De novo assembly and characterization of the Trichuris trichiura adult worm transcriptome using Ion Torrent sequencing

Santos, Leonardo Nascimento; Silva, Eduardo Sérgio da; Santos, André Soares; Sá, Pablo Henrique de; Ramos, Rommel Thiago Jucá; Silva, Artur M. S.; Cooper, Philip J.; Barreto, Maurício L.; Loureiro, Sebastião; Pinheiro, Carina S.; Alcantara-Neves, Neuza Maria; Pacheco, Luis Gustavo Carvalho

doi:10.1016/j.actatropica.2016.03.036

Cited by 15 publications

(11 citation statements)

References 46 publications

(69 reference statements)

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“…Curiously, 2/3 of miRNAs are most abundant in larval stages rather than in adults, with a significant decrease in the L3-L4 transition, suggestive of developmental regulation [15]. Consistent with evidence that trichurid nematodes may protect against allergic reactions, atopy, and autoimmune conditions [17], proteins such as fructose bisphosphate aldolase and heat shock protein 70 have been identified as potential immunomodulatory agents [18, 19]. Trichuris spp.…”

Section: Clade Imentioning

confidence: 90%

Perusal of parasitic nematode ‘omics in the post-genomic era

Stoltzfus

Pilgrim

Herbert

2017

Molecular and Biochemical Parasitology

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The advent of high-throughput, next-generation sequencing methods combined with advances in computational biology and bioinformatics have greatly accelerated discovery within biomedical research. This “post-genomics” era has ushered in powerful approaches allowing one to quantify RNA transcript and protein abundance for every gene in the genome - often for multiple conditions. Herein, we chronicle how the post-genomics era has advanced our overall understanding of parasitic nematodes through transcriptomics and proteomics and highlight some of the important advances made in each major nematode clade. We primarily focus on organisms relevant to human health, given that nematode infections significantly impact disability-adjusted life years (DALY) scores within the developing world, but we also discuss organisms of veterinary importance as well as those used as laboratory models. As such, we envision that this review will serve as a comprehensive resource for those seeking a better understanding of basic parasitic nematode biology as well as those interested in targets for vaccination and pharmacological intervention.

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Section: Clade Imentioning

confidence: 90%

Perusal of parasitic nematode ‘omics in the post-genomic era

Stoltzfus

Pilgrim

Herbert

2017

Molecular and Biochemical Parasitology

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“…, 2013). Fourth, many reports have proven that de novo transcriptome assembly can also provide satisfactory results (Fang et al , 2016; Hasanuzzaman et al , 2016; Santos et al , 2016; Wei et al , 2016). …”

Section: Discussionmentioning

confidence: 99%

Comparative transcriptomic analysis of two important life stages of Angiostrongylus cantonensis: fifth-stage larvae and female adults

Cao

Long

et al. 2017

Genet. Mol. Biol.

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The mechanisms involved in the fast growth of Angiostrongylus cantonensis from fifth-stage larvae (L5) to female adults and how L5 breaks through the blood-brain barrier in a permissive host remain unclear. In this work, we compared the transcriptomes of these two life stages to identify the main factors involved in the rapid growth and transition to adulthood. RNA samples from the two stages were sequenced and assembled de novo. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway analyses of 1,346 differentially expressed genes between L5 and female adults was then undertaken. Based on a combination of analytical results and developmental characteristics, we suggest that A. cantonensis synthesizes a large amount of cuticle in L5 to allow body dilatation in the rapid growth period. Products that are degraded via the lysosomal pathway may provide sufficient raw materials for cuticle production. In addition, metallopeptidases may play a key role in parasite penetration of the blood-brain barrier during migration from the brain. Overall, these results indicate that the profiles of each transcriptome are tailored to the need for survival in each developmental stage.

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“…Chitin-binding domains genes are highly expressed in different life stages in many nematodes including the parasites T. trichiura, Ascaris lumbricoides and Ancylostoma ceylanicum and the free-living nematode Caenorhabditis elegans, [57][58][59][60]. In particular, these proteins are thought to be associated with eggshell formation and early development at the single-cell stage [61,62].…”

Section: Plos Pathogensmentioning

confidence: 99%

In silico design of a T-cell epitope vaccine candidate for parasitic helminth infection

et al. 2020

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Trichuris trichiura is a parasite that infects 500 million people worldwide, leading to colitis, growth retardation and Trichuris dysentery syndrome. There are no licensed vaccines available to prevent Trichuris infection and current treatments are of limited efficacy. Trichuris infections are linked to poverty, reducing children's educational performance and the economic productivity of adults. We employed a systematic, multi-stage process to identify a candidate vaccine against trichuriasis based on the incorporation of selected T-cell epitopes into virus-like particles. We conducted a systematic review to identify the most appropriate in silico prediction tools to predict histocompatibility complex class II (MHC-II) molecule Tcell epitopes. These tools were used to identify candidate MHC-II epitopes from predicted ORFs in the Trichuris genome, selected using inclusion and exclusion criteria. Selected epitopes were incorporated into Hepatitis B core antigen virus-like particles (VLPs). Bone marrow-derived dendritic cells and bone marrow-derived macrophages responded in vitro to VLPs irrespective of whether the VLP also included T-cell epitopes. The VLPs were internalized and co-localized in the antigen presenting cell lysosomes. Upon challenge infection, mice vaccinated with the VLPs+T-cell epitopes showed a significantly reduced worm burden, and mounted Trichuris-specific IgM and IgG2c antibody responses. The protection of mice by VLPs+T-cell epitopes was characterised by the production of mesenteric lymph node (MLN)-derived Th2 cytokines and goblet cell hyperplasia. Collectively our data establishes that a combination of in silico genome-based CD4+ T-cell epitope prediction, combined with VLP delivery, offers a promising pipeline for the development of an effective, safe and affordable helminth vaccine.

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De novo assembly and characterization of the Trichuris trichiura adult worm transcriptome using Ion Torrent sequencing

Cited by 15 publications

References 46 publications

Perusal of parasitic nematode ‘omics in the post-genomic era

Perusal of parasitic nematode ‘omics in the post-genomic era

Comparative transcriptomic analysis of two important life stages of Angiostrongylus cantonensis: fifth-stage larvae and female adults

In silico design of a T-cell epitope vaccine candidate for parasitic helminth infection

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