequencing (MeDIP-seq) and methylation-sensitive restriction enzyme sequencing (MRE-seq).

2014-10-12 | E-GEOD-51565 | biostudies-arrayexpress

RNA-seq of laser-captured dissected endometrium of WT and Thra1 PV/+ mice

Project description:Thyroid hormone receptors (TRs) mediate the genomic actions of the thyroid hormone (T3). Mutations of THRA gene cause a human disease known as resistance to thyroid hormone (RTHa). We created a mouse model expressing a dominant negative mutated TRa1 (Thra1PV/+ mice) that exhibits severely retarded growth, bone abnormalities, constipation, and anemia, as found in RTHa patients. It has been previously observed that female Thra1PV/+ mice exhibit fertility deficiency. In the present study, we aim to understand the molecular basis underlying female infertility caused by TRa1 mutants. The uterus of mutant mice atrophied with 50-60% reduction in weight, as compared with wild-type (WT) mice with reduced proliferation, increased apoptosis, and loss of ~90% of uterine glands. Fibrosis of the endometrium and squamous metaplasia were detected in the uterine epithelium of all Thra1PV/+ mice examined. RNA-seq analysis of laser-captured micro-dissected endometrium to understand the gene expression changes that lead to uterine atrophy, epithelium metaplasia, immune cells infiltration and ectopic expression of IL-33.Analysis of altered gene expression profiles has reveled by RNA-seq analysis provide new insights to understand how thyroid dysfunction could lead to female infertility.

2024-10-03 | GSE272299 | GEO

Uterine infection-induced transcriptomic changes in the bovine endometrium

Project description:Uterine infection-induced transcriptomic changes in the bovine endometrium

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Uterine flushing proteome of tammar wallaby from diapause to reactivation and late gestation

Project description:The tammar blastocyst remains in embryonic diapause until it receives a signal from the uterine endometrium via its secretions.This study analaysed uterine flushings from diapause, different stages of reactivation upto late gestation.

2016-08-15 | PXD004170 | Pride

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