title: Strand-specific RNA-seq applied to malaria samples.
abstract: Over the past few years only, next-generation sequencing technologies became accessible and many applications were rapidly derived, such as the development of RNA-seq, a technique that uses deep sequencing to profile whole transcriptomes. RNA-seq has the power to discover new transcripts and splicing variants, single-nucleotide variations, fusion genes, and mRNA level-based expression profiles. Preparing RNA-seq libraries can be delicate and usually obligates buying expensive kits that require large amounts of stating materials. The method presented here is flexible and cost-effective. Using this method, we prepared high-quality strand-specific RNA-seq libraries from RNA extracted from the human malaria parasite Plasmodium falciparum. The libraries are compatible with Illumina(®)'s sequencers Genome Analyzer and Hi-Seq. The method can, however, be easily adapted to other platforms.
authors.affiliation: Department of Cell Biology and Neuroscience, Institute for Integrative Genome Biology, Center for Disease Vector Research, University of California, Riverside, CA, USA.
authors.forename: Nadia
authors.initials: N
authors.lastname: Ponts
authors.forename: Duk-Won D
authors.initials: DW
authors.lastname: Chung
authors.forename: Karine G
authors.initials: KG
authors.lastname: Le Roch
mesh_terms: D000241:Adenosine / Q000302:isolation & purification; D002021:Buffers; D053837:DNA Cleavage; D018076:DNA, Complementary / Q000138:chemical synthesis; D003851:Deoxyribonucleases / Q000737:chemistry; D015723:Gene Library; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D010963:Plasmodium falciparum / Q000235:genetics*; D011108:Polymers / Q000302:isolation & purification; D012313:RNA / Q000235:genetics / Q000302:isolation & purification; D012333:RNA, Messenger / Q000235:genetics / Q000302:isolation & purification; D016053:RNA, Protozoan / Q000235:genetics / Q000302:isolation & purification; D017423:Sequence Analysis, RNA / Q000379:methods*
chemical_list: D002021:Buffers; D018076:DNA, Complementary; D011108:Polymers; D012333:RNA, Messenger; D016053:RNA, Protozoan; C069424:polyadenosine; D012313:RNA; D003851:Deoxyribonucleases; D000241:Adenosine