Emerging biology of noncoding RNAs in malaria parasites

Analysis of Long Non-Coding RNA in Cryptosporidium parvum Reveals Significant Stage-Specific Antisense Transcription

(2021) Yiran Li et al.   Frontiers in Cellular and Infection Microbiology

From Genes to Transcripts, a Tightly Regulated Journey in Plasmodium

(2021) Thomas Hollin et al.   Frontiers in Cellular and Infection Microbiology

Signal and noise in circRNA translation

(2021) T.B. Hansen   METHODS

Full-Length Transcriptome Analysis of Plasmodium falciparum by Single-Molecule Long-Read Sequencing

(2021) Mengquan Yang et al.   Frontiers in Cellular and Infection Microbiology

The RNA Structurome in the Asexual Blood Stages of Malaria Pathogen Plasmodium falciparum

(2021) Diana Renteria Alvarez et al.   RNA Biology

Exploring the Alternative Splicing of Long Noncoding RNAs

(2021) Muhammad Riaz Khan et al.   TRENDS IN GENETICS

An SR protein is essential for activating DNA repair in malaria parasites

(2021) Manish Goyal et al.   JOURNAL OF CELL SCIENCE

Author Correction: RADICL-seq identifies general and cell type–specific principles of genome-wide RNA-chromatin interactions

(2021) Alessandro Bonetti et al.   Nature Communications

Circular RNA translation, a path to hidden proteome

(2021) Tanvi Sinha et al.   Wiley Interdisciplinary Reviews-RNA

Translation and functional roles of circular RNAs in human cancer

(2020) Ming Lei et al.   Molecular Cancer

Plasmodium asexual growth and sexual development in the haematopoietic niche of the host

(2020) Kannan Venugopal et al.   NATURE REVIEWS MICROBIOLOGY

CRISPR Interference of a Clonally Variant GC-Rich Noncoding RNA Family Leads to General Repression of var Genes in Plasmodium falciparum

(2020) Anna Barcons-Simon et al.   mBio

Refining the transcriptome of the human malaria parasite Plasmodium falciparum using amplification-free RNA-seq

(2020) Lia Chappell et al.   BMC GENOMICS

Red Blood Cells as Potential Repositories of MicroRNAs in the Circulatory System

(2020) Liping Sun et al.   Frontiers in Genetics

RAD51-dependent recruitment of TERRA lncRNA to telomeres through R-loops

(2020) Marianna Feretzaki et al.   NATURE

Gene regulation by long non-coding RNAs and its biological functions

(2020) Luisa Statello et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Long Non-Coding RNAs: The Regulatory Mechanisms, Research Strategies, and Future Directions in Cancers

(2020) Na Gao et al.   Frontiers in Oncology

Developmentally Regulated Novel Non-coding Anti-sense Regulators of mRNA Translation in Trypanosoma brucei

(2020) K. Shanmugha Rajan et al.   iScience

Cellular functions of long noncoding RNAs

(2019) Run-Wen Yao et al.   NATURE CELL BIOLOGY

Rapid antigen diversification through mitotic recombination in the human malaria parasite Plasmodium falciparum

(2019) Xu Zhang et al.   PLOS BIOLOGY

Transcriptome-wide dynamics of extensive m6A mRNA methylation during Plasmodium falciparum blood-stage development

(2019) Sebastian Baumgarten et al.   Nature Microbiology

Mechanisms and Functions of Long Non-Coding RNAs at Multiple Regulatory Levels

(2019) Xiaopei Zhang et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Multiplicity and molecular epidemiology of Plasmodium vivax and Plasmodium falciparum infections in East Africa

(2018) Daibin Zhong et al.   MALARIA JOURNAL

Extracellular vesicles isolate from Toxoplasma gondii induce host immune response

(2018) Valeria Oliveira Silva et al.   PARASITE IMMUNOLOGY

GDV1 induces sexual commitment of malaria parasites by antagonizing HP1-dependent gene silencing

(2018) Michael Filarsky et al.   SCIENCE

Mitoregulin: A lncRNA-Encoded Microprotein that Supports Mitochondrial Supercomplexes and Respiratory Efficiency

(2018) Colleen S. Stein et al.   Cell Reports

Universal Alternative Splicing of Noncoding Exons

(2018) Ira W. Deveson et al.   Cell Systems

Splicing of long non-coding RNAs primarily depends on polypyrimidine tract and 5′ splice-site sequences due to weak interactions with SR proteins

