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New Insights into the Longevity of Ancient RNA

Research reveals how RNA from dried specimens can survive for centuries.

Mark D Stenglein, A. H. Keene

― 6 min read


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Table of Contents

Studying ancient DNA helps scientists learn about how living organisms and their germs have changed over time. While DNA is often well preserved, old RNA, which comes from Viruses and other sources, can be harder to study. This is because RNA breaks down quickly when cells are alive and might not survive well as time goes on. In this article, we discuss the findings from recent studies that looked at how well RNA can last in dried Insects, especially flies and mosquitoes, even when they are not frozen or preserved.

The Importance of RNA

RNA is crucial for many biological functions, including how viruses infect organisms. However, RNA is generally short-lived and can degrade rapidly. For example, messenger RNA and ribosomal RNA can last only minutes to hours in living cells. This raises questions about how RNA can survive for many years in dried specimens. Most studies have focused on DNA, so there is less knowledge about RNA, particularly from ancient Samples.

Surprising Findings About RNA

Recent studies have produced some surprising results about RNA’s survival over time. Some scientists have successfully recovered RNA from samples that are hundreds or even thousands of years old, including from plants and animals. This suggests that RNA can persist longer than previously thought, especially in environments that are dry and stable.

Collection of Samples

To check the stability of RNA in dried specimens, researchers collected flies and mosquitoes to compare RNA from samples stored at room temperature with those that had been frozen. They measured the quantity and quality of RNA over a period of weeks. They also looked at archived insect specimens from museums to see how well RNA survived in these older samples.

Study Methods

  1. Experimental Samples: Flies and mosquitoes were tested after being dried and frozen. After different periods, the researchers analyzed the RNA to see how much was left and how it was behaving.
  2. Museum Specimens: They collected older insect specimens from various museums. Scientists used advanced techniques to extract RNA from these preserved insects, looking at samples that were many years old.

Results from Experimental Samples

In their experiments, researchers found that they could recover RNA from dried flies and mosquitoes even after a long time. They observed some changes, such as the RNA becoming more fragmented, but the overall amount did not drop significantly between dried and frozen samples. Interestingly, RNA from both types of Storage showed similar levels of quality.

Findings in Museum Specimens

When looking at museum samples, the researchers were able to extract RNA from specimens that dated back over a century. They found a range of RNA concentrations, indicating that some samples were better preserved than others. They also found viral RNA, suggesting that these insects were infected with viruses many years ago.

Detecting Host and Viral RNA

The experiments showed that RNA from insects could be detected reliably, regardless of whether the samples were dried or frozen. Using a method known as RT-qPCR, scientists were able to confirm the presence of specific viral RNA and host RNA. They found that, while there were some differences in the virus levels over time, the overall presence of RNA in both types of samples remained consistent.

Variation in RNA Recovery

While the researchers were able to recover RNA from the experimental samples, they noted that there was variation in the amount and quality recovered from each insect. This variability could be due to factors such as the type of insect, its condition at the time of sample collection, or the environment in which it was kept.

The Role of Storage Conditions

The study highlighted the importance of how specimens are stored. Dried specimens, like those in entomological collections, can hold valuable RNA for long periods. However, humidity and temperature can significantly affect how well this RNA survives. For instance, insect samples from humid environments showed poorer RNA recovery than those from drier conditions.

New Discoveries from Old Samples

Through their work, researchers also discovered viral sequences that had not been documented before. They found that many of the viruses that were present in modern flies were also seen in the older samples, suggesting consistency in viral infections over time. These findings provide insight into how viruses have interacted with insect hosts throughout history.

Chemical Damage to RNA

Like ancient DNA, old RNA can experience chemical damage that affects its structure. Researchers found that aging RNA exhibited certain patterns of degradation common in old biological materials. For example, they detected specific types of mismatches in the sequence data that indicated chemical damage often associated with RNA that has been around for a long time.

Impact of RNA Structure on Survival

The structure of RNA was found to play a crucial role in its survival. RNA that was part of more complex structures, like ribosomes or virus particles, tended to last longer than simpler RNA forms. This suggests that being part of larger molecular complexes helps protect RNA from degradation.

Implications for Future Research

These findings change how researchers look at old biological samples. Instead of thinking that old RNA is useless, this work shows that dried specimens in collections can be a rich source of historical data about viruses and their hosts. This opens up new avenues for studying the evolution of viruses and their impact on hosts over time.

Conclusion

The study of RNA in old biological samples reveals the surprising resilience of this molecule over time. With millions of preserved insect specimens in museums, researchers have the potential to uncover important historical interactions between viruses and their hosts. The research challenges the common assumption that old RNA is too degraded to provide valuable information and encourages further exploration of ancient RNA in other biological contexts.

Future Directions

Going forward, scientists can refine their techniques for extracting RNA from old specimens and investigate more extensively how environmental factors affect RNA survival. Understanding these dynamics could lead to significant advancements in the fields of virology, genetics, and evolutionary biology, providing deeper insights into the history of life on Earth.

Acknowledgments

The collective efforts of researchers and institutions involved in this study underscore the importance of interdisciplinary collaboration in advancing our understanding of biological materials over time. Continued support and funding for such research are vital for unlocking the secrets held within these ancient specimens.

References

(References would normally go here, but this section has been intentionally omitted as per the request.)

Original Source

Title: Sequencing RNA from old, dried specimens reveals past viromes and properties of long-surviving RNA

Abstract: Recovery of virus sequences from old samples provides an opportunity to study virus evolution and reconstruct historic virus-host interactions. Studies of old virus sequences have mainly relied on DNA or on RNA from fixed or frozen samples. The millions of specimens in natural history museums represent a potential treasure trove of old virus sequences, but it is not clear how well RNA survives in old samples. We experimentally assessed the stability of RNA in insects stored dry at room temperature over 72 weeks. Although RNA molecules grew fragmented, RNA yields remained surprisingly constant. RT-qPCR of host and virus RNA showed minimal differences between dried and frozen specimens. To assess RNA survival in much older samples we acquired Drosophila specimens from North American entomological collections. We recovered sequences from known and novel viruses including several coding complete virus genomes from a fly collected in 1908. We found that the virome of D. melanogaster has changed little over the past century. Galbut virus, the most prevalent virus infection in contemporary D. melanogaster, was also the most common in historic samples. Finally, we investigated the genomic and physical features of surviving RNA. RNA that survived was fragmented, chemically damaged, and preferentially double stranded or contained in ribonucleoprotein complexes. This showed that RNA - especially certain types of RNA - can survive in biological specimens over extended periods in the absence of fixation or freezing and confirms the utility of dried specimens to provide a clearer understanding of virus evolution.

Authors: Mark D Stenglein, A. H. Keene

Last Update: 2024-10-24 00:00:00

Language: English

Source URL: https://www.biorxiv.org/content/10.1101/2024.10.03.616531

Source PDF: https://www.biorxiv.org/content/10.1101/2024.10.03.616531.full.pdf

Licence: https://creativecommons.org/licenses/by-nc/4.0/

Changes: This summary was created with assistance from AI and may have inaccuracies. For accurate information, please refer to the original source documents linked here.

Thank you to biorxiv for use of its open access interoperability.

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