51
|
Cuartas JH, Alzate JF, Moreno-Herrera CX, Marquez EJ. Metagenomic analysis of orange colored protrusions from the muscle of Queen Conch Lobatus gigas (Linnaeus, 1758). PeerJ 2018; 6:e4307. [PMID: 29472996 PMCID: PMC5816965 DOI: 10.7717/peerj.4307] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2017] [Accepted: 01/10/2018] [Indexed: 11/25/2022] Open
Abstract
The endangered marine gastropod, Lobatus gigas, is an important fishery resource in the Caribbean region. Microbiological and parasitological research of this species have been poorly addressed despite its role in ecological fitness, conservation status and prevention of potential pathogenic infections. This study identified taxonomic groups associated with orange colored protrusions in the muscle of queen conchs using histological analysis, 454 pyrosequencing, and a combination of PCR amplification and automated Sanger sequencing. The molecular approaches indicate that the etiological agent of the muscle protrusions is a parasite belonging to the subclass Digenea. Additionally, the scope of the molecular technique allowed the detection of bacterial and fungi clades in the assignment analysis. This is the first evidence of a digenean infection in the muscle of this valuable Caribbean resource.
Collapse
Affiliation(s)
- Jaison H. Cuartas
- Facultad de Ciencias, Laboratorio de Biología Molecular y Celular, Universidad Nacional de Colombia, Medellín, Antioquia, Colombia
| | - Juan F. Alzate
- Facultad de Medicina, Centro Nacional de Secuenciación Genómica, Universidad de Antioquia, Medellín, Antioquia, Colombia
| | - Claudia X. Moreno-Herrera
- Facultad de Ciencias, Laboratorio de Biología Molecular y Celular, Universidad Nacional de Colombia, Medellín, Antioquia, Colombia
| | - Edna J. Marquez
- Facultad de Ciencias, Laboratorio de Biología Molecular y Celular, Universidad Nacional de Colombia, Medellín, Antioquia, Colombia
| |
Collapse
|
52
|
Montoya-Porras LM, Omar TC, Alzate JF, Moreno-Herrera CX, Cadavid-Restrepo GE. 16S rRNA gene amplicon sequencing reveals dominance of Actinobacteria in Rhodnius pallescens compared to Triatoma maculata midgut microbiota in natural populations of vector insects from Colombia. Acta Trop 2018; 178:327-332. [PMID: 29154947 DOI: 10.1016/j.actatropica.2017.11.004] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2017] [Revised: 10/19/2017] [Accepted: 11/14/2017] [Indexed: 01/19/2023]
Abstract
Chagas disease affects more than 6 million people in Latin America, it is a parasitic disease caused by the protozoan Trypanosoma cruzi, which is transmitted mainly by bloodsucking insects of the Triatominae subfamily. Studies on microbial communities that inhabit the insect gut are important to understanding their role in the parasite transmission and development. The present work aims to evaluate the gut bacterial composition of natural populations of triatomine species from Vichada and Magdalena, administrative states called departments in Colombia, using high-throughput sequencing technologies. The insects were collected from housing peridomestic area and Attalea butyracea palms; they were identified by conventional taxonomy as Triatoma maculata and Rhodnius pallescens, and their guts were dissected under aseptic conditions in order to obtain total DNA. After DNA quality confirmation, the sequencing of the V4 region of 16S rRNA gene was carried out using the Illumina platform MiSeq. The results showed that 13 predominant bacterial genera were present in both species, being Burkholderia, Gordonia, and Ralstonia, the most prevailing bacterial genera. Furthermore, representative genera of each species were found. Williamsia and Kocuria were the most common in R. pallescens; and Dietzia, Aeromonas, and Pelomonas were only observed in T. maculata samples. This is the first study of microbiota associated with these triatomine species using massive sequencing methods The approach allowed inferring the presence of a dominant population of bacteria according to the triatomine species in Colombia, which may suggest a strong association between microbiota and their host.
Collapse
|
53
|
Antoraz S, Rico S, Rodríguez H, Sevillano L, Alzate JF, Santamaría RI, Díaz M. The Orphan Response Regulator Aor1 Is a New Relevant Piece in the Complex Puzzle of Streptomyces coelicolor Antibiotic Regulatory Network. Front Microbiol 2017; 8:2444. [PMID: 29312165 PMCID: PMC5733086 DOI: 10.3389/fmicb.2017.02444] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2017] [Accepted: 11/24/2017] [Indexed: 11/13/2022] Open
Abstract
Streptomyces coelicolor, the best-known biological antibiotic producer, encodes 29 predicted orphan response regulators (RR) with a putative role in the response to environmental stimuli. However, their implication in relation to secondary metabolite production is mostly unexplored. Here, we show how the deletion of the orphan RR Aor1 (SCO2281) provoked a drastic decrease in the production of the three main antibiotics produced by S. coelicolor and a delay in morphological differentiation. With the aim to better understand the transcriptional events underpinning these phenotypes, and the global role of Aor1 in Streptomyces, a transcriptional fingerprint of the Δaor1 mutant was compared to a wild-type strain. RNA-Seq analysis revealed that the deletion of this orphan regulator affects a strikingly high number of genes, such as the genes involved in secondary metabolism, which matches the antibiotic production profiles observed. Of particular note, the sigma factor SigB and all of the genes comprising its regulon were up regulated in the mutant. Our results show that this event links osmotic stress to secondary metabolite production in S. coelicolor and indicates that the RR encoded by aor1 could be a key regulator in both of these processes.
