Abstract:
BACKGROUND:Lipopolysaccharide (LPS) endotoxin stimulates pro-inflammatory pathways and is a key player in the pathological mechanisms involved in the development of endometritis. This study aimed to investigate LPS-induced DNA methylation changes in bovine endometrial epithelial cells (bEECs), which may affect endometrial function. Following in vitro culture, bEECs from three cows were either untreated (0) or exposed to 2 and 8 μg/mL LPS for 24 h. RESULTS:DNA samples extracted at 0 h and 24 h were sequenced using reduced representation bisulfite sequencing (RRBS). When comparing DNA methylation results at 24 h to time 0 h, a larger proportion of hypomethylated regions were identified in the LPS-treated groups, whereas the trend was opposite in controls. When comparing LPS groups to controls at 24 h, a total of 1291 differentially methylated regions (DMRs) were identified (55% hypomethylated and 45% hypermethylated). Integration of DNA methylation data obtained here with our previously published gene expression data obtained from the same samples showed a negative correlation (r = - 0.41 for gene promoter, r = - 0.22 for gene body regions, p < 0.05). Differential methylation analysis revealed that effects of LPS treatment were associated with methylation changes for genes involved in regulation of immune and inflammatory responses, cell adhesion, and external stimuli. Gene ontology and pathway analyses showed that most of the differentially methylated genes (DMGs) were associated with cell proliferation and apoptotic processes; and pathways such as calcium-, oxytocin- and MAPK-signaling pathways with recognized roles in innate immunity. Several DMGs were related to systemic inflammation and tissue re-modelling including HDAC4, IRAK1, AKT1, MAP3K6, Wnt7A and ADAMTS17. CONCLUSIONS:The present results show that LPS altered the DNA methylation patterns of bovine endometrial epithelial cells. This information, combined with our previously reported changes in gene expression related to endometrial function, confirm that LPS activates pro-inflammatory mechanisms leading to perturbed immune balance and cell adhesion processes in the endometrium.
journal_name
BMC Genomicsjournal_title
BMC genomicsauthors
Jhamat N,Niazi A,Guo Y,Chanrot M,Ivanova E,Kelsey G,Bongcam-Rudloff E,Andersson G,Humblot Pdoi
10.1186/s12864-020-06777-7subject
Has Abstractpub_date
2020-06-03 00:00:00pages
385issue
1issn
1471-2164pii
10.1186/s12864-020-06777-7journal_volume
21pub_type
杂志文章相关文献
BMC GENOMICS文献大全abstract:BACKGROUND:Neighboring gene pairs in the genome of Saccharomyces cerevisiae have a tendency to be expressed at the same time. The distribution of histone modifications along chromatin fibers is suggested to be an important mechanism responsible for such coexpression. However, the extent of the contribution of histone m...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-550
更新日期:2010-10-09 00:00:00
abstract:BACKGROUND:Though Illumina has largely dominated the RNA-Seq field, the simultaneous availability of Ion Torrent has left scientists wondering which platform is most effective for differential gene expression (DGE) analysis. Previous investigations of this question have typically used reference samples derived from cel...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-4011-0
更新日期:2017-08-10 00:00:00
abstract:BACKGROUND:V(D)J recombinations in lymphocytes are essential for immunological diversity. They are also useful markers of pathologies. In leukemia, they are used to quantify the minimal residual disease during patient follow-up. However, the full breadth of lymphocyte diversity is not fully understood. RESULTS:We prop...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-409
更新日期:2014-05-28 00:00:00
abstract:BACKGROUND:Prostate cancer (PCa) is a leading cause of cancer-related death of men worldwide. There is an urgent need to develop novel biomarkers for PCa prognosis and diagnosis in the post prostate-specific antigen era. Long intergenic noncoding RNAs (lincRNAs) play essential roles in many physiological processes and ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-16-S7-S3
更新日期:2015-01-01 00:00:00
abstract:BACKGROUND:Health traits are of significant economic importance to the dairy industry due to their effects on milk production and associated treatment costs. Genome-wide association studies (GWAS) provide a means to identify associated genomic variants and thus reveal insights into the genetic architecture of complex t...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-6461-z
更新日期:2020-01-13 00:00:00
abstract:BACKGROUND:The human microbiome plays a significant role in maintaining normal physiology. Changes in its composition have been associated with bowel disease, metabolic disorders and atherosclerosis. Sequences of microbial origin have been observed within small RNA sequencing data obtained from blood samples. The aim o...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-933
