scholarly journals Ontogenetic Survey of Histone Modifications in an Annelid

2012 ◽  
Vol 2012 ◽  
pp. 1-11 ◽  
Author(s):  
Glenys Gibson ◽  
Corban Hart ◽  
Robyn Pierce ◽  
Vett Lloyd
Keyword(s):  
Gene Expression ◽  
Histone Modifications ◽  
Marine Invertebrates ◽  
Marine Invertebrate ◽  
Specific Cell ◽  
Early Cleavage ◽  
Cell Lineages ◽  
Common Time ◽  
Wide Range ◽  
Development And Differentiation

Histone modifications are widely recognized for their fundamental importance in regulating gene expression in embryonic development in a wide range of eukaryotes, but they have received relatively little attention in the development of marine invertebrates. We surveyed histone modifications throughout the development of a marine annelid, Polydora cornuta, to determine if modifications could be detected immunohistochemically and if there were characteristic changes in modifications throughout ontogeny (surveyed at representative stages from oocyte to adult). We found a common time of onset for three histone modifications in early cleavage (H3K14ac, H3K9me, and H3K4me2), some differences in the distribution of modifications among germ layers, differences in epifluorescence intensity in specific cell lineages suggesting that hyperacetylation (H3K14ac) and hypermethylation (H3K9me) occur during differentiation, and an overall decrease in the distribution of modifications from larvae to adults. Although preliminary, these results suggest that histone modifications are involved in activating early development and differentiation in a marine invertebrate.

scholarly journals How to distinguish between different cell lineages sharing common markers using combinations of double in-situ-hybridization and immunostaining in avian embryos: CXCR4-positive mesodermal and neural crest-derived cells

2020 ◽  
Vol 155 (1) ◽  
pp. 145-155 ◽  
Author(s):  
Imadeldin Yahya ◽  
Marion Böing ◽  
Beate Brand-Saberi ◽  
Gabriela Morosan-Puopolo
Keyword(s):  
Gene Expression ◽  
In Situ Hybridization ◽  
Embryonic Development ◽  
Neural Crest ◽  
Expression Patterns ◽  
Simultaneous Detection ◽  
Neural Crest Cells ◽  
Cell Lineages ◽  
Wide Range

AbstractCell migration plays a crucial role in early embryonic development. The chemokine receptor CXCR4 has been reported to guide migration of neural crest cells (NCCs) to form the dorsal root ganglia (DRG) and sympathetic ganglia (SG). CXCR4 also plays an important part during the formation of limb and cloacal muscles. NCCs migration and muscle formation during embryonic development are usually considered separately, although both cell lineages migrate in close neighbourhood and have markers in common. In this study, we present a new method for the simultaneous detection of CXCR4, mesodermal markers and NCCs markers during chicken embryo developmental stages HH18–HH25 by combining double whole-mount in situ hybridization (ISH) and immunostaining on floating vibratome sections. The simultaneous detection of CXCR4 and markers for the mesodermal and neural crest cells in multiple labelling allowed us to compare complex gene expression patterns and it could be easily used for a wide range of gene expression pattern analyses of other chicken embryonic tissues. All steps of the procedure, including the preparation of probes and embryos, prehybridization, hybridization, visualization of the double labelled transcripts and immunostaining, are described in detail.

Nanofeaturing materials for specific cell responses

2004 ◽  
Vol 845 ◽  
Author(s):  
Adam Curtis
Keyword(s):  
Gene Expression ◽  
Medical Devices ◽  
Short Review ◽  
Specific Cell ◽  
Mechanical Forces ◽  
Cell Type ◽  
Cell Responses ◽  
Wide Range ◽  
Orientation Movement ◽  
Fine Tune

ABSTRACTA review of the ways in which cells react to nanofeatured surfaces is given. One of the prime reactions is of adhesion or otherwise to such surfaces. Topography appears to be of considerable importance and a wide range of cell properties are affected by the type, scale and regularity of topography. Chemistry can be combined with topography to fine- tune effects. Mechanical forces are also of importance but in practice it is hard to control these.Examples will be given of methods of controlling adhesion, morphology, orientation, movement, phagocytic activity and activation and gene expression of cells, Effects vary according cell type and also the spacing and size of nanofeatures. A discussion of the application of these findings to the medical devices concludes this short review.

