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1.
Braz. j. biol ; 81(4): 928-933, Oct.-Dec. 2021. tab, graf
Article in English | LILACS | ID: biblio-1153425

ABSTRACT

Abstract Species of Trichogramma Westwood, 1833 (Hymenoptera: Trichogrammtidae) are frequently used as biological control agents against Lepidoptera, but practical application of these egg endoparasitoids are complicated because of their complex taxonomy. This study aimed to compare sequences of internal transcribed spacer regions of ribosomal DNA (ITS2-rDNA) of Trichogramma accessions with those deposited in GenBank in order to access the reliability of the ITS2 as a barcode for discriminating species and evaluating the genetic diversity. ITS2-rDNA sequences obtained from seventeen specimens of Trichogramma confirmed previous identifications based on morphological characteristics. Multiple sequence alignment revealed the existence of highly conserved regions in ITS2 sequences while the neighbour-joining dendrogram indicated that the specimens formed three clusters comprising T. manicobai and T. marandobai (group I), T. galloi (group II) and T. pretiosum (group III). The ITS2 marker was shown to be a powerful DNA barcode for discriminating Trichogramma species and could be used to complement the morphological approach.


Resumo Espécies de Trichogramma Westwood, 1833 (Hymenoptera: Trichogrammatidae) são freqüentemente usadas como agentes de controle biológico contra Lepidoptera, esses endoparasitóides de ovos apresentam taxonomia complexa, o que dificulta sua aplicação prática. Este estudo teve como objetivo comparar seqüências de regiões espaçadoras internas transcritas de DNA ribossômico (ITS2-rDNA) de acessos de Trichogramma com aquelas depositadas no GenBank, a fim de avaliar a confiabilidade do ITS2 barcode para discriminar espécies e avaliar a diversidade genética. As seqüências de ITS2-rDNA obtidas de dezessete espécimes de Trichogramma confirmaram identidades anteriores com base em características morfológicas. O alinhamento de múltiplas sequências revelou a existência de regiões altamente conservadas nas sequências ITS2, enquanto o dendrograma indicou que os espécimes formavam três grupos compreendendo T. manicobai e T. marandobai (grupo I), T. galloi (grupo II) e T. pretiosum (grupo III). O marcador ITS2 mostrou ser um poderoso DNA barcode para discriminar espécies de Trichogramma podendo ser usado como complemento da abordagem morfológica.


Subject(s)
Animals , Hymenoptera/genetics , Phylogeny , Genetic Variation/genetics , DNA, Ribosomal/genetics , Reproducibility of Results , Sequence Analysis, DNA , DNA, Ribosomal Spacer/genetics
2.
Rev. bras. parasitol. vet ; 29(1): e020019, 2020. tab, graf
Article in English | LILACS | ID: biblio-1092690

ABSTRACT

Abstract Knowledge of the Arabian Gulf fish's parasite fauna is very poor. Until recently, only scattered reports from different locations are known for ecto- and endoparasites. Therefore, the present study aimed to investigate the digenean species that infects one of the most economically fish species in the Arabian Gulf, the rosy goatfish Parupeneus rubescens . One plagiorchiid species has been described, belonging to the Gorgoderidae family, and has been named as Phyllodistomum vaili Ho, Bray, Cutmore, Ward & Cribb, 2014 based on its morphological and morphometric characteristics. In order to accurately classify and characterize this plagiorchiid species, molecular analysis was carried out using both nuclear 18S and 28S rRNA gene regions and revealed that the present plagiorchiid species was associated with other species belonging to the Gorgoderidae family and deeply embedded in the Phyllodistomum genus, closely related to the previously described P. vaili (gb- KF013187.1, KF013173.1). The present study therefore revealed that the species Phyllodistomum is the first account as endoparasites from the rosy goatfish inhabiting the Arabian Gulf.


Resumo O conhecimento da fauna de parasitas dos peixes do Golfo Árabe é escasso. Atualmente, apenas relatórios dispersos de diferentes locais são conhecidos para ecto e endoparasitas. Portanto, o presente estudo teve como objetivo investigar as especies digenéticas que infectam uma das espécies economicamente mais importantes do Golfo Arábico, o peixe-cabra rosado Parupeneus rubescens . Uma espécie de plagiorquídeo foi descrita, pertencente à família Gorgoderidae e foi denominada Phyllodistomum vaili Ho, Bray, Cutmore, Ward & Cribb, 2014, com base em suas propriedades morfológicas e morfométricas. A fim de classificar e caracterizar com precisão essa espécie de plagiorquídeo, a análise molecular foi realizada usando as regiões nucleares do gene 18S e 28S rRNA, revelando que a atual espécie de plagiorchídeo estava associada a outras espécies pertencentes à família Gorgoderidae e, profundamente incorporada ao gênero Phyllodistomum , intimamente relacionado ao P. vaili descrito anteriormente (gb - KF013187.1, KF013173.1). O presente estudo revelou, portanto, que a espécie Phyllodistomum vailli é o primeiro relato como endoparasita do peixe-cabra rosado que habita o Golfo Arábico.


