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Bringing to light nuclear-mitochondrial insertions in the genomes of nocturnal predatory birds

Baltazar-Soares, Miguel ; Karell, Patrik LU ; Wright, Dominic ; Nilsson, Jan Åke LU and Brommer, Jon E. (2023) In Molecular Phylogenetics and Evolution 181.
Abstract

Mito-nuclear insertions, or NUMTs, relate to genetic material of mitochondrial origin that have been transferred to the nuclear DNA molecule. The increasing amounts of genomic data currently being produced presents an opportunity to investigate this type of patterns in genome evolution of non-model organisms. Identifying NUMTs across a range of closely related taxa allows one to generalize patterns of insertion and maintenance in autosomes, which is ultimately relevant to the understanding of genome biology and evolution. Here we collected existing pairwise genome-mitogenome data of the order Strigiformes, a group that includes all the nocturnal bird predators. We identified NUMTs by applying percent similarity thresholds after blasting... (More)

Mito-nuclear insertions, or NUMTs, relate to genetic material of mitochondrial origin that have been transferred to the nuclear DNA molecule. The increasing amounts of genomic data currently being produced presents an opportunity to investigate this type of patterns in genome evolution of non-model organisms. Identifying NUMTs across a range of closely related taxa allows one to generalize patterns of insertion and maintenance in autosomes, which is ultimately relevant to the understanding of genome biology and evolution. Here we collected existing pairwise genome-mitogenome data of the order Strigiformes, a group that includes all the nocturnal bird predators. We identified NUMTs by applying percent similarity thresholds after blasting mitochondrial genomes against nuclear genome assemblies. We identified NUMTs in all genomes with numbers ranging from 4 in Bubo bubo to 24 in Ciccaba nigrolineata. Statistical analyses revealed NUMT size to negatively correlate with NUMT's sequence similarity to with original mtDNA region. Lastly, characterizing these nuclear insertions of mitochondrial origin in a comparative genomics framework produced variable phylogenetic patterns, suggesting in some cases that insertions might pre-date speciation events within Strigiformes.

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author
; ; ; and
organization
publishing date
type
Contribution to journal
publication status
published
subject
keywords
Comparative genomics, Mitochondrial genome, NUMT, Strigiformes
in
Molecular Phylogenetics and Evolution
volume
181
article number
107722
pages
7 pages
publisher
Elsevier
external identifiers
  • pmid:36720422
  • scopus:85147580503
ISSN
1055-7903
DOI
10.1016/j.ympev.2023.107722
language
English
LU publication?
yes
id
5fd680f2-7ccb-4469-a2e8-79b2b56d0c35
date added to LUP
2023-03-10 11:54:10
date last changed
2024-06-13 20:17:53
@article{5fd680f2-7ccb-4469-a2e8-79b2b56d0c35,
  abstract     = {{<p>Mito-nuclear insertions, or NUMTs, relate to genetic material of mitochondrial origin that have been transferred to the nuclear DNA molecule. The increasing amounts of genomic data currently being produced presents an opportunity to investigate this type of patterns in genome evolution of non-model organisms. Identifying NUMTs across a range of closely related taxa allows one to generalize patterns of insertion and maintenance in autosomes, which is ultimately relevant to the understanding of genome biology and evolution. Here we collected existing pairwise genome-mitogenome data of the order Strigiformes, a group that includes all the nocturnal bird predators. We identified NUMTs by applying percent similarity thresholds after blasting mitochondrial genomes against nuclear genome assemblies. We identified NUMTs in all genomes with numbers ranging from 4 in Bubo bubo to 24 in Ciccaba nigrolineata. Statistical analyses revealed NUMT size to negatively correlate with NUMT's sequence similarity to with original mtDNA region. Lastly, characterizing these nuclear insertions of mitochondrial origin in a comparative genomics framework produced variable phylogenetic patterns, suggesting in some cases that insertions might pre-date speciation events within Strigiformes.</p>}},
  author       = {{Baltazar-Soares, Miguel and Karell, Patrik and Wright, Dominic and Nilsson, Jan Åke and Brommer, Jon E.}},
  issn         = {{1055-7903}},
  keywords     = {{Comparative genomics; Mitochondrial genome; NUMT; Strigiformes}},
  language     = {{eng}},
  publisher    = {{Elsevier}},
  series       = {{Molecular Phylogenetics and Evolution}},
  title        = {{Bringing to light nuclear-mitochondrial insertions in the genomes of nocturnal predatory birds}},
  url          = {{http://dx.doi.org/10.1016/j.ympev.2023.107722}},
  doi          = {{10.1016/j.ympev.2023.107722}},
  volume       = {{181}},
  year         = {{2023}},
}