GEO DataSets

(Submitter supplied) Investigation of cellular responses to thermal heat stress can lead to identifying novel targets of intervention to tackle the increasing fertility decline due to climate change-associated seasonal heat stress. We aimed to study the response of granulosa cells to seasonal thermal stress. Dry beef cows (n=11) were kept together during the study and subjected to synchronization and stimulation for follicular dynamics. more...

Organism:

Bos taurus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26012

8 Samples

Download data: XLSX

(Submitter supplied) Introduction: Reduced reproductive performance due to seasonal heat stress is a major problem in the beef and dairy industries. Examining the effects of heat stress on the molecular mechanism of bovine oocytes can help to better understand their alterations on a transcriptional level and to plan and mitigate those effects. We aimed to study the response of oocytes to seasonal thermal stress. Materials and Methods: Multiparous angus dry beef cows (n = 11) were kept together during the study and subjected to synchronisation and stimulation of follicular growth using a 5-day CIDR and follicle-stimulating hormone (FSH) protocol. more...

Organism:

Bos taurus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26012

8 Samples

Download data: XLSX

(Submitter supplied) Oocyte competence for early embryo development relies on intercellular communication between the maturing oocyte and preovulatory follicle. Preovulatory follicle maturity, as indicated by serum estradiol concentration or follicle diameter, has previously been linked to pregnancy, follicular fluid metabolites, cumulus-oocyte metabolism, and oocyte competency for embryo development. Such relationships indicate metabolic and developmental programming of the oocyte based on the preovulatory follicle’s physiological status, but downstream impacts on the molecular signature of blastocysts have not been examined. more...

Organism:

Bos taurus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26012

27 Samples

Download data: CSV

(Submitter supplied) Bovine, as one of the most significant domestic animals providing humans with milk and meat, while also serving as bioreactors for producing valuable proteins, pose challenges in establishing embryo-derived stable pluripotent stem cells (PSCs) due to the unclear relationship between embryonic epiblast development and maintenance of stem cell pluripotency and self-renewal. Here, we selected six key stages of bovine embryo development (E5, E6, E7, E10, E12, E14) to track pluripotency changes and their signal pathway dependence using modified single-cell transcription sequencing technology. more...

Organism:

Bos taurus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL24230 GPL23295

13 Samples

Download data: TXT, XLSX

(Submitter supplied) During early pregnancy, glucose is essential for the uterine epithelium and the developing embryo. In cows, studies have shown that progesterone increases the secretion of glucose into the uterine lumen. Nevertheless, how progesterone affects glucose metabolism in the uterine epithelium has been sparsely investigated. Therefore, our objective was to investigate how progesterone influences glucose metabolism in immortalized bovine uterine epithelial (BUTE) cells. more...

Organism:

Bos taurus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26012

8 Samples

Download data: TXT

(Submitter supplied) The methylation landscape of the cattle Y-chromosome was characterized using methylated cytosine data produced from PacBio and ONT long reads sequencing platforms.

Organism:

Bos taurus

Type:

Other

Platforms:

GPL34354 GPL29296

2 Samples

Download data: BED

(Submitter supplied) CUT&RUN experiment was carried out on bovine semeimbranosous muscle satellite cells to identify the locus of the accumulation of the centromeric protein A (CENP-A) on the cattle Y-chromosome. This was carried out to support the annotation of the DNA signal comprising tandem array of a centromeric satellite signal which characterizes the centromere on the Y-chromosome.

Organism:

Bos taurus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL23295

1 Sample

Download data: BED

(Submitter supplied) Heat stress is a major factor that negatively affects animal welfare and production systems. Livestock should adapt to tropical and subtropical areas and to meet this, composite breeds have been developed. This work aimed to evaluate gene expression profiles in the skin of Brangus cattle under heat stress using a case-control design, and to correlate this with skin histological characteristics. Two groups of bulls were set using rectal temperature as a criterion to define stress conditions: stressed (N=5) and non-stressed (N=5) groups. more...

Organism:

Bos taurus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26012

10 Samples

Download data: TXT

(Submitter supplied) Exploring the effect of m6A methylation modification on the progression of bovine pituitary tissue before and after the onset of puberty

Organism:

Bos taurus

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL26012

12 Samples

Download data: BW

(Submitter supplied) RNA molecules within ejaculated sperm can be characterized through whole transcriptome sequencing, enabling the identification of pivotal transcripts that may influence reproductive success. However, the profiling of sperm transcriptomes through next-generation sequencing has several limitations impairing the identification of functional transcripts. In this study, we explored the nature of the RNA sequences present in the sperm transcriptome of two livestock species, cattle and horses using RNA-Sequencing (RNA-Seq) technology. more...