Subject(s)
Animals , Trematoda/isolation & purification , Perciformes/parasitology , Fish Diseases/parasitology , Phylogeny , Saudi Arabia , Trematoda/classification , Trematoda/genetics , DNA, Ribosomal/genetics , RNA, Ribosomal, 18S , RNA, Ribosomal, 28S
3.
Rev. bras. parasitol. vet ; 28(4): 625-631, Oct.-Dec. 2019. graf
Article in English | LILACS | ID: biblio-1057969

ABSTRACT

Abstract The current parasitological study was carried out to investigate helminth parasites infecting the Red spot emperor Lethrinus lentjan inhabiting Hurghada City at the Gulf of Suez, Red Sea, Egypt. Third-stage larvae of nematode parasite was isolated from the intestine as well as body cavity of the examined fish. Light and scanning electron microscopy revealed that this parasite belonged to Anisakidae family within the genus Pseudoterranova. The present species is named Pseudoterranova decipiens based on the presence of triangular mouth aperture with prominent boring teeth and soft swellings of the cuticle, long muscular esophagus, ventrally excretory pore, and narrow transverse slit of anal opening followed by a short mucron. The morphological characteristics of this species were confirmed by molecular analysis of 18S rDNA gene region of the present parasite. It demonstrated a close identity ≥89% with taxa under family Anisakidae, 85% with Raphidascarididae, and 79-84% with Toxocaridae. A preliminary genetic comparison between gene sequence of the present parasite and other oxyurid species placeed it as a putative sister taxon to other Pseudoterranova decipiens described previously. This study demonstrated that the 18S rDNA gene region of Pseudoterranova decipiens yielded a unique sequence that confirmed its taxonomic position in Anisakidae.


Resumo O presente estudo parasitológico foi realizado para investigar os helmintos parasitos que infectam o peixe imperador Lethrinus lentjan, que habita a cidade de Hurghada no Golfo de Suez, Mar Vermelho, no Egito. Larvas de terceiro estágio de parasitos nematoides foram isoladas do intestino e da cavidade do corpo do peixe examinado. Microscopia eletrônica de luz e de varredura revelou que este parasita pertence à família Anisakidae dentro do gênero Pseudoterranova. A espécie atual é denominada Pseudoterranova decipiens baseada na presença de abertura triangular da boca com dentes proeminentes chatos e inchaços moles da cutícula, esôfago muscular longo, poro ventralmente excretor e fenda transversal estreita da abertura anal seguida por um mucron curto. As características morfológicas desta espécie foram confirmadas pela análise molecular da região do gene 18S rDNA do presente parasito. Demonstrou uma identidade próxima ≥89% com taxa sob família Anisakidae, 85% com Raphidascarididae, e 79-84% com Toxocaridae. Uma comparação genética preliminar entre a sequência genética do presente parasito e outras espécies de oxiurídeos coloca-o como um taxon irmão putativo para outros Pseudoterranova descritos anteriormente. Este estudo demonstra que a região do gene 18S rDNA de Pseudoterranova decipiens produz uma sequência única que confirma sua posição taxonômica em Anisakidae.


Subject(s)
Animals , Fish Diseases/parasitology , Fishes/parasitology , Nematoda/isolation & purification , Phylogeny , DNA, Ribosomal/genetics , RNA, Ribosomal, 18S/genetics , Microscopy, Electron, Scanning , Indian Ocean , Egypt , Fishes/classification , Nematoda/classification , Nematoda/genetics , Nematoda/ultrastructure
4.
Rev. bras. parasitol. vet ; 28(3): 367-375, July-Sept. 2019. tab, graf
Article in English | LILACS | ID: biblio-1042538

ABSTRACT

Abstract Renicolids are parasites that inhabit the renal tubules and ureters of molluscivorous and piscivorous birds. Puffinus puffinus is a migratory seabird that was identified as the definitive host of Renicola spp. Studies focusing on the renicolid species and the resulting renal lesions are valuable for their association with causes of stranding in seabirds. The aim of this study was to identify the renicolid trematodes and evaluate the histological findings in two P. puffinus stranded on the coast of Paraná state, Brazil. The parasites were evaluated by histologic, ultrastructural and molecular assays, while tissue changes were analyzed by histologic methods. The morphological and morphometrical characteristics of the parasites, along with polymerase chain reaction and sequencing assays (ribosomal and mitochondrial regions), identified the species as Renicola sloanei. The results also suggest that this helminth can be the adult form of Cercaria pythionike. The dilation of collecting ducts was the main histological finding in the kidneys. In conclusion, R. sloanei was identified, and for the first time, P. puffinus was described as a host of this digenean inducing mild renal changes.


Resumo Renicolídeos são parasitos que habitam túbulos renais e ureteres de aves que se alimentam de moluscos e peixes. Puffinus puffinus, ave marinha migratória, foi registrada como hospedeiro definitivo de Renicola spp. Estudos relacionados com as espécies de renicolídeos e as lesões renais resultantes são importantes para o entendimento das causas de óbito de aves marinhas. O objetivo deste estudo foi identificar os trematódeos renicolídeos e avaliar os achados histológicos em dois P. puffinus encalhados no litoral do Estado do Paraná, Brasil. Os parasitos foram avaliados por ensaios histológicos, ultraestruturais e moleculares, enquanto as alterações teciduais foram analisadas por métodos histológicos. As características morfológicas e morfométricas dos parasitos, juntamente com a reação em cadeia da polimerase e sequenciamento (regiões ribossomal e mitocondrial), identificaram a espécie como Renicola sloanei. Os resultados também sugerem que este helminto pode ser a forma adulta de Cercaria pythionike. A dilatação dos ductos coletores foi o principal achado histológico renal. Em conclusão, R. sloanei foi identificado, e pela primeira vez P. puffinus foi descrito como hospedeiro deste digenético induzindo alterações renais discretas.