Collapse
Affiliation(s)
- Sergio Antoraz
- Departamento de Microbiología y Genética, Instituto de Biología Funcional y Genómica, Consejo Superior de Investigaciones Científicas, Universidad de Salamanca, Salamanca, Spain
| | - Sergio Rico
- Departamento de Microbiología y Genética, Instituto de Biología Funcional y Genómica, Consejo Superior de Investigaciones Científicas, Universidad de Salamanca, Salamanca, Spain
| | - Héctor Rodríguez
- Departamento de Microbiología y Genética, Instituto de Biología Funcional y Genómica, Consejo Superior de Investigaciones Científicas, Universidad de Salamanca, Salamanca, Spain.,Cic bioGUNE, Derio, Spain
| | - Laura Sevillano
- Departamento de Microbiología y Genética, Instituto de Biología Funcional y Genómica, Consejo Superior de Investigaciones Científicas, Universidad de Salamanca, Salamanca, Spain
| | - Juan F Alzate
- Departamento de Microbiología y Parasitología, Facultad de Medicina, Centro Nacional de Secuenciación Genómica, Sede de Investigación Universitaria, Universidad de Antioquia, Medellín, Colombia
| | - Ramón I Santamaría
- Departamento de Microbiología y Genética, Instituto de Biología Funcional y Genómica, Consejo Superior de Investigaciones Científicas, Universidad de Salamanca, Salamanca, Spain
| | - Margarita Díaz
- Departamento de Microbiología y Genética, Instituto de Biología Funcional y Genómica, Consejo Superior de Investigaciones Científicas, Universidad de Salamanca, Salamanca, Spain
| |
Collapse
|
54
|
Patiño-Márquez IA, Alzate JF, Patiño-González E. Cristalización de la endonucleasa EndoG recombinante de <i>Leishmania (Viannia) panamensis</i>. Actual Biol 2017. [DOI: 10.17533/udea.acbi.329004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/03/2023]
Abstract
Antecedentes y objetivos: La endonucleasa G (EndoG) es una enzima que escinde específicamente en las posiciones dG y dC del ADN de cadena doble y se ha demostrado que participa en la degradación de la cromatina durante el proceso de apoptosis en Leishmania. El objetivo principal de este trabajo fue la purificación y cristalización de EndoG como preámbulo para los estudios estructurales futuros que permitan entender detalladamente el funcionamiento de esta enzima. Materiales y métodos: La proteína EndoG fue purificada en condiciones desnaturalizantes usando cromatografía de Ni, luego fue renaturalizada in vitro y cristalizada por el método de difusión de vapor por gota colgante. Resultados y conclusión: La proteína EndoG de Leishmania (viannia) panamensis fue sobreexpresada, renaturalizada, purificada y demostró estar enzimáticamente activa. Aquí, se registra la primera cristalización exitosa de la proteína EndoG de este grupo de parásitos protozoarios. La proteína fue cristalizada por el método de difusión de vapor por gota colgante. Se obtuvieron cristales de alta calidad de EndoG que posiblemente nos permitirán determinar la estructura tridimensional de EndoG usando difracción de rayos-X.
Collapse
|
55
|
Pulido SA, Nguyen VH, Alzate JF, Cedeño DL, Makurath MA, Ríos-Vásquez A, Duque-Benítez SM, Jones MA, Robledo SM, Friesen JA. Insights into the phosphatidylcholine and phosphatidylethanolamine biosynthetic pathways in Leishmania parasites and characterization of a choline kinase from Leishmania infantum. Comp Biochem Physiol B Biochem Mol Biol 2017; 213:45-54. [PMID: 28754315 DOI: 10.1016/j.cbpb.2017.07.008] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2017] [Revised: 07/17/2017] [Accepted: 07/20/2017] [Indexed: 11/25/2022]
Abstract
The protozoan parasite Leishmania infantum is a causative agent of the disease visceral leishmaniasis, which can be fatal if not properly treated. Phosphatidylcholine (PC) and phosphatidylethanolamine (PE) biosynthesis pathways are attractive targets for new antileishmanial compounds since these Leishmania cell membrane phospholipids are important for parasite morphology and physiology. In this work we observed Leishmania synthesize PC and PE from extracellular choline and ethanolamine, respectively, suggesting the presence of CDP-choline and CDP-ethanolamine pathways. In addition, Leishmania converted PE to PC, indicating the parasite possesses phosphatidylethanolamine N-methyltransferase (PEMT) activity. The first step in the biosynthesis of PC or PE requires the phosphorylation of choline or ethanolamine by a kinase. We cloned the gene encoding a putative choline/ethanolamine kinase from Leishmania infantum and expressed and purified the encoded recombinant protein. The enzyme possesses choline kinase activity with a Vmax of 3.52μmol/min/mg and an apparent Km value of 0.089mM with respect to choline. The enzyme can also phosphorylate ethanolamine in vitro, but the apparent Km for ethanolamine is 850-fold greater than for choline. In an effort to probe requirements for small molecule inhibition of Leishmania choline kinase, the recombinant enzyme was evaluated for the ability to be inhibited by novel quaternary ammonium salts. The most effective inhibitor was N-iodomethyl-N,N,-dimethyl-N-(6,6-diphenyl hex-5-en-1-yle) ammonium iodide, denoted compound C6. In the presence of 4mM compound C6, the Vmax/Km decreased to approximately 1% of the wild-type catalytic efficiency. In addition, in Leishmania cells treated with compound C6 choline transport was inhibited.
Collapse
Affiliation(s)
- Sergio A Pulido
- Program for Study and Control of Tropical Diseases-PECET, School of Medicine, University of Antioquia, Medellin, Colombia
| | - Victoria H Nguyen
- Department of Chemistry, Illinois State University, Normal, IL 61790, USA
| | - Juan F Alzate
- Parasitology Group, School of Medicine, University of Antioquia, Medellin, Colombia
| | - David L Cedeño
- Department of Chemistry, Illinois State University, Normal, IL 61790, USA
| | - Monika A Makurath
- Department of Chemistry, Illinois State University, Normal, IL 61790, USA
| | | | | | - Marjorie A Jones
- Department of Chemistry, Illinois State University, Normal, IL 61790, USA
| | - Sara M Robledo
- Program for Study and Control of Tropical Diseases-PECET, School of Medicine, University of Antioquia, Medellin, Colombia
| | - Jon A Friesen
- Department of Chemistry, Illinois State University, Normal, IL 61790, USA.
| |
Collapse
|
56
|
Isaza JP, Alzate JF, Canal NA. Complete mitochondrial genome of the Andean morphotype of Anastrepha fraterculus (Wiedemann) (Diptera: Tephritidae). Mitochondrial DNA B Resour 2017; 2:210-211. [PMID: 33473771 PMCID: PMC7800796 DOI: 10.1080/23802359.2017.1307706] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
The South America fruit fly Anastrepha fraterculus s.l. is an important pest of fruits in Latin America and it is really a complex with at least eight cryptic species. In this work, we report the complete mitochondrial genome for the Andean morphotype of A. fraterculus. The mitochondrial genome is 16,739 nucleotides in size; includes 13 protein-coding genes, 22 tRNA genes, and 2 rRNA genes. Phylogenetic analysis was performed using all the protein-coding genes with other 19 species from Tephritidae.
