Species-level paraphyly and polyphyly: frequency, causes, and consequences, with insights from animal mitochondrial DNA

DJ Funk, KE Omland - Annual Review of Ecology, Evolution …, 2003 - annualreviews.org
▪ Abstract Many uses of gene trees implicitly assume that nominal species are monophyletic
in their alleles at the study locus. However, in well-sampled gene trees, certain alleles in one …

Molecular Poltergeists: Mitochondrial DNA Copies (numts) in Sequenced Nuclear Genomes

E Hazkani-Covo, RM Zeller, W Martin - PLoS genetics, 2010 - journals.plos.org
The natural transfer of DNA from mitochondria to the nucleus generates nuclear copies of
mitochondrial DNA (numts) and is an ongoing evolutionary process, as genome sequences …

[HTML][HTML] Neandertal DNA sequences and the origin of modern humans

M Krings, A Stone, RW Schmitz, H Krainitzki… - cell, 1997 - cell.com
DNA was extracted from the Neandertal-type specimen found in 1856 in western Germany.
By sequencing clones from short overlapping PCR products, a hitherto unknown …

Mitochondrial pseudogenes: evolution's misplaced witnesses

D Bensasson, DX Zhang, DL Hartl, GM Hewitt - Trends in ecology & …, 2001 - cell.com
Nuclear copies of mitochondrial DNA (mtDNA) have contaminated PCR-based
mitochondrial studies of over 64 different animal species. Since the last review of these …

Nuclear integrations: challenges for mitochondrial DNA markers

DX Zhang, GM Hewitt - Trends in ecology & evolution, 1996 - cell.com
I n the past two decades, two innovations have had great impact on molecular population
genetic studies, particularly as they affect animal evolutionary biology. First was the …

Species identification through mitochondrial rRNA genetic analysis

L Yang, Z Tan, D Wang, L Xue, M Guan, T Huang… - Scientific reports, 2014 - nature.com
Inter-species and intraspecific variations in mitochondrial DNA (mtDNA) were observed in a
bioinformatics analysis of the mitochondrial genomic sequences of 11 animal species. Some …

The ring of life provides evidence for a genome fusion origin of eukaryotes

MC Rivera, JA Lake - Nature, 2004 - nature.com
Genomes hold within them the record of the evolution of life on Earth. But genome fusions
and horizontal gene transfer seem to have obscured sufficiently the gene sequence record …

Amino acid racemization and the preservation of ancient DNA

HN Poinar, M Höss, JL Bada, S Pääbo - Science, 1996 - science.org
The extent of racemization of aspartic acid, alanine, and leucine provides criteria for
assessing whether ancient tissue samples contain endogenous DNA. In samples in which …

Numts: a challenge for avian systematics and population biology

MD Sorenson, TW Quinn - The Auk, 1998 - JSTOR
3 Present address: Department of Biology, Boston University, 5 Cummington Street, Boston,
Massachusetts 02215, USA. E-mail: msoren@ bu. edu ture (eg Quinn 1992). For reasons …

Revealing the hidden complexities of mtDNA inheritance

DJ White, JN Wolff, M Pierson… - Molecular ecology, 2008 - Wiley Online Library
Mitochondrial DNA (mtDNA) is a pivotal tool in molecular ecology, evolutionary and
population genetics. The power of mtDNA analyses derives from a relatively high mutation …