Subject(s)
Animals , Trematoda/isolation & purification , Bird Diseases/parasitology , Birds/parasitology , Kidney/parasitology , Phylogeny , Trematoda/classification , Trematoda/genetics , Trematoda/ultrastructure , DNA, Mitochondrial/genetics , DNA, Ribosomal/genetics , Sequence Analysis, DNA , DNA, Helminth/genetics
5.
Rev. bras. parasitol. vet ; 28(3): 360-366, July-Sept. 2019. tab, graf
Article in English | LILACS | ID: biblio-1042528

ABSTRACT

Abstract Mycoplasma ovis is an emerging zoonotic pathogen with a worldwide distribution and can cause mild to severe hemolytic anemia, icterus, and poor weight gain in animals. Although M. ovis has been described in small ruminants worldwide, data on M. ovis in sheep in Brazil is unknown. The objective of the present study was to present the first report of hemotropic mycoplasma (HM) in sheep from Brazil. We evaluated factors associated with this infection, such age group, tick presence, and anemia. Blood samples were collected from 33 sheep from a farm in southern Brazil and screened for hemoplasmas using PCR. Out of 33 samples, 26 (78.8%) tested positive for M. ovis. The sequencing of positive samples showed 100% identity with multiple M. ovis 16S rDNA sequences. No association was observed between the presence of M. ovis and the FAMACHA© score (p = 0.620). Rhipicephalus (Boophilus) microplus (15/33, 45.4%) was the tick species found on the animals. No significant association between M. ovis infection and presence of ticks (p = 0.4134) and age group (p = 0.4221) was observed. This is the first report of M. ovis infection in sheep from Brazil and only the second report of this pathogen in sheep in Latin America.


Resumo Mycoplasma ovis é um patógeno zoonótico emergente com distribuição mundial e pode causar anemia hemolítica de leve a grave, icterícia e baixo ganho de peso em animais. Embora M. ovis tenha sido descrito em pequenos ruminantes em todo o mundo, os dados sobre M. ovis em ovinos no Brasil são desconhecidos. O objetivo deste estudo foi apresentar o primeiro relato de micoplasmas hemotrópicos em ovinos no Brasil. Avaliamos os fatores associados a essa infecção, como faixa etária, presença de carrapatos e anemia. Amostras de sangue foram coletadas de 33 ovelhas de uma fazenda no sul do Brasil e testadas para hemoplasmas usando a PCR. Das 33 amostras, 26 (78,8%) apresentaram resultado positivo. O sequenciamento das amostras positivas mostrou 100% de identidade com múltiplas sequências de M. ovis 16S rDNA. Não foi observada associação entre a presença de M. ovis e o escore FAMACHA© (p = 0,620). Rhipicephalus (Boophilus) microplus (15/33, 45,4%) foi a espécie de carrapato encontrada nos animais. Não houve associação significativa entre infecção por M. ovis e presença de carrapatos (p = 0,4134) e faixa etária (p = 0,4221). Este é o primeiro relato de infecção por M. ovis em ovinos no Brasil e o segundo relato deste patógeno em ovinos na América Latina.


Subject(s)
Animals , Male , Female , Sheep Diseases/microbiology , Mycoplasma/classification , Mycoplasma Infections/veterinary , Phylogeny , Sheep Diseases/diagnosis , Sheep Diseases/epidemiology , DNA, Ribosomal/genetics , Sheep , RNA, Ribosomal, 16S/genetics , Polymerase Chain Reaction/veterinary , Rhipicephalus/microbiology , Mycoplasma/isolation & purification , Mycoplasma/genetics , Mycoplasma Infections/diagnosis , Mycoplasma Infections/epidemiology
6.
Rev. bras. parasitol. vet ; 28(3): 416-424, July-Sept. 2019. tab, graf
Article in English | LILACS | ID: biblio-1042514

ABSTRACT

Abstract The aim of this was describe an infection by Kudoa orbicularis in freshwater catfish Trachelyopterus galeatus. A sample of 80 specimens of T. galeatus was collected in the municipality of Cachoeira do Arari, Marajó Island, in the state of Pará, Brazil. Pseudocysts were found in the muscle fibers of the epaxial and hypaxial regions of 85.0% of the specimens analyzed, reflecting a high infection rate. The pseudocysts contained spores that were pseudo-square in shape, with a mean length of 4.65 µm (range: 4.04-5.54) and mean width of 1.53 µm (1.56-1.74). Analyses on the morphology of the spores and a partial 934-bp sequence of the SSU rDNA gene confirmed that the microparasite was Kudoa orbicularis. This is the second record of this microparasite in a siluriform host in the Brazilian Amazon region.


Resumo O objetivo deste estudo foi descrever a infecção por Kudoa orbicularis em Trachelyopterus galeatus. Foram analisados 80 espécimes de T. galeatus capturados no município de Cachoeira do Arari, ilha de Marajó, estado do Pará, Brasil. A presença de pseudocistos nas fibras musculares das regiões epiaxial e hipoaxial em 85,0% dos exemplares analisados, mostra alto grau de infecção. Os pseudocistos continham esporos de formato pseudoquadrado, medindo 4,65 (4,04-5,54) µm de comprimento e 5,25 (4,78-5,98) µm de largura, com quatro cápsulas polares de tamanho iguais medindo 2,22 (2,05-2,32) µm de comprimento e 1,53 (1,56-1,74) µm de largura. Através das análises morfológicas dos esporos e molecular de uma sequência parcial de 934bps do gene SSU rDNA, confirma que o microparasito é Kudoa orbicularis, sendo este o segundo registro desse microparasito em hospedeiro da ordem Siluriformes da Amazônia brasileira.


