Museomics is the study of genomic data obtained from

ancient DNA Ancient DNA (aDNA) is DNA isolated from ancient specimens. Due to degradation processes (including cross-linking, deamination and fragmentation) ancient DNA is more degraded in comparison with contemporary genetic material. Even under the bes ...

(aDNA) and historic DNA (hDNA) specimens in

museum collections A museum is distinguished by a collection of often unique objects that forms the core of its activities for exhibitions, education, research, etc. This differentiates it from an archive or library, where the contents may be more paper-based, repla ...

. Early research in this area focused on short sequences of DNA from

mitochondrial genes Mitochondrial DNA (mtDNA or mDNA) is the DNA located in mitochondria, cellular organelles within eukaryotic cells that convert chemical energy from food into a form that cells can use, such as adenosine triphosphate (ATP). Mitochondrial D ...

, but sequencing of whole genomes has become possible.

Next-generation sequencing Massive parallel sequencing or massively parallel sequencing is any of several high-throughput approaches to DNA sequencing using the concept of massively parallel processing; it is also called next-generation sequencing (NGS) or second-generation s ...

(NGS) and

high-throughput sequencing DNA sequencing is the process of determining the nucleic acid sequence – the order of nucleotides in DNA. It includes any method or technology that is used to determine the order of the four bases: adenine, guanine, cytosine, and thymine. The ...

(HTS) methods can be applied to the analysis of genetic datasets extracted from collections materials. Such techniques have been described as a "third revolution in sequencing technology". Like

radiocarbon dating Radiocarbon dating (also referred to as carbon dating or carbon-14 dating) is a method for determining the age of an object containing organic material by using the properties of radiocarbon, a radioactive isotope of carbon. The method was dev ...

, the techniques of museomics are a transformative technology. Results are revising and sometimes overturning previously accepted theories about a wide variety of topics such as the

domestication of the horse A number of hypotheses exist on many of the key issues regarding the domestication of the horse. Although horses appeared in Paleolithic cave art as early as 30,000 BCE, these were wild horses and were probably hunted for meat. How and when hors ...

. Museum collections contain unique resources such as natural history specimens, which can be used for genome-scale examinations of species, their evolution, and their responses to environmental change. Ancient DNA provides a unique window into genetic change over time. It enables scientists to directly study evolutionary and ecological processes, comparing ancient and modern populations, identifying distinct populations, and revealing patterns of change such as extinctions and migrations. Research may be used to identify isolated populations and inform conservation priorities. However, museum specimens can be poorly preserved and are subject to degradation and contamination. Genomic analyses face considerable challenges as result of the highly degraded DNA typical of museum specimens. DNA from such samples is often subject to post-mortem nucleotide damage such as the hydrolytic deamination of

cytosine Cytosine () ( symbol C or Cyt) is one of the four nucleobases found in DNA and RNA, along with adenine, guanine, and thymine (uracil in RNA). It is a pyrimidine derivative, with a heterocyclic aromatic ring and two substituents attached (an am ...

uracil Uracil () (symbol U or Ura) is one of the four nucleobases in the nucleic acid RNA. The others are adenine (A), cytosine (C), and guanine (G). In RNA, uracil binds to adenine via two hydrogen bonds. In DNA, the uracil nucleobase is replaced by ...

(U) residues. PCR amplification of damaged templates can further substitute uracils with

thymine Thymine () ( symbol T or Thy) is one of the four nucleobases in the nucleic acid of DNA that are represented by the letters G–C–A–T. The others are adenine, guanine, and cytosine. Thymine is also known as 5-methyluracil, a pyrimidine nu ...

(T), completing a C to T substitution path. Such errors tend to occur towards the ends of molecules, accumulate with time, and can be significant in specimens a century-old or later. Robust genomic and statistical techniques are needed to rigorously detect and avoid errors and genotyping uncertainties when carrying out analyses based on museum collections. Optimal methods for working with hDNA and aDNA can differ as a result of differences in their DNA degradation history. Museomics also involves destructive sampling, irreversibly removing parts of sometimes rare specimens to obtain DNA. This can be contentious for curators and collection staff, involving a variety of ethical issues around the handling and destruction of objects, colonial acquisition and repatriation practices, and present-day social and political implications of research. Museums, universities and journals are increasingly developing ethics statements, best practices and guidelines for such work.

References

{{Portal bar, Evolutionary biology, Paleontology Museology DNA Genetics Genetic genealogy Methods in archaeology Ancient DNA (human) Analytical chemistry Omics

See also

References