更新日期:2014-10-25 00:00:00
abstract:BACKGROUND:The genomic organisation of the Major Histocompatibility Complex (MHC) varies greatly between different vertebrates. In mammals, the classical MHC consists of a large number of linked genes (e.g. greater than 200 in humans) with predominantly immune function. In some birds, it consists of only a small number...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-6-152
更新日期:2005-11-04 00:00:00
abstract:BACKGROUND:Peromyscus are the most common mammalian species in North America and are widely used in both laboratory and field studies. The deer mouse, P. maniculatus and the old-field mouse, P. polionotus, are closely related and can generate viable and fertile hybrid offspring. The ability to generate hybrid offspring...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-06969-1
更新日期:2020-09-11 00:00:00
abstract:BACKGROUND:Marine diatoms constitute a major component of eukaryotic phytoplankton and stand at the crossroads of several evolutionary lineages. These microalgae possess peculiar genomic features and novel combinations of genes acquired from bacterial, animal and plant ancestors. Furthermore, they display both DNA meth...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-698
更新日期:2014-08-20 00:00:00
abstract:BACKGROUND:S. aureus is one of the main pathogens responsible for the intra-mammary infection in dairy ruminants. Although much work has been carried out to understand the complex physiological and cellular events that occur in the mammary gland in response to S. aureus, the protective mechanisms are still poorly under...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-540
更新日期:2012-10-09 00:00:00
abstract:BACKGROUND:The 2009 pandemic H1N1 influenza virus emerged in swine and quickly became a major global health threat. In mouse, non human primate, and swine infection models, the pH1N1 virus efficiently replicates in the lung and induces pro-inflammatory host responses; however, whether similar or different cellular path...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-627
更新日期:2012-11-15 00:00:00
abstract:BACKGROUND:Adult neurogenesis, which is the continual production of new neurons in the mature brain, demonstrates the strikingly plastic nature of the nervous system. Adult neural stem cells and their neural precursors, collectively referred to as neural progenitor cells (NPCs), are present in the subgranular zone (SGZ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-206
更新日期:2014-03-19 00:00:00
abstract:BACKGROUND:Larval developmental patterns are extremely varied both between and within phyla, however the genetic mechanisms leading to this diversification are poorly understood. We assembled and compared the developmental transcriptomes for two sea biscuit species (Echinodermata: Echinoidea) with differing patterns of...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-4768-9
更新日期:2018-05-18 00:00:00
abstract:BACKGROUND:Even before having its genome sequence published in 2004, Kluyveromyces lactis had long been considered a model organism for studies in genetics and physiology. Research on Kluyveromyces lactis is quite advanced and this yeast species is one of the few with which it is possible to perform formal genetic anal...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-517
更新日期:2012-10-01 00:00:00
abstract:BACKGROUND:The antitumor drug daunorubicin exerts some of its cytotoxic effects by binding to DNA and inhibiting the transcription of different genes. We analysed this effect in vivo at the transcriptome level using the budding yeast Saccharomyces cerevisiae as a model and sublethal (IC40) concentrations of the drug to...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-358
更新日期:2008-07-30 00:00:00
abstract:BACKGROUND:Pantoea ananatis is found in a wide range of natural environments, including water, soil, as part of the epi- and endophytic flora of various plant hosts, and in the insect gut. Some strains have proven effective as biological control agents and plant-growth promoters, while other strains have been implicate...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-404
更新日期:2014-05-27 00:00:00
abstract:BACKGROUND:Endogenous α-synuclein (α-Syn) is involved in many pathophysiological processes in the secondary injury stage after acute spinal cord injury (SCI), and the mechanism governing these functions has not been thoroughly elucidated to date. This research aims to characterize the effect of α-Syn knockdown on trans...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-6244-6
更新日期:2019-11-14 00:00:00
abstract:BACKGROUND:Aquaporins are a large family of transmembrane channel proteins that are present throughout all domains of life and are implicated in human disorders. These channels, allow the passive but selective movement of water and other small neutral solutes across cell membranes. Aquaporins have been classified into ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-S4-S8
更新日期:2011-12-22 00:00:00
