دورية أكاديمية
أعرض في EDS

Comparative genomic analysis of Leishmania (Viannia) peruviana and Leishmania (Viannia) braziliensis.

التفاصيل البيبلوغرافية
العنوان: Comparative genomic analysis of Leishmania (Viannia) peruviana and Leishmania (Viannia) braziliensis.
المؤلفون: Valdivia HO; Laboratório de Imunologia e Genômica de Parasitos, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil. hvalrod@hotmail.com.; Department of Parasitology, U.S. Naval Medical Research Unit No. 6, Lima, Peru. hvalrod@hotmail.com., Reis-Cunha JL; Laboratório de Imunologia e Genômica de Parasitos, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil. jaumlrc@yahoo.com.br., Rodrigues-Luiz GF; Laboratório de Imunologia e Genômica de Parasitos, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil. gab.luiz@gmail.com., Baptista RP; Laboratório de Imunologia e Genômica de Parasitos, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil. rodrigopbaptista@gmail.com., Baldeviano GC; Department of Parasitology, U.S. Naval Medical Research Unit No. 6, Lima, Peru. christian.baldeviano@med.navy.mil., Gerbasi RV; Department of Parasitology, U.S. Naval Medical Research Unit No. 6, Lima, Peru. robert.gerbassi@med.navy.mil., Dobson DE; Department of Molecular Microbiology, Washington University School of Medicine, St. Louis, Missouri, USA. ddobson@wusm.wustl.edu., Pratlong F; Centre Hospitalier Universitaire de Montpellier, Departement de Parasitologie-Mycologie, Centre National de Reference des Leishmanioses, Montpellier, France. f-pratlong@chu-montpellier.fr., Bastien P; Centre Hospitalier Universitaire de Montpellier, Departement de Parasitologie-Mycologie, Centre National de Reference des Leishmanioses, Montpellier, France. p-bastien@chu-montpellier.fr., Lescano AG; Department of Parasitology, U.S. Naval Medical Research Unit No. 6, Lima, Peru. willy.lescano@med.navy.mil.; Universidad Peruana Cayetano Heredia, School of Public Health and Management, Lima, Peru. willy.lescano@med.navy.mil., Beverley SM; Department of Molecular Microbiology, Washington University School of Medicine, St. Louis, Missouri, USA. beverley@wusm.wustl.edu., Bartholomeu DC; Laboratório de Imunologia e Genômica de Parasitos, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil. daniella@icb.ufmg.br.
المصدر: BMC genomics [BMC Genomics] 2015 Sep 18; Vol. 16, pp. 715. Date of Electronic Publication: 2015 Sep 18.
نوع المنشور: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
اللغة: English
بيانات الدورية: Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium: Internet ISSN: 1471-2164 (Electronic) Linking ISSN: 14712164 NLM ISO Abbreviation: BMC Genomics Subsets: MEDLINE
أسماء مطبوعة: Original Publication: London : BioMed Central, [2000-
مواضيع طبية MeSH: Leishmania/*genetics , Leishmania braziliensis/*genetics, DNA Copy Number Variations/genetics ; Genomics ; Polymorphism, Single Nucleotide/genetics
مستخلص: Background: The Leishmania (Viannia) braziliensis complex is responsible for most cases of New World tegumentary leishmaniasis. This complex includes two closely related species but with different geographic distribution and disease phenotypes, L. (V.) peruviana and L. (V.) braziliensis. However, the genetic basis of these differences is not well understood and the status of L. (V.) peruviana as distinct species has been questioned by some. Here we sequenced the genomes of two L. (V.) peruviana isolates (LEM1537 and PAB-4377) using Illumina high throughput sequencing and performed comparative analyses against the L. (V.) braziliensis M2904 reference genome. Comparisons were focused on the detection of Single Nucleotide Polymorphisms (SNPs), insertions and deletions (INDELs), aneuploidy and gene copy number variations.
Results: We found 94,070 variants shared by both L. (V.) peruviana isolates (144,079 in PAB-4377 and 136,946 in LEM1537) against the L. (V.) braziliensis M2904 reference genome while only 26,853 variants separated both L. (V.) peruviana genomes. Analysis in coding sequences detected 26,750 SNPs and 1,513 indels shared by both L. (V.) peruviana isolates against L. (V.) braziliensis M2904 and revealed two L. (V.) braziliensis pseudogenes that are likely to have coding potential in L. (V.) peruviana. Chromosomal read density and allele frequency profiling showed a heterogeneous pattern of aneuploidy with an overall disomic tendency in both L. (V.) peruviana isolates, in contrast with a trisomic pattern in the L. (V.) braziliensis M2904 reference. Read depth analysis allowed us to detect more than 368 gene expansions and 14 expanded gene arrays in L. (V.) peruviana, and the likely absence of expanded amastin gene arrays.
Conclusions: The greater numbers of interspecific SNP/indel differences between L. (V.) peruviana and L. (V.) braziliensis and the presence of different gene and chromosome copy number variations support the classification of both organisms as closely related but distinct species. The extensive nucleotide polymorphisms and differences in gene and chromosome copy numbers in L. (V.) peruviana suggests the possibility that these may contribute to some of the unique features of its biology, including a lower pathology and lack of mucosal development.
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معلومات مُعتمدة: R56 AI099364 United States AI NIAID NIH HHS; R01 AI029646 United States AI NIAID NIH HHS; R01-AI29646 United States AI NIAID NIH HHS; D43 TW007393 United States TW FIC NIH HHS; P30 CA91842 United States CA NCI NIH HHS; P30 CA091842 United States CA NCI NIH HHS; UL1 TR000448 United States TR NCATS NIH HHS; R56-AI099364 United States AI NIAID NIH HHS
تواريخ الأحداث: Date Created: 20150920 Date Completed: 20160718 Latest Revision: 20220409
رمز التحديث: 20221213
مُعرف محوري في PubMed: PMC4575464
DOI: 10.1186/s12864-015-1928-z
PMID: 26384787
قاعدة البيانات: MEDLINE
الوصف
تدمد:1471-2164
DOI:10.1186/s12864-015-1928-z