ArticlePLoS computational biology2013
Transcriptome profiling of Giardia intestinalis using strand-specific RNA-seq.
Article in PLoS computational biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed, 73 citations in OpenAlex.
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- Evolutionary dynamics of polyadenylation signals and their recognition strategies in protists.Genome research · 2024Article
- Expanded gene and taxon sampling of diplomonads shows multiple switches to parasitic and free-living lifestyle.BMC biology · 2024Article
- A core UPS molecular complement implicates unique endocytic compartments at the parasite-host interface inVirulence · 2023Article
- Spliceosomal introns in the diplomonad parasiteMicrobial genomics · 2023Article
- Stem-Loop Structures in Iron-Regulated mRNAs ofInternational journal of environmental research and public health · 2023Article
- Precise gene models using long-read sequencing reveal a unique poly(A) signal inRNA (New York, N.Y.) · 2022Article
- Sequences to Differences in Gene Expression: Analysis of RNA-Seq Data.Methods in molecular biology (Clifton, N.J.) · 2022Review
- Dual RNA Sequencing Reveals Key Events When DifferentFrontiers in cellular and infection microbiology · 2022Article
- A Detailed Gene Expression Map ofGenes · 2021Article
- Analysis of Fungal Genomes Reveals Commonalities of Intron Gain or Loss and Functions in Intron-Poor Species.Molecular biology and evolution · 2021Article
- The role of nuclear organization in trans-splicing based expression of heat shock protein 90 in Giardia lamblia.PLoS neglected tropical diseases · 2021Article
- Analysis of Codon Usage Patterns inGenes · 2021Article
- The compact genome ofMicrobial genomics · 2020Article
- Identification and evolutionary analysis of the nucleolar proteome of Giardia lamblia.BMC genomics · 2020Article
- Recent advances in functional research in Giardia intestinalis.Advances in parasitology · 2020Review
- A new gene inventory of the ubiquitin and ubiquitin-like conjugation pathways in Giardia intestinalis.Memorias do Instituto Oswaldo Cruz · 2020Article
- The Oxymonad Genome Displays Canonical Eukaryotic Complexity in the Absence of a Mitochondrion.Molecular biology and evolution · 2019Article
- Sense-antisense gene overlap is probably a cause for retaining the few introns in Giardia genome and the implications.Biology direct · 2018Article
- Characterization of mRNA polyadenylation in the apicomplexa.PloS one · 2018Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Giardia intestinalis is a common cause of diarrheal disease and it consists of eight genetically distinct genotypes or assemblages (A-H). Only assemblages A and B infect humans and are suggested to represent two different Giardia species. Correlations exist between assemblage type and host-specificity and to some extent symptoms. Phenotypical differences have been documented between assemblages and genome sequences are available for A, B and E. We have characterized and compared the polyadenylated transcriptomes of assemblages A, B and E. Four genetically different isolates were studied (WB (AI), AS175 (AII), P15 (E) and GS (B)) using paired-end, strand-specific RNA-seq. Most of the genome was transcribed in trophozoites grown in vitro, but at vastly different levels. RNA-seq confirmed many of the present annotations and refined the current genome annotation. Gene expression divergence was found to recapitulate the known phylogeny, and uncovered lineage-specific differences in expression. Polyadenylation sites were mapped for over 70% of the genes and revealed many examples of conserved and unexpectedly long 3' UTRs. 28 open reading frames were found in a non-transcribed gene cluster on chromosome 5 of the WB isolate. Analysis of allele-specific expression revealed a correlation between allele-dosage and allele expression in the GS isolate. Previously reported cis-splicing events were confirmed and global mapping of cis-splicing identified only one novel intron. These observations can possibly explain differences in host-preference and symptoms, and it will be the basis for further studies of Giardia pathogenesis and biology.
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