Genome sequence of Ophryocystis elektroscirrha, an apicomplexan parasite of monarch butterflies: cryptic diversity and response to host-sequestered plant chemicals

Genome assembly of Danaus chrysippus and comparison with the Monarch Danaus plexippus

(2022) Kumar Saurabh Singh et al.   G3-Genes Genomes Genetics

Morph frequencies, sex ratios and infections in Danaus chrysippus populations in Rwanda

(2022) Gilbert Ndatimana et al.   AFRICAN JOURNAL OF ECOLOGY

Marine gregarine genomes reveal the breadth of apicomplexan diversity with a partially conserved glideosome machinery

(2022) Julie Boisard et al.   BMC GENOMICS

Assessing genome assembly quality prior to downstream analysis: N50 versus BUSCO

(2021) April A. Jauhal et al.   Molecular Ecology Resources

Whole-genome sequencing of a Toxoplasma gondii strain from a Turkish isolate using next-generation sequencing technology

(2021) Banucicek Yucesan et al.   ACTA TROPICA

BUSCO Update: Novel and Streamlined Workflows along with Broader and Deeper Phylogenetic Coverage for Scoring of Eukaryotic, Prokaryotic, and Viral Genomes

(2021) Mosè Manni et al.   MOLECULAR BIOLOGY AND EVOLUTION

Convergent evolution of cardiac-glycoside resistance in predators and parasites of milkweed herbivores

(2021) Simon C. Groen et al.   CURRENT BIOLOGY

Toward a genome sequence for every animal: Where are we now?

(2021) Scott Hotaling et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Parasite-host specificity: A cross-infection study of the parasite Ophryocystis elektroscirrha

(2020) Ke Gao et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

Whole-chromosome hitchhiking driven by a male-killing endosymbiont

(2020) Simon H. Martin et al.   PLOS BIOLOGY

The Functioning of Na+-ATPases from Protozoan Parasites: Are These Pumps Targets for Antiparasitic Drugs?

(2020) Claudia F. Dick et al.   Cells

Phylogenomics identifies a new major subgroup of apicomplexans, Marosporida class. nov., with extreme apicoplast genome reduction

(2020) Varsha Mathur et al.   Genome Biology and Evolution

Characterization of the ATP4 ion pump in Toxoplasma gondii

(2019) Adele M. Lehane et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Dichotomy of Dosage Compensation along the Neo Z Chromosome of the Monarch Butterfly

(2019) Liuqi Gu et al.   CURRENT BIOLOGY

Minimap2: pairwise alignment for nucleotide sequences

(2018) Heng Li   BIOINFORMATICS

Comparative genetics of Na+/K+-ATPase in monarch butterfly populations with varying host plant toxicity

(2016) Amanda A. Pierce et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Phylogenetic incongruence and the evolutionary origins of cardenolide-resistant forms of Na+,K+-ATPase inDanausbutterflies

(2016) Matthew L. Aardema et al.   EVOLUTION

Occurrence and host specificity of a neogregarine protozoan in four milkweed butterfly hosts ( Danaus spp.)

(2016) Paola A. Barriga et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

Rascaf: Improving Genome Assembly with RNA Sequencing Data

(2016) Li Song et al.   Plant Genome

BRAKER1: Unsupervised RNA-Seq-Based Genome Annotation with GeneMark-ET and AUGUSTUS: Table 1.

(2015) Katharina J. Hoff et al.   BIOINFORMATICS

Genome size evolution in macroparasites

(2015) Lotta-Riina Sundberg et al.   INTERNATIONAL JOURNAL FOR PARASITOLOGY

Systems-Based Analysis of the Sarcocystis neurona Genome Identifies Pathways That Contribute to a Heteroxenous Life Cycle

(2015) Tomasz Blazejewski et al.   mBio

The genetics of monarch butterfly migration and warning colouration

(2014) Shuai Zhan et al.   NATURE

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

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

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

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Toxic cardenolides: chemical ecology and coevolution of specialized plant-herbivore interactions

(2012) Anurag A. Agrawal et al.   NEW PHYTOLOGIST

Comparative Genome Analysis of Three Eukaryotic Parasites with Differing Abilities To Transform Leukocytes Reveals Key Mediators of Theileria-Induced Leukocyte Transformation

(2012) K. Hayashida et al.   mBio

Aphids indirectly increase virulence and transmission potential of a monarch butterfly parasite by reducing defensive chemistry of a shared food plant

(2011) Jacobus C. de Roode et al.   ECOLOGY LETTERS

Jumbled Genomes: Missing Apicomplexan Synteny

(2011) J. D. DeBarry et al.   MOLECULAR BIOLOGY AND EVOLUTION

The evolution of cardenolide-resistant forms of Na+,K+-ATPase in Danainae butterflies

(2011) MATTHEW L. AARDEMA et al.   MOLECULAR ECOLOGY

Cretaceous origin and repeated tertiary diversification of the redefined butterflies

(2011) M. Heikkila et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

phangorn: phylogenetic analysis in R

(2010) Klaus Peter Schliep   BIOINFORMATICS

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Evidence for trans-generational medication in nature

(2010) Thierry Lefèvre et al.   ECOLOGY LETTERS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Evolution of the Apicomplexa: where are we now?

(2009) David A. Morrison   TRENDS IN PARASITOLOGY

Gene prediction in novel fungal genomes using an ab initio algorithm with unsupervised training

(2008) V. Ter-Hovhannisyan et al.   GENOME RESEARCH

Virulence-transmission trade-offs and population divergence in virulence in a naturally occurring butterfly parasite

(2008) J. C. de Roode et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Host plant species affects virulence in monarch butterfly parasites

(2007) Jacobus C. de Roode et al.   JOURNAL OF ANIMAL ECOLOGY