Assembly of the Complete Mitochondrial Genome of Pereskia aculeata Revealed That Two Pairs of Repetitive Elements Mediated the Recombination of the Genome

Complete mitochondrial genome of Thuja sutchuenensis and its implications on evolutionary analysis of complex mitogenome architecture in Cupressaceae

(2023) Changying Xia et al.   BMC PLANT BIOLOGY

Plastome variations reveal the distinct evolutionary scenarios of plastomes in the subfamily Cereoideae (Cactaceae)

(2023) Jie Yu et al.   BMC PLANT BIOLOGY

Characterisation of the complete mitochondrial genome of Taraxacum mongolicum revealed five repeat-mediated recombinations

(2023) Mei Jiang et al.   PLANT CELL REPORTS

Assembly and comparative analysis of the first complete mitochondrial genome of Acer truncatum Bunge: a woody oil-tree species producing nervonic acid

(2022) Qiuyue Ma et al.   BMC PLANT BIOLOGY

De novo assembly of the complete mitochondrial genome of sweet potato (Ipomoea batatas [L.] Lam) revealed the existence of homologous conformations generated by the repeat-mediated recombination

(2022) Zhijian Yang et al.   BMC PLANT BIOLOGY

Complex Physical Structure of Complete Mitochondrial Genome of Quercus acutissima (Fagaceae): A Significant Energy Plant

(2022) Dan Liu et al.   Genes

De Novo Hybrid Assembly of the Salvia miltiorrhiza Mitochondrial Genome Provides the First Evidence of the Multi-Chromosomal Mitochondrial DNA Structure of Salvia Species

(2022) Heyu Yang et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Assembly and comparative analysis of the complete mitochondrial genome of Suaeda glauca

(2021) Yan Cheng et al.   BMC GENOMICS

Opuntia Ficus-Indica (OFI) Mucilage as Corrosion Inhibitor of Steel in CO2-Contaminated Mortar

(2021) Andrés A. Torres-Acosta et al.   Materials

Deepred-Mt: Deep representation learning for predicting C-to-U RNA editing in plant mitochondria

(2021) Alejandro A. Edera et al.   COMPUTERS IN BIOLOGY AND MEDICINE

Insights into molecular structure, genome evolution and phylogenetic implication through mitochondrial genome sequence of Gleditsia sinensis

(2021) Hongxia Yang et al.   Scientific Reports

Prebiotic potential and chemical characterization of the poly and oligosaccharides present in the mucilage of Opuntia ficus-indica and Opuntia joconostle

(2021) José M. Cruz-Rubio et al.   FOOD CHEMISTRY

Characterization and Analysis of the Mitochondrial Genome of Common Bean (Phaseolus vulgaris) by Comparative Genomic Approaches

(2020) Changwei Bi et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Variation in protein gene and intron content among land plant mitogenomes

(2020) Jeffrey P. Mower   MITOCHONDRION

TBtools: An Integrative Toolkit Developed for Interactive Analyses of Big Biological Data

(2020) Chengjie Chen et al.   Molecular Plant

Raw transcriptomics data to gene specific SSRs: a validated free bioinformatics workflow for biologists

(2020) D. N. U. Naranpanawa et al.   Scientific Reports

RNA Editing in Mitochondria and Plastids: Weird and Widespread

(2020) Julius Lukeš et al.   TRENDS IN GENETICS

Mucilages of cacti from Brazilian biodiversity: Extraction, physicochemical and technological properties

(2020) Érica de Andrade Vieira et al.   FOOD CHEMISTRY

Plant organellar DNA polymerases repair double-stranded breaks by microhomology-mediated end-joining

(2019) Paola L García-Medel et al.   NUCLEIC ACIDS RESEARCH

Assembly of long, error-prone reads using repeat graphs

(2019) Mikhail Kolmogorov et al.   NATURE BIOTECHNOLOGY

Interactive Tree Of Life (iTOL) v4: recent updates and new developments

(2019) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

CPGAVAS2, an integrated plastome sequence annotator and analyzer

(2019) Linchun Shi et al.   NUCLEIC ACIDS RESEARCH

Extraction processes and characterization of the mucilage obtained from green fruits of Pereskia aculeata Miller

(2019) Sérgio Henrique Silva et al.   INDUSTRIAL CROPS AND PRODUCTS

PhyloSuite: An integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies

(2019) Dong Zhang et al.   Molecular Ecology Resources

Towards a plant model for enigmatic U‐to‐C RNA editing: the organelle genomes, transcriptomes, editomes and candidate RNA editing factors in the hornwort Anthoceros agrestis

(2019) Philipp Gerke et al.   NEW PHYTOLOGIST

Minimap2: pairwise alignment for nucleotide sequences

(2018) Heng Li   BIOINFORMATICS

Towards a comprehensive picture of C-to-U RNA editing sites in angiosperm mitochondria

(2018) Alejandro A. Edera et al.   PLANT MOLECULAR BIOLOGY

The complete mitochondrial genome of the early flowering plant Nymphaea colorata is highly repetitive with low recombination

(2018) Shanshan Dong et al.   BMC GENOMICS

PacBio-Based Mitochondrial Genome Assembly of Leucaena trichandra (Leguminosae) and an Intrageneric Assessment of Mitochondrial RNA Editing

(2018) Lynsey Kovar et al.   Genome Biology and Evolution

Proteomic analysis reveals strong mitochondrial involvement in cytoplasmic male sterility of pepper ( Capsicum annuum L.)

