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Wilk-da-Silva R, Medeiros-Sousa AR, Mucci LF, Alonso DP, Alvarez MVN, Ribolla PEM, Marrelli MT. Genetic Structuring of One of the Main Vectors of Sylvatic Yellow Fever: Haemagogus ( Conopostegus) leucocelaenus (Diptera: Culicidae). Genes (Basel) 2023; 14:1671. [PMID: 37761811 PMCID: PMC10531017 DOI: 10.3390/genes14091671] [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] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2023] [Revised: 08/18/2023] [Accepted: 08/22/2023] [Indexed: 09/29/2023] Open
Abstract
Genetic diversity and population structuring for the species Haemogogus leucocelaenus, a sylvatic vector of yellow fever virus, were found to vary with the degree of agricultural land use and isolation of fragments of Atlantic Forest in municipalities in the state of São Paulo where specimens were collected. Genotyping of 115 mitochondrial SNPs showed that the populations with the highest indices of genetic diversity (polymorphic loci and mean pairwise differences between the sequences) are found in areas with high levels of agricultural land use (northeast of the State). Most populations exhibited statistically significant negative values for the Tajima D and Fu FS neutrality tests, suggesting recent expansion. The results show an association between genetic diversity in this species and the degree of agricultural land use in the sampled sites, as well as signs of population expansion of this species in most areas, particularly those with the highest forest edge densities. A clear association between population structuring and the distance between the sampled fragments (isolation by distance) was observed: samples from a large fragment of Atlantic Forest extending along the coast of the state of São Paulo exhibited greater similarity with each other than with populations in the northwest of the state.
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Affiliation(s)
- Ramon Wilk-da-Silva
- Institute of Tropical Medicine, University of São Paulo, São Paulo 05403-000, Brazil
| | - Antônio Ralph Medeiros-Sousa
- Department of Epidemiology, School of Public Health, University of São Paulo, São Paulo 01246-904, Brazil; (A.R.M.-S.); (D.P.A.)
| | - Luis Filipe Mucci
- State Department of Health, Pasteur Institute, São Paulo 01027-000, Brazil;
| | - Diego Peres Alonso
- Department of Epidemiology, School of Public Health, University of São Paulo, São Paulo 01246-904, Brazil; (A.R.M.-S.); (D.P.A.)
- UNESP—Biotechnology Institute and Biosciences Institute, Sao Paulo State University, Botucatu 18618-689, Brazil; (M.V.N.A.); (P.E.M.R.)
| | - Marcus Vinicius Niz Alvarez
- UNESP—Biotechnology Institute and Biosciences Institute, Sao Paulo State University, Botucatu 18618-689, Brazil; (M.V.N.A.); (P.E.M.R.)
| | - Paulo Eduardo Martins Ribolla
- UNESP—Biotechnology Institute and Biosciences Institute, Sao Paulo State University, Botucatu 18618-689, Brazil; (M.V.N.A.); (P.E.M.R.)
| | - Mauro Toledo Marrelli
- Institute of Tropical Medicine, University of São Paulo, São Paulo 05403-000, Brazil
- Department of Epidemiology, School of Public Health, University of São Paulo, São Paulo 01246-904, Brazil; (A.R.M.-S.); (D.P.A.)
