Copy-number variation of housekeeping gene rpl13a in rat strains selected for nervous system excitability

Kalendar, Ruslan; Belyayev, Alexander; Zachepilo, T. G.; Vaido, A. I.; Maidanyuk, D. M.; Schulman, Alan H.; Dyuzhikova, N. A.

doi:10.1016/j.mcp.2017.02.004

Cited by 5 publications

(2 citation statements)

References 37 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The VRN1 gene is present as a single copy per haploid genome; thus, the gene is a good example of a low-copy-number target. Although GW techniques are believed to be better suited to multi-copy targets 23 , here PST-PCR successfully captured a single-copy target.…”

Section: Resultsmentioning

confidence: 96%

Palindromic sequence-targeted (PST) PCR: a rapid and efficient method for high-throughput gene characterization and genome walking

Kalendar

Shustov

Seppänen

et al. 2019

Sci Rep

Self Cite

View full text Add to dashboard Cite

Genome walking (GW) refers to the capture and sequencing of unknown regions in a long DNA molecule that are adjacent to a region with a known sequence. A novel PCR-based method, palindromic sequence-targeted PCR (PST-PCR), was developed. PST-PCR is based on a distinctive design of walking primers and special thermal cycling conditions. The walking primers (PST primers) match palindromic sequences (PST sites) that are randomly distributed in natural DNA. The PST primers have palindromic sequences at their 3′-ends. Upstream of the palindromes there is a degenerate sequence (8–12 nucleotides long); defined adapters are present at the 5′-termini. The thermal cycling profile has a linear amplification phase and an exponential amplification phase differing in annealing temperature. Changing the annealing temperature to switch the amplification phases at a defined cycle controls the balance between sensitivity and specificity. In contrast to traditional genome walking methods, PST-PCR is rapid (two to three hours to produce GW fragments) as it uses only one or two PCR rounds. Using PST-PCR, previously unknown regions (the promoter and intron 1) of the VRN1 gene of Timothy-grass (Phleum pratense L.) were captured for sequencing. In our experience, PST-PCR had higher throughput and greater convenience in comparison to other GW methods.

show abstract

Section: Resultsmentioning

confidence: 96%

Palindromic sequence-targeted (PST) PCR: a rapid and efficient method for high-throughput gene characterization and genome walking

Kalendar

Shustov

Seppänen

et al. 2019

Sci Rep

Self Cite

View full text Add to dashboard Cite

show abstract

“…To date, these rat strains have not been genotyped, which makes it difficult to find a connection between the microbiome and the genetic characteristics of the host. However, in animals with genetically determined contrast excitability, not only behavioral differences were revealed, it is known that highly excitable rats (LT) have increased thyroid and HPA axis activity (high basal corticosterone level), higher levels of dopamine in the amygdala, higher levels of calcium in the brain and calmodulin in the hippocampus compared to the HT strain [ 39 ].…”

Section: Discussionmentioning

confidence: 99%

Post-stress changes in the gut microbiome composition in rats with different levels of nervous system excitability

Shevchenko,

Shalaginova,

Katserov

et al. 2023

PLoS ONE

Self Cite

View full text Add to dashboard Cite

The gut-brain axis is a critical communication system influencing the interactions between the gastrointestinal tract (GI) and the central nervous system (CNS). The gut microbiota plays a significant role in this axis, affecting the development and function of the nervous system. Stress-induced psychopathologies, such as depression and anxiety, have been linked to the gut microbiota, but underlying mechanisms and genetic susceptibility remain unclear. In this study, we examined stress-induced changes in the gut microbiome composition in two rat strains with different levels of nervous system excitability: high threshold (HT strain) and low threshold (LT strain). Rats were exposed to long-term emotional and painful stress using the Hecht protocol, and fecal samples were collected at multiple time points before and after stress exposure. Using 16S rRNA amplicon sequencing, we assessed the qualitative and quantitative changes in the gut microbiota. Our results revealed distinct microbial diversity between the two rat strains, with the HT strain displaying higher diversity compared to the LT strain. Notably, under prolonged stress, the HT strain showed an increase in relative abundance of microorganisms from the genera Faecalibacterium and Prevotella in fecal samples. Additionally, both strains exhibited a decrease in Lactobacillus abundance following stress exposure. Our findings provide valuable insights into the impact of hereditary nervous system excitability on the gut microbiome composition under stress conditions. Understanding the gut-brain interactions in response to stress may open new avenues for comprehending stress-related psychopathologies and developing potential therapeutic interventions targeted at the gut microbiota. However, further research is needed to elucidate the exact mechanisms underlying these changes and their implications for stress-induced disorders. Overall, this study contributes to the growing body of knowledge on the gut-brain axis and its significance in stress-related neurobiology.

show abstract

P.711 The contribution of nerve excitability speed on rats’ behavior

Бортников

Sukhanov

Semina

et al. 2019

European Neuropsychopharmacology

View full text Add to dashboard Cite

Copy-number variation of housekeeping gene rpl13a in rat strains selected for nervous system excitability

Cited by 5 publications

References 37 publications

Palindromic sequence-targeted (PST) PCR: a rapid and efficient method for high-throughput gene characterization and genome walking

Palindromic sequence-targeted (PST) PCR: a rapid and efficient method for high-throughput gene characterization and genome walking

Post-stress changes in the gut microbiome composition in rats with different levels of nervous system excitability

P.711 The contribution of nerve excitability speed on rats’ behavior

Contact Info

Product

Resources

About