Functionally related transcripts have common RNA motifs for specific RNA-binding proteins in trypanosomes

Noé, Griselda; Gaudenzi, Javier G. De; Frasch, Alberto C.C.

doi:10.1186/1471-2199-9-107

Cited by 45 publications

(46 citation statements)

References 70 publications

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“…In contrast, the transcripts that interacted with TcUBP3 were found to encode mainly ribosomal proteins (Noé et al 2008). A stem-loop structure of 30-35 bases was identified in the majority of TcUBP-associated mRNAs and this element was more frequently represented in the 3' UTRs of mRNAs and may represent the TcUBP1 binding site (Noé et al 2008). Although TcUBP1 has been shown to be predominantly cytoplasmic (De Gaudenzi et al 2003), all TcUBP members were found to associate with mRNA granules in stressed epimastigotes, suggesting that T. cruzi makes use of mRNA granules for transient transcript protection (Cassola et al 2007).…”

Section: Rna-binding Proteins Are Essential Trans-acting Elements Formentioning

confidence: 89%

“…The mRNA that associated with TcUBP1 was found to encode mu-cin, amastin and proteases, such as cruzipain and GP63, as well as members of the TS family. In contrast, the transcripts that interacted with TcUBP3 were found to encode mainly ribosomal proteins (Noé et al 2008). A stem-loop structure of 30-35 bases was identified in the majority of TcUBP-associated mRNAs and this element was more frequently represented in the 3' UTRs of mRNAs and may represent the TcUBP1 binding site (Noé et al 2008).…”

Section: Rna-binding Proteins Are Essential Trans-acting Elements Formentioning

confidence: 99%

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Regulatory elements involved in the post-transcriptional control of stage-specific gene expression in Trypanosoma cruzi: a review

Araújo

Teixeira

2011

Mem. Inst. Oswaldo Cruz

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Trypanosoma cruzi is an intracellular parasite that is transmitted by at least 40 different blood-sucking triatomine species to over 1,000 mammalian species (Brener et al. 2000). This parasite must adapt to enormous changes in its extracellular milieu, such as changes in environmental temperature as well as in the available nutrients inside each host. The parasite has a complex life cycle that is characterised by four stages; epimastigotes and metacyclic trypomastigotes are present in the insect vector, whereas intracellular amastigotes and bloodstream trypomastigotes are present in the mammalian host. Thus, this species must develop a broad set of molecular tools that allow it to multiply in the insect gut, to invade and multiply inside a large number of distinct mammalian cell types and to circumvent host immune defence systems. To meet such phenotypic plasticity, T. cruzi relies on unique mechanisms that can control the expression of its repertoire of about 12,000 genes. Because its genome is constitutively transcribed into long polycistronic primary transcripts, mRNAs for proteincoding genes must be processed through trans-splicing and polyadenylation reactions. The mRNAs must also interact with different protein factors in a complex posttranscriptional regulatory machinery that determines the levels of their protein product according to the cellular demands of the parasite in each stage of its life cycle.In the same issue that the T. cruzi genome was published (El-Sayed et al. 2005a), a study describing its proteome was also reported (Atwood et al. 2005). Proteins extracted from whole-cell and subcellular lysates of the four stages of T. cruzi were analysed by mass spectrometry (epimastigotes, metacyclic trypomastigotes, amastigotes and trypomastigotes), which identified 2,784 proteins belonging to the 1,168 protein groups in the annotated T. cruzi genome. Although about 30% of the identified proteins were found at all life-cycle stages, at least 248 proteins were only expressed at one stage, thereby demonstrating significant changes in the relative abundance of T. cruzi proteins throughout its life cycle. One of the main findings in these proteomic analyses was that the four parasite stages use distinct energy sources (Atwood et al. 2005); intracellular amastigotes upregulated proteins involved in lipid-dependent energy metabolism, such as enzymes of the citric acid cycle, whereas enzymes capable of catalysing the conversion of histidine to glutamate were more abundant in the insect epimastigote stage. Heat-shock proteins (HSP) and proteins involved in vesicular trafficking were also preferentially detected in amastigotes. Furthermore, enzymes involved in antioxidant defence were upregulated during the transformation of epimastigotes into invasive metacyclic trypomastigotes, whereas bloodstream trypomastigotes upregulated the surface expression of several large gene families that are known to be involved in interacting with the mammalian host (Atwood et al. 2005).In agreement with this proteomics data, glo...

