Intraspecific Diversity of Fission Yeast Mitochondrial Genomes

Genome Biology and Evolution
Yu-Tian TaoLi-Lin Du

Abstract

The fission yeast Schizosaccharomyces pombe is an important model organism, but its natural diversity and evolutionary history remain under-studied. In particular, the population genomics of the S. pombe mitochondrial genome (mitogenome) has not been thoroughly investigated. Here, we assembled the complete circular-mapping mitogenomes of 192 S. pombe isolates de novo, and found that these mitogenomes belong to 69 nonidentical sequence types ranging from 17,618 to 26,910 bp in length. Using the assembled mitogenomes, we identified 20 errors in the reference mitogenome and discovered two previously unknown mitochondrial introns. Analyzing sequence diversity of these 69 types of mitogenomes revealed two highly distinct clades, with only three mitogenomes exhibiting signs of inter-clade recombination. This diversity pattern suggests that currently available S. pombe isolates descend from two long-separated ancestral lineages. This conclusion is corroborated by the diversity pattern of the recombination-repressed K-region located between donor mating-type loci mat2 and mat3 in the nuclear genome. We estimated that the two ancestral S. pombe lineages diverged about 31 million generations ago. These findings shed new light on the evol...Continue Reading

References

Dec 29, 2000·Nature·M IngmanU Gyllensten
Feb 16, 2002·Journal of Molecular Evolution·David Posada, Keith A Crandall
Feb 23, 2002·Nature·V WoodL Cerrutti
Oct 2, 2002·Systematic and Applied Microbiology·Rita C TrindadeCarlos A Rosa
Jan 16, 2003·Nucleic Acids Research·C E BullerwellB F Lang
Nov 3, 2004·Biochemistry·Brett ChevalierBarry L Stoddard
Aug 17, 2005·PLoS Genetics·Justin C Fay, Joseph A Benavides
Aug 8, 2006·Nature Genetics·Douglas M RuderferLeonid Kruglyak
Feb 7, 2007·Trends in Genetics : TIG·B Franz LangGertraud Burger
Aug 4, 2009·Genome Research·David H AlexanderKenneth Lange
Feb 11, 2011·Nucleic Acids Research·Thomas D OttoMatthew Berriman
Apr 23, 2011·Science·Nicholas RhindChad Nusbaum
May 19, 2011·PloS One·René L Warren, Robert A Holt
Sep 14, 2012·G3 : Genes - Genomes - Genetics·Paul P JungJoseph Schacherer
Jan 19, 2013·Molecular Biology and Evolution·Kazutaka Katoh, Daron M Standley
Aug 27, 2013·Nature Communications·Ana Teresa AvelarMiguel Godinho Ferreira
Apr 4, 2014·Bioinformatics·Anthony M BolgerBjoern Usadel
Apr 12, 2014·PLoS Computational Biology·Remco BouckaertAlexei J Drummond
Aug 1, 2014·Genome Research·Simone PicelliRickard Sandberg
Aug 12, 2014·PloS One·Jeffrey A FawcettHideki Innan

❮ Previous
Next ❯

Datasets Mentioned

BETA
PRJNA527756
AF275271.2
AF547983.1
MK457734
number
FP565355.1
X54421.1
MK618072

Methods Mentioned

BETA
PCR
Illumina sequencing
from

Software Mentioned

GENECONV
BootScan
Maxchi
Trimmomatic
BridgeMapper
MFannot
Chimaera
PLINK
CLUMPAK
SiScan

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Related Papers

BioRxiv : the Preprint Server for Biology
Yu-Tian TaoLi-Lin Du
Proceedings of the National Academy of Sciences of the United States of America
Henrik SpåhrRoger D Kornberg
© 2021 Meta ULC. All rights reserved