Detection of mitochondrial insertions in the nucleus (NuMts) of Pleistocene and modern muskoxen
Background: Nuclear insertions of mitochondrial sequences (NuMts) have been identified in a wide variety of organisms. Trafficking of genetic material from the mitochondria to the nucleus has occurred frequently during mammalian evolution and can lead to the production of a large pool of sequences w...
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ftcolumbiauniv:oai:academiccommons.columbia.edu:10.7916/D82V2DJ5 2023-05-15T17:13:40+02:00 Detection of mitochondrial insertions in the nucleus (NuMts) of Pleistocene and modern muskoxen Kolokotronis, Sergios-Orestis MacPhee, Ross Greenwood, Alex D. 2007 https://doi.org/10.7916/D82V2DJ5 English eng BioMed Central https://doi.org/10.7916/D82V2DJ5 Evolution (Biology) DNA--Research Mitochondrial DNA Bioinformatics Cytology Articles 2007 ftcolumbiauniv https://doi.org/10.7916/D82V2DJ5 2019-04-04T08:11:29Z Background: Nuclear insertions of mitochondrial sequences (NuMts) have been identified in a wide variety of organisms. Trafficking of genetic material from the mitochondria to the nucleus has occurred frequently during mammalian evolution and can lead to the production of a large pool of sequences with varying degrees of homology to organellar mitochondrial DNA (mtDNA) sequences. This presents both opportunities and challenges for forensics, population genetics, evolutionary genetics, conservation biology and the study of DNA from ancient samples. Here we present a case in which difficulties in ascertaining the organellar mtDNA sequence from modern samples hindered their comparison to ancient DNA sequences. Results: We obtained mitochondrial hypervariable region (HVR) sequences from six ancient samples of tundra muskox (Ovibos moschatus) that were reproducible but distinct from modern muskox sequences reported previously. Using the same PCR primers applied to the ancient specimens and the primers used to generate the modern muskox DNA sequences in a previous study, we failed to definitively identify the organellar sequence from the two modern muskox samples tested. Instead of anticipated sequence homogeneity, we obtained multiple unique sequences from both hair and blood of one modern specimen. Sequencing individual clones of a > 1 kb PCR fragment from modern samples did not alleviate the problem as there was not a consistent match across the entire length of the sequences to Ovibos when compared to sequences in GenBank. Conclusion: In specific taxa, due to nuclear insertions some regions of the mitochondrial genome may not be useful for the characterization of modern or ancient DNA. Article in Journal/Newspaper muskox ovibos moschatus Tundra Columbia University: Academic Commons |
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Open Polar |
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Columbia University: Academic Commons |
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ftcolumbiauniv |
language |
English |
topic |
Evolution (Biology) DNA--Research Mitochondrial DNA Bioinformatics Cytology |
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Evolution (Biology) DNA--Research Mitochondrial DNA Bioinformatics Cytology Kolokotronis, Sergios-Orestis MacPhee, Ross Greenwood, Alex D. Detection of mitochondrial insertions in the nucleus (NuMts) of Pleistocene and modern muskoxen |
topic_facet |
Evolution (Biology) DNA--Research Mitochondrial DNA Bioinformatics Cytology |
description |
Background: Nuclear insertions of mitochondrial sequences (NuMts) have been identified in a wide variety of organisms. Trafficking of genetic material from the mitochondria to the nucleus has occurred frequently during mammalian evolution and can lead to the production of a large pool of sequences with varying degrees of homology to organellar mitochondrial DNA (mtDNA) sequences. This presents both opportunities and challenges for forensics, population genetics, evolutionary genetics, conservation biology and the study of DNA from ancient samples. Here we present a case in which difficulties in ascertaining the organellar mtDNA sequence from modern samples hindered their comparison to ancient DNA sequences. Results: We obtained mitochondrial hypervariable region (HVR) sequences from six ancient samples of tundra muskox (Ovibos moschatus) that were reproducible but distinct from modern muskox sequences reported previously. Using the same PCR primers applied to the ancient specimens and the primers used to generate the modern muskox DNA sequences in a previous study, we failed to definitively identify the organellar sequence from the two modern muskox samples tested. Instead of anticipated sequence homogeneity, we obtained multiple unique sequences from both hair and blood of one modern specimen. Sequencing individual clones of a > 1 kb PCR fragment from modern samples did not alleviate the problem as there was not a consistent match across the entire length of the sequences to Ovibos when compared to sequences in GenBank. Conclusion: In specific taxa, due to nuclear insertions some regions of the mitochondrial genome may not be useful for the characterization of modern or ancient DNA. |
format |
Article in Journal/Newspaper |
author |
Kolokotronis, Sergios-Orestis MacPhee, Ross Greenwood, Alex D. |
author_facet |
Kolokotronis, Sergios-Orestis MacPhee, Ross Greenwood, Alex D. |
author_sort |
Kolokotronis, Sergios-Orestis |
title |
Detection of mitochondrial insertions in the nucleus (NuMts) of Pleistocene and modern muskoxen |
title_short |
Detection of mitochondrial insertions in the nucleus (NuMts) of Pleistocene and modern muskoxen |
title_full |
Detection of mitochondrial insertions in the nucleus (NuMts) of Pleistocene and modern muskoxen |
title_fullStr |
Detection of mitochondrial insertions in the nucleus (NuMts) of Pleistocene and modern muskoxen |
title_full_unstemmed |
Detection of mitochondrial insertions in the nucleus (NuMts) of Pleistocene and modern muskoxen |
title_sort |
detection of mitochondrial insertions in the nucleus (numts) of pleistocene and modern muskoxen |
publisher |
BioMed Central |
publishDate |
2007 |
url |
https://doi.org/10.7916/D82V2DJ5 |
genre |
muskox ovibos moschatus Tundra |
genre_facet |
muskox ovibos moschatus Tundra |
op_relation |
https://doi.org/10.7916/D82V2DJ5 |
op_doi |
https://doi.org/10.7916/D82V2DJ5 |
_version_ |
1766070843041906688 |