(2017) Jinju Guo et al.   Journal of Proteomics

Non-homologous DNA end joining and alternative pathways to double-strand break repair

(2017) Howard H. Y. Chang et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

GeSeq – versatile and accurate annotation of organelle genomes

(2017) Michael Tillich et al.   NUCLEIC ACIDS RESEARCH

Plastome Sequencing of Ten Nonmodel Crop Species Uncovers a Large Insertion of Mitochondrial DNA in Cashew

(2017) Samar O. Rabah et al.   Plant Genome

Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads

(2017) Ryan R. Wick et al.   PLoS Computational Biology

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

GinkgoandWelwitschiaMitogenomes Reveal Extreme Contrasts in Gymnosperm Mitochondrial Evolution

(2016) Wenhu Guo et al.   MOLECULAR BIOLOGY AND EVOLUTION

Modified low-salt CTAB extraction of high-quality DNA from contaminant-rich tissues

(2016) Jean-René Arseneau et al.   Molecular Ecology Resources

Bandage: interactive visualization ofde novogenome assemblies: Fig. 1.

(2015) Ryan R. Wick et al.   BIOINFORMATICS

Mining microsatellite markers from public expressed sequence tags databases for the study of threatened plants

(2015) Lua Lopez et al.   BMC GENOMICS

High speed BLASTN: an accelerated MegaBLAST search tool

(2015) Ying Chen et al.   NUCLEIC ACIDS RESEARCH

Pereskia aculeata: A plant food with antinociceptive activity

(2015) Nícolas de Castro Campos Pinto et al.   PHARMACEUTICAL BIOLOGY

Thioredoxin, a master regulator of the tricarboxylic acid cycle in plant mitochondria

(2015) Danilo M. Daloso et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Editorial (Thematic Issue: Mitochondrial Biogenesis: Pharmacological Approaches)

(2014) Teresa Valero   CURRENT PHARMACEUTICAL DESIGN

Comparative analysis of 11 Brassicales mitochondrial genomes and the mitochondrial transcriptome of Brassica oleracea

(2014) Felix Grewe et al.   MITOCHONDRION

RecQ helicase and RecJ nuclease provide complementary functions to resect DNA for homologous recombination

(2014) Katsumi Morimatsu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The plant mitochondrial genome: Dynamics and maintenance

(2013) José M. Gualberto et al.   BIOCHIMIE

RCircos: an R package for Circos 2D track plots

(2013) Hongen Zhang et al.   BMC BIOINFORMATICS

The “fossilized” mitochondrial genome of Liriodendron tulipifera: ancestral gene content and order, ancestral editing sites, and extraordinarily low mutation rate

(2013) Aaron O Richardson et al.   BMC BIOLOGY

Plant Mitochondrial Genome Evolution Can Be Explained by DNA Repair Mechanisms

(2013) Alan C. Christensen   Genome Biology and Evolution

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Empty Pericarp5 Encodes a Pentatricopeptide Repeat Protein That Is Required for Mitochondrial RNA Editing and Seed Development in Maize

(2013) Y.-J. Liu et al.   PLANT CELL

Horizontal Transfer of Entire Genomes via Mitochondrial Fusion in the Angiosperm Amborella

(2013) D. W. Rice et al.   SCIENCE

Rescuing Stalled or Damaged Replication Forks

(2013) J. T. P. Yeeles et al.   Cold Spring Harbor Perspectives in Biology

Evidence against Equimolarity of Large Repeat Arrangements and a Predominant Master Circle Structure of the Mitochondrial Genome from a Monkeyflower (Mimulus guttatus) Lineage with Cryptic CMS

(2012) Jeffrey P. Mower et al.   Genome Biology and Evolution

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Rapid Evolution of Enormous, Multichromosomal Genomes in Flowering Plant Mitochondria with Exceptionally High Mutation Rates

(2012) Daniel B. Sloan et al.   PLOS BIOLOGY

A horizontally transferred tRNACysgene in the sugar beet mitochondrial genome: evidence that the gene is present in diverse angiosperms and its transcript is aminoacylated

(2011) Kazuyoshi Kitazaki et al.   PLANT JOURNAL

Regulation of Homologous Recombination in Eukaryotes

(2010) Wolf-Dietrich Heyer et al.   Annual Review of Genetics

Insights into the Evolution of Mitochondrial Genome Size from Complete Sequences of Citrullus lanatus and Cucurbita pepo (Cucurbitaceae)

(2010) A. J. Alverson et al.   MOLECULAR BIOLOGY AND EVOLUTION

Crystal Structures of DNA-Whirly Complexes and Their Role inArabidopsisOrganelle Genome Repair

(2010) Laurent Cappadocia et al.   PLANT CELL

Plant RNA editing

(2010) Anne-Laure Chateigner-Boutin et al.   RNA Biology

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Identifying concerted evolution and gene conversion in mammalian gene pairs lasting over 100 million years

(2009) Andrew R Carson et al.   BMC EVOLUTIONARY BIOLOGY

Genome-based polymorphic microsatellite development and validation in the mosquito Aedes aegypti and application to population genetics in Haiti

(2009) Diane D Lovin et al.   BMC GENOMICS

Nutritive evaluation of a non-conventional leafy vegetable (Pereskia aculeataMiller)

(2009) Cristina Y. Takeiti et al.   INTERNATIONAL JOURNAL OF FOOD SCIENCES AND NUTRITION

Using molecular methods to determine the origin of weed populations of Pereskia aculeata in South Africa and its relevance to biological control

(2008) Iain D. Paterson et al.   BIOLOGICAL CONTROL