Subject(s)
Animals , Catfishes/parasitology , Myxozoa/isolation & purification , Fish Diseases/parasitology , Phylogeny , Brazil , DNA, Ribosomal/genetics , Polymerase Chain Reaction , Myxozoa/cytology , Myxozoa/genetics , Fish Diseases/diagnosis , Fresh Water
7.
J. appl. oral sci ; 27: e20180256, 2019. tab
Article in English | LILACS, BBO | ID: biblio-1012514

ABSTRACT

Abstract Objective The rDNA-based method is unable to distinguish between alive and dead cells. Alternatively, bacterial viability can be assessed by molecular methods based on ribosomal RNA (rRNA). Therefore, this study aimed to detect viable streptococci in root canal samples using rRNA-based reverse transcription polymerase chain reaction (RT-PCR), compared to an rDNA-based PCR assay. Methodology Microbiological root canal samples were obtained from 32 teeth with primary endodontic infections before (S1) and after chemomechanical preparation (S2), and after removal of intracanal medication (S3). RNA and DNA were extracted, and complementary DNA (cDNA) was synthesized from RNA using RT reaction. cDNA and genomic DNA were subjected to PCR with primers complementary to the 16S rRNA sequences of Streptococcus spp. McNemar's test was used to compare the detection rate of both assays (P<0.05). Results Streptococci were detected in 28.12% (9/32) and 37.5% (12/32) of S1 samples using rRNA- and rDNA-based PCR assays, respectively. In contrast, they were detected in only 6.25% (2/32) of S2 samples using rRNA-based RT-PCR, compared to 15.62% (5/32) using rDNA-based PCR. Finally, in S3 samples, streptococci were not detected by rRNA, whereas rDNA-based PCR still detected the bacteria in 12.5% (4/32) of the samples. The total number of PCR-positive reactions in the rDNA-based PCR was higher than in the rRNA-based assay (P<0.05). Conclusions The rRNA-based RT-PCR showed a lower detection rate of streptococci when compared to the rDNA-based PCR, suggesting that the latter may have detected dead cells of streptococci in root canal samples.


Subject(s)
Humans , Streptococcus/isolation & purification , DNA, Ribosomal/isolation & purification , RNA, Ribosomal/isolation & purification , Polymerase Chain Reaction/methods , Reverse Transcriptase Polymerase Chain Reaction/methods , Dental Pulp Cavity/microbiology , Root Canal Therapy/methods , Streptococcus/genetics , DNA, Bacterial/isolation & purification , DNA, Bacterial/genetics , DNA, Ribosomal/genetics , RNA, Bacterial/isolation & purification , RNA, Bacterial/genetics , RNA, Ribosomal/genetics , Reproducibility of Results
8.
Braz. j. microbiol ; 49(4): 695-702, Oct.-Dec. 2018. tab, graf
Article in English | LILACS | ID: biblio-974298

ABSTRACT

ABSTRACT Antarctica harbors a great diversity of microorganisms, including bacteria, archaea, microalgae and yeasts. The Pseudomonas genus is one of the most diverse and successful bacterial groups described to date, but only eight species isolated from Antarctica have been characterized. Here, we present three potentially novel species isolated on King George Island. The most abundant isolates from four different environments, were genotypically and phenotypically characterized. Multilocus sequence analysis and 16S rRNA gene analysis of a sequence concatenate for six genes (16S, aroE, glnS, gyrB, ileS and rpoD), determined one of the isolates to be a new Pseudomonas mandelii strain, while the other three are good candidates for new Pseudomonas species. Additionally, genotype analyses showed the three candidates to be part of a new subgroup within the Pseudomonas fluorescens complex, together with the Antarctic species Pseudomonas antarctica and Pseudomonas extremaustralis. We propose terming this new subgroup P. antarctica. Likewise, phenotypic analyses using API 20 NE and BIOLOG® corroborated the genotyping results, confirming that all presented isolates form part of the P. fluorescens complex. Pseudomonas genus research on the Antarctic continent is in its infancy. To understand these microorganisms' role in this extreme environment, the characterization and description of new species is vital.


Subject(s)
Phylogeny , Pseudomonas/isolation & purification , Pseudomonas/classification , Phenotype , Pseudomonas/genetics , Soil Microbiology , DNA, Bacterial/genetics , DNA, Ribosomal/genetics , RNA, Ribosomal, 16S/genetics , Multilocus Sequence Typing , Islands , Genotype , Antarctic Regions
9.
Braz. j. microbiol ; 49(3): 443-451, July-Sept. 2018. tab, graf
Article in English | LILACS | ID: biblio-951793

ABSTRACT

Abstract As a glacier retreats, barren areas are exposed, and these barren areas are ideal sites to study microbial succession. In this study, we characterized the soil culturable bacterial communities and biochemical parameters of early successional soils from a receding glacier in the Tianshan Mountains. The total number of culturable bacteria ranged from 2.19 × 105 to 1.30 × 106 CFU g-1 dw and from 9.33 × 105 to 2.53 × 106 CFU g-1 dw at 4 °C and 25 °C, respectively. The number of culturable bacteria in the soil increased at 25 °C but decreased at 4 °C along the chronosequence. The total organic carbon, total nitrogen content, and enzymatic activity were relatively low in the glacier foreland. The number of culturable bacteria isolated at 25 °C was significantly positively correlated with the TOC and TN as well as the soil urease, protease, polyphenoloxidase, sucrase, catalase, and dehydrogenase activities. We obtained 358 isolates from the glacier foreland soils that clustered into 35 groups using amplified ribosomal DNA restriction analysis. These groups are affiliated with 20 genera that belong to six taxa, namely, Alphaproteobacteria, Betaproteobacteria, Gammaproteobacteria, Actinobacteria, Bacteroides, and Deinococcus-Thermus, with a predominance of members of Actinobacteria and Proteobacteria in all of the samples. A redundancy analysis showed that the bacterial succession was divided into three periods, an early stage (10a), a middle stage (25-74a), and a late stage (100-130a), with the total number of culturable bacteria mainly being affected by the soil enzymatic activity, suggesting that the microbial succession correlated with the soil age along the foreland.