scholarly journals HAEMAGGLUTINATION ACTIVITY OF THE EXTRACTS FROM SOME VIETNAM MARINE INVERTEBRATES

2018 ◽  
Vol 15 (4) ◽  
pp. 691-701
Author(s):  
Dinh Thanh Trung ◽  
Vo Thi Dieu Trang ◽  
Ngo Thi Duy Ngoc ◽  
Phan Thi Hoai Trinh ◽  
Tran Thi Hai Yen ◽  
...  
Keyword(s):  
Biomedical Applications ◽  
Marine Invertebrates ◽  
Divalent Cations ◽  
Marine Invertebrate ◽  
Haemagglutination Inhibition ◽  
Gastropod Species ◽  
Strong Activity ◽  
Wide Range ◽  
Tridacna Squamosa ◽  
Haemagglutination Activity

Aqueous extracts from 21 species of Vietnam marine invertebrates, including 11 bivalve and 10 gastropod species, were examined for haemagglutination activity using native and enzyme-treated different animal and human erythrocytes. The 8 bivalve and 10 gastropod species were found to have haemagglutinination activities toward at least one type of erythrocyte tested. A total of 86% of marine invertebrate species surveyed were active. Strong activity was detected in extracts from two bivalve species (Tridacna squamosa and Geloina coaxans) and three gastropod species (Tutufa rubeta, Pleuroploca trapezium and Tectus conus) with enzyme-treated rabbit, horse and human A, B, O erythrocytes. In a haemagglutination–inhibition test with various monosaccharides and glycoproteins, haemagglutination activities of two extracts from T. rubeta and P. trapezium had no affinity for any of the monosaccharides and glycoproteins tested, while activities of the extracts from T. squamosa and T. conus were strongly inhibited by porcine stomach mucin tested, suggesting the presence of lectins specific for O-glycans of these species. The activities of four marine invertebrate extracts were stable over a wide range ofpH and temperature. The haemagglutination activities of T. rubeta and P. trapezium extracts were independent of the presence of divalent cations, whereas the haemagglutination activity of extracts from T. squamosa and T. conus were slightly dependent on the presence of divalent cations. The results suggest that Vietnam marine invertebrates may be good sources of useful lectins for biochemical and biomedical applications.

scholarly journals Developments in marine invertebrate primary culture reveal novel cell morphologies in the model bivalve Crassostrea gigas

PeerJ ◽  
2020 ◽  
Vol 8 ◽  
pp. e9180
Author(s):  
Robert W.A. Potts ◽  
Alejandro P. Gutierrez ◽  
Yennifer Cortés-Araya ◽  
Ross D. Houston ◽  
Tim P. Bean
Keyword(s):  
Cell Culture ◽  
Culture System ◽  
Pacific Oyster ◽  
Marine Invertebrates ◽  
Marine Invertebrate ◽  
Genetic Resistance ◽  
Primary Cell ◽  
Model Systems ◽  
Mantle Tissue ◽  
Wide Range

Cell culture provides useful model systems used in a wide range of biological applications, but its utility in marine invertebrates is limited due to the lack of immortalised cell lines. Primary cell and tissue cultures are typically used but remain poorly characterised for oysters, which can cause issues with experimental consistency and reproducibility. Improvements to methods of repeatable isolation, culture, and characterisation of oyster cells and tissues are required to help address these issues. In the current study, systematic improvements have been developed to facilitate the culture of primary cells from adult Pacific oyster tissues and identify novel cell morphologies that have not been reported previously. Cultures analysed by light microscopy, qPCR, and live cell imaging demonstrated maintenance of live, metabolically active Pacific oyster cells for several weeks post-explant. Interestingly, whole hearts dissected from adult oysters were found to continue contracting rhythmically up to 8 weeks after being transferred to a tissue culture system. Mantle tissue explants were also actively moving in the culture system. These improvements in primary cell culture of bivalves may be beneficial for research in ecotoxicology, virology, immunology, and genetic resistance to disease.

scholarly journals Cell type-specific differential expression for spatial transcriptomics

2021 ◽  
Author(s):  
Dylan M Cable ◽  
Evan Murray ◽  
Vignesh Shanmugam ◽  
Simon Zhang ◽  
Michael Z Diao ◽  
...  
Keyword(s):  
Gene Expression ◽  
Differential Expression ◽  
Differential Gene Expression ◽  
Cell Types ◽  
Specific Cell ◽  
Cell Type ◽  
Unified Framework ◽  
Wide Range ◽  
Cell Type Specific ◽  
Differential Gene