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Alonso DP, Alvarez MVN, Amorim JA, de Sá ILR, de Carvalho DP, Ribeiro KAN, Ribolla PEM, Sallum MAM. Mansonia spp. population genetics based on mitochondrion whole-genome sequencing alongside the Madeira River near Porto Velho, Rondonia, Brazil. Infect Genet Evol 2022; 103:105341. [PMID: 35878819 DOI: 10.1016/j.meegid.2022.105341] [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] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2022] [Revised: 05/18/2022] [Accepted: 07/15/2022] [Indexed: 06/15/2023]
Abstract
In high abundance, females of the genus Mansonia (Blanchard) can be a nuisance to humans and animals because they are voraciously hematophagous and feed on the blood of a myriad of vertebrates. The spatial-temporal distribution pattern of Mansonia species is associated with the presence of their host plants, usually Eichhornia crassipes, E. azurea, Ceratopteris pteridoides, Limnobium laevigatum, Pistia stratiotes, and Salvinia sp. Despite their importance, there is a lack of investigation on the dispersion and population genetics of Mansonia species. Such studies are pivotal to evaluating the genetic structuring, which ultimately reflects populational expansion-retraction patterns and dispersal dynamics of the mosquito, particularly in areas with a history of recent introduction and establishment. The knowledge obtained could lead to better understanding of how anthropogenic changes to the environment can modulate the population structure of Mansonia species, which in turn impacts mosquito population density, disturbance to humans and domestic animals, and putative vector-borne disease transmission patterns. In this study, we present an Illumina NGS sequencing protocol to obtain whole-mitogenome sequences of Mansonia spp. to assess the microgeographic genetic diversity and dispersion of field-collected adults. The specimens were collected in rural environments in the vicinities of the Santo Antônio Energia (SAE) hydroelectric reservoir on the Madeira River.
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Affiliation(s)
- Diego Peres Alonso
- Sao Paulo State University, UNESP - Biotechnology Institute and Bioscience Institute, Botucatu 18618-689, Brazil; Departamento de Epidemiologia, Faculdade de Saúde Pública, Universidade de São Paulo, São Paulo, SP, Brazil.
| | - Marcus Vinicius Niz Alvarez
- Sao Paulo State University, UNESP - Biotechnology Institute and Bioscience Institute, Botucatu 18618-689, Brazil
| | - Jandui Almeida Amorim
- Departamento de Epidemiologia, Faculdade de Saúde Pública, Universidade de São Paulo, São Paulo, SP, Brazil
| | - Ivy Luizi Rodrigues de Sá
- Departamento de Epidemiologia, Faculdade de Saúde Pública, Universidade de São Paulo, São Paulo, SP, Brazil
| | | | | | | | - Maria Anice Mureb Sallum
- Departamento de Epidemiologia, Faculdade de Saúde Pública, Universidade de São Paulo, São Paulo, SP, Brazil
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Alvarez MVN, Alonso DP, Kadri SM, Rufalco-Moutinho P, Bernardes IAF, de Mello ACF, Souto AC, Carrasco-Escobar G, Moreno M, Gamboa D, Vinetz JM, Conn JE, Ribolla PEM. Nyssorhynchus darlingi genome-wide studies related to microgeographic dispersion and blood-seeking behavior. Parasit Vectors 2022; 15:106. [PMID: 35346342 PMCID: PMC8961893 DOI: 10.1186/s13071-022-05219-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2021] [Accepted: 02/24/2022] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND In Brazil, malaria is concentrated in the Amazon Basin, where more than 99% of the annual cases are reported. The main goal of this study was to investigate the population structure and genetic association of the biting behavior of Nyssorhynchus (also known as Anopheles) darlingi, the major malaria vector in the Amazon region of Brazil, using low-coverage genomic sequencing data. METHODS Samples were collected in the municipality of Mâncio Lima, Acre state, Brazil between 2016 and 2017. Different approaches using genotype imputation and no gene imputation for data treatment and low-coverage sequencing genotyping were performed. After the samples were genotyped, population stratification analysis was performed. RESULTS Weak but statistically significant stratification signatures were identified between subpopulations separated by distances of approximately 2-3 km. Genome-wide association studies (GWAS) were performed to compare indoor/outdoor biting behavior and blood-seeking at dusk/dawn. A statistically significant association was observed between biting behavior and single nucleotide polymorphism (SNP) markers adjacent to the gene associated with cytochrome P450 (CYP) 4H14, which is associated with insecticide resistance. A statistically significant association between blood-seeking periodicity and SNP markers adjacent to genes associated with the circadian cycle was also observed. CONCLUSION The data presented here suggest that low-coverage whole-genome sequencing with adequate processing is a powerful tool to genetically characterize vector populations at a microgeographic scale in malaria transmission areas, as well as for use in GWAS. Female mosquitoes entering houses to take a blood meal may be related to a specific CYP4H14 allele, and female timing of blood-seeking is related to circadian rhythm genes.