Subject(s)
Bacteria/isolation & purification , Ice Cover/microbiology , Ice Cover/chemistry , Phylogeny , Soil/chemistry , Soil Microbiology , Bacteria/classification , Bacteria/growth & development , Bacteria/genetics , DNA, Bacterial/genetics , DNA, Ribosomal/genetics , RNA, Ribosomal, 16S/genetics , China , Sequence Analysis, DNA , Nitrogen/analysis , Nitrogen/metabolism
10.
Braz. j. microbiol ; 49(2): 248-257, Apr.-June 2018. tab, graf
Article in English | LILACS | ID: biblio-889237

ABSTRACT

Abstract In this study for the first-time microbial communities in the caves located in the mountain range of Hindu Kush were evaluated. The samples were analyzed using culture-independent (16S rRNA gene amplicon sequencing) and culture-dependent methods. The amplicon sequencing results revealed a broad taxonomic diversity, including 21 phyla and 20 candidate phyla. Proteobacteria were dominant in both caves, followed by Bacteroidetes, Actinobacteria, Firmicutes, Verrucomicrobia, Planctomycetes, and the archaeal phylum Euryarchaeota. Representative operational taxonomic units from Koat Maqbari Ghaar and Smasse-Rawo Ghaar were grouped into 235 and 445 different genera, respectively. Comparative analysis of the cultured bacterial isolates revealed distinct bacterial taxonomic profiles in the studied caves dominated by Proteobacteria in Koat Maqbari Ghaar and Firmicutes in Smasse-Rawo Ghaar. Majority of those isolates were associated with the genera Pseudomonas and Bacillus. Thirty strains among the identified isolates from both caves showed antimicrobial activity. Overall, the present study gave insight into the great bacterial taxonomic diversity and antimicrobial potential of the isolates from the previously uncharacterized caves located in the world's highest mountains range in the Indian sub-continent.


Subject(s)
Bacteria/isolation & purification , Bacteria/classification , Environmental Microbiology , Biota , Antibiosis , Pakistan , Phylogeny , Bacteria/growth & development , Bacteria/genetics , DNA, Bacterial/genetics , DNA, Bacterial/chemistry , DNA, Ribosomal/genetics , DNA, Ribosomal/chemistry , RNA, Ribosomal, 16S/genetics , Cluster Analysis , Sequence Analysis, DNA , Euryarchaeota/isolation & purification , Euryarchaeota/classification , Euryarchaeota/growth & development , Euryarchaeota/genetics , DNA, Archaeal/genetics , DNA, Archaeal/chemistry , Metagenomics
11.
Braz. j. microbiol ; 49(2): 269-278, Apr.-June 2018. tab, graf
Article in English | LILACS | ID: biblio-889232

ABSTRACT

Abstract A total of 276 endophytic bacteria were isolated from the root nodules of soybean (Glycine max L.) grown in 14 sites in Henan Province, China. The inhibitory activity of these bacteria against pathogenic fungus Phytophthora sojae 01 was screened in vitro. Six strains with more than 63% inhibitory activities were further characterized through optical epifluorescence microscopic observation, sequencing, and phylogenetic analysis of 16S rRNA gene, potential plant growth-promoting properties analysis, and plant inoculation assay. On the basis of the phylogeny of 16S rRNA genes, the six endophytic antagonists were identified as belonging to five genera: Enterobacter, Acinetobacter, Pseudomonas, Ochrobactrum, and Bacillus. The strain Acinetobacter calcoaceticus DD161 had the strongest inhibitory activity (71.14%) against the P. sojae 01, which caused morphological abnormal changes of fungal mycelia; such changes include fracture, lysis, formation of a protoplast ball at the end of hyphae, and split ends. Except for Ochrobactrum haematophilum DD234, other antagonistic strains showed the capacity to produce siderophore, indole acetic acid, and nitrogen fixation activity. Regression analysis suggested a significant positive correlation between siderophore production and inhibition ratio against P. sojae 01. This study demonstrated that nodule endophytic bacteria are important resources for searching for inhibitors specific to the fungi and for promoting effects for soybean seedlings.


Subject(s)
Plant Growth Regulators/metabolism , Soybeans/growth & development , Soybeans/microbiology , Bacteria/isolation & purification , Root Nodules, Plant/microbiology , Endophytes/isolation & purification , Antibiosis , Phylogeny , Phytophthora/cytology , Phytophthora/growth & development , Phytophthora/drug effects , Bacteria/classification , Bacteria/metabolism , DNA, Ribosomal/genetics , DNA, Ribosomal/chemistry , RNA, Ribosomal, 16S/genetics , Cluster Analysis , China , Sequence Analysis, DNA , Endophytes/classification , Endophytes/metabolism
12.
Braz. j. microbiol ; 48(2): 305-313, April.-June 2017. tab, graf
Article in English | LILACS | ID: biblio-839385