Collapse
Affiliation(s)
- Juan P Isaza
- Grupo de parasitología, Facultad de Medicina, Universidad de Antioquia, Medellín, Colombia, Centro Nacional de Secuenciación Genómica - CNSG, Sede de Investigación Universitaria SIU, Universidad de Antioquia, Medellín, Colombia
| | - Juan F Alzate
- Grupo de parasitología, Facultad de Medicina, Universidad de Antioquia, Medellín, Colombia, Centro Nacional de Secuenciación Genómica - CNSG, Sede de Investigación Universitaria SIU, Universidad de Antioquia, Medellín, Colombia
| | - Nelson A Canal
- Universidad del Tolima, Facultad de Ingenieria Agronómica, Barrio Santa Helena Parte Alta, Ibagué, Tolima, Colombia
| |
Collapse
|
57
|
Madrigal Y, Alzate JF, Pabón-Mora N. Evolution and Expression Patterns of TCP Genes in Asparagales. Front Plant Sci 2017; 8:9. [PMID: 28144250 PMCID: PMC5239819 DOI: 10.3389/fpls.2017.00009] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/02/2016] [Accepted: 01/03/2017] [Indexed: 05/09/2023]
Abstract
CYCLOIDEA-like genes are involved in the symmetry gene network, limiting cell proliferation in the dorsal regions of bilateral flowers in core eudicots. CYC-like and closely related TCP genes (acronym for TEOSINTE BRANCHED1, CYCLOIDEA, and PROLIFERATION CELL FACTOR) have been poorly studied in Asparagales, the largest order of monocots that includes both bilateral flowers in Orchidaceae (ca. 25.000 spp) and radially symmetrical flowers in Hypoxidaceae (ca. 200 spp). With the aim of assessing TCP gene evolution in the Asparagales, we isolated TCP-like genes from publicly available databases and our own transcriptomes of Cattleya trianae (Orchidaceae) and Hypoxis decumbens (Hypoxidaceae). Our matrix contains 452 sequences representing the three major clades of TCP genes. Besides the previously identified CYC specific core eudicot duplications, our ML phylogenetic analyses recovered an early CIN-like duplication predating all angiosperms, two CIN-like Asparagales-specific duplications and a duplication prior to the diversification of Orchidoideae and Epidendroideae. In addition, we provide evidence of at least three duplications of PCF-like genes in Asparagales. While CIN-like and PCF-like genes have multiplied in Asparagales, likely enhancing the genetic network for cell proliferation, CYC-like genes remain as single, shorter copies with low expression. Homogeneous expression of CYC-like genes in the labellum as well as the lateral petals suggests little contribution to the bilateral perianth in C. trianae. CIN-like and PCF-like gene expression suggests conserved roles in cell proliferation in leaves, sepals and petals, carpels, ovules and fruits in Asparagales by comparison with previously reported functions in core eudicots and monocots. This is the first large scale analysis of TCP-like genes in Asparagales that will serve as a platform for in-depth functional studies in emerging model monocots.
Collapse
Affiliation(s)
- Yesenia Madrigal
- Facultad de Ciencias Exactas y Naturales, Instituto de Biología, Universidad de AntioquiaMedellín, Colombia
| | - Juan F. Alzate
- Centro Nacional de Secuenciación Genómica, Sede de Investigación Universitaria, Facultad de Medicina, Universidad de AntioquiaMedellín, Colombia
| | - Natalia Pabón-Mora
- Facultad de Ciencias Exactas y Naturales, Instituto de Biología, Universidad de AntioquiaMedellín, Colombia
| |
Collapse
|
58
|
Lizarazo-Medina PX, Cabarcas Jaramillo F, Alzate JF. Microbiota bacteriana asociada al papel moneda de circulación en Colombia. Infectio 2016. [DOI: 10.1016/j.infect.2015.10.010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
|
59
|
Olave AM, Mesa JA, Botero JH, Patiño EB, García GM, Alzate JF. Production and evaluation of the recombinant antigen TES-30 of Toxocara canis for the immunodiagnosis of toxocariasis. Biomedica 2016; 36:39-51. [PMID: 27622437 DOI: 10.7705/biomedica.v36i1.2617] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/19/2014] [Revised: 05/11/2015] [Indexed: 06/06/2023]
Abstract
INTRODUCTION Toxocara canis is a pathogenic nematode of canines which can be accidentally transmitted to humans. Although serology is the most important diagnostic tool for this zoonosis, diagnostic kits use crude excretion/secretion antigens, most of them being glycoproteins which are not species-specific and may cross-react with antibodies generated against other parasites. OBJECTIVES To produce the rTES-30 recombinant antigen of Toxocara canis and evaluate it in the immunodiagnosis of toxocariasis. MATERIALS AND METHODS The gene that codes for TES-30 was cloned in the expression vector pET28a (+) using single-stranded oligonucleotides united by PCR. The protein rTES-30 was purified by Ni2+ affinity chromotography. Seroreactivity of rTES-30 was evaluated by immunoblot. Given that there is no gold standard test, the behaviour of the antigen was compared with the method that is routinely used to immunodiagnose toxocariasis, i.e., the conventional ELISA technique using excretion/secretion antigens. RESULTS The rTES-30 was produced from an Escherichia coli LB culture which yielded 2.25 mg/L of the antigen with a purity of 95%. The results obtained showed 73% (46/63) concordance of reactivity between the rTES-30 immunoblot and the conventional ELISA, and 100% concordance with the nonreactive sera (21). Nineteen of the 21 sera positive for other parasitoses reacted with ELISA, while only seven of these were positive with the rTES-30 immunoblot. Concordance between the ELISA and the immunoblot was moderate (kappa coefficient: 0.575; 95% CI: 0.41- 0.74). CONCLUSIONS The data presented show the potential of the rTES-30 inmunoblot for confirmation of possible ELISA positives, not only in epidemiological studies, but also as a candidate for the development of diagnostic tests for ocular toxocariasis in Colombia.
Collapse
Affiliation(s)
- Ana M Olave
- Grupo de Parasitología, Facultad de Medicina, Universidad de Antioquia, Medellín, Colombia.
| | | | | | | | | | | |
Collapse
|
60
|
García-Montoya GM, Mesa-Arango JA, Isaza-Agudelo JP, Agudelo-Lopez SP, Cabarcas F, Barrera LF, Alzate JF. Transcriptome profiling of the cysticercus stage of the laboratory model Taenia crassiceps, strain ORF. Acta Trop 2016; 154:50-62. [PMID: 26571070 DOI: 10.1016/j.actatropica.2015.11.001] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2015] [Revised: 11/04/2015] [Accepted: 11/05/2015] [Indexed: 11/30/2022]
Abstract
Neurocysticercosis (NC) is a serious public health problem mainly in developing countries. NC caused by the cysticercus stage from cestode Taenia solium is considered by the WHO and ITFDE as a potentially eradicable disease. Definitive diagnosis of NC is challenging because of the unspecific clinical manifestations such as the non-definitive evidence presented by neuroimaging (in most cases) and the lack of definitive serological test. Taenia crassiceps (ORF strain) is a cestode closely related to T. solium and it has frequently been used as a source of antigens for immunodiagnostics. A murine model to study host immune response to infection has also been established by using T. crassiceps. Despite the extensive use of T. crassiceps for research, molecular information for this cestode is scarce in public databases. With the aim of providing more extensive information on T. crassiceps biology, an RNA-seq experiment and subsequent bioinformatic transcriptome processing of this cestode parasite mRNA in its cysticercus stage were carried out. A total of 227,082 read/ESTs were sequenced using the 454-GS FLX Titanium technology and assembled into 10,787 contigs. This transcriptome dataset represents new and valuable molecular information of the cestode T. crassiceps (ORF). This information will substantially improve public information and will help to achieve a better understanding of the biology of T. crassiceps and to identify target proteins for serodiagnosis and vaccination.
