Balbiani ring DNA: Sequence comparisons and evolutionary history of a family of hierarchically repetitive protein-coding genes

1984 ◽  
Vol 20 (3-4) ◽  
pp. 281-295 ◽  
Author(s):  
James Pustell ◽  
Fotis C. Kafatos ◽  
Ulrich Wobus ◽  
Helmut Bäumlein
Keyword(s):  
Dna Sequence ◽  
Evolutionary History ◽  
Balbiani Ring ◽  
Sequence Comparisons ◽  
Protein Coding ◽  
Protein Coding Genes ◽  
History Of ◽  
Repetitive Protein

scholarly journals Complete Mitochondrial DNA Genome of Nine Species of Sharks and Rays and Their Phylogenetic Placement among Modern Elasmobranchs

Genes ◽  
2021 ◽  
Vol 12 (3) ◽  
pp. 324
Author(s):  
Vasiliki Kousteni ◽  
Sofia Mazzoleni ◽  
Katerina Vasileiadou ◽  
Michail Rovatsos
Keyword(s):  
Mitochondrial Dna ◽  
Evolutionary History ◽  
Complete Sequence ◽  
Whole Genome ◽  
Protein Coding ◽  
Protein Coding Genes ◽  
Phylogenetic Placement ◽  
Statistical Support ◽  
History Of ◽  
High Statistical Support

Chondrichthyes occupy a key position in the phylogeny of vertebrates. The complete sequence of the mitochondrial genome (mitogenome) of four species of sharks and five species of rays was obtained by whole genome sequencing (DNA-seq) in the Illumina HiSeq2500 platform. The arrangement and features of the genes in the assembled mitogenomes were identical to those found in vertebrates. Both Maximum Likelihood (ML) and Bayesian Inference (BI) analyses were used to reconstruct the phylogenetic relationships among 172 species (including 163 mitogenomes retrieved from GenBank) based on the concatenated dataset of 13 individual protein coding genes. Both ML and BI analyses did not support the “Hypnosqualea” hypothesis and confirmed the monophyly of sharks and rays. The broad notion in shark phylogeny, namely the division of sharks into Galeomorphii and Squalomorphii and the monophyly of the eight shark orders, was also supported. The phylogenetic placement of all nine species sequenced in this study produced high statistical support values. The present study expands our knowledge on the systematics, genetic differentiation, and conservation genetics of the species studied, and contributes to our understanding of the evolutionary history of Chondrichthyes.

scholarly journals Genome-scale DNA sequence data and the evolutionary history of placental mammals

Data in Brief ◽  
2018 ◽  
Vol 18 ◽  
pp. 1972-1975 ◽  
Author(s):  
Shaoyuan Wu ◽  
Scott Edwards ◽  
Liang Liu
Keyword(s):  
Dna Sequence ◽  
Evolutionary History ◽  
Sequence Data ◽  
Dna Sequence Data ◽  
History Of ◽  
Genome Scale

scholarly journals Crossovers within a short DNA sequence indicate a long evolutionary history of the APRT*J mutation

1990 ◽  
Vol 85 (6) ◽  
Author(s):  
Naoyuki Kamatani ◽  
Shoko Kuroshima ◽  
Masayuki Hakoda ◽  
ThomasD. Palella ◽  
Yuji Hidaka
Keyword(s):  
Dna Sequence ◽  
Evolutionary History ◽  
History Of

CrypticOnchocercaspecies infecting North American cervids, with implications for the evolutionary history of host associations inOnchocerca

Parasitology ◽  
2012 ◽  
Vol 140 (10) ◽  
pp. 1201-1210 ◽  
Author(s):  
QUINN S. McFREDERICK ◽  
TAMARA S. HASELKORN ◽  
GUILHERME G. VEROCAI ◽  
JOHN JAENIKE
Keyword(s):  
New York ◽  
North America ◽  
Northwest Territories ◽  
Dna Sequence ◽  
Evolutionary History ◽  
Upstate New York ◽  
Zoonotic Infections ◽  
Limited Sampling ◽  
History Of ◽  
New Hosts

SUMMARYParasites in the genusOnchocercainfect humans, ruminants, camels, horses, suids, and canids, with effects ranging from relatively benign to debilitating. In North America,Onchocerca cervipedisis the sole species known to infect cervids, while at least 5Onchocercaspecies infect Eurasian cervids. In this study, we report the discovery of a cervid-parasitizingOnchocercaonly distantly related toO. cervipedis. To reconstruct the phylogenetic history of the genusOnchocerca, we used newly acquired DNA sequence fromO. cervipedis(from moose in Northwest Territories, Canada) and from the newly discovered species (from white-tailed deer in upstate New York), as well as previously published sequences. Ancestral host reconstructions suggest that host switches have been common throughout the evolutionary history ofOnchocerca, and that bovid- and cervid-parasitizing species have been particularly important sources of descendant species. North America cervids might therefore serve as a source forOnchocercainvasions into new hosts. Given the high density of deer populations, the potential for zoonotic infections may also exist. Our discovery of a newOnchocercaspecies with relatively limited sampling suggests that the diversity ofOnchocercaassociated with cervids in North America may be greater than previously thought, and surveys utilizing molecules and morphology are necessary.

scholarly journals Complex Evolutionary History of the Aeromonas veronii Group Revealed by Host Interaction and DNA Sequence Data

