Relevant bibliographies by topics / 16S rDNA

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  1. Journal articles
  2. Dissertations / Theses
  3. Book chapters
  4. Conference papers
  5. Reports

Academic literature on the topic '16S rDNA'

Author: Grafiati
Published: 4 June 2021
Last updated: 21 February 2023

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Journal articles on the topic "16S rDNA"

1

Fessehaie, A., S. H. De Boer, and C. A. Lévesque. "Molecular characterization of DNA encoding 16S–23S rRNA intergenic spacer regions and 16S rRNA of pectolyticErwiniaspecies." Canadian Journal of Microbiology 48, no. 5 (May 1, 2002): 387–98. http://dx.doi.org/10.1139/w02-026.

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Sequences of 16S rDNAs and the intergenic spacer (IGS) regions between the 16S and 23S rDNA of bacterial strains from genus Erwinia were determined. Comparison of 16S rDNA sequences from different species and subspecies clearly revealed intraspecies–subspecies homology and interspecies heterogeneity. Phylogenetic analyses of 16S rDNA sequence data revealed that Erwinia spp. formed a discrete monophyletic clade with moderate to high bootstrap values. PCR amplification of the 16S–23S rDNA regions using primers complementary to the 3' end of 16S and 5' end of 23S rRNA genes generated two DNA fragments. The small 16S–23S rDNA IGS regions of Erwinia spp. examined in this study varied considerably in size and nucleotide sequence. Multiple sequence alignment and phylogenetic analysis of small IGS sequence data showed a consistent relationship among the test strains that was roughly in agreement with the 16S rDNA data that reflected the accepted species and subspecies structure of the taxon. Sequence data derived from the large IGS resolved the strains into coherent groups; however, the sequence information would not allow any phylogenetic conclusion, because it failed to reflect the accepted species structure of the test strains.Key words: Erwinia spp., 16S rDNA, intergenic spacer region, tRNA genes, phylogeny.
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Fukatsu, Takema, and Naruo Nikoh. "Two Intracellular Symbiotic Bacteria from the Mulberry Psyllid Anomoneura mori (Insecta, Homoptera)." Applied and Environmental Microbiology 64, no. 10 (October 1, 1998): 3599–606. http://dx.doi.org/10.1128/aem.64.10.3599-3606.1998.

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ABSTRACT We characterized the intracellular symbiotic bacteria of the mulberry psyllid Anomoneura mori by performing a molecular phylogenetic analysis combined with in situ hybridization. In its abdomen, the psyllid has a large, yellow, bilobed mycetome (or bacteriome) which consists of many round uninucleated mycetocytes (or bacteriocytes) enclosing syncytial tissue. The mycetocytes and syncytium harbor specific intracellular bacteria, the X-symbionts and Y-symbionts, respectively. Almost the entire length of the bacterial 16S ribosomal DNA (rDNA) was amplified and cloned from the whole DNA ofA. mori, and two clones, the A-type and B-type clones, were identified by restriction fragment length polymorphism analysis. In situ hybridization with specific oligonucleotide probes demonstrated that the A-type and B-type 16S rDNAs were derived from the X-symbionts and Y-symbionts, respectively. Molecular phylogenetic analyses of the 16S rDNA sequences showed that these symbionts belong to distinct lineages in the γ subdivision of the Proteobacteria. No 16S rDNA sequences in the databases were closely related to the 16S rDNA sequences of the X- and Y-symbionts. However, the sequences that were relatively closely related to them were the sequences of endosymbionts of other insects. The nucleotide compositions of the 16S rDNAs of the X- and Y-symbionts were highly AT biased, and the sequence of the X-symbiont was the most AT-rich bacterial 16S rDNA sequence reported so far.
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Wang, Haiyin, Pengcheng Du, Juan Li, Yuanyuan Zhang, Wen Zhang, Na Han, Patrick C. Y. Woo, and Chen Chen. "Comparative analysis of microbiome between accurately identified 16S rDNA and quantified bacteria in simulated samples." Journal of Medical Microbiology 63, no. 3 (March 1, 2014): 433–40. http://dx.doi.org/10.1099/jmm.0.060616-0.