Collapse
Affiliation(s)
| | - Jairo A Mesa-Arango
- Grupo de Parasitología, Facultad de Medicina, Universidad de Antioquia, Colombia; Centro Nacional de Secuenciación Genómica-CNSG, Sede de Investigación Universitaria-SIU, Universidad de Antioquia, Colombia
| | - Juan P Isaza-Agudelo
- Grupo de Parasitología, Facultad de Medicina, Universidad de Antioquia, Colombia; Centro Nacional de Secuenciación Genómica-CNSG, Sede de Investigación Universitaria-SIU, Universidad de Antioquia, Colombia
| | | | - Felipe Cabarcas
- Centro Nacional de Secuenciación Genómica-CNSG, Sede de Investigación Universitaria-SIU, Universidad de Antioquia, Colombia; Grupo Sistemas Embebidos e Inteligencia Computacional-SISTEMIC, Departamento de Ingeniería Electrónica, Facultad de Ingeniería, Universidad de Antioquia, Colombia
| | - Luis F Barrera
- Grupo de Inmunología Celular e Inmunogenética, Facultad de Medicina, Universidad de Antioquia-GICIG, Colombia
| | - Juan F Alzate
- Grupo de Parasitología, Facultad de Medicina, Universidad de Antioquia, Colombia; Centro Nacional de Secuenciación Genómica-CNSG, Sede de Investigación Universitaria-SIU, Universidad de Antioquia, Colombia.
| |
Collapse
|
61
|
Isaza JP, Galván AL, Polanco V, Huang B, Matveyev AV, Serrano MG, Manque P, Buck GA, Alzate JF. Revisiting the reference genomes of human pathogenic Cryptosporidium species: reannotation of C. parvum Iowa and a new C. hominis reference. Sci Rep 2015; 5:16324. [PMID: 26549794 PMCID: PMC4637869 DOI: 10.1038/srep16324] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2015] [Accepted: 10/08/2015] [Indexed: 11/09/2022] Open
Abstract
Cryptosporidium parvum and C. hominis are the most relevant species of this genus for human health. Both cause a self-limiting diarrhea in immunocompetent individuals, but cause potentially life-threatening disease in the immunocompromised. Despite the importance of these pathogens, only one reference genome of each has been analyzed and published. These two reference genomes were sequenced using automated capillary sequencing; as of yet, no next generation sequencing technology has been applied to improve their assemblies and annotations. For C. hominis, the main challenge that prevents a larger number of genomes to be sequenced is its resistance to axenic culture. In the present study, we employed next generation technology to analyse the genomic DNA and RNA to generate a new reference genome sequence of a C. hominis strain isolated directly from human stool and a new genome annotation of the C. parvum Iowa reference genome.
Collapse
Affiliation(s)
- Juan P Isaza
- Grupo de Parasitología, Facultad de Medicina, Universidad de Antioquia Carrera 53 No. 61-30, Medellin, Antioquia 05001, Colombia.,Centro Nacional de Secuenciación Genómica-CNSG, Universidad de Antioquia Carrera 53 No. 61-30, Medellin, Antioquia 05001, Colombia
| | - Ana Luz Galván
- Grupo de Parasitología, Facultad de Medicina, Universidad de Antioquia Carrera 53 No. 61-30, Medellin, Antioquia 05001, Colombia
| | - Victor Polanco
- Universidad Mayor de Chile-Centro de Genómica y Bioinformatica Camino La piramide 5750 Huechuraba, Santiago de Chile, 8580000, Chile
| | - Bernice Huang
- Virginia Commonwealth University - Center for the Study of Biological Complexity 1101 E. Marshall St., Virginia 23298-0678, US
| | - Andrey V Matveyev
- Virginia Commonwealth University - Center for the Study of Biological Complexity 1101 E. Marshall St., Virginia 23298-0678, US
| | - Myrna G Serrano
- Virginia Commonwealth University - Center for the Study of Biological Complexity 1101 E. Marshall St., Virginia 23298-0678, US
| | - Patricio Manque
- Universidad Mayor de Chile-Centro de Genómica y Bioinformatica Camino La piramide 5750 Huechuraba, Santiago de Chile, 8580000, Chile
| | - Gregory A Buck
- Virginia Commonwealth University - Center for the Study of Biological Complexity 1101 E. Marshall St., Virginia 23298-0678, US
| | - Juan F Alzate
- Grupo de Parasitología, Facultad de Medicina, Universidad de Antioquia Carrera 53 No. 61-30, Medellin, Antioquia 05001, Colombia.,Centro Nacional de Secuenciación Genómica-CNSG, Universidad de Antioquia Carrera 53 No. 61-30, Medellin, Antioquia 05001, Colombia
| |
Collapse
|
62
|
Villacreses J, Rojas-Herrera M, Sánchez C, Hewstone N, Undurraga SF, Alzate JF, Manque P, Maracaja-Coutinho V, Polanco V. Deep sequencing reveals the complete genome and evidence for transcriptional activity of the first virus-like sequences identified in Aristotelia chilensis (Maqui Berry). Viruses 2015; 7:1685-99. [PMID: 25855242 PMCID: PMC4411674 DOI: 10.3390/v7041685] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2014] [Revised: 03/12/2015] [Accepted: 03/25/2015] [Indexed: 01/01/2023] Open
Abstract
Here, we report the genome sequence and evidence for transcriptional activity of a virus-like element in the native Chilean berry tree Aristotelia chilensis. We propose to name the endogenous sequence as Aristotelia chilensis Virus 1 (AcV1). High-throughput sequencing of the genome of this tree uncovered an endogenous viral element, with a size of 7122 bp, corresponding to the complete genome of AcV1. Its sequence contains three open reading frames (ORFs): ORFs 1 and 2 shares 66%–73% amino acid similarity with members of the Caulimoviridae virus family, especially the Petunia vein clearing virus (PVCV), Petuvirus genus. ORF1 encodes a movement protein (MP); ORF2 a Reverse Transcriptase (RT) and a Ribonuclease H (RNase H) domain; and ORF3 showed no amino acid sequence similarity with any other known virus proteins. Analogous to other known endogenous pararetrovirus sequences (EPRVs), AcV1 is integrated in the genome of Maqui Berry and showed low viral transcriptional activity, which was detected by deep sequencing technology (DNA and RNA-seq). Phylogenetic analysis of AcV1 and other pararetroviruses revealed a closer resemblance with Petuvirus. Overall, our data suggests that AcV1 could be a new member of Caulimoviridae family, genus Petuvirus, and the first evidence of this kind of virus in a fruit plant.