ABSTRACT

Abstract The aerobic degradation of aromatic compounds by bacteria is performed by dioxygenases. To show some characteristic patterns of the dioxygenase genotype and its degradation specificities, twenty-nine gram-negative bacterial cultures were obtained from sediment contaminated with phenolic compounds in Wuhan, China. The isolates were phylogenetically diverse and belonged to 10 genera. All 29 gram-negative bacteria were able to utilize phenol, m-dihydroxybenzene and 2-hydroxybenzoic acid as the sole carbon sources, and members of the three primary genera Pseudomonas, Acinetobacter and Alcaligenes were able to grow in the presence of multiple monoaromatic compounds. PCR and DNA sequence analysis were used to detect dioxygenase genes coding for catechol 1,2-dioxygenase, catechol 2,3-dioxygenase and protocatechuate 3,4-dioxygenase. The results showed that there are 4 genotypes; most strains are either PNP (catechol 1,2-dioxygenase gene is positive, catechol 2,3-dioxygenase gene is negative, protocatechuate 3,4-dioxygenase gene is positive) or PNN (catechol 1,2-dioxygenase gene is positive, catechol 2,3-dioxygenase gene is negative, protocatechuate 3,4-dioxygenase gene is negative). The strains with two dioxygenase genes can usually grow on many more aromatic compounds than strains with one dioxygenase gene. Degradation experiments using a mixed culture representing four bacterial genotypes resulted in the rapid degradation of phenol. Determinations of substrate utilization and phenol degradation revealed their affiliations through dioxygenase genotype data.


Subject(s)
Phenol/metabolism , Dioxygenases/genetics , Dioxygenases/metabolism , Gram-Negative Bacteria/enzymology , Gram-Negative Bacteria/metabolism , Phylogeny , Pseudomonas , Soil Pollutants/metabolism , Acinetobacter , DNA, Bacterial/genetics , DNA, Bacterial/chemistry , DNA, Ribosomal/genetics , DNA, Ribosomal/chemistry , Carbon/metabolism , RNA, Ribosomal, 16S/genetics , Biotransformation , Cluster Analysis , China , Polymerase Chain Reaction , Sequence Analysis, DNA , Geologic Sediments/microbiology , Alcaligenes , Environmental Pollution , Gram-Negative Bacteria/classification , Gram-Negative Bacteria/genetics
13.
Mem. Inst. Oswaldo Cruz ; 111(10): 614-624, Oct. 2016. tab, graf
Article in English | LILACS | ID: lil-796906

ABSTRACT

The subfamily Triatominae (Hemiptera, Reduviidae) includes 150 species of blood-sucking insects, vectors of Chagas disease or American trypanosomiasis. Karyotypic information reveals a striking stability in the number of autosomes. However, this group shows substantial variability in genome size, the amount and distribution of C-heterochromatin, and the chromosome positions of 45S rDNA clusters. Here, we analysed the karyotypes of 41 species from six different genera with C-fluorescence banding in order to evaluate the base-pair richness of heterochromatic regions. Our results show a high heterogeneity in the fluorescent staining of the heterochromatin in both autosomes and sex chromosomes, never reported before within an insect subfamily with holocentric chromosomes. This technique allows a clear discrimination of the heterochromatic regions classified as similar by C-banding, constituting a new chromosome marker with taxonomic and evolutionary significance. The diverse fluorescent patterns are likely due to the amplification of different repeated sequences, reflecting an unusual dynamic rearrangement in the genomes of this subfamily. Further, we discuss the evolution of these repeated sequences in both autosomes and sex chromosomes in species of Triatominae.


Subject(s)
Animals , Chromosomes, Insect/genetics , Heterochromatin/genetics , Insect Vectors/genetics , Triatominae/genetics , Biological Evolution , Chagas Disease/transmission , DNA, Ribosomal/genetics , Karyotyping , RNA, Ribosomal/genetics , Triatominae/classification
14.
Mem. Inst. Oswaldo Cruz ; 111(9): 577-587, Sept. 2016. tab, graf
Article in English | LILACS | ID: lil-794726

ABSTRACT

Abstract Mosquito midgut microbiota is a key component of vector competence, as gut bacteria can disturb pathogen development. In this study, we addressed the microbiota composition of Aedes aegypti during its lifespan, under field conditions. We also investigated the possible effects of environment, dietary regime and ageing on the gut community composition. We employed culture independent and dependent approaches to characterise vector microbiota. There was evidence of a lifelong stable core microbiota after mosquitoes were released into an urban settlement, where they presumably fed on a range of vertebrate hosts and carbohydrate sources. This core was formed mainly of bacteria belonging to the genera Pseudomonas, Acinetobacter, Aeromonas and Stenotrophomonas and to the families Oxalobacteraceae, Enterobacteriaceae and Comamonadaceae. We showed that both dietary regime and age were associated with the abundance of some bacterial groups in the Ae. aegypti microbiota. The majority of the bacterial groups we identified have been detected in the midgut of Ae. aegypti from laboratory and wild populations, indicating a possible core microbiota associated with this mosquito species. Our findings suggest that Ae. aegypti harbours a stable bacterial community during its adult life, similar to mosquito populations from distinct geographic areas, which may be further explored for arbovirus biocontrol strategies.


