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Transcriptome uterus

ABSTRACT: 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

ORGANISM(S): Gallus gallus

PROVIDER: GSE17267 | GEO | 2009/09/01

SECONDARY ACCESSION(S): PRJNA119121

REPOSITORIES: GEO

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

2013-12-10 | GSE52823 | GEO

Gallus gallus white isthmus transcriptome

Project description:The Del-Mar 14K chip was used to interrogate differential expression of transcripts in the white isthmus (WI) compared with the adjacent magnum (Mg) and uterine (Ut) segments of the hen oviduct. Differential expression of genes common to both comparisons (WI/Mg and WI/Ut) was detected for 204 annotated proteins. Of these, 58 genes were overexpressed in both WI/Mg and WI/Ut, and are therefore considered to be the most interesting candidates for WI - specific functions. Additionally, general analysis revealed 135 clones hybridizing to overexpressed transcripts (WI/Mg + WI/Ut), and corresponding to 102 NCBI annotatated non-redundant Gallus gallus gene ID~s. This combined analysis revealed that structural proteins highly over-expressed in white isthmus were collagen X (COL10A1), Fibrillin (FBN1) and Cysteine Rich Eggshell Membrane Protein (CREMP). In addition, genes encoding collagen-processing enzymes were over-expressed, as were proteins known to regulate disulfide cross-linking, suggesting that coordinated upregulation of gene networks in the white isthmus is associated with eggshell membrane fibre formation. IPA interactome analysis reinforces the key role of the estrogen receptor and SMAD3 in mediating gene regulation during eggshell membrane synthesis. These results will assist with development of selection strategies to improve eggshell quality and food safety of the table egg. Keywords: Laying hen, eggshell, oviduct, Isthmus expression, cDNA microarray, indirect cDNA labelling, Alexa Fluor dyes Keywords: Expression profiling by array

2013-12-01 | GSE52491 | 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

Gallus gallus white isthmus transcriptome

2013-12-01 | E-GEOD-52491 | biostudies-arrayexpress

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. 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).

2013-12-10 | E-GEOD-52823 | biostudies-arrayexpress

Mineral-bound ostrich eggshell peptides survive for up to 3.8 Ma in equatorial Africa

Project description:Claims for exceptional preservation of biomolecules in the fossil record are contested. Here we demonstrate the role of surface stabilisation in significantly prolonging protein sequence survival to ~3.8 million years. The intracrystalline environment of calcite ostrich (Struthionidae) eggshell encapsulates uterine proteins and molecular dynamics simulations of struthiocalcin-1 & -2, the dominant proteins within the eggshell, reveal that they bind to the mineral surface in distinct domains. By ~3.8 million years the struthiocalcin-1 domain with the lowest calculated binding energy is selectively preserved in eggshell samples from equatorial Africa. Sequence survival is explained by entropy loss of the peptide and water, lowering the effective temperature of the local environment at the peptide mineral interface.

2018-07-16 | PXD003786 | Pride

Characterization and quantification of chicken eggshell proteins during pivotal events of shell calcification

Project description:Gallus gallus avian eggshell is composed of 95% calcium carbonate on calcitic form and of 3.5% extracellular organic matrix (proteins, polysaccharides and proteoglycans). This highly ordered structure with a polycrystalline organization result of the control of mineral deposition by the organic matrix components in the lumen of the uterus. This interaction leads to the eggshell ultrastructure and consequently contributes to its resulting mechanical properties. This study used GeLC MS/MS analyses combined to label free quantitative analysis to identify and quantify matrix proteins at the pivotal step of the calcification process (amorphous calcium carbonate deposit, amorphous calcium carbonate transformation into calcite, large calcite crystal units and rapid growth phase). The study gave new insight on proteins playing crucial role in the biomineralization of the shell.

2015-06-09 | PXD001450 | Pride

Differential expression analysis of genes from the mantle tissue of pearl oyster: Pinctada maxima

Project description:The mantle is a thin tissue from which proteins are secreted dictating the mollusk shell construction. As a conserved organ involved in shell formation throughout mollusks, the mantle is an excellent foundation from which to study biomineralization. A P. maxima mantle tissue specific cDNA microarray, termed PmaxArray 1.0, has been developed comprising 5000 cDNA transcripts derived from the mantle tissue of P. maxima. This tool has been used to investigate the spatial functional dynamics of the mantle tissue identifying over 2000 PmaxArray 1.0 spots as differentially expressed spatially within this organ. Gene expression profiles observed for these transcripts indicated 5 major spatial functions for the mantle, 3 of which have been putatively attributed to shell formation roles associated with nacre microstructure, calcite prismatic microstructure and periostracum. These transcripts are further examined with in situ expression localization and comparative sequence analyses in reference to potential shell formation roles. This spatial investigation has expedited the elucidation of functions within the dynamic mantle organ, paying particular attention to of shell biomineralization. Keywords: Spatial expression profiling by array

2010-02-05 | GSE14303 | GEO

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

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