(2018) Zuzana Krchňáková et al.   NUCLEIC ACIDS RESEARCH

Plasmodium falciparumvar Gene Is Activated by Its Antisense Long Noncoding RNA

(2018) Qingqing Jing et al.   Frontiers in Microbiology

Circulating microRNAs in malaria infection: bench to bedside

(2017) Supat Chamnanchanunt et al.   MALARIA JOURNAL

Variant surface antigens of Plasmodium falciparum and their roles in severe malaria

(2017) Mats Wahlgren et al.   NATURE REVIEWS MICROBIOLOGY

Plasmodium Sporozoite Biology

(2017) Friedrich Frischknecht et al.   Cold Spring Harbor Perspectives in Medicine

Homologous Recombination in Protozoan Parasites and Recombinase Inhibitors

(2017) Andrew A. Kelso et al.   Frontiers in Microbiology

LncRNA-Six1 Encodes a Micropeptide to Activate Six1 in Cis and Is Involved in Cell Proliferation and Muscle Growth

(2017) Bolin Cai et al.   Frontiers in Physiology

How do lncRNAs regulate transcription?

(2017) Yicheng Long et al.   Science Advances

Widespread control of calcium signaling by a family of SERCA-inhibiting micropeptides

(2016) D. M. Anderson et al.   Science Signaling

Infected erythrocyte-derived extracellular vesicles alter vascular function via regulatory Ago2-miRNA complexes in malaria

(2016) Pierre-Yves Mantel et al.   Nature Communications

Biology of Malaria Transmission

(2016) Elamaran Meibalan et al.   Cold Spring Harbor Perspectives in Medicine

Hemotin, a Regulator of Phagocytosis Encoded by a Small ORF and Conserved across Metazoans

(2016) José I. Pueyo et al.   PLOS BIOLOGY

Translational regulation in blood stages of the malaria parasite Plasmodium spp. : systems-wide studies pave the way

(2016) Shruthi Sridhar Vembar et al.   Wiley Interdisciplinary Reviews-RNA

Widespread control of calcium signaling by a family of SERCA-inhibiting micropeptides

(2016) D. M. Anderson et al.   Science Signaling

Strand-specific RNA sequencing in Plasmodium falciparum malaria identifies developmentally regulated long non-coding RNA and circular RNA

(2015) Kate M Broadbent et al.   BMC GENOMICS

A bioinformatic survey of RNA-binding proteins in Plasmodium

(2015) BP Niranjan Reddy et al.   BMC GENOMICS

Systematic Discovery of Xist RNA Binding Proteins

(2015) Ci Chu et al.   CELL

Dual regulatory effects of non-coding GC-rich elements on the expression of virulence genes in malaria parasites

(2015) Guiying Wei et al.   INFECTION GENETICS AND EVOLUTION

PfSR1 controls alternative splicing and steady-state RNA levels inPlasmodium falciparumthrough preferential recognition of specific RNA motifs

(2015) Shiri Eshar et al.   MOLECULAR MICROBIOLOGY

N6-methyladenosine-dependent RNA structural switches regulate RNA–protein interactions

(2015) Nian Liu et al.   NATURE

Long non-coding RNAs as regulators of the endocrine system

(2015) Marko Knoll et al.   Nature Reviews Endocrinology

TERRA and the state of the telomere

(2015) Karsten Rippe et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Antisense long noncoding RNAs regulatevargene activation in the malaria parasitePlasmodium falciparum

(2015) Inbar Amit-Avraham et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Long non-coding RNA and chromatin remodeling

(2015) Pei Han et al.   RNA Biology

Control of Chromatin Structure by Long Noncoding RNA

(2015) Gudrun Böhmdorfer et al.   TRENDS IN CELL BIOLOGY

TERRA and the state of the telomere

(2015) Karsten Rippe et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Emerging Role for RNA Polymerase II in Regulating Virulence Gene Expression in Malaria Parasites

(2015) Uchechi E. Ukaegbu et al.   PLoS Pathogens

Many lncRNAs, 5’UTRs, and pseudogenes are translated and some are likely to express functional proteins

(2015) Zhe Ji et al.   eLife

Strand-specific RNA-Seq reveals widespread and developmentally regulated transcription of natural antisense transcripts in Plasmodium falciparum

(2014) T Siegel et al.   BMC GENOMICS

Heterochromatin Protein 1 Secures Survival and Transmission of Malaria Parasites

(2014) Nicolas M.B. Brancucci et al.   Cell Host & Microbe

Epigenetic memory takes center stage in the survival strategy of malaria parasites

(2014) Till S Voss et al.   CURRENT OPINION IN MICROBIOLOGY

Noncoding RNAs as emerging regulators of Plasmodium falciparum virulence gene expression

(2014) Shruthi S Vembar et al.   CURRENT OPINION IN MICROBIOLOGY

RNAi in Plasmodium

(2014) Ann-Kristin Mueller et al.   CURRENT PHARMACEUTICAL DESIGN

Natural antisense transcripts in Plasmodium falciparum isolates from patients with complicated malaria