abstract:BACKGROUND:The capacity of European pear fruit (Pyrus communis L.) to ripen after harvest develops during the final stages of growth on the tree. The objective of this study was to characterize changes in 'Bartlett' pear fruit physico-chemical properties and transcription profiles during fruit maturation leading to att...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-1939-9
更新日期:2015-10-09 00:00:00
abstract:BACKGROUND:Microarray technology is limited to monitoring the expression of previously annotated genes that have corresponding probes on the array. Computationally annotated genes have not fully been validated, because ESTs and full-length cDNAs cannot cover entire transcribed regions. Here, mRNA-Seq (an Illumina cDNA ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-683
更新日期:2010-12-02 00:00:00
abstract:BACKGROUND:Interactions between fish and pathogens, that may be harmless under natural conditions, often result in serious diseases in aquaculture systems. This is especially important due to the fact that the strains used in aquaculture are derived from wild strains that may not have had enough time to adapt to new di...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-541
更新日期:2011-11-02 00:00:00
abstract:BACKGROUND:We previously described the first respiratory Saccharomyces cerevisiae strain, KOY.TM6*P, by integrating the gene encoding a chimeric hexose transporter, Tm6*, into the genome of an hxt null yeast. Subsequently we transferred this respiratory phenotype in the presence of up to 50 g/L glucose to a yeast strai...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-365
更新日期:2008-07-31 00:00:00
abstract:BACKGROUND:High throughput genotyping of single nucleotide polymorphisms (SNPs) for genome-wide association requires technologies for generating millions of genotypes with relative ease but also at a reasonable cost and with high accuracy. In this work, we have developed a theoretical approach to estimate allele freque...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-605
更新日期:2008-12-16 00:00:00
abstract:BACKGROUND:Bacteroides thetaiotaomicron, a predominant member of the human gut microbiota, is characterized by its ability to utilize a wide variety of polysaccharides using the extensive saccharolytic machinery that is controlled by an expanded repertoire of transcription factors (TFs). The availability of genomic seq...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-873
更新日期:2013-12-12 00:00:00
abstract:BACKGROUND:Avian infectious bronchitis virus (IBV) is a gamma coronavirus that severely affects the poultry industry worldwide. Long non-coding RNAs (lncRNAs), a subset of non-coding RNAs with a length of more than 200 nucleotides, have been recently recognized as pivotal factors in the pathogenesis of viral infections...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-07359-3
更新日期:2021-01-20 00:00:00
abstract:BACKGROUND:Proliferation and tumor differentiation captured by the genomic grade index (GGI) are important prognostic indicators in breast cancer (BC) especially for the estrogen receptor positive (ER+) disease. The aims of this study were to convert this microarray index to a qRT-PCR assay (PCR-GGI), which could be re...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-424
更新日期:2009-09-10 00:00:00
abstract:BACKGROUND:Drosophila melanogaster females show changes in behavior and physiology after mating that are thought to maximize the number of progeny resulting from the most recent copulation. Sperm and seminal fluid proteins induce post-mating changes in females, however, very little is known about the resulting gene exp...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-541
更新日期:2010-10-06 00:00:00
abstract:BACKGROUND:The identification of genetic markers associated with complex traits that are expensive to record such as feed intake or feed efficiency would allow these traits to be included in selection programs. To identify large-effect QTL, we performed a series of genome-wide association studies and functional analyse...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-1004
更新日期:2014-11-20 00:00:00
abstract:BACKGROUND:Bacteriophages are the most abundant and diverse entities in the biosphere, and this diversity is driven by constant predator-prey evolutionary dynamics and horizontal gene transfer. Phage genome sequences are under-sampled and therefore present an untapped and uncharacterized source of genetic diversity, ty...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-5647-8
更新日期:2019-05-09 00:00:00
abstract:BACKGROUND:RNA-Seq is now widely used as a research tool. Choices must be made whether to use paired-end (PE) or single-end (SE) sequencing, and whether to use strand-specific or non-specific (NS) library preparation kits. To date there has been no analysis of the effect of these choices on identifying differentially e...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-3797-0
更新日期:2017-05-23 00:00:00