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Affiliation(s)
| | | | | | | | | | | | | | - Gabriel Carrasco-Escobar
- Laboratorio ICEMR-Amazonia, Laboratorios de Investigación Y Desarrollo, Facultad de Ciencias Y Filosofia, Universidad Peruana Cayetano Heredia, Lima, Peru
- Facultad de Salud Pública, Universidad Peruana Cayetano Heredia, Lima, Peru
| | - Marta Moreno
- Laboratorio ICEMR-Amazonia, Laboratorios de Investigación Y Desarrollo, Facultad de Ciencias Y Filosofia, Universidad Peruana Cayetano Heredia, Lima, Peru
- Department of Immunology and Infection, London School of Hygiene and Tropical Medicine, London, UK
| | - Dionicia Gamboa
- Laboratorio ICEMR-Amazonia, Laboratorios de Investigación Y Desarrollo, Facultad de Ciencias Y Filosofia, Universidad Peruana Cayetano Heredia, Lima, Peru
- Departamento de Ciencias Celulares Y Moleculares, Facultad de Ciencias Y Filosofía, Universidad Peruana Cayetano Heredia, Lima, Peru
- Instituto de Medicina Tropical Alexander Von Humboldt, Universidad Peruana Cayetano Heredia, Lima, Peru
| | - Joseph M. Vinetz
- Laboratorio ICEMR-Amazonia, Laboratorios de Investigación Y Desarrollo, Facultad de Ciencias Y Filosofia, Universidad Peruana Cayetano Heredia, Lima, Peru
- Instituto de Medicina Tropical Alexander Von Humboldt, Universidad Peruana Cayetano Heredia, Lima, Peru
- Section of Infectious Diseases, Department of Internal Medicine, Yale School of Medicine, New Haven, CT USA
| | - Jan E. Conn
- Wadsworth Center, New York State Department of Health, Albany, NY USA
- Department of Biomedical Sciences, School of Public Health, State University of New York at Albany, Albany, NY USA
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Possebon FS, Alvarez MVN, Ullmann LS, Araújo Jr JP. Antimicrobial resistance genes and class 1 integrons in MDR Salmonella strains isolated from swine lymph nodes. Food Control 2021. [DOI: 10.1016/j.foodcont.2021.108190] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
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Valença-Barbosa C, Finamore-Araujo P, Moreira OC, Vergara-Meza JG, Alvarez MVN, Nascimento JR, Borges-Veloso A, Viana MC, Lilioso M, Miguel DC, Gadelha FR, Teixeira MMG, Almeida CE. Genotypic Trypanosoma cruzi distribution and parasite load differ ecotypically and according to parasite genotypes in Triatoma brasiliensis from endemic and outbreak areas in Northeastern Brazil. Acta Trop 2021; 222:106054. [PMID: 34273309 DOI: 10.1016/j.actatropica.2021.106054] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [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: 05/17/2021] [Revised: 07/09/2021] [Accepted: 07/10/2021] [Indexed: 12/13/2022]
Abstract
This study aimed to identify the Trypanosoma cruzi genotypes and their relationship with parasitic load in distinct geographic and ecotypic populations of Triatoma brasiliensis in two sites, including one where a Chagas disease (ChD) outbreak occurred in Rio Grande do Norte state, Brazil. Triatomine captures were performed in peridomestic and sylvatic ecotopes in two municipalities: Marcelino Vieira - affected by the outbreak; and Currais Novos - where high pressure of peridomestic triatomine infestation after insecticide spraying have been reported. The kDNA-PCR was used to select 124 T. cruzi positive triatomine samples, of which 117 were successfully genotyped by fluorescent fragment length barcoding (FFLB). Moreover, the T. cruzi load quantification was performed using a multiplex TaqMan qPCR. Our findings showed a clear ecotypic segregation between TcI and TcII harboured by T. brasiliensis (p<0.001). Although no genotypes were ecotypically exclusive, TcI was predominant in