(2014) Amit Kumar Subudhi et al.   EXPERIMENTAL PARASITOLOGY

A Human Short Open Reading Frame (sORF)-encoded Polypeptide That Stimulates DNA End Joining

(2014) Sarah A. Slavoff et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Exonuclease-mediated degradation of nascent RNA silences genes linked to severe malaria

(2014) Qingfeng Zhang et al.   NATURE

A transcriptional switch underlies commitment to sexual development in malaria parasites

(2014) Björn F. C. Kafsack et al.   NATURE

Genome-wide identification and functional annotation of Plasmodium falciparum long noncoding RNAs from RNA-seq data

(2014) Qi Liao et al.   PARASITOLOGY RESEARCH

Deep Profiling of the Novel Intermediate-Size Noncoding RNAs in Intraerythrocytic Plasmodium falciparum

(2014) Chunyan Wei et al.   PLoS One

Recruitment of PfSET2 by RNA Polymerase II to Variant Antigen Encoding Loci Contributes to Antigenic Variation in P. falciparum

(2014) Uchechi E. Ukaegbu et al.   PLoS Pathogens

Long Noncoding RNAs: Cellular Address Codes in Development and Disease

(2013) Pedro J. Batista et al.   CELL

Silence, activate, poise and switch! Mechanisms of antigenic variation inPlasmodium falciparum

(2013) Julien Guizetti et al.   CELLULAR MICROBIOLOGY

Circular RNAs are a large class of animal RNAs with regulatory potency

(2013) Sebastian Memczak et al.   NATURE

Gene regulation by antisense transcription

(2013) Vicent Pelechano et al.   NATURE REVIEWS GENETICS

RNA in unexpected places: long non-coding RNA functions in diverse cellular contexts

(2013) Sarah Geisler et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Conserved Regulation of Cardiac Calcium Uptake by Peptides Encoded in Small Open Reading Frames

(2013) E. G. Magny et al.   SCIENCE

Opposing Roles for Two Molecular Forms of Replication Protein A in Rad51-Rad54-Mediated DNA Recombination in Plasmodium falciparum

(2013) A. M. Gopalakrishnan et al.   mBio

Staufen-mediated mRNA decay

(2013) Eonyoung Park et al.   Wiley Interdisciplinary Reviews-RNA

Translocation of Sickle Cell Erythrocyte MicroRNAs into Plasmodium falciparum Inhibits Parasite Translation and Contributes to Malaria Resistance

(2012) Gregory LaMonte et al.   Cell Host & Microbe

Disruption of the Expression of a Non-Coding RNA Significantly Impairs Cellular Differentiation in Toxoplasma gondii

(2012) Veerupaxagouda Patil et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Two long non-coding RNAs generated from subtelomeric regions accumulate in a novel perinuclear compartment in Plasmodium falciparum

(2012) Miguel Sierra-Miranda et al.   MOLECULAR AND BIOCHEMICAL PARASITOLOGY

RNA Polymerase II Collision Interrupts Convergent Transcription

(2012) David J. Hobson et al.   MOLECULAR CELL

Evolutionarily divergent spliceosomal snRNAs and a conserved non-coding RNA processing motif in Giardia lamblia

(2012) Andrew J. Hudson et al.   NUCLEIC ACIDS RESEARCH

A novel Plasmodium falciparum SR protein is an alternative splicing factor required for the parasites’ proliferation in human erythrocytes

(2012) Shiri Eshar et al.   NUCLEIC ACIDS RESEARCH

Erasing the Epigenetic Memory and Beginning to Switch—The Onset of Antigenic Switching of var Genes in Plasmodium falciparum

(2012) Yair Fastman et al.   PLoS One

Insulator-like pairing elements regulate silencing and mutually exclusive expression in the malaria parasite Plasmodium falciparum

(2012) I. Avraham et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Circular RNAs are abundant, conserved, and associated with ALU repeats

(2012) W. R. Jeck et al.   RNA

Airn Transcriptional Overlap, But Not Its lncRNA Products, Induces Imprinted Igf2r Silencing

(2012) P. A. Latos et al.   SCIENCE

Steroid Receptor RNA Activator – A nuclear receptor coregulator with multiple partners: Insights and challenges

(2011) Shane M. Colley et al.   BIOCHIMIE

Directional gene expression and antisense transcripts in sexual and asexual stages of Plasmodium falciparum

(2011) María J López-Barragán et al.   BMC GENOMICS

Ribosome Profiling of Mouse Embryonic Stem Cells Reveals the Complexity and Dynamics of Mammalian Proteomes