Spatial transcriptomics enables spatially resolved gene expression measurements at near single-cell resolution. There is a pressing need for computational tools to enable the detection of genes that are differentially expressed across tissue context for cell types of interest. However, changes in cell type composition across space and the fact that measurement units often detect transcripts from more than one cell type introduce complex statistical challenges. Here, we introduce a statistical method, Robust Cell Type Differential Expression (RCTDE), that estimates cell type-specific patterns of differential gene expression while accounting for localization of other cell types. By using general log-linear models, we provide a unified framework for defining and identifying gene expression changes for a wide-range of relevant contexts: changes due to pathology, anatomical regions, physical proximity to specific cell types, and cellular microenvironment. Furthermore, our approach enables statistical inference across multiple samples and replicates when such data is available. We demonstrate, through simulations and validation experiments on Slide-seq and MERFISH datasets, that our approach accurately identifies cell type-specific differential gene expression and provides valid uncertainty quantification. Lastly, we apply our method to characterize spatially-localized tissue changes in the context of disease. In an Alzheimer's mouse model Slide-seq dataset, we identify plaque-dependent patterns of cellular immune activity. We also find a putative interaction between tumor cells and myeloid immune cells in a Slide-seq tumor dataset. We make our RCTDE method publicly available as part of the open source R package https://github.com/dmcable/spacexr.

Reverse Screening Bioinformatics Approach to Identify Potential Anti Breast Cancer Targets Using Thymoquinone from Neutraceuticals Black Cumin Oil

2019 ◽  
Vol 19 (5) ◽  
pp. 599-609 ◽  
Author(s):  
Sumathi Sundaravadivelu ◽  
Sonia K. Raj ◽  
Banupriya S. Kumar ◽  
Poornima Arumugamand ◽  
Padma P. Ragunathan
Keyword(s):  
Breast Cancer ◽  
Gene Expression ◽  
Cell Cycle ◽  
Cell Death ◽  
In Silico ◽  
Chemotherapeutic Agents ◽  
Normal Cells ◽  
Black Cumin ◽  
In Silico Docking ◽  
Wide Range

Background: Functional foods, neutraceuticals and natural antioxidants have established their potential roles in the protection of human health and diseases. Thymoquinone (TQ), the main bioactive component of Nigella sativa seeds (black cumin seeds), a plant derived neutraceutical was used by ancient Egyptians because of their ability to cure a variety of health conditions and used as a dietary food supplement. Owing to its multi targeting nature, TQ interferes with a wide range of tumorigenic processes and counteracts carcinogenesis, malignant growth, invasion, migration, and angiogenesis. Additionally, TQ can specifically sensitize tumor cells towards conventional cancer treatments (e.g., radiotherapy, chemotherapy, and immunotherapy) and simultaneously minimize therapy-associated toxic effects in normal cells besides being cost effective and safe. TQ was found to play a protective role when given along with chemotherapeutic agents to normal cells. Methods: In the present study, reverse in silico docking approach was used to search for potential molecular targets for cancer therapy. Various metastatic and apoptotic targets were docked with the target ligand. TQ was also tested for its anticancer activities for its ability to cause cell death, arrest cell cycle and ability to inhibit PARP gene expression. Results: In silico docking studies showed that TQ effectively docked metastatic targets MMPs and other apoptotic and cell proliferation targets EGFR. They were able to bring about cell death mediated by apoptosis, cell cycle arrest in the late apoptotic stage and induce DNA damage too. TQ effectively down regulated PARP gene expression which can lead to enhanced cancer cell death. Conclusion: Thymoquinone a neutraceutical can be employed as a new therapeutic agent to target triple negative breast cancer which is otherwise difficult to treat as there are no receptors on them. Can be employed along with standard chemotherapeutic drugs to treat breast cancer as a combinatorial therapy.

scholarly journals Neurotoxicity in Marine Invertebrates: An Update

Biology ◽  
2021 ◽  
Vol 10 (2) ◽  
pp. 161
Author(s):  
Irene Deidda ◽  
Roberta Russo ◽  
Rosa Bonaventura ◽  
Caterina Costa ◽  
Francesca Zito ◽  
...  
Keyword(s):  
Nervous System ◽  
Marine Invertebrates ◽  
Marine Pollution ◽  
Marine Invertebrate ◽  
High Sensitivity ◽  
Model Systems ◽  
Neural Genes ◽  
Chemical Agents ◽  
Neurotoxic Effects ◽  
Invertebrate Model