Subject(s)
Animals , Aedes/microbiology , Bacteria/classification , Diet , Gastrointestinal Microbiome , Insect Vectors/microbiology , Bacteria/genetics , Bacteria/isolation & purification , DNA, Bacterial/genetics , DNA, Ribosomal/genetics , Microbiota/physiology
15.
Electron. j. biotechnol ; 19(4): 9-15, July 2016. ilus
Article in English | LILACS | ID: lil-793947

ABSTRACT

Background: Agave tequilana has a great economic importance in Mexico in order to produce alcoholic beverages and bioenergy. However, in this species the structure and organization of the rDNAs in the genome are limited, and it represents an obstacle both in their genetic research and improvement as well. rDNA copy number variations per eukaryotic genome have been considered as a source of genetic rearrangements. In this study, the copy number of 18S and 5S rDNAs in the A. tequilana genome was estimated, and an absolute quantitative qPCR assay and genome size was used. In addition, an association between the rDNAs copy number and physical mapping was performed to confirm our results. Results: The analysis were successfully applied to determine copy number of 18S and 5S rDNAs in A. tequilana genome, showing high reproducibility with coefficient of variation (CV) values of 0.014-0.0129%, respectively. A variation of 51 times in the copy number the 18s regarding 5s rDNA was found, thus contributing to genome size of 1.47 and 8.38 x 10-3%, respectively. Similarly, data show a linear relationship (R [2] = 0.992) between rDNA copy number and the detected signals for each of the loci by FISH. The comparison of the rDNA copy number of agave showed differential relationship with other organisms and it may be due to evolutionary ecology.Conclusions: Results show that the proposed method a) can correctly detect the rDNA copy number, b) could be used as species-specific markers and c) might help in understanding the genetic diversity, genome organization and evolution of this species.


Subject(s)
DNA, Ribosomal/genetics , Agave tequilana , Agave/genetics , In Situ Hybridization, Fluorescence , DNA Copy Number Variations , Real-Time Polymerase Chain Reaction
16.
Mem. Inst. Oswaldo Cruz ; 111(7): 417-422, tab, graf
Article in English | LILACS | ID: lil-787553

ABSTRACT

Yeasts of the genus Candida have high genetic variability and are the most common opportunistic pathogenic fungi in humans. In this study, we evaluated the genetic diversity among 120 isolates of Candida spp. obtained from diabetic patients, kidney transplant recipients and patients without any immune deficiencies from Paraná state, Brazil. The analysis was performed using the ITS1-5.8S-ITS2 region and a partial sequence of 28S rDNA. In the phylogenetic analysis, we observed a consistent separation of the species C. albicans, C. dubliniensis, C. glabrata, C. tropicalis, C. parapsilosis, C. metapsilosis and C. orthopsilosis, however with low intraspecific variability. In the analysis of the C. albicans species, two clades were formed. Clade A included the largest number of isolates (91.2%) and the majority of isolates from GenBank (71.4%). The phylogenetic analysis showed low intraspecific genetic diversity, and the genetic polymorphisms between C. albicans isolates were similar to genetic divergence found in other studies performed with isolates from Brazil. This low genetic diversity of isolates can be explained by the geographic proximity of the patients evaluated. It was observed that yeast colonisation was highest in renal transplant recipients and diabetic patients and that C. albicans was the species most frequently isolated.


Subject(s)
Humans , Male , Female , Candida/genetics , Candidiasis, Invasive/genetics , Diabetes Mellitus/microbiology , Genetic Variation , Kidney Transplantation , Brazil/epidemiology , Candida/classification , Candida/isolation & purification , Candidiasis, Invasive/classification , Candidiasis, Invasive/epidemiology , Candidiasis, Invasive/microbiology , Case-Control Studies , Diabetes Complications , DNA, Fungal/analysis , DNA, Ribosomal/genetics , Microbial Sensitivity Tests
17.
Braz. j. microbiol ; 47(1): 18-24, Jan.-Mar. 2016. tab, graf
Article in English | LILACS | ID: lil-775112

ABSTRACT

Abstract Phenol and phenolic compounds are environmental pollutants present in industrial wastewaters such as coal tar, oil refineries and petrochemical plants. Phenol removal from industrial effluents is extremely important for the protection of environment. Usually, phenol degradation is carried out by physicochemical methods that are costly and produce hazardous metabolites. Recently, phenol biodegradation has been considered. Yeasts are the most important phenol biodegraders. In this study, the phenol-degrading yeast from environmental samples (soil and wastewater) was isolated from the coking plant of Zarand, Kerman. Then total heterotrophic yeasts were counted. The soil samples had higher rates of yeast degrader, in comparison to wastewater samples. After three passages, four yeasts (K1, K2, K7 and K11) that had the highest growth rate were selected for further study. Also, these yeasts were able to remove phenol measured by Gibbs reagent. The effect of four different concentrations of phenol (50, 125, 200 and 275) mg L−1 was measured and three degradation patterns in these yeasts were observed. The hydrophobicity and emulsification activity were measured in all eleven yeasts. Finally, strong yeasts in phenol degrading yeasts were identified by molecular method using amplification of 18S rRNA gene region. The sequencing results showed that these isolated yeasts belonged to Candida tropicalis strain K1, Pichia guilliermondii strain K2, Meyerozyma guilliermondii strain K7 and C. tropicalis strain K11.


Subject(s)
Industrial Waste , Phenol/metabolism , Waste Water/microbiology , Water Pollutants, Chemical/metabolism , Yeasts/classification , Yeasts/metabolism , Biotransformation , Cluster Analysis , DNA, Fungal/chemistry , DNA, Fungal/genetics , DNA, Ribosomal/chemistry , DNA, Ribosomal/genetics , Iran , Molecular Sequence Data , Phylogeny , /genetics , Sequence Analysis, DNA , Soil Microbiology , Yeasts/genetics , Yeasts/isolation & purification
18.
Braz. j. microbiol ; 47(1): 85-95, Jan.-Mar. 2016. tab, graf
Article in English | LILACS | ID: lil-775117