Collapse
Affiliation(s)
- Javier Villacreses
- Centro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago 8580000, Chile.
| | - Marcelo Rojas-Herrera
- Centro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago 8580000, Chile.
| | - Carolina Sánchez
- Centro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago 8580000, Chile.
| | | | - Soledad F Undurraga
- Centro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago 8580000, Chile.
| | - Juan F Alzate
- Centro Nacional de Secuenciación Genómica, Universidad de Antioquia, Medellín, Colombia.
| | - Patricio Manque
- Centro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago 8580000, Chile.
| | | | - Victor Polanco
- Centro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago 8580000, Chile.
| |
Collapse
|
63
|
Sánchez-Jiménez MM, Isaza JP, Alzate JF, Olivera-Angel M. Comparison of Brucella canis genomes isolated from different countries shows multiple variable regions. Genomics 2015; 106:43-51. [PMID: 25820207 DOI: 10.1016/j.ygeno.2015.03.004] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2014] [Revised: 03/04/2015] [Accepted: 03/18/2015] [Indexed: 10/23/2022]
Abstract
Brucella canis is a pathogenic bacterium for dogs and its zoonotic potential has been increasing in recent years. In this study, we report the sequencing, annotation and analysis of the genome of Brucella canis strain Oliveri isolated from a dog in a breeding kennel in Medellín, Colombia, South America. Whole genome shotgun sequencing was carried out using the ROCHE 454 GS FLX Titanium technology at the National Center for Genomic Sequencing-CNSG in Medellin, Colombia. The assembly procedure was performed using Newbler v2.6. In the genome annotation process, each contig was analyzed independently using as reference Brucella suis ATCC 1330 chromosomes. This new genome could be useful for the development of diagnostic tools and for vaccines search as well, in order to reduce the health impact of this infection in both, dogs and humans. The sequence was deposited in EMBL-EBI with accession numbers HG803175 and HG803176 for chromosomes 1 and 2, respectively.
Collapse
Affiliation(s)
- Miryan Margot Sánchez-Jiménez
- Grupo Biogénesis-Vericel, DrSci in Animal Sciences, Escuela de Medicina Veterinaria, Facultad de Ciencias Agrarias, Universidad de Antioquia, Medellín, Colombia
| | - Juan Pablo Isaza
- Centro Nacional de Secuenciación Genómica-CNSG, Universidad de Antioquia, Medellín, Colombia; Grupo de Parasitología, Facultad de Medicina, Universidad de Antioquia, Medellín, Colombia
| | - Juan F Alzate
- Centro Nacional de Secuenciación Genómica-CNSG, Universidad de Antioquia, Medellín, Colombia; Grupo de Parasitología, Facultad de Medicina, Universidad de Antioquia, Medellín, Colombia
| | - Martha Olivera-Angel
- Grupo Biogénesis-Vericel, Escuela de Medicina Veterinaria, Facultad de Ciencias Agrarias, Universidad de Antioquia, Medellín, Colombia.
| |
Collapse
|
64
|
Gutiérrez PA, Alzate JF, Montoya MM. Complete genome sequence of an isolate of Potato virus X (PVX) infecting Cape gooseberry (Physalis peruviana) in Colombia. Virus Genes 2015; 50:518-22. [DOI: 10.1007/s11262-015-1181-1] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2014] [Accepted: 02/05/2015] [Indexed: 10/24/2022]
|
65
|
Rangel-Medrano JD, Alzate JF, Márquez EJ. Complete mitochondrial genome of the Neotropical catfish Pseudoplatystoma magdaleniatum (Siluriformes, Pimelodidae). Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:4033-4034. [PMID: 25629466 DOI: 10.3109/19401736.2014.1003830] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The Neotropical freshwater fish Pseudoplatystoma magdaleniatum is a trans-Andean species that belongs to the family of long-whiskered catfishes (family Pimelodidae). In this study, the complete mitochondrial genome of P. magdaleniatum was sequenced using the MiSeq Illumina platform. The complete circular mitogenome is 16,568 bp in length, exhibiting an average GC content of 44.19% and codes for 13 proteins, 2 ribosomal RNA genes and 22 transfer RNA genes. Additionally, it exhibits perfect synteny and similar length with the mitogenome of Pimelodus pictus.
Collapse
Affiliation(s)
- Jose D Rangel-Medrano
- a Facultad de Ciencias , Universidad Nacional de Colombia-Sede Medellín , Medellín , Colombia and
| | - Juan F Alzate
- b Facultad de Medicina , Centro Nacional de Secuenciación Genómica-CNSG, Universidad de Antioquia , Medellín , Colombia
| | - Edna J Márquez
- a Facultad de Ciencias , Universidad Nacional de Colombia-Sede Medellín , Medellín , Colombia and
| |
Collapse
|
66
|
Restrepo-Escobar N, Alzate JF, Márquez EJ. Mitochondrial genome of the Trans-Andean shovelnose catfish Sorubim cuspicaudus (Siluriformes, Pimelodidae). Mitochondrial DNA A DNA Mapp Seq Anal 2014; 27:3964-3965. [PMID: 25541312 DOI: 10.3109/19401736.2014.989506] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The Trans-Andean shovelnose catfish Sorubim cuspicaudus is the largest species within the genus Sorubim. In this work, the pyrosequencing technology was used to obtain the complete mitochondrial genome sequence of S. cuspicaudus. The 16,544 bp molecule contains 13 protein-coding genes, 22 tRNAs, 2 ribosomal RNAs and exhibit perfect synteny with other South-American catfishes.