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Although 16S rRNA gene (rDNA) sequencing is the gold standard for categorizing bacteria or characterizing microbial communities its clinical utility is limited by bias in metagenomic studies, in either the experiments or the data analyses. To evaluate the efficiency of current metagenomic methods, we sequenced seven simulated samples of ten bacterial species mixed at different concentrations. The V3 region of 16S rDNA was targeted and used to determine the distribution of bacterial species. The number of target sequences in individual simulated samples was in the range 1–1000 to provide a better reflection of natural microbial communities. However, for a given bacterial species present in the same proportion but at different concentrations, the observed percentage of 16S rDNAs was similar, except at very low concentrations that cannot be detected by real-time PCR. These results confirmed that the comparative microbiome in a sample characterized by 16S rDNA sequencing is sufficient to detect not only potential infectious pathogens, but also the relative proportion of 16S rDNA in the sample.
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Riley, Donald E., Richard E. Berger, David C. Miner, and John N. Krieger. "Diverse and Related 16S rRNA-Encoding DNA Sequences in Prostate Tissues of Men with Chronic Prostatitis." Journal of Clinical Microbiology 36, no. 6 (1998): 1646–52. http://dx.doi.org/10.1128/jcm.36.6.1646-1652.1998.

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Treatment of chronic prostatitis/chronic pelvic pain syndrome is often empirical because clinical culture methods fail to detect prostate-associated pathogens in >90% of patients. Previously, we tested a variety of specific-microorganism PCRs and began a DNA sequence study after we found that 77% of prostatitis patients were PCR positive for prokaryotic rRNA-encoding DNA sequences (rDNAs) despite negative cultures using optimal techniques. In the present study, 36 rDNA clones from 23 rDNA-positive patients were sequenced. This study represents more than twice the total rDNA sequence and more than twice the number of patients in the previous study. The increased number of patients and clones sequenced allowed enhanced phylogenetic analyses and refinements in our view of rDNA species inhabiting the prostate. A continuum of related rDNAs that might be arbitrarily described as two major groups of rDNAs and several minor groups was found. Sequences termed Pros A, identified in 8 (35%) of 23 rDNA-positive patients, grouped withAeromonas spp. in phylogenetic studies. Sequences termed Pros B, identified in 17 (74%) of 23 rDNA-positive patients, were distinct from previously reported sequences, although all were >90% similar to known gram-negative bacteria. Of the nine patients for whom multiple rDNAs were sequenced, six had biopsy specimens containing rDNAs from more than one species. Four (17%) patients had rDNAs different from those of the Pros A and Pros B groups. Of these four, one patient had rDNA similar to that ofFlavobacterium spp., another had rDNA similar to that of Pseudomonas testosteroni, and two patients had rDNAs <70% similar to known rDNAs. These findings suggest that the prostate can harbor bacteria undetectable by traditional approaches. Most of these diverse sequences are not reported in environments outside the prostate. The sequence similarities suggest adaptation of limited groups of bacteria to the microenvironment of the prostate. Further studies may elucidate the relationship of prostate-associated bacteria to chronic prostatitis/chronic pelvic pain syndrome.
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Li, Yuanping, Yanrong Chen, Yaoning Chen, Yanxin Wu, Chun Zhang, Zhen Peng, Yihuan Liu, Sha Wang, Ran Xu, and Ziping Zeng. "Effects of Physico-Chemical Parameters on Actinomycetes Communities during Composting of Agricultural Waste." Sustainability 11, no. 8 (April 13, 2019): 2229. http://dx.doi.org/10.3390/su11082229.

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The objective of this study was to investigate the influence of physico-chemical parameters on Actinomycetes communities and to prioritize those parameters that contributed to Actinomycetes community composition during the composting of agricultural waste. Denaturing gradient gel electrophoresis of polymerase chain reaction (PCR-DGGE) and redundancy analysis (RDA) were used to determine the relationships between those parameters and Actinomycetes community composition. Quantitative PCR (qPCR) and regression analysis were used to monitor the 16S rDNA copy numbers of Actinomycetes and to analyse the correlations between physico-chemical parameters and Actinomyces 16S rDNA gene abundance, respectively. The RDA results showed that moisture content, water soluble carbon (WSC) and pH (p < 0.05) made the main contributions to the temporal variations of Actinomycetes community composition. The output of the regression analysis indicated that moisture content (R2 = 0.407, p < 0.01) showed a negative linear relationship with the Actinomyces 16S rDNA gene abundance.
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Dahllöf, Ingela, Harriet Baillie, and Staffan Kjelleberg. "rpoB-Based Microbial Community Analysis Avoids Limitations Inherent in 16S rRNA Gene Intraspecies Heterogeneity." Applied and Environmental Microbiology 66, no. 8 (August 1, 2000): 3376–80. http://dx.doi.org/10.1128/aem.66.8.3376-3380.2000.