Invertebrates represent about 95% of existing species, and most of them belong to aquatic ecosystems. Marine invertebrates are found at intermediate levels of the food chain and, therefore, they play a central role in the biodiversity of ecosystems. Furthermore, these organisms have a short life cycle, easy laboratory manipulation, and high sensitivity to marine pollution and, therefore, they are considered to be optimal bioindicators for assessing detrimental chemical agents that are related to the marine environment and with potential toxicity to human health, including neurotoxicity. In general, albeit simple, the nervous system of marine invertebrates is composed of neuronal and glial cells, and it exhibits biochemical and functional similarities with the vertebrate nervous system, including humans. In recent decades, new genetic and transcriptomic technologies have made the identification of many neural genes and transcription factors homologous to those in humans possible. Neuroinflammation, oxidative stress, and altered levels of neurotransmitters are some of the aspects of neurotoxic effects that can also occur in marine invertebrate organisms. The purpose of this review is to provide an overview of major marine pollutants, such as heavy metals, pesticides, and micro and nano-plastics, with a focus on their neurotoxic effects in marine invertebrate organisms. This review could be a stimulus to bio-research towards the use of invertebrate model systems other than traditional, ethically questionable, time-consuming, and highly expensive mammalian models.

scholarly journals Synonymous single nucleotide polymorphism in arsenic (+3) methyltransferase of the Western mosquitofish (Gambusia affinis) and its gene expression among field populations

Ecotoxicology ◽  
2021 ◽  
Author(s):  
Daesik Park ◽  
Catherine R. Propper ◽  
Guangning Wang ◽  
Matthew C. Salanga
Keyword(s):  
Gene Expression ◽  
Sequence Variation ◽  
Allelic Variation ◽  
Arsenic Concentration ◽  
Gambusia Affinis ◽  
Contamination Level ◽  
Water Medium ◽  
Single Nucleotide ◽  
Wide Range ◽  
High Arsenic

AbstractNaturally occurring arsenic is toxic at extremely low concentrations, yet some species persist even in high arsenic environments. We wanted to test if these species show evidence of evolution associated with arsenic exposure. To do this, we compared allelic variation across 872 coding nucleotides of arsenic (+3) methyltransferase (as3mt) and whole fish as3mt gene expression from three field populations of Gambusia affinis, from water sources containing low (1.9 ppb), medium-low (3.3 ppb), and high (15.7 ppb) levels of arsenic. The high arsenic site exceeds the US EPA’s Maximum Contamination Level for drinking water. Medium-low and high populations exhibited homozygosity, and no sequence variation across all animals sampled. Eleven of 24 fish examined (45.8%) in the low arsenic population harbored synonymous single nucleotide polymorphisms (SNPs) in exons 4 and/or 10. SNP presence in the low arsenic population was not associated with differences in as3mt transcript levels compared to fish from the medium-low site, where SNPs were noted; however, as3mt expression in fish from the high arsenic concentration site was significantly lower than the other two sites. Low sequence variation in fish populations from sites with medium-low and high arsenic concentrations suggests greater selective pressure on this allele, while higher variation in the low population suggests a relaxed selection. Our results suggest gene regulation associated with arsenic detoxification may play a more crucial role in influencing responses to arsenic than polymorphic gene sequence. Understanding microevolutionary processes to various contaminants require the evaluation of multiple populations across a wide range of pollution exposures.

scholarly journals Peptide signaling without feedback in signal production operates as a true quorum sensing communication system in Bacillus subtilis

2021 ◽  
Vol 4 (1) ◽  
Author(s):  
Iztok Dogsa ◽  
Mihael Spacapan ◽  
Anna Dragoš ◽  
Tjaša Danevčič ◽  
Žiga Pandur ◽  
...  
Keyword(s):  
Gene Expression ◽  
Bacillus Subtilis ◽  
Quorum Sensing ◽  
Cell Density ◽  
Communication System ◽  
Communication Systems ◽  
Feedback Loop ◽  
Signal Molecules ◽  
Specific Cell ◽  
Sharp Transition

AbstractBacterial quorum sensing (QS) is based on signal molecules (SM), which increase in concentration with cell density. At critical SM concentration, a variety of adaptive genes sharply change their expression from basic level to maximum level. In general, this sharp transition, a hallmark of true QS, requires an SM dependent positive feedback loop, where SM enhances its own production. Some communication systems, like the peptide SM-based ComQXPA communication system of Bacillus subtilis, do not have this feedback loop and we do not understand how and if the sharp transition in gene expression is achieved. Based on experiments and mathematical modeling, we observed that the SM peptide ComX encodes the information about cell density, specific cell growth rate, and even oxygen concentration, which ensure power-law increase in SM production. This enables together with the cooperative response to SM (ComX) a sharp transition in gene expression level and this without the SM dependent feedback loop. Due to its ultra-sensitive nature, the ComQXPA can operate at SM concentrations that are 100–1000 times lower than typically found in other QS systems, thereby substantially reducing the total metabolic cost of otherwise expensive ComX peptide.

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