Collapse
Affiliation(s)
| | - Juan F Alzate
- b Centro Nacional de Secuenciación Genómica-CNSG, Facultad de Medicina, Universidad de Antioquia , Medellín , Colombia
| | - Edna J Márquez
- a Facultad de Ciencias , Universidad Nacional de Colombia , Medellín , Colombia and
| |
Collapse
|
67
|
Landínez-García RM, Alzate JF, Márquez EJ. Mitochondrial genome of the Neotropical trans-Andean fish Ichthyoelephas longirostris, Steindachner 1879 (Characiformes, Prochilodontidae). Mitochondrial DNA A DNA Mapp Seq Anal 2014; 27:2194-5. [PMID: 25423520 DOI: 10.3109/19401736.2014.982622] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Ichthyoelephas longirostris is a trans-Andean migratory species belonging to Prochilodontidae family. In this work, the mitochondrial genome of I. longirostris was sequenced by Illumina technology. The 16,840 bp mitogenome encodes 13 proteins, 22 tRNAs, 2 ribosomal RNAs and present a conserved synteny with others species of the Order Characiformes.
Collapse
Affiliation(s)
| | - Juan F Alzate
- b Facultad de Medicina , Centro Nacional de Secuenciación Genómica-CNSG, Universidad de Antioquia , Medellín , Colombia
| | - Edna J Márquez
- a Facultad de Ciencias , Universidad Nacional de Colombia , Medellín , Colombia and
| |
Collapse
|
68
|
Landínez-García RM, Alzate JF, Márquez EJ. Complete mitogenome of the Neotropical fish Brycon henni, Eigenmann 1913 (Characiformes, Bryconidae). Mitochondrial DNA A DNA Mapp Seq Anal 2014; 27:2259-60. [PMID: 25423503 DOI: 10.3109/19401736.2014.984170] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Brycon henni (Characiformes, Bryconidae) is a trans-Andean omnivorous fish considered as promising species in aquaculture of temperate zones. In this work we report for first time the complete mitochondrial genome of B. henni. This mitogenome spans 16,885 bp and encodes 13 proteins, 22 tRNAs and 2 ribosomal RNAs. Additionally, the synteny is conserved with others species of the order Characiformes.
Collapse
Affiliation(s)
| | - Juan F Alzate
- b Centro Nacional de Secuenciación Genómica-CNSG, Facultad de Medicina, Universidad de Antioquia , Medellín , Colombia
| | - Edna J Márquez
- a Facultad de Ciencias , Universidad Nacional de Colombia , Medellín , Colombia and
| |
Collapse
|
69
|
Landínez-García RM, Alzate JF, Márquez EJ. Mitochondrial genome of the Neotropical detritivore fish Curimata mivartii Steindachner 1878 (Characiformes, Curimatidae). Mitochondrial DNA A DNA Mapp Seq Anal 2014; 27:2196-7. [PMID: 25423519 DOI: 10.3109/19401736.2014.982623] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Curimata mivartii is a detritivorous species Neotropical, which is of great importance to local fisheries and riverine ecosystems. In this work, the mitochondrial genome of C. mivartii was completely sequenced using a combination of 454 FLX(+) platform and Sanger/capillary sequencing. The mitogenome is 16,705 bp in length, encodes 13 proteins, 22 tRNAs, 2 ribosomal RNAs and exhibit perfect synteny with others Characiformes.
Collapse
Affiliation(s)
| | - Juan F Alzate
- b Facultad de Medicina , Centro Nacional de Secuenciación Genómica-CNSG, Universidad de Antioquia , Medellín , Colombia
| | - Edna J Márquez
- a Facultad de Ciencias , Universidad Nacional de Colombia , Medellín , Colombia and
| |
Collapse
|
70
|
Restrepo-Escobar N, Alzate JF, Márquez EJ. Mitochondrial genome of the Neotropical catfishAgeneiosus pardalis,Lütken 1874 (Siluriformes, Auchenipteridae). ACTA ACUST UNITED AC 2014; 27:2176-7. [DOI: 10.3109/19401736.2014.982613] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
|
71
|
Isaza JP, Alzate JF, Maldonado-Ocampo JA. Complete mitochondrial genome sequence of Grundulus bogotensis (Humboldt, 1821). Mitochondrial DNA A DNA Mapp Seq Anal 2014; 27:2076-8. [PMID: 25405907 DOI: 10.3109/19401736.2014.982563] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The Grundulus bogotensis is an Endangered fish in Colombia. In this study, we report the complete mitochondrial DNA sequences of G. bogotensis. The entire genome comprised 17.123 bases and a GC content of 39.84%. The mitogenome sequence of G. bogotensis would contribute to better understand population genetics, and evolution of this lineage. Molecule was deposited at the GenBank database under the accession number KM677190.
Collapse
Affiliation(s)
- Juan P Isaza
- a Facultad de Medicina , Centro Nacional de Secuenciación Genómica, Universidad de Antioquia , Medellin , Colombia and
| | - Juan F Alzate
- a Facultad de Medicina , Centro Nacional de Secuenciación Genómica, Universidad de Antioquia , Medellin , Colombia and
| | - Javier A Maldonado-Ocampo
- b Laboratorio de Ictiología , Unidad de Ecología y Sistemática (UNESIS), Departamento de Biología, Facultad de Ciencias, Pontificia Universidad Javeriana , Bogota , Colombia
| |
Collapse
|
72
|
Márquez EJ, Isaza JP, Alzate JF. Mitochondrial genome of the blackfin tuna Thunnus atlanticus Lesson, 1831 (Perciformes, Scrombidae). Mitochondrial DNA A DNA Mapp Seq Anal 2014; 27:1771-2. [PMID: 25269003 DOI: 10.3109/19401736.2014.963805] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Blackfin tuna, Thunnus atlanticus is a widespread epipelagic oceanic species in the western Atlantic. So far the mitochondrial genome of this species remained unknown, although the mitogenomes of all congeners are known. The mitochondrial genome encodes for 13 proteins, 21 tRNAs, 2 ribosomal RNAs and the gene synteny is conserved with other previously reported mitogenomes of tunas.
Collapse
Affiliation(s)
- Edna J Márquez
- a Facultad de Ciencias, Universidad Nacional de Colombia , Medellín , Colombia and
| | - Juan P Isaza
- b Centro Nacional de Secuenciación Genómica-CNSG, Facultad de Medicina, Universidad de Antioquia , Medellín , Colombia
| | - Juan F Alzate
- b Centro Nacional de Secuenciación Genómica-CNSG, Facultad de Medicina, Universidad de Antioquia , Medellín , Colombia
| |
Collapse
|
73
|
Márquez EJ, Hurtado-Alarcón JC, Isaza JP, Alzate JF, Campos NH. Mitochondrial genome of the Caribbean king crab Damithrax spinosissimus (Lamarck, 1818) (Decapoda: Majidae). Mitochondrial DNA A DNA Mapp Seq Anal 2014; 27:1724-5. [PMID: 25242176 DOI: 10.3109/19401736.2014.961140] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The Caribbean king crab Damithrax spinosissimus (former Mithrax spinosissimus) is a large brachyuran in the tropical and subtropical western Atlantic. This is the first report of the complete mitochondrial genome of D. spinosissimus, which was pyrosequenced by FLX 454 technology. The mtDNA encodes for 13 proteins, 22 tRNAs and 2 ribosomal RNAs. In addition, the coding sequences and gene synteny were similar to other previously reported mitogenomes of brachyuran.