peridomestic ecotopes (86%). In general, T. brasiliensis from Rio Grande do Norte had a higher T. cruzi load varying from 3.94 to 7.66 x 106T. cruzi per insect. Additionally, TcII (median value=299,504 T. cruzi/intestine unit equivalents) had more than twice (p=0.1) the parasite load of TcI (median value=149,077 T. cruzi/intestine unit equivalents), which can be attributed to a more ancient co-evolution with T. brasiliensis. The higher prevalence of TcII in the sylvatic T. brasiliensis (70%) could be associated with a more diversified source of bloodmeals for wild insect populations. Either TcI or TcII may have been responsible for the ChD outbreak that occurred in the city of Marcelino Vieira. On the other hand, a smaller portion of T. brasiliensis was infected by TcIII (3%) in the peridomicile, in addition to T. rangeli genotype A (1%), often found in mixed infections. Our results highlight the need of understanding the patterns of T. cruzi genotype´s development and circulation in insect vectors and reservoirs as a mode of tracking situations of epidemiologic importance, as the ChD outbreak recently recorded for Northeastern Brazil.
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Affiliation(s)
- Carolina Valença-Barbosa
- Instituto de Biologia, Universidade de Campinas - UNICAMP, São Paulo, Brazil; Grupo Triatomíneos, Instituto René Rachou, Fundação Oswaldo Cruz - Fiocruz, Belo Horizonte, Minas Gerais, Brazil.
| | - Paula Finamore-Araujo
- Laboratório de Biologia Molecular e Doenças Endêmicas, Instituto Oswaldo Cruz/Fiocruz, Rio de Janeiro, Brazil
| | - Otacilio C Moreira
- Laboratório de Biologia Molecular e Doenças Endêmicas, Instituto Oswaldo Cruz/Fiocruz, Rio de Janeiro, Brazil
| | | | | | | | - André Borges-Veloso
- Instituto de Biologia, Universidade de Campinas - UNICAMP, São Paulo, Brazil; Grupo Triatomíneos, Instituto René Rachou, Fundação Oswaldo Cruz - Fiocruz, Belo Horizonte, Minas Gerais, Brazil
| | | | - Maurício Lilioso
- Instituto de Biologia, Universidade de Campinas - UNICAMP, São Paulo, Brazil
| | | | | | | | - Carlos Eduardo Almeida
- Instituto de Biologia, Universidade de Campinas - UNICAMP, São Paulo, Brazil; Instituto de Biologia, Universidade Federal da Bahia, Brazil
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Curi RA, Pereira GL, Alvarez MVN, Baldassini WA, Machado Neto OR, Chardulo LAL. Exome analysis and functional classification of identified variants in racing Quarter Horses. Anim Genet 2020; 51:716-721. [PMID: 32696541 DOI: 10.1111/age.12976] [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] [Received: 03/25/2020] [Revised: 04/27/2020] [Accepted: 06/15/2020] [Indexed: 11/26/2022]
Abstract
The main objectives of this study were to identify and functionally classify SNPs and indels by exome sequencing of animals of the racing line of Quarter Horses. Based on the individual genomic estimated breeding values (GEBVs) for maximum speed index (SImax) obtained for 349 animals, two groups of 20 extreme animals were formed. Of these individuals, 20 animals with high GEBVs for SImax and 19 with low GEBVs for SImax had their exons and 5' and 3' UTRs sequenced. Considering SNPs and indels, 105 182 variants were identified in the expressed regions of the Quarter Horse genome. Of these, 72 166 variants were already known and 33 016 are new variants and were deposited in a database. The analysis of the set of gene variants significantly related (Padjusted < 0.05) to extreme animals in conjunction with the predicted impact of the changes and the physiological role of protein product pointed to two candidate genes potentially related to racing performance: SLC3A1 on ECA15 and CCN6 on ECA10.