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ABSTRACT Contemporary microbial community analysis frequently involves PCR-amplified sequences of the 16S rRNA gene (rDNA). However, this technology carries the inherent problem of heterogeneity between copies of the 16S rDNA in many species. As an alternative to 16S rDNA sequences in community analysis, we employed the gene for the RNA polymerase beta subunit (rpoB), which appears to exist in one copy only in bacteria. In the present study, the frequency of 16S rDNA heterogeneity in bacteria isolated from the marine environment was assessed using bacterial isolates from the red alga Delisea pulchra and from the surface of a marine rock. Ten strains commonly used in our laboratory were also assessed for the degree of heterogeneity between the copies of 16S rDNA and were used to illustrate the effect of this heterogeneity on microbial community pattern analysis. The rock isolates and the laboratory strains were also used to confirm nonheterogeneity of rpoB, as well as to investigate the versatility of the primers. In addition, a comparison between 16S rDNA and rpoB PCR-DGGE (denaturing gradient gel electrophoresis)-based community analyses was performed using a DNA mixture of nine isolates from D. pulchra. Eight out of 14 isolates from D. pulchra, all rock isolates, and 6 of 10 laboratory strains displayed multiple bands for 16S rDNA when analyzed by DGGE. There was no indication of heterogeneity for either the rock isolates or the laboratory strains when rpoB was used for PCR-DGGE analysis. Microbial community pattern analysis using 16S rDNA PCR-DGGE showed an overestimation of the number of laboratory strains in the sample, while some strains were not represented. Therefore, the 16S rDNA PCR-DGGE-based community analysis was proven to be severely limited by 16S rDNA heterogeneity. The mixture of isolates from D. pulchra proved to be more accurately described using rpoB, compared to the 16S rDNA-based PCR-DGGE.
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BAO, Qiongli, Long-Jun DING, Yizong HUANG, and Keqing XIAO. "Effect of rice straw and/or nitrogen fertiliser inputs on methanogenic archaeal and denitrifying communities in a typical rice paddy soil." Earth and Environmental Science Transactions of the Royal Society of Edinburgh 109, no. 3-4 (September 2018): 375–86. http://dx.doi.org/10.1017/s1755691018000580.

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ABSTRACTTo understand better the microbial functional populations which are involved in methanogenesis and denitrification in paddy soils with rice straw (RS) and/or nitrogen fertiliser (potassium nitrate, N) application, the dynamics of methanogens and the denitrifying community were monitored simultaneously during the incubation period. The results show that the community structure of methanogens remained relatively stable among treatments based on 16S rDNA analysis, but fluctuated based on 16S rRNA. The Methanocellaceae and Methanosarcinaceae dominated all treatments at 16S rDNA and 16S rRNA level, respectively. RS+N increased the relative abundance of Methanosaetaceae at the 16S rRNA level, while there was an increasing trend in that Methanomicrobiaceae following RS addition at the 16S rDNA level. RS and/or N did not significantly change the diversity of methanogens targeting both 16S rDNA and 16S rRNA. RS and RS+N increased copy numbers of methanogens targeting both 16S rDNA and 16S rRNA analyses. The community structure and abundance of nirS and nosZ-containing denitrifiers, and the diversity of nirS-containing denitrifiers was significantly altered only by the N treatment. These results indicate that the community structure, diversity and abundance of methanogens respond differently to RS addition at the 16S rDNA and 16S rRNA levels.
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Reischl, U., K. Feldmann, L. Naumann, B. J. M. Gaugler, B. Ninet, B. Hirschel, and S. Emler. "16S rRNA Sequence Diversity in Mycobacterium celatum Strains Caused by Presence of Two Different Copies of 16S rRNA Gene." Journal of Clinical Microbiology 36, no. 6 (1998): 1761–64. http://dx.doi.org/10.1128/jcm.36.6.1761-1764.1998.

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Direct sequencing of the 16S rRNA gene (16S rDNA) ofMycobacterium celatum isolates showed ambiguities, suggesting heterogeneity. Cloned 16S rDNA yielded two copies of the gene, which differed by insertion of a thymine at position 214 and by additional mismatches. Restriction fragment length polymorphism analysis confirmed the presence of two copies of 16S rDNA within the bacterial chromosome.
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O'Donnell, Anthony G., and Heike E. Görres. "16S rDNA methods in soil microbiology." Current Opinion in Biotechnology 10, no. 3 (June 1999): 225–29. http://dx.doi.org/10.1016/s0958-1669(99)80039-1.

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Lamy, Brigitte, Fréderic Laurent, and Angeli Kodjo. "Validation of a partialrpoBgene sequence as a tool for phylogenetic identification of aeromonads isolated from environmental sources." Canadian Journal of Microbiology 56, no. 3 (March 2010): 217–28. http://dx.doi.org/10.1139/w10-006.