Organism:

Equus caballus; Bos taurus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL26012 GPL26749

8 Samples

Download data: XLSX

(Submitter supplied) Cattle farming faces challenges linked to intensive exploitation and climate change, requiring the reinforcement of animal resilience in response to these dynamic environments. Currently, genetic selection is used to enhance resilience by identifying animals resistant to specific diseases; however, certain diseases, such as mastitis, pose difficulties in genetic prediction. This study introduced the utilization of enzymatic methyl sequencing (EM-seq) of the blood genomic DNA from twelve dairy cows to identify DNA methylation biomarkers, with the aim of predicting resilience and susceptibility to mastitis. more...

Organism:

Bos taurus

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL26012

12 Samples

Download data: TXT

(Submitter supplied) Exploring the effect of m6A methylation modification on the progression of bovine hypothalamic tissue before and after the onset of puberty

Organism:

Bos taurus

Type:

Other

Platform:

GPL26012

12 Samples

Download data: BW

(Submitter supplied) The purpose of this study was to determine the effects of normal diet feed (NF) and alternative diet feed (AF) on animal performance, gene expression in adipose, liver, and muscle, and changes in bacteria and fungi in the rumen of Bos-Taurus using high-throughput sequencing methods. In addition, Interactions between differentially expressed genes (DEGs) in major metabolic organs and rumen bacteria /fungi were studied. more...

Organism:

Bos taurus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26012

12 Samples

Download data: TXT

(Submitter supplied) Whole blood samples from 36 cattle, across two independent populations, were sequenced via a Illumina NovaSeq 6000 system. Samples were bioinformatically processed in a HISAT2/StringTie pipeline, and stratified based on treatment frequency for BRD (healthy, treated once, treated twice or more and/or died). Differential expression analysis was conducted in R, utilizing an additive, multifactor generalized linear model and blocking for paired samples and year. more...

Organism:

Bos taurus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26012

73 Samples

Download data: TXT

(Submitter supplied) The aim of this study was to measure the effect of contrasting breed and dietary source on the skeletal muscle miRNA profile of beef cattle divergent for feed efficiency (RFI). Charolais (n=90) and Holstein-Fresian (N=77) steers) were offered two consecutive diets; namely a zero-grazed grass diet followed by a high concentrate diet. Dietary intakes were recorded for all steers throughout each dietary phase and residual feed intake values dertermined for each steer. more...

Organism:

Bos taurus

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL19172

64 Samples

Download data: TXT

(Submitter supplied) The objective was to evaluate the effects of nutrient restriction on the liver transcriptomic response after 24 h challenge to intramammary lipopolysaccharide (LPS) in early lactation cows. At 24 ± 3 days of lactation, multiparous cows were fed either an ad libitum lactation diet (CON, n = 6), or a ration diluted with barley straw (48% DM) for 4 days (RES, n = 6). On day 3, one healthy rear mammary quarter from each cow was infused with 50 µg of LPS. more...

Organism:

Bos taurus

Type:

Expression profiling by array

Platform:

GPL11648

12 Samples

Download data: TXT

(Submitter supplied) Oocyte competence is progressively acquired during follicle growth, with large follicles containing more often competent oocytes than small follicles. A competent oocyte is able to mature in vitro, be fertilized, and develop to the blastocyst stage. Extracellular vesicles (EVs) and their cargo micro RNAs (miRNAs) are critical in mediating intercellular communication inside the follicle and facilitating oocyte maturation. more...

Organism:

Bos taurus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23055

18 Samples

Download data: TSV

(Submitter supplied) The Gayal (Bos frontalis) is a rare semi-domesticated cattle in China. Gayal has typical beef body shape and good meat production performance. Compared with other cattle species, it has the characteristics of tender meat and extremely low fat content. To explore the underlying mechanism responsible for the differences of meat quality between different breeds, the longissimus dorsi muscle (LM) from Gayal and Banna cattle (Bos taurus) were investigated using transcriptome analysis. more...

Organism:

Bos frontalis; Bos taurus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL15749 GPL29583

6 Samples

Download data: CSV

(Submitter supplied) This study investigates gene expression in round and sirloin muscle tissues from neonatal calves using RNA-seq.

Organism:

Bos taurus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26012

16 Samples

Download data: TXT

(Submitter supplied) Transcriptome analysis was performed on the thymus of necropsied Japanese Black calves with a poor prognosis, to clarify the pathology of acute thymic involution, which often happens in farmed calves with a poor prognosis. Gene expression profiles obtained by DNA microarray analysis of eight calf thymuses were grouped into three patterns associated with the histopathological classification of acute thymic involution. more...

Organism:

Bos taurus

Type:

Expression profiling by array

Platform:

GPL34592

8 Samples

Download data: CSV, TXT