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Section: Rna-binding Proteins Are Essential Trans-acting Elements Formentioning

confidence: 89%

Section: Rna-binding Proteins Are Essential Trans-acting Elements Formentioning

confidence: 99%

Regulatory elements involved in the post-transcriptional control of stage-specific gene expression in Trypanosoma cruzi: a review

Araújo

Teixeira

2011

Mem. Inst. Oswaldo Cruz

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“…It has been suggested that RBPs also regulate the function of the associated mRNAs in trypanosomes (Noé et al 2008, Kabani et al 2009, Ouellette & Papadopoulou 2009). Therefore, we looked for functional relationships between the identified mRNAs.…”

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confidence: 99%

“…Metabolically related genes display tight coregulation in trypanosomes (Mayho et al 2006, Noé et al 2008, Queiroz et al 2009). Developmentally regulated RNA regulons have been identified in both T. brucei and T. cruzi (Dallagiovanna et al 2008, Queiroz et al 2009).…”

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confidence: 99%

The zinc finger protein TcZFP2 binds target mRNAs enriched during Trypanosoma cruzi metacyclogenesis

Mörking

Rampazzo

Walrad

et al. 2012

Mem. Inst. Oswaldo Cruz

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Trypanosomes are parasitic protozoa in which gene expression is primarily controlled through the regulation of mRNA stability and translation. This post-transcriptional control is mediated by various families ofIn eukaryotes, post-transcriptional regulation involves cis control elements, which are generally present in the untranslated regions (UTRs) of mRNAs and trans-acting factors, such as non-coding RNAs and RNA-binding proteins (RBPs). RBPs are major regulators of mRNA processing, transport, stability and translation and are classified according to their RNA-binding domains (Lunde et al. 2007). Proteins with zinc finger domains may interact either with other proteins or with nucleic acids. Zinc finger domains with CCCH motifs bind to RNAs with high affinity and are present in proteins that are involved in the post-transcriptional regulation of mRNAs (Auweter et al. 2006). RBPs of this class have been identified in trypanosomatid protozoan parasites, which have been shown to contain approximately 50 proteins with at least one zinc finger domain (Hendricks & Matthews 2007, Kramer et al. 2010). Several species of trypanosomatids cause various diseases in humans and domestic animals, with major impacts on human health and on the economies of developing countries. The implicated species include Trypanosoma cruzi, Trypanosoma brucei spp and Leishmania spp. T. cruzi is the causal agent of Chagas disease, which affects millions of people in the Americas. This parasite has a complex life cycle, with two hosts and at least four well-defined forms (de Souza 2002). Within the insect vector, the non-infectious replicative forms (epimastigotes) are converted into non-replicating infectious forms (metacyclic trypomastigotes) in a process called metacyclogenesis. This differentiation process can be mimicked in vitro through the use of well-defined chemical media (Contreras et al. 1985(Contreras et al. , 1988 and this system constitutes an excellent model for studying differential gene expression throughout the life cycle of the parasite.Gene expression is controlled almost entirely by posttranscriptional regulation in trypanosomes (reviewed by Clayton & Shapira 2007). This regulation typically involves polycistronic transcription, mRNA maturation by trans-splicing and the editing of mitochondrial transcripts. No canonical RNA pol II promoters have been described and a clear case in which transcription initiation is regulated for this polymerase has yet to be reported. Moreover, genes that are present in the same polycistronic unit and transcribed as a single pre-mR-NA display different patterns of expression, suggesting that regulation occurs during the later stages of mRNA metabolism. Post-transcriptional regulation in trypanoputative RNA targets of protein TcZFP2 • Patricia Alves Mörking et al. 791somes has been reported to primarily involve the control of mRNA stability and translation. The exosome and deadenylation complexes have been identified as the primary regulators of transcript stability via several different deg...

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“…The in vivo formaldehyde fixation of epimastigotes and immunoprecipitation (IP) assays were carried out as described (28). After the washing steps, RNA was extracted from IP material using TRI reagent.…”

Section: Rna Extraction From Mrnp Complexes-mentioning

confidence: 99%

A 43-Nucleotide U-rich Element in 3′-Untranslated Region of Large Number of Trypanosoma cruzi Transcripts Is Important for mRNA Abundance in Intracellular Amastigotes

Gaudenzi

Álvarez

et al. 2012

Journal of Biological Chemistry

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Background: Trypanosoma cruzi regulates gene expression by means of post-transcriptional mechanisms. Results: A 43-nt U-rich element was found in the 3Ј-UTR of a large number of mRNAs that are more abundant in intracellular amastigotes. Conclusion:The 43-nt U-rich element might be involved in the modulation of abundance and/or translation of transcripts in amastigotes. Significance: Results suggest the existence of stage-specific RNA regulons in T. cruzi.

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Functionally related transcripts have common RNA motifs for specific RNA-binding proteins in trypanosomes

Cited by 45 publications

References 70 publications

Regulatory elements involved in the post-transcriptional control of stage-specific gene expression in Trypanosoma cruzi: a review

Regulatory elements involved in the post-transcriptional control of stage-specific gene expression in Trypanosoma cruzi: a review

The zinc finger protein TcZFP2 binds target mRNAs enriched during Trypanosoma cruzi metacyclogenesis

A 43-Nucleotide U-rich Element in 3′-Untranslated Region of Large Number of Trypanosoma cruzi Transcripts Is Important for mRNA Abundance in Intracellular Amastigotes

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