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A collection of 50 aeromonads isolated from environmental sources were studied, together with all known Aeromonas nomenspecies, by phenotypic, amplified 16S rDNA restriction analysis (16S rDNA RFLP) and by partial sequence alignment of both 16S rDNA and rpoB genes. Although most of the type strain showed a unique phenotypic pattern, a database constructed on type strain phenotype allowed the identification of only 24% of the isolates. Analysis of 16S rDNA RFLP and the rpoB sequence were almost concordant in identifying environmental isolates at the species level, except for strains belonging to Aeromonas caviae spp., which were not differentiated from Aeromonas aquariorum , nor Aeromonas hydrophila susbsp. dhakensis by 16S rDNA RFLP. In addition, rpoB gene analysis clustered separately a group of isolates found in snails within the A. hydrophila species. In contrast to 16S rDNA RFLP and rpoB, the partial 16S rDNA sequence analysis was weak in resolving species identity. Part of these results, phenotypic and phylogenetic data, showed that Aeromonas molluscorum and Aeromonas sharmana are distant from all other Aeromonas species and that the type species of A. hydrophila subsp. anaerogenes is similar to A. caviae and should be considered synonymous.
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Dissertations / Theses on the topic "16S rDNA"

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Adams, John D. W. "PCR amplification of Azospirillum 16S rDNA from natural environments." Thesis, University of Newcastle Upon Tyne, 1998. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.297528.

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Cheon, Ji Hoon. "Characterization and monitoring of microbial diversity in anaerobic bioreactor based on 16S rDNA." 京都大学 (Kyoto University), 2006. http://hdl.handle.net/2433/143997.

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Kyoto University (京都大学)
0048
新制・課程博士
博士(工学)
甲第12307号
工博第2636号
新制||工||1372(附属図書館)
24143
UT51-2006-J299
京都大学大学院工学研究科都市環境工学専攻
(主査)教授 津野 洋, 教授 武田 信生, 教授 田中 宏明
学位規則第4条第1項該当
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Toledo, Bethânia Figueiredo Barbosa de [UNESP]. "Identificação de estirpes de rizóbios por seqüenciamento parcial dos genes 16S rDNA e nifH." Universidade Estadual Paulista (UNESP), 2008. http://hdl.handle.net/11449/92670.

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Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)
A crescente demanda de alimentos causada pelo aumento populacional, aliado a alto custo de fertilizantes industrializados e impacto ambiental causado por eles leva, mundialmente, à utilização em grande escala de inoculantes de bactérias fixadoras de nitrogênio. Os inoculantes utilizados no Brasil (coleção SEMIA- IPAGRO) ainda não estão suficientemente caracterizados geneticamente. O objetivo deste trabalho foi avaliar e confrontar as seqüências parciais dos genes 16S rDNA e nifH de 26 estirpes padrões já classificadas, com 70 estirpes de rizóbios recomendadas e autorizadas para a produção de inoculantes no Brasil. Para esta finalidade, a partir das amostras de DNA extraídos destas bactérias foram realizadas reações de PCR com oligonucleotídeos iniciadores relativos à região codificadora do gene 16S rDNA e do nifH, sendo então seqüenciadas com o objetivo de detectar diferenças nucleotídicas entre as diferentes bactérias estudadas. Para a comparação dos resultados do seqüenciamento com a consulta de similaridade de nucleotídeos no BLASTn, foram geradas árvores filogenéticas através de ferramentas de bioinformática. Foi observado que a classificação taxonômica das estirpes SEMIA recomendadas para inoculação de leguminosas previamente disponível na FEPAGRO, com base em propriedades morfológicas e especificidade hospedeira, não foi confirmada em todas as estirpes pelos sequenciamentos parciais dos genes estudados. Sugerimos revisão da classificação destas estirpes. Concluímos também que a consulta de similaridade ao BLASTn pelo seqüenciamento parcial dos genes 16S rDNA e nifH é, na maioria dos casos, consistente com a classificação proposta pela construção de árvores filogenéticas destas sequências. Estas ferramentas apresentaram-se muito confiáveis para obtenção de classificação em nível de gênero das estirpes estudadas.
The growing demand for food caused by population growth, combined with high cost of fertilizers and industrial environmental impacts caused by them leading, worldwide, the large scale use of inoculants different nitrogen-fixing bacteria. The inoculants used in Brazil (SEMIA-IPAGRO collection) are not yet sufficiently characterized genetically. The purpose of this study was to evaluate and compare the sequences of partial 16S rDNA and nifH of 26 strains already classified, with 70 strains of rhizobia recommended and authorized for the production of inoculants in Brazil. For this purpose, from DNA samples taken from these bacteria were performed with PCR reactions with primers on the coding region of the gene 16S rDNA and nifH, and sequencing with the aim of detecting nucleotide differences between different bacteria studied. To compare the results of the consultation of similarity of sequences of nucleotides in BLASTn, phylogenetic trees were generated through bioinformatics tools. It was observed that the taxonomic classification of strains SEMIA recommended for inoculation of legumes previously available in FEPAGRO, based on morphological properties and host specificity, it wasn’t confirmed in all strains by partial sequencing of the genes studied. We suggest reviewing the classification of these strains. We concluded that the similarity of the consultation BLASTn by partial sequencing of 16S rDNA and nifH is, in most cases, consistent with the classification proposed by the construction of phylogenetic trees of these sequences. These tools were very reliable for obtaining classified in the genus level of strains studied.
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Netto, Osmar Vaz de Carvalho. "Identificação de bactérias contaminantes de fermento de cachaça por seqüenciamento do gene 16S rDNA." Universidade de São Paulo, 2007. http://www.teses.usp.br/teses/disponiveis/11/11138/tde-08082007-164157/.