Collapse
Affiliation(s)
- Edna J Márquez
- a Laboratorio de Biología Molecular y Celular, Facultad de Ciencias , Universidad Nacional de Colombia , Medellín , Colombia
| | - Julio C Hurtado-Alarcón
- a Laboratorio de Biología Molecular y Celular, Facultad de Ciencias , Universidad Nacional de Colombia , Medellín , Colombia
| | - Juan P Isaza
- b Centro Nacional de Secuenciación Genómica-CNSG, Facultad de Medicina, Universidad de Antioquia , Medellín , Colombia , and
| | - Juan F Alzate
- b Centro Nacional de Secuenciación Genómica-CNSG, Facultad de Medicina, Universidad de Antioquia , Medellín , Colombia , and
| | - Néstor H Campos
- c Centro de Estudios en Ciencias del Mar, CECIMAR, Universidad Nacional de Colombia , sede Caribe , Colombia
| |
Collapse
|
74
|
Márquez EJ, Castro ER, Alzate JF. Mitochondrial genome of the endangered marine gastropod Strombus gigas Linnaeus, 1758 (Mollusca: Gastropoda). Mitochondrial DNA A DNA Mapp Seq Anal 2014; 27:1516-7. [PMID: 25186797 DOI: 10.3109/19401736.2014.953118] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The queen conch Strombus gigas is an endangered marine gastropod of significant economic importance across the Greater Caribbean region. This work reports for the first time the complete mitochondrial genome of S. gigas, obtained by FLX 454 pyrosequencing. The mtDNA genome encodes for 13 proteins, 22 tRNAs and 2 ribosomal RNAs. In addition, the coding sequences and gene synteny were similar to other previously reported mitogenomes of gastropods.
Collapse
Affiliation(s)
- Edna J Márquez
- a Facultad de Ciencias , Universidad Nacional de Colombia , Medellín , Colombia
| | - Erick R Castro
- b Secretaría de Pesca del Archipiélago de San Andrés , Providencia y Santa Catalina , Isla de San Andrés , and
| | - Juan F Alzate
- c Centro Nacional de Secuenciación Genómica-CNSG, Facultad de Medicina, Universidad de Antioquia , Medellín , Colombia
| |
Collapse
|
75
|
Isaza JP, Duque C, Gomez V, Robledo J, Barrera LF, Alzate JF. Whole genome shotgun sequencing of one Colombian clinical isolate of Mycobacterium tuberculosis reveals DosR regulon gene deletions. FEMS Microbiol Lett 2012; 330:113-20. [DOI: 10.1111/j.1574-6968.2012.02540.x] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2011] [Revised: 02/28/2012] [Accepted: 03/01/2012] [Indexed: 12/26/2022] Open
Affiliation(s)
| | - Camilo Duque
- Grupo Inmunología Celular e Inmunogenética-GICIG, Instituto de Investigaciones Médicas, Facultad de Medicina; Universidad de Antioquia; Medellin; Colombia
| | | | | | | | | |
Collapse
|
76
|
Alzate JF, Arias AA, Moreno-Mateos D, Alvarez-Barrientos A, Jiménez-Ruiz A. Mitochondrial superoxide mediates heat-induced apoptotic-like death in Leishmania infantum. Mol Biochem Parasitol 2007; 152:192-202. [PMID: 17300844 DOI: 10.1016/j.molbiopara.2007.01.006] [Citation(s) in RCA: 52] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2006] [Revised: 12/22/2006] [Accepted: 01/04/2007] [Indexed: 12/01/2022]
Abstract
Previous studies have shown that heat stress triggers a process of programmed cell death in Leishmania infantum promastigotes that resembles apoptosis in higher eukaryotes. Even though this cell death process takes about 40 h to be completed, several early changes in the heat-stressed cells can be observed. Hyperpolarization of the parasite mitochondrion is the earliest event detected, which correlates with an increase in respiration rates and a concomitant increase in superoxide radical production. Induction of oxidative stress seems to mediate the heat-induced cell death process, as indicated by the partial prevention of parasite death observed when cell cultures are supplemented with N-acetyl-cysteine or glutathione. These antioxidants are able to diminish the concentration of superoxide radical but they do not prevent mitochondrial hyperpolarization. Treatment of the heat stressed parasites with the inhibitors of the mitochondrial respiration TTFA, antimycin A and KCN significantly decreases the production of superoxide radicals, which confirms the mitochondrial origin of this reactive oxygen species.
Collapse
Affiliation(s)
- Juan F Alzate
- Departamento de Bioquímica y Biología Molecular, Campus Universitario, Universidad de Alcalá, 28871 Alcalá de Henares, Madrid, Spain
| | | | | | | | | |
Collapse
|
77
|
Alzate JF, Alvarez-Barrientos A, González VM, Jiménez-Ruiz A. Heat-induced programmed cell death in Leishmania infantum is reverted by Bcl-X(L) expression. Apoptosis 2006; 11:161-71. [PMID: 16502255 DOI: 10.1007/s10495-006-4570-z] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
An increasing number of reports indicate that single-celled organisms are able to die following what seems to be an ordered program of cell death with strong similarities to apoptosis from higher eukaryotes. DNA degradation and several other apoptotic-like processes have also been described in the parasitic protozoa Leishmania. However, the existence of an apoptotic death in this parasite is still a matter of controversy. Our results indicate that most of the processes of macromolecular degradation and organelle dysfunction observed in mammalian cells during apoptosis can also be reproduced in promastigotes of the genus Leishmania when incubated at temperatures above 38 degrees C. These processes can be partially reversed by the expression of the anti-apoptotic mammalian gene Bcl-X(L), which suggests that this family of apoptosis-regulating proteins was present very early in the evolution of eukaryotic cells.
