Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gene expression profiling to identify uterine chicken proteins associated with the supply of minerals and potentially actives on the biomineralisation process during eggshell formation

ABSTRACT: We used a transcriptomic approach based on the comparison of the expression in the uterine tissue when an hard-shelled egg was in calcification (normal) versus uterine tissue collected after premature expulsion of the egg before mineralization has begun (expelled) to better appreciate which uterine chicken proteins are associated with the supply of minerals and potentially actives on the biomineralisation process during eggshell formation. A total of 16 microarray slides were used for hybridization of the 8 uterine tissues collected when an hard-shelled egg was in calcification (normal), and mixed to the 8 uterine tissues collected after premature expulsion of the egg before mineralization has begun (expelled) were analysed, with an experimental design in dye swap (all the slides labeled with fluorophore Alexa 555 and with Alexa 647 for each condition).

ORGANISM(S): Gallus gallus

SUBMITTER: Joel Gautron

PROVIDER: E-GEOD-52823 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Gene expression profiling to identify uterine chicken proteins associated with the supply of minerals and potentially actives on the biomineralisation process during eggshell formation

Project description:We used a transcriptomic approach based on the comparison of the expression in the uterine tissue when an hard-shelled egg was in calcification (normal) versus uterine tissue collected after premature expulsion of the egg before mineralization has begun (expelled) to better appreciate which uterine chicken proteins are associated with the supply of minerals and potentially actives on the biomineralisation process during eggshell formation.

2013-12-10 | GSE52823 | GEO

Transcriptome uterus

Project description:cDNA microarrays were used to identify the expression of the genes in uterus by comparison with two others regions of the oviduct not involved in the shell deposition. A total of 605 sequences specifically over-expressed were revealed. The expression of 15 of them was also confirmed using qRT-PCR, and confirmed the microarray expression. The 605 uterine transcripts corresponded to 469 and 437 different genes and proteins respectively. A global interpretation of their functions was assessed using the Gene Ontology terms and the most over-represented terms are relative to the mineral transport and transfer necessary to the calcification process. The study has revealed 53 proteins which could be secreted to be deposited in the shell to be biologically actives. The study of their functions reveals proteins known for their involvement in the biomineralization or with calcium binding properties to interact with the mineral phase during the eggshell fabric. A large group of proteins could be involved in the folding of the matrix, and a notable group of uterine secreted proteins was also identified as antibacterial to contribute to the antimicrobial protection of the egg. Finally the study revealed proteases and protease inhibitors which could play an active role in the regulation of the protein activities in the acellular uterine fluid where the eggshell is formed. Keywords: Laying hen, eggshell, oviduct, uterine expression, cDNA microarray, indirect cDNA labelling, Alexa Fluor dyes A balanced block hybridization design (Dye switch) was used where half of the samples were labelled with AlexaÂ® 555 fluorescent dye and the other half with AlexaÂ® 647. A total of 16 microarray slides were used for hybridization to 32 samples that correspond to four tissue contrast (uterus versus magnum and uterus versus white isthmus).

2010-05-06 | E-GEOD-17267 | biostudies-arrayexpress

Gene expression profiling in the endometrium of pregnant mammals

Project description:A major challenge in biology is to determine how evolutionarily novel characters originate, however, mechanistic explanations for the origin of novelties are almost completely unknown. The evolution of mammalian pregnancy is an excellent system in which to study the origin of novelties because extant mammals preserve major stages in the transition from egg-laying to live-birth. To determine the molecular bases of this transition, we characterized the pregnant/gravid uterine transcriptome from tetrapods, including species in the three major mammalian lineages, and used ancestral transcriptome reconstruction to trace the evolutionary history of uterine gene expression. We show that thousands of genes evolved or lost uterine expression during the origins of mammalian pregnancy, including the loss of genes responsible for the mineralization of the eggshell in the Mammalian and Therian stem-lineages, and the recruitment of genes into uterine expression that mediate maternal-fetal communication and maternal immunotolerance of the fetal allograft in the Therian and Eutherian stem-lineages. Our results indicate that one of the defining mammalian novelties evolved through a step-wise process that dramatically changed uterine gene expression, generating a suite of evolutionary innovations that support prolonged gestations. We report genome-wide gene expression generated by mRNA-Seq from the pregnant endometrium of dog, armadillo, and the platypus.

2015-01-30 | E-GEOD-57714 | biostudies-arrayexpress

Mytilus coruscus isolate:GouQi | breed:wild

Project description:Five developmental stages of the hard-shelled mussel

| PRJNA689932 | ENA

Gene expression profiling in the endometrium of pregnant mammals

2015-01-30 | GSE57714 | GEO

Exploring molecular profiles of osteogenically differentiated aortic valvular interstitial cells

Project description:Aortic valve calcifications are often associated with calcium deposition and tissue mineralization, resulting in stiffness and dysfunction. To better understand the diversity of molecular and cellular processes for calcification in valve structures, we isolated human aortic valve interstitial cells (AVICs) and exposed them to calcification stimulation. RNA-seq revealed that in response to calcified stimuli, AVIC activates a robust ossification program, although the signaling pathways, cellular processes, and osteogenesis-related markers involved are diverse. In conclusion, this study provides a wealth of information suggesting that the pathogenesis of aortic valve calcification may be much more than previously understood.

2024-01-03 | GSE252266 | GEO

Uterine transcriptome of hens laying hard or weak-shell eggs

Project description:Our study investigated the differences of uterine transcriptome in laying hen holding a high or low breaking strength shell. The eggshell calcification periods are divided into three periods, namely initiation, growth and termination periods respectively. The large differences in the transcriptome proved that the initiation period of calcification determine eggshell strength.

2019-03-07 | GSE127974 | GEO

Genomic Analysis Reveals Pleiotropic Alleles at EDN3 and BMP7 Involved in Chicken Comb Color and Egg Production

Project description:Dongxiang blue-shelled chicken, an indigenous chicken breed in China, has segregated significantly for the dermal hyperpigmentation phenotype. Two lines of the chicken have been divergently selected with respect to comb color for over 20 generations. The recent selection has also resulted in a significant difference in egg production. The red comb line (RCL) chicken produces significantly higher number of eggs than that by the dark comb line (DCL) chicken. The objective of this study was to explore potential mechanisms involved in the relationship between comb color and egg production among chickens. We performed genome-wide association study to identify candidate genes associated with chicken comb color using SNP array data, and we conducted selective sweep analysis to identify putative regions of selection harboring pleiotropic genes affecting both comb color and egg production.

2019-06-04 | GSE124906 | GEO

Human Cardiovascular Tissue Extracellular Vesicles

Project description:Fewer than 50% of patients develop vascular and valvular calcification, implying differential pathogenesis. Tissue-entrapped extracellular vesicles (EVs) are found in mineralization but their contents and functions are unstudied. Tissue EVs were isolated from normal and diseased human carotid arteries and aortic valves by enzymatic digestion, serial (ultra)centrifugation and density-gradient separation.

2023-07-10 | PXD035529 | Pride

Chicken uterine fluid protein description and quantification

Project description:Gallus gallus avian eggshell is a biomineral composed of 95% of calcium carbonate on calcitic form and of 3.5% of an extracellular organic matrix (proteins, polysaccharides and proteoglycans). The calcification process occurred in the lumen of the uterus into the acellular uterine fluid, and is divided in three stages (initial, growth and terminal), where the concentration and the nature of proteins varies depending on stages. We have used mass spectrometry methodologies to identify and quantify proteins secreted into the uterine fluid proteins during the three stages of biomineralization.

2014-08-18 | PXD000992 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data