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A cachaça é uma bebida típica brasileira produzida a partir da destilação do caldo de canade- açúcar fermentado principalmente por Saccharomyces cerevisiae. Grande parte da produção nacional é artesanal, e não há uma preocupação por parte dos produtores quanto ao controle microbiológico da fermentação. Este trabalho objetivou caracterizar a comunidade bacteriana contaminante do fermento utilizado na produção de cachaça. Foram coletadas quatro amostras em um alambique artesanal. A primeira (NA) foi coletada um ano anterior às outras três e utilizada como controle. As restantes foram coletadas ao final do primeiro dia de fermentação (NP), após quinze (NS) e trinta dias (NT) utilizando o mesmo fermento. Um total de 587 seqüências de 16S rDNA foram analisadas, sendo 81 da amostra NA, 177 da amostra NP, 159 da amostra NS e 170 da amostra NT. As análises das seqüências revelaram a presença de 17 gêneros e 27 espécies, além de 27 bactérias não conhecidas. Cento e setenta unidades taxonômicas operacionais (UTOs) foram identificadas utilizando o software DOTUR com uma distância evolucionária de 0.03. Quarenta e três UTOs foram identificadas na amostra controle (NA), 38 na NP, 57 na amostra NS e 38 na terceira amostra (NT). Das 170 UTOs identificadas, apenas dezessete foram identificadas duas vezes em diferentes amostras e somente uma, identificada como Lactobacillus hilgardii, foi identificada três vezes, evidenciando uma grande dinâmica populacional bacteriana durante o processo fermentativo. Análises estatísticas utilizando o software S-LIBSHUFF indicaram diferenças significativas na composição bacteriana entre amostras. Foram encontradas espécies/gêneros ainda não descritas na literatura em fermentos de cachaça, como Weissella cibaria, Leuconostoc citreum e algumas espécies de Lactobacillus. Além destas, várias bactérias não conhecidas também foram identificadas. Os resultados revelaram que a comunidade de bactérias contaminantes do processo fermentativo é muito mais complexa do que se conhecia, com características heterofermentativas e produção de congêneres que provavelmente refletem na qualidade da bebida. Este é o primeiro relato da utilização do método de seqüenciamento do gene 16S rDNA para determinar contaminantes bacterianos em fermentados de cana-de-açúcar para produção de cachaça.
Cachaça is a typical Brazilian spirit made from sugar cane fermented mainly by Saccharomyces cerevisiae. The production is mostly artisanal, and there is no microbiological control during the fermentation process. The objective of this study was to assess the bacterial community associated with the ferment used in the production of cachaça. Four ferment samples were collected from an artisanal still. The first one (NA), was collected one year previously to the other three and constituted a control reference. The remaining three samples were collected at the end of the first day of fermentation (NP), and fifteen (NS) and thirty days (NT) after using this same ferment. A total of 587 16S rDNA sequences were analyzed, being 81 sequences from the NA sample, 177 from NP, 159 from NS, and 170 from the NT sample. Sequence analyses revealed the presence of 17 genus and 27 species plus 27 unknown species. One hundred and seventy operational taxonomic units (OTUs) were identified using the DOTUR software using a cut-off evolutionary distance of 0.03. Forty three were identified in the control (NA) sample, 38 in the NP, 57 in NS, and 38 in the third (NT) sample. Of the 170 OTUs, only seventeen were detected twice in different samples and only one, identified as Lactobacillus hilgardii, was identified thrice, indicating a dynamic nature of the bacterial community during the fermentation process. Statistical analysis using the software S-LIBSHUFF indicated significant differences in the bacterial composition among samples. Our analyses also allowed to identify several bacteria not yet described as contaminants of the cachaça ferment, such as Weissella cibaria, Leuconostoc citreum and some Lactobacillus species. In addition, several unknown bacteria were also detected. The results revealed a much larger bacterial contaminant community present in the fermentative process of cachaça than previously reported with heterofermentative ability to produce secondary compounds which probably influence the quality of the final beverage. This is the first report on the utilization of the 16S rDNA sequencing method to assess the bacterial diversity of sugar cane fermentation for the production of cachaça.
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Toledo, Bethânia Figueiredo Barbosa de. "Identificação de estirpes de rizóbios por seqüenciamento parcial dos genes 16S rDNA e nifH /." Jaboticabal : [s.n.], 2008. http://hdl.handle.net/11449/92670.