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Affiliation(s)
- R A Curi
- Department of Animal Breeding and Nutrition, College of Veterinary and Animal Science, São Paulo State University, Rubião Junior District, Botucatu, São Paulo, 18618-970, Brazil
| | - G L Pereira
- Department of Animal Breeding and Nutrition, College of Veterinary and Animal Science, São Paulo State University, Rubião Junior District, Botucatu, São Paulo, 18618-970, Brazil
| | - M V N Alvarez
- Department of Parasitology, Institute of Biosciences, São Paulo State University, Rubião Junior District, Botucatu, São Paulo, 18618-970, Brazil
| | - W A Baldassini
- Department of Animal Breeding and Nutrition, College of Veterinary and Animal Science, São Paulo State University, Rubião Junior District, Botucatu, São Paulo, 18618-970, Brazil
| | - O R Machado Neto
- Department of Animal Breeding and Nutrition, College of Veterinary and Animal Science, São Paulo State University, Rubião Junior District, Botucatu, São Paulo, 18618-970, Brazil
| | - L A L Chardulo
- Department of Animal Breeding and Nutrition, College of Veterinary and Animal Science, São Paulo State University, Rubião Junior District, Botucatu, São Paulo, 18618-970, Brazil
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Alonso DP, Mancini MV, Damiani C, Cappelli A, Ricci I, Alvarez MVN, Bandi C, Ribolla PEM, Favia G. Genome Reduction in the Mosquito Symbiont Asaia. Genome Biol Evol 2019; 11:1-10. [PMID: 30476071 PMCID: PMC6317953 DOI: 10.1093/gbe/evy255] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [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] [Accepted: 11/21/2018] [Indexed: 12/31/2022] Open
Abstract
Symbiosis is now recognized as a driving force in evolution, a role that finds its ultimate expression in the variety of associations bonding insects with microbial symbionts. These associations have contributed to the evolutionary success of insects, with the hosts acquiring the capacity to exploit novel ecological niches, and the symbionts passing from facultative associations to obligate, mutualistic symbioses. In bacterial symbiont of insects, the transition from the free-living life style to mutualistic symbiosis often resulted in a reduction in the genome size, with the generation of the smallest bacterial genomes thus far described. Here, we show that the process of genome reduction is still occurring in Asaia, a group of bacterial symbionts associated with a variety of insects. Indeed, comparative genomics of Asaia isolated from different mosquito species revealed a substantial genome size and gene content reduction in Asaia from Anopheles darlingi, a South-American malaria vector. We thus propose Asaia as a novel model to study genome reduction dynamics, within a single bacterial taxon, evolving in a common biological niche.
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Affiliation(s)
- Diego Peres Alonso
- Biotechnology Institute (IBTEC) & Biosciences Institute at Botucatu (IBB), Sao Paulo State University (UNESP), Sao Paulo, Brazil
| | - Maria Vittoria Mancini
- School of Biosciences and Veterinary Medicine, University of Camerino, Italy.,MRC-University of Glasgow-Centre for Virus Research, Glasgow, United Kingdom
| | - Claudia Damiani
- School of Biosciences and Veterinary Medicine, University of Camerino, Italy
| | - Alessia Cappelli
- School of Biosciences and Veterinary Medicine, University of Camerino, Italy
| | - Irene Ricci
- School of Biosciences and Veterinary Medicine, University of Camerino, Italy
| | - Marcus Vinicius Niz Alvarez
- Biotechnology Institute (IBTEC) & Biosciences Institute at Botucatu (IBB), Sao Paulo State University (UNESP), Sao Paulo, Brazil
| | - Claudio Bandi
- Clinical Pediatric Research Center Romeo and Enrica Invernizzi, Department of Biosciences, University of Milan, Italy
| | - Paulo Eduardo Martins Ribolla
- Biotechnology Institute (IBTEC) & Biosciences Institute at Botucatu (IBB), Sao Paulo State University (UNESP), Sao Paulo, Brazil
| | - Guido Favia
- School of Biosciences and Veterinary Medicine, University of Camerino, Italy
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