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Chromosomal copy number variation reveals differential levels of genomic plasticity in distinct Trypanosoma cruzi strains

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dc.contributor.author Reis-Cunha, J.L.
dc.contributor.author Rodrigues-Luiz, G.F.
dc.contributor.author Valdivia, H.O.
dc.contributor.author Baptista, R.P.
dc.contributor.author Mendes, T.A.O.
dc.contributor.author Loss de Morais, G.
dc.contributor.author Guedes, R.
dc.contributor.author Macedo, A.M.
dc.contributor.author Bern, C.
dc.contributor.author Gilman, R.H.
dc.contributor.author Talavera Lopez, C.
dc.contributor.author Andersson, B.
dc.contributor.author Vasconcelos, A.T.
dc.contributor.author Bartholomeu, D.C.
dc.date.accessioned 2019-04-24T18:23:51Z
dc.date.available 2019-04-24T18:23:51Z
dc.date.issued 2015
dc.identifier.uri https://hdl.handle.net/20.500.12866/6460
dc.description.abstract Background: Trypanosoma cruzi, the etiologic agent of Chagas disease, is currently divided into six discrete typing units (DTUs), named TcI-TcVI. CL Brener, the reference strain of the T. cruzi genome project, is a hybrid with a genome assembled into 41 putative chromosomes. Gene copy number variation (CNV) is well documented as an important mechanism to enhance gene expression and variability in T. cruzi. Chromosomal CNV (CCNV) is another level of gene CNV in which whole blocks of genes are expanded simultaneously. Although the T. cruzi karyotype is not well defined, several studies have demonstrated a significant variation in the size and content of chromosomes between different T. cruzi strains. Despite these studies, the extent of diversity in CCNV among T. cruzi strains based on a read depth coverage analysis has not been determined. Results: We identify the CCNV in T. cruzi strains from the TcI, TcII and TcIII DTUs, by analyzing the depth coverage of short reads from these strains using the 41 CL Brener chromosomes as reference. This study led to the identification of a broader extent of CCNV in T. cruzi than was previously speculated. The TcI DTU strains have very few aneuploidies, while the strains from TcII and TcIII DTUs present a high degree of chromosomal expansions. Chromosome 31, which is the only chromosome that is supernumerary in all six T. cruzi samples evaluated in this study, is enriched with genes related to glycosylation pathways, highlighting the importance of glycosylation to parasite survival. Conclusions: Increased gene copy number due to chromosome amplification may contribute to alterations in gene expression, which represents a strategy that may be crucial for parasites that mainly depend on post-transcriptional mechanisms to control gene expression. en_US
dc.language.iso eng
dc.publisher BioMed Central
dc.relation.ispartof urn:issn:1471-2164
dc.rights info:eu-repo/semantics/restrictedAccess
dc.rights.uri https://creativecommons.org/licenses/by-nc-nd/4.0/deed.es
dc.subject aneuploidy en_US
dc.subject Article en_US
dc.subject chromosome en_US
dc.subject chromosome 14 en_US
dc.subject chromosome 31 en_US
dc.subject chromosome 6 en_US
dc.subject chromosome analysis en_US
dc.subject chromosome map en_US
dc.subject controlled study en_US
dc.subject copy number variation en_US
dc.subject discrete typing unit en_US
dc.subject gene dosage en_US
dc.subject gene frequency en_US
dc.subject gene ontology en_US
dc.subject genetic parameters en_US
dc.subject genetic variability en_US
dc.subject genome en_US
dc.subject genome plasticity en_US
dc.subject glycosylation en_US
dc.subject haplotype en_US
dc.subject heterozygosity en_US
dc.subject nonhuman en_US
dc.subject parasite examination en_US
dc.subject parasite survival en_US
dc.subject sequence analysis en_US
dc.subject single nucleotide polymorphism en_US
dc.subject strain difference en_US
dc.subject Trypanosoma cruzi en_US
dc.subject Y chromosome en_US
dc.subject Y chromosome 11 en_US
dc.subject copy number variation en_US
dc.subject gene expression en_US
dc.subject genetic variation en_US
dc.subject genetics en_US
dc.subject genome en_US
dc.subject genomics en_US
dc.subject procedures en_US
dc.subject Trypanosoma cruzi en_US
dc.subject Trypanosoma cruzi en_US
dc.subject protozoal DNA en_US
dc.subject DNA Copy Number Variations en_US
dc.subject DNA, Protozoan en_US
dc.subject Gene Expression en_US
dc.subject Genetic Variation en_US
dc.subject Genome, Protozoan en_US
dc.subject Genomics en_US
dc.subject Glycosylation en_US
dc.subject Trypanosoma cruzi en_US
dc.title Chromosomal copy number variation reveals differential levels of genomic plasticity in distinct Trypanosoma cruzi strains en_US
dc.type info:eu-repo/semantics/article
dc.identifier.doi https://doi.org/10.1186/s12864-015-1680-4
dc.subject.ocde https://purl.org/pe-repo/ocde/ford#3.02.00 es_PE
dc.subject.ocde https://purl.org/pe-repo/ocde/ford#1.06.07

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