Origin-Dependent Inverted-Repeat Amplification: Tests of a Model for Inverted DNA Amplification.
PLoS Genetics, 2015 DNA replication errors are a major driver of evolution--from single nucleotide polymorphisms to large-scale copy number variations (CNVs). Here we test a specific replication-based model to explain the generation of interstitial, inverted triplications ...
Bonita J Brewer +6 more
doaj +4 more sources
The Loss of the Inverted Repeat in the Putranjivoid Clade of Malpighiales. [PDF]
Front Plant Sci, 2020 The typical plastid genome (plastome) of photosynthetic angiosperms comprises a pair of Inverted Repeat regions (IRs), which separate a Large Single Copy region (LSC) from a Small Single Copy region (SSC).
Jin DM +5 more
europepmc +2 more sources
IUPACpal: efficient identification of inverted repeats in IUPAC-encoded DNA sequences [PDF]
BMC Bioinformatics, 2021 Background An inverted repeat is a DNA sequence followed downstream by its reverse complement, potentially with a gap in the centre. Inverted repeats are found in both prokaryotic and eukaryotic genomes and they have been linked with countless possible ...
Hayam Alamro +4 more
doaj +2 more sources
A Repertory of Rearrangements and the Loss of an Inverted Repeat Region in Passiflora Chloroplast Genomes. [PDF]
Genome Biol Evol, 2020 Chloroplast genomes (cpDNA) in angiosperms are usually highly conserved. Although rearrangements have been observed in some lineages, such as Passiflora, the mechanisms that lead to rearrangements are still poorly elucidated.
Cauz-Santos LA +7 more
europepmc +2 more sources
Removal of the large inverted repeat from the plastid genome reveals gene dosage effects and leads to increased genome copy number. [PDF]
Nat PlantsThe chloroplast genomes of most plants and algae contain a large inverted repeat (IR) region that separates two single-copy regions and harbours the ribosomal RNA operon.
Krämer C +9 more
europepmc +2 more sources
Lycophyte plastid genomics: extreme variation in GC, gene and intron content and multiple inversions between a direct and inverted orientation of the rRNA repeat [PDF]
New Phytologist, 2019 Summary Lycophytes are a key group for understanding vascular plant evolution. Lycophyte plastomes are highly distinct, indicating a dynamic evolutionary history, but detailed evaluation is hindered by the limited availability of sequences. Eight diverse
Jeffrey P. Mower +6 more
semanticscholar +2 more sources
The mitochondrial genome of the bioluminescent fish Malacosteus niger Ayres, 1848 (Stomiidae, Actinopterygii) is large and complex, and contains an inverted-repeat structure [PDF]
ZooKeys, 2023 We determined the complete mitogenome sequence of the bioluminescent fish Malacosteus niger using long-read sequencing technologies. The 21,263 bp mitogenome features a complex structure with two copies of a 1198-bp inverted-repeat and a region of 2616 ...
Romain Gastineau +6 more
doaj +4 more sources
Lost and Found: Return of the Inverted Repeat in the Legume Clade Defined by Its Absence. [PDF]
Genome Biol Evol, 2019 The plant genome comprises a coevolving, integrated genetic system housed in three subcellular compartments: the nucleus, mitochondrion, and the plastid.
Choi IS, Jansen R, Ruhlman T.
europepmc +2 more sources
Mechanism for inverted-repeat recombination induced by a replication fork barrier [PDF]
Nature Communications, 2022 Replication stress and abundant repetitive sequences have emerged as primary conditions underlying genomic instability in eukaryotes. Here the authors use a prokaryotic Tus/Ter barrier designed to induce transient replication fork stalling near inverted ...
Léa Marie, Lorraine S. Symington
doaj +2 more sources
PCIR: a database of Plant Chloroplast Inverted Repeats [PDF]
Database, 2019 Abstract Inverted repeats (IRs) serve as potential biomarkers for genomic instability, DNA replication and other genetic processes. However, little information can be found in databases to help researchers recognize potential IR nucleotides, explore junction sites and annotate related functional genes. Plant Chloroplast Inverted Repeats (
Zhang, Rui +7 more
openaire +3 more sources