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Orientadora: Eliana Gertrudes de Macedo Lemos
Banca: Maria José Valarini
Banca: Jaime Maia dos Santos
Resumo: A crescente demanda de alimentos causada pelo aumento populacional, aliado a alto custo de fertilizantes industrializados e impacto ambiental causado por eles leva, mundialmente, à utilização em grande escala de inoculantes de bactérias fixadoras de nitrogênio. Os inoculantes utilizados no Brasil (coleção SEMIA- IPAGRO) ainda não estão suficientemente caracterizados geneticamente. O objetivo deste trabalho foi avaliar e confrontar as seqüências parciais dos genes 16S rDNA e nifH de 26 estirpes padrões já classificadas, com 70 estirpes de rizóbios recomendadas e autorizadas para a produção de inoculantes no Brasil. Para esta finalidade, a partir das amostras de DNA extraídos destas bactérias foram realizadas reações de PCR com oligonucleotídeos iniciadores relativos à região codificadora do gene 16S rDNA e do nifH, sendo então seqüenciadas com o objetivo de detectar diferenças nucleotídicas entre as diferentes bactérias estudadas. Para a comparação dos resultados do seqüenciamento com a consulta de similaridade de nucleotídeos no BLASTn, foram geradas árvores filogenéticas através de ferramentas de bioinformática. Foi observado que a classificação taxonômica das estirpes SEMIA recomendadas para inoculação de leguminosas previamente disponível na FEPAGRO, com base em propriedades morfológicas e especificidade hospedeira, não foi confirmada em todas as estirpes pelos sequenciamentos parciais dos genes estudados. Sugerimos revisão da classificação destas estirpes. Concluímos também que a consulta de similaridade ao BLASTn pelo seqüenciamento parcial dos genes 16S rDNA e nifH é, na maioria dos casos, consistente com a classificação proposta pela construção de árvores filogenéticas destas sequências. Estas ferramentas apresentaram-se muito confiáveis para obtenção de classificação em nível de gênero das estirpes estudadas.
Abstract: The growing demand for food caused by population growth, combined with high cost of fertilizers and industrial environmental impacts caused by them leading, worldwide, the large scale use of inoculants different nitrogen-fixing bacteria. The inoculants used in Brazil (SEMIA-IPAGRO collection) are not yet sufficiently characterized genetically. The purpose of this study was to evaluate and compare the sequences of partial 16S rDNA and nifH of 26 strains already classified, with 70 strains of rhizobia recommended and authorized for the production of inoculants in Brazil. For this purpose, from DNA samples taken from these bacteria were performed with PCR reactions with primers on the coding region of the gene 16S rDNA and nifH, and sequencing with the aim of detecting nucleotide differences between different bacteria studied. To compare the results of the consultation of similarity of sequences of nucleotides in BLASTn, phylogenetic trees were generated through bioinformatics tools. It was observed that the taxonomic classification of strains SEMIA recommended for inoculation of legumes previously available in FEPAGRO, based on morphological properties and host specificity, it wasn't confirmed in all strains by partial sequencing of the genes studied. We suggest reviewing the classification of these strains. We concluded that the similarity of the consultation BLASTn by partial sequencing of 16S rDNA and nifH is, in most cases, consistent with the classification proposed by the construction of phylogenetic trees of these sequences. These tools were very reliable for obtaining classified in the genus level of strains studied.
Mestre
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Ziegler, Katie. "Phylogenetic Analysis of a Group of Enteric Bacteria Based on 16S rDNA Gene Sequencing." Miami University Honors Theses / OhioLINK, 2004. http://rave.ohiolink.edu/etdc/view?acc_num=muhonors1111684418.