PLoS ONE ◽  
2011 ◽  
Vol 6 (2) ◽  
pp. e16751 ◽  
Author(s):  
Adam C. Silver ◽  
David Williams ◽  
Joshua Faucher ◽  
Amy J. Horneman ◽  
J. Peter Gogarten ◽  
...  
Keyword(s):  
Dna Sequence ◽  
Evolutionary History ◽  
Sequence Data ◽  
Dna Sequence Data ◽  
Aeromonas Veronii ◽  
Host Interaction ◽  
History Of ◽  
Complex Evolutionary History

scholarly journals Ancient DNA forces reconsideration of evolutionary history of Mediterranean pygmy elephantids

2006 ◽  
Vol 2 (3) ◽  
pp. 451-454 ◽  
Author(s):  
Nikos Poulakakis ◽  
Aris Parmakelis ◽  
Petros Lymberakis ◽  
Moysis Mylonas ◽  
Eleftherios Zouros ◽  
...  
Keyword(s):  
Dna Sequence ◽  
Ancient Dna ◽  
Evolutionary History ◽  
Eastern Mediterranean ◽  
Multiple Displacement Amplification ◽  
Phylogenetic Analyses ◽  
Molecular Data ◽  
Mediterranean Islands ◽  
Amplification Method ◽  
History Of

During the Pleistocene pygmy elephantids, some only a quarter of their ancestors' size, were present on Mediterranean islands until about 10 000 years ago (y.a.). Using a new methodology for ancient DNA (aDNA) studies, the whole genomic multiple displacement amplification method, we were able to retrieve cytochrome b (cyt b ) DNA fragments from 4200 to 800 000 y.a. specimens from island and mainland samples, including pygmy and normal-sized forms. The short DNA sequence (43 bp) retrieved from the 800 000 y.a. sample is one of the oldest DNA fragment ever retrieved. Duplication of the experiments in two laboratories, the occurrence of three diagnostic sites and the results of the phylogenetic analyses strongly support its authenticity. Our results challenge the prevailing view that pygmy elephantids of the eastern Mediterranean originated exclusively from Elephas , suggesting independent histories of dwarfism and the presence of both pygmy mammoths and elephant-like taxa on these islands. Based on our molecular data, the origin of the Tilos and Cyprus elephantids from a lineage within the genus Elephas is confirmed, while the DNA sequence from the Cretan sample falls clearly within the mammoth clade. Thus, the name Mammuthus creticus rather than Elephas creticus , seems to be justified for this form. Our findings also suggest a need to re-evaluate the evolutionary history of the Sicilian/Maltese species, traditionally included in the genus Elephas .

scholarly journals LongGeneDB: a data hub for long genes

2020 ◽  
Author(s):  
Yura Kim ◽  
Mariam Naghavi ◽  
Ying-Tao Zhao
Keyword(s):  
Mouse Genome ◽  
Research Community ◽  
Easy Access ◽  
Protein Coding ◽  
Protein Coding Genes ◽  
History Of ◽  
Cell Transcriptome ◽  
Single Cell Transcriptome ◽  
User Friendly ◽  
Long Genes

ABSTRACTThe human genome contains more than 4000 genes that are longer than 100 kb. These long genes require more time and resources to make a transcript than shorter genes do. Long genes have also been linked to various human diseases. Specific mechanisms are utilized by long genes to facilitate their transcription and co-transcriptional processes. This results in unique features in their multi-omics profiles. Although these unique profiles are important to understand long genes, a database that provides an integrated view and easy access to the multi-omics profiles of long genes does not exist. We leveraged the publicly accessible multi-omics data and systematically analyzed the genomic conservation, histone modifications, chromatin organization, tissue-specific transcriptome, and single cell transcriptome of 992 protein-coding genes that are longer than 200 kb in the mouse genome. We also examined the evolution history of their gene lengths in 15 species that belong to six Classes and 11 Orders. To share the multi-omics profiles of long genes, we developed a user-friendly and easy-to-use database, LongGeneDB (https://longgenedb.com), for users to search, browse, and download these profiles. LongGeneDB will be a useful data hub for the biomedical research community to understand long genes.

X Chromosome Introgression and Recombination in the cephus Group of Cercopithecus Monkeys

2017 ◽  
Vol 153 (1) ◽  
pp. 29-35 ◽  
Author(s):  
Anthony J. Tosi ◽  
Hirohisa Hirai
Keyword(s):  
X Chromosome ◽  
Recombination Event ◽  
Evolutionary History ◽  
Phylogenetic Analyses ◽  
Direct Sequence ◽  
Sequence Comparisons ◽  
Homologous Sequences ◽  
History Of ◽  
Chromosome Introgression

A representative of Cercopithecus erythrotis was surveyed at a 9.3-kb region of the X chromosome. The data were compared against homologous sequences of closely related Cercopithecus monkeys including C. cephus, a species recently shown to have 2 polymorphic X-chromosomal lineages. Direct sequence comparisons and subsequent phylogenetic analyses revealed that synapomorphies in the first 4.3 kb cluster C. erythrotis with one C. cephus lineage, while synapomorphies in the latter 5.0 kb join it with the second C. cephus lineage. This pattern very likely reflects an ancestral episode of introgression from C. cephus into C. erythrotis followed by a recombination event. Similar groups of synapomorphies occur at different phylogenetic depths within the C. erythrotis/C. cephus/C. ascanius radiation and reveal new details in the evolutionary history of this 3-species clade.

Sign in / Sign up

Export Citation Format

Share Document