ABSTRACT

Abstract The main objective of the present study was to isolate and characterize actinomycetes for their plant growth-promotion in chickpea. A total of 89 actinomycetes were screened for their antagonism against fungal pathogens of chickpea by dual culture and metabolite production assays. Four most promising actinomycetes were evaluated for their physiological and plant growth-promotion properties under in vitro and in vivo conditions. All the isolates exhibited good growth at temperatures from 20 °C to 40 °C, pH range of 7–11 and NaCl concentrations up to 8%. These were also found highly tolerant to Bavistin, slightly tolerant to Thiram and Captan (except VAI-7 and VAI-40) but susceptible to Benlate and Ridomil at field application levels and were found to produce siderophore, cellulase, lipase, protease, chitinase (except VAI-40), hydrocyanic acid (except VAI-7 and VAI-40), indole acetic acid and β-1,3-glucanase. When the four actinomycetes were evaluated for their plant growth-promotion properties under field conditions on chickpea, all exhibited increase in nodule number, shoot weight and yield. The actinomycetes treated plots enhanced total N, available P and organic C over the un-inoculated control. The scanning electron microscope studies exhibited extensive colonization by actinomycetes on the root surface of chickpea. The expression profiles for indole acetic acid, siderophore and β-1,3-glucanase genes exhibited up-regulation for all three traits and in all four isolates. The actinomycetes were identified as Streptomyces but different species in the 16S rDNA analysis. It was concluded that the selected actinomycetes have good plant growth-promotion and biocontrol potentials on chickpea.


Subject(s)
Actinobacteria/growth & development , Cicer/growth & development , Soil Microbiology , Actinobacteria/metabolism , Cluster Analysis , DNA, Bacterial/chemistry , DNA, Bacterial/genetics , DNA, Ribosomal/chemistry , DNA, Ribosomal/genetics , Hydrogen-Ion Concentration , Molecular Sequence Data , Phylogeny , Plant Growth Regulators/metabolism , Rhizosphere , /genetics , Sequence Analysis, DNA , Soil , Sodium Chloride/metabolism , Temperature
19.
Braz. j. microbiol ; 47(1): 1-9, Jan.-Mar. 2016. tab, graf
Article in English | LILACS | ID: lil-775132

ABSTRACT

Abstract This study was conducted to isolate an acid-producing, alkaliphilic bacterium to reduce the alkalinity of cement industry waste (cement kiln dust). Gram-positive isolate KG1 grew well at pH values of 6–12, temperatures of 28–50 °C, and NaCl concentrations of 0–16% and thus was further screened for its potential to reduce the pH of an alkaline medium. Phenotypic characteristics of the KG1 isolate were consistent with those of the genus Bacillus, and the highest level of 16S rRNA gene sequence similarity was found with Bacillus halodurans strain DSM 497 (94.7%). On the basis of its phenotypic characteristics and genotypic distinctiveness from other phylogenetic neighbors belonging to alkaliphilic Bacillus species, the isolated strain was designated B. halodurans strain KG1, with GenBank accession number JQ307184 (= NCIM 5439). Isolate KG1 reduced the alkalinity (by 83.64%) and the chloride content (by 86.96%) of cement kiln dust and showed a potential to be used in the cement industry for a variety of applications.


Subject(s)
Bacillus/growth & development , Bacillus/metabolism , Biotechnology/methods , Industrial Waste , Waste Management/methods , Bacterial Typing Techniques , Bacillus/classification , Bacillus/isolation & purification , Cluster Analysis , Construction Materials , DNA, Bacterial/chemistry , DNA, Bacterial/genetics , DNA, Ribosomal/chemistry , DNA, Ribosomal/genetics , Hydrogen-Ion Concentration , Molecular Sequence Data , Phylogeny , /genetics , Sequence Analysis, DNA , Sodium Chloride/metabolism , Temperature
20.
Mem. Inst. Oswaldo Cruz ; 111(1): 30-36, Jan. 2016. tab
Article in English | LILACS | ID: lil-771079

ABSTRACT

The identification and characterisation of Cryptosporidiumgenotypes and subtypes are fundamental to the study of cryptosporidiosis epidemiology, aiding in prevention and control strategies. The objective was to determine the genetic diversity ofCryptosporidium in samples obtained from hospitals of Rio de Janeiro, Brazil, and Buenos Aires, Argentina. Samples were analysed by microscopy and TaqMan polymerase chain reaction (PCR) assays forCryptosporidium detection, genotyped by nested-PCR-restriction fragment length polymorphism (RFLP) analysis of the 18S rRNA gene and subtyped by DNA sequencing of the gp60 gene. Among the 89 samples from Rio de Janeiro, Cryptosporidium spp were detected in 26 by microscopy/TaqMan PCR. In samples from Buenos Aires,Cryptosporidium was diagnosed in 15 patients of the 132 studied. The TaqMan PCR and the nested-PCR-RFLP detected Cryptosporidium parvum, Cryptosporidium hominis, and co-infections of both species. In Brazilian samples, the subtypes IbA10G2 and IIcA5G3 were observed. The subtypes found in Argentinean samples were IbA10G2, IaA10G1R4, IaA11G1R4, and IeA11G3T3, and mixed subtypes of Ia and IIa families were detected in the co-infections. C. hominis was the species more frequently detected, and subtype family Ib was reported in both countries. Subtype diversity was higher in Buenos Aires than in Rio de Janeiro and two new subtypes were described for the first time.


Subject(s)
Adolescent , Adult , Aged , Child , Child, Preschool , Female , Humans , Infant , Male , Middle Aged , Young Adult , Cryptosporidiosis/microbiology , Cryptosporidium/genetics , DNA, Protozoan/genetics , Genetic Variation/genetics , Argentina , Brazil , Cryptosporidium/classification , DNA, Ribosomal/genetics , Genotype , Polymorphism, Restriction Fragment Length , Sequence Analysis, DNA
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