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Wood, Jacqueline. "Analysis of bacterial populations from the rumen by means of 16S rDNA directed oligonucleotides." Thesis, University of Aberdeen, 1997. http://digitool.abdn.ac.uk/R?func=search-advanced-go&find_code1=WSN&request1=AAIU100186.

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The overall aim of this work was to develop molecular based techniques that would allow the identification and quantification of Prevotella spp. in samples of rumen fluid. This was achieved by developing two methods, both based on PCR amplification of 16S rDNA extracted from rumen and faecal samples. The first method involved the amplification of microbial DNA with universal primers, followed by probing with either a Bacteroides Prevotella specific oligonucleotide (Bac/Pre) or a universal oligonucleotide. Comparison with control DNA extracted from pure cultures allowed the relative abundances of Bacteroides and Prevotella spp. to be calculated for samples of rumen fluid and faecal material. In rumen fluid samples the abundance of Bacteroides and Prevotella spp. ranged from 12 to 22% in samples from sheep and up to 36% in a sample of cow rumen fluid. In the faecal samples only 2 to 6% of the total bacteria population belonged to Bacteroides and Prevotella spp. A second method based on PCR-RFLP was developed for the identification of different Bacteroides/Prevotella ribotypes in rumen fluid and faecal samples. The combination of the two techniques allows the Bacteroides and Prevotella spp. present in the rumen to be comprehensively studied and were used to follow changes occurring in the rumen of two sheep whose diets were changed from a high barley diet to a high hay diet. Considerable variation in the Bacteroides and Prevotella population was found between the two animals during the experiment. For example, when both animals were being fed the high hay diet, one animal had 43% of the Bacteroides/Prevotella population belonging to ribotype 7, whereas the other animal contained no DNA belonging to ribotype 7. This work clearly demonstrates the use of the molecular techniques to study changes occurring within the complex ecosystem, such as the rumen. The development of additional 16S rDNA directed oligonucleotides specific for other rumen bacteria could allow all the major rumen bacteria to be investigated using the techniques presented here.
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ARAÚJO, Livia Caroline Alexandre de. "Caracterização molecular das linhagens de Zymomonas mobilis da coleção de micro-organismos UFPEDA." Universidade Federal de Pernambuco, 2014. https://repositorio.ufpe.br/handle/123456789/17179.