(2011) Nicholas T. Ingolia et al.   CELL

Genomic Maps of Long Noncoding RNA Occupancy Reveal Principles of RNA-Chromatin Interactions

(2011) Ci Chu et al.   MOLECULAR CELL

RNA-Seq analysis of splicing in Plasmodium falciparum uncovers new splice junctions, alternative splicing and splicing of antisense transcripts

(2011) K. Sorber et al.   NUCLEIC ACIDS RESEARCH

A global transcriptional analysis of Plasmodium falciparum malaria reveals a novel family of telomere-associated lncRNAs

(2011) Kate M Broadbent et al.   GENOME BIOLOGY

In silico and biological survey of transcription-associated proteins implicated in the transcriptional machinery during the erythrocytic development of Plasmodium falciparum

(2010) Emmanuel Bischoff et al.   BMC GENOMICS

Chromatin-Mediated Epigenetic Regulation in the Malaria Parasite Plasmodium falciparum

(2010) Liwang Cui et al.   EUKARYOTIC CELL

Defective erythroid differentiation in miR-451 mutant mice mediated by 14-3-3 

(2010) D. M. Patrick et al.   GENES & DEVELOPMENT

The Nuclear-Retained Noncoding RNA MALAT1 Regulates Alternative Splicing by Modulating SR Splicing Factor Phosphorylation

(2010) Vidisha Tripathi et al.   MOLECULAR CELL

Steroid receptor RNA activator protein binds to and counteracts SRA RNA-mediated activation of MyoD and muscle differentiation

(2010) Florent Hubé et al.   NUCLEIC ACIDS RESEARCH

miRNA, siRNA, piRNA and Argonautes: News in small matters

(2010) Lucia T. Riedmann et al.   RNA Biology

A Complex Small RNA Repertoire Is Generated by a Plant/Fungal-Like Machinery and Effected by a Metazoan-Like Argonaute in the Single-Cell Human Parasite Toxoplasma gondii

(2010) Laurence Braun et al.   PLoS Pathogens

Genome-wide Analysis of Heterochromatin Associates Clonally Variant Gene Regulation with Perinuclear Repressive Centers in Malaria Parasites

(2009) Jose-Juan Lopez-Rubio et al.   Cell Host & Microbe

TERRA RNA Binding to TRF2 Facilitates Heterochromatin Formation and ORC Recruitment at Telomeres

(2009) Zhong Deng et al.   MOLECULAR CELL

A global view of the nonprotein-coding transcriptome in Plasmodium falciparum

(2009) Carsten A. Raabe et al.   NUCLEIC ACIDS RESEARCH

Plasmodium falciparum heterochromatin protein 1 binds to tri-methylated histone 3 lysine 9 and is linked to mutually exclusive expression of var genes

(2009) K. Perez-Toledo et al.   NUCLEIC ACIDS RESEARCH

Molecular genetics and comparative genomics reveal RNAi is not functional in malaria parasites

(2009) Jake Baum et al.   NUCLEIC ACIDS RESEARCH

Dynamic histone H3 epigenome marking during the intraerythrocytic cycle of Plasmodium falciparum

(2009) A. M. Salcedo-Amaya et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Antigenic Variation in Plasmodium falciparum

(2008) Artur Scherf et al.   Annual Review of Microbiology

Transcriptional control and gene silencing inPlasmodium falciparum

(2008) Bradley I. Coleman et al.   CELLULAR MICROBIOLOGY

PfEMP1: An antigen that plays a key role in the pathogenicity and immune evasion of the malaria parasite Plasmodium falciparum

(2008) Noa D. Pasternak et al.   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

Peptide inhibitor of cytokinesis during sporulation in Bacillus subtilis

(2008) Aaron A. Handler et al.   MOLECULAR MICROBIOLOGY

Chromatin associated sense and antisense noncoding RNAs are transcribed from the var gene family of virulence genes of the malaria parasite Plasmodium falciparum

(2008) C. Epp et al.   RNA

Comparative evolutionary genomics of human malaria parasites

(2008) Jane M. Carlton et al.   TRENDS IN PARASITOLOGY

Quantitative protein expression profiling reveals extensive post-transcriptional regulation and post-translational modifications in schizont-stage malaria parasites

(2008) Bernardo J Foth et al.   GENOME BIOLOGY

Genome-wide discovery and verification of novel structured RNAs in Plasmodium falciparum

(2007) T. Mourier et al.   GENOME RESEARCH

Antisense RNA and RNAi in protozoan parasites: Working hard or hardly working?

(2007) Kevin T. Militello et al.   MOLECULAR AND BIOCHEMICAL PARASITOLOGY