Collapse
Affiliation(s)
- J F Alzate
- Departamento de Bioquímica y Biología Molecular, Campus Universitario, Universidad de Alcalá, 28871, Alcalá de Henares, Madrid, Spain
| | | | | | | |
Collapse
|
78
|
Alzate JF, Ramírez-Pineda JR, González VM, Patiño E, Vélez ID, Jiménez-Ruiz A. Leishmania (Viannia) panamensis: cloning of the histone H1 genes by representational difference analysis. Exp Parasitol 2006; 112:126-9. [PMID: 16289088 DOI: 10.1016/j.exppara.2005.09.009] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2005] [Revised: 09/22/2005] [Accepted: 09/24/2005] [Indexed: 02/08/2023]
Abstract
We report the use of representational difference analysis to identify genes that have up-regulated expression in the amastigote life-cycle stage of Leishmania (Viannia) panamensis. This simultaneous process of selection and amplification allowed the cloning of several specific DNA fragments. One of them shows a high percentage of similarity with histone H1 genes from other Trypanosomatids and, as expected, is up-regulated in the amastigote life-cycle stage. The gene is present in two copies that are expressed at different levels in promastigotes and also in amastigotes, which seems to be a consequence of their different 3' untranslated regions.
Collapse
Affiliation(s)
- Juan F Alzate
- Programa de Estudio y Control de Enfermedades Tropicales, Universidad de Antioquia, Medellín, Colombia
| | | | | | | | | | | |
Collapse
|
79
|
Ruiz F, Quiñones ML, Erazo HF, Calle DA, Alzate JF, Linton YM. Molecular differentiation of Anopheles (Nyssorhynchus) benarrochi and An. (N.) oswaldoi from southern Colombia. Mem Inst Oswaldo Cruz 2005; 100:155-60. [PMID: 16021302 DOI: 10.1590/s0074-02762005000200008] [Citation(s) in RCA: 34] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
Anopheles (Nyssorhynchus) benarrochi, An. (N.) oswaldoi, and An. (N.) rangeli are the most common anthropophilic mosquitoes in the southern Colombian state of Putumayo. Adult females are most commonly collected in epidemiological studies, and this stage poses significant problems for correct identification, due to overlapping inter-specific morphological characters. Although An. rangeli is easy to identify, the morphological variant of An. benarrochi found in the region and An. oswaldoi are not always easy to separate. Herein we provide a rapid molecular method to distinguish these two species in Southern Colombia. Sequence data for the second internal transcribed spacer (ITS2) region of rDNA was generated for link-reared progeny of An. benarrochi and An. oswaldoi, that had been identified using all life stages. ITS2 sequences were 540 bp in length in An. benarrochi (n = 9) and 531 bp in An. oswaldoi (n = 7). Sequences showed no intra-specific variation and ungapped inter-specific sequence divergence was 6.4%. Species diagnostic banding patterns were recovered following digestion of the ITS2 amplicons with the enzyme Hae III as follows: An. benarrochi (365, 137, and 38 bp) and An. oswaldoi (493 and 38 bp). This polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) assay provides rapid, accurate, and inexpensive species diagnosis of adult females. This will benefit future epidemiological studies and, as PCR amplification can be achieved using a single mosquito leg, the remaining specimen can be either retained as a morphological voucher or further used in vector incrimination studies. That An. benarrochi comprises a complex of at least two species across Latin America is discussed.
Collapse
Affiliation(s)
- Freddy Ruiz
- Programa de Estudio y Control de Enfermedades Tropicales, Facultad de Medicina, Universidad de Antioquia, Medellín, Colombia
| | | | | | | | | | | |
Collapse
|
80
|
Ramírez JR, Agudelo S, Muskus C, Alzate JF, Berberich C, Barker D, Velez ID. Diagnosis of cutaneous leishmaniasis in Colombia: the sampling site within lesions influences the sensitivity of parasitologic diagnosis. J Clin Microbiol 2000; 38:3768-73. [PMID: 11015400 PMCID: PMC87473 DOI: 10.1128/jcm.38.10.3768-3773.2000] [Citation(s) in RCA: 73] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2000] [Accepted: 06/30/2000] [Indexed: 11/20/2022] Open
Abstract
Parasitologic confirmation of cutaneous leishmaniasis is obligatory before chemotherapy can be considered. Direct microscopic examination of scrapings taken from indurated borders of ulcers has been routinely used as primary method of diagnosis. In this report we compared the sensitivity of examination of dermal scrapings taken from the bottoms of ulcers (BDS) with that of dermal scrapings taken from indurated active margins of lesions (MDS) in a total of 115 patients. The sensitivities of the microscopic examination were 90.4 and 78.3% for BDS and MDS samples, respectively. When the PCR method was used with a group of 40 patients, we also observed a higher sensitivity when BDS samples were examined (80.8% in BDS samples versus 57.7% in MDS samples). The improvement of the diagnostic sensitivity in the BDS samples appears to be related to the higher parasite load and more easily detectable morphology of amastigotes in the centers of the ulcers. Other parasitologic diagnostic methods, such as culture and histopathologic examination of biopsies, are less sensitive (67.5 and 64.3%, respectively). Aspirate culture, however, was shown to be the most sensitive method for the diagnosis of patients with chronic ulcers. When microscopic examinations of both MDS and BDS samples are combined, the sensitivity of diagnosis may rise up to 94%. We therefore recommend this method as a primary routine procedure for diagnosis of cutaneous leishmaniasis.
Collapse
Affiliation(s)
- J R Ramírez
- Programa de Estudio y Control de Enfermedades Tropicales, Facultad de Medicina, Universidad de Antioquia, Medellín, Colombia.
| | | | | | | | | | | | | |
Collapse
|
81
|
Marín M, Muskus C, Ramírez JR, Arbelaez LF, Alzate JF, Berberich C. The gene encoding the metacyclogenesis-associated transcript Mat-1 is conserved in the genus Leishmania and shows a tendency to form dimers upon protein expression. Parasitol Res 2000; 86:431-5. [PMID: 10836519 DOI: 10.1007/s004360050690] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Abstract
The Leishmania infantum Mat-1 gene--recently described in L. major as a highly stage-specific, metacyclogenesis-associated transcript--has been cloned. The 420-bp Mat-1 coding region is conserved with respect to the L. major gene (82% sequence homology). Analysis of the predicted amino-acid sequence reveals structural motifs showing homology with the class of leucine-zipper transcription factors. Southern-blot hybridization analysis suggests that Mat-1 is a low-copy-number gene, probably consisting of two gene copies. The recombinant Mat-1 protein expressed in fusion with the Escherichia coli maltose-binding protein shows a tendency to form dimers in the presence of the leucine-rich C-terminal domain. Bacteria expressing the Mat-1 open reading frame are highly growth-attenuated and tend to delete or modify the insert, which suggests that expression of Mat-1 is toxic for the bacteria.
Collapse
Affiliation(s)
- M Marín
- Molecular Parasitology Group, University of Antioquia, Medellín, Colombia
| | | | | | | | | | | |
Collapse
|