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Zymomonas mobilis vem despertando um grande interesse no meio científico, industrial e biotecnológico devido ao seu alto potencial fermentativo. Do ponto de vista taxonômico, Z. mobilis é a única espécie do gênero Zymomonas, e é subdivida em três subespécies: Z. mobilis subsp. mobilis, Z. mobilis subsp. pomaceae e Z. mobilis subsp. francensis. A diferenciação destas subespécies é baseada em testes fisiológicos. Estes testes consomem tempo e são frequentemente duvidosos. Por isso, técnicas moleculares são propostas como uma alternativa rápida e confiável para diferenciação destas bactérias. O presente estudo teve como objetivo realizar a caracterização molecular das 32 linhagens de Zymomonas mobilis depositadas na Coleção de Microrganismos UFPEDA, através da análise das sequências do gene 16S rDNA e ARDRA. As linhagens foram cultivadas em meio SSDL por 24 horas à 30º, seguida de centrifugação e extração de DNA cromossômico. As reações de PCR foram realizadas com iniciadores e condições específicas para a amplificação do gene 16S rDNA. Os produtos do gene 16S rDNA amplificados foram purificados, sequenciados e clivados com as enzimas de restrição Hae III, NdeII e StuI. Os dados obtidos pelo sequenciamento do gene 16S rDNA foram analisados, comparados e alinhados, pelo programas BLASTn e MultiAlin, com sequências de linhagens de Z. mobilis previamente depositadas no banco de dados GenBank. Um dendograma foi construido através do programa ClustalW pelo método de neighbor-joining Os perfis de restrição teórico das enzimas de restrição Hae III, NdeII e StuI foram gerados a partir do WebCutter 2.0. Dendogramas foram construídos a partir da matriz de similaridade genética de Jaccard, calculada pela análise dos perfis de restrição teóricos de cada enzima. A análise das sequências obtidas no presente estudo revelou o elevado grau de conservação no gene 16SrDNA, confirmando a relação de proximidade das linhagens de Zymomonas mobilis depositadas na Coleção de Micro-organismos UFPEDA e a aproximidade com a Z. mobilis subsp. mobilis LMG445, sugerindo que as linhagens desta coleção pertencem a esta subespécie.Além disso, conclui-se que a análise do perfil restrição teórico do gene 16S rDNA possibilita a diferenciação de Z. mobilis,a nível de subespécie, mas não é eficaz para analisar a variabilidade genética entre as linhagens de Z. mobilis UFPEDA. Baseados nestes resultados, outros marcadores filogenéticos devem ser empregados para analisar a variabilidade genética destas linhagens, possibilitando um melhor conhecimento da diversidade desta bactéria.
Zymomonas mobilis has attracted great interest in the scientific, industrial and biotechnological medium due to its high fermentation potential. The taxonomic viewpoint, Z. mobilis is the only species of the genus Zymomonas , and is subdivided into three subspecies : Z. mobilis subsp. mobilis, Z. mobilis subsp. pomaceae and Z. mobilis subsp. francensis. The differentiation of these subspecies is based on physiological tests. These tests are time consuming and often unreliable. Therefore, molecular techniques are proposed as a fast and reliable alternative to differentiation of these bacteria. This study aims to perform molecular characterization of 32 strains of Zymomonas mobilis deposited in the Collection of Microorganisms UFPEDA by sequence analysis of 16S rDNA gene and the theoretical restriction profile of this gene. The strains were grown in SSDL for 24 hours at 30 ° , followed by centrifugation and extraction of chromosomal DNA . PCR reactions were performed with primers and specific conditions for amplification of the 16S rDNA gene. The amplified products of 16S rDNA were purified, sequenced, and cleaved with restriction enzymes Hae III, NdeII and StuI . The data obtained by 16S rDNA gene were analyzed, compared and aligned by BLASTn and MultiAlin programs with sequences of strains of Z. mobilis previously deposited in the GenBank databas . A dendogram was constructed using the program ClustalW method by neighbor-joining. Profiles theoretical restriction of restriction enzyme Hae III, NdeII and StuI were generated from WebCutter 2.0. Dendrograms were constructed from the genetic Jaccard similarity matrix, calculated by analyzing the theoretical restriction profiles of each enzyme. The analysis of the sequences obtained in this study revealed the high degree of conservation in 16SrDNA gene, confirming the close relationship of strains of Zymomonas mobilis deposited in the Collection of Micro-organisms UFPEDA and closeness with Z. mobilis subsp. mobilis LMG445, suggesting that the strains in this collection belong to this subespécie. In addition, it is concluded that the theoretical restriction profile analysis of the 16S rDNA gene allows differentiation of Z. mobilis , the level of subspecies , but it is not effective to analyze the genetic variability between strains of Z. mobilis UFPEDA . Based on these results , other phylogenetic markers should be employed to analyze the genetic variability of these strains , allowing a better understanding of the diversity of this bacteria.
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Naamala, J., SK Jaiswal, and FD Dakora. "Microsymbiont diversity and phylogeny of native bradyrhizobia associated with soybean (Glycine max L. Merr.) nodulation in South African soils." Systematic and Applied Microbiology, 2016. http://encore.tut.ac.za/iii/cpro/DigitalItemViewPage.external?sp=1001977.

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Abstract The genetic diversity and identification of slow- and fast- growing soybean root nodule bacterial isolates from different agro-climatic regions in Mpumalanga, Limpopo and Gauteng Provinces of South Africa were evaluated. The 16S-rDNA-RFLP analysis of 100 rhizobial isolates and eight reference type strains placed the isolates into six major clusters, and revealed their site-dependent genomic diversity. Sequence analysis of single and concatenated housekeeping genes (atpD, glnII and gyrB), as well as the symbiotic gene nifH captured a considerably higher level of genetic diversity and indicated the dominance of Bradyrhizobium diazoefficiens and Bradyrhizobium japonicum in Mpumalanga, Limpopo and Gauteng Provinces. Gene sequence similarities of isolates with type strains of Bradyrhizobium ranged from 97.3 to 100% for the 16S rDNA, and 83.4 to 100% for the housekeeping genes. The glnII gene phylogeny showed discordance with the other genes, suggesting lateral gene transfer or recombination events. Concatenated gene sequence analysis showed that most of the isolates did not align with known type strains and might represent new species from South Africa. This underscores the high genetic variability associated with soybean Bradyrhizobium in South African soils, and the presence of an important reservoir of novel soybean-nodulating bradyrhizobia in the country. In this study, the grouping of isolates was influenced by site origin, with Group I isolates originating from Limpopo Province and Group II and III from Mpumlanga Province in the 16S rDNA-RFLP analysis.
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Saraiva, Pedro Miguel Pinheiro. "Bacterial diversity in groundwater samples from Estremenho Karst Massif (Portugal) revealed by 16S rDNA pyrosequency." Master's thesis, Universidade de Aveiro, 2016. http://hdl.handle.net/10773/18544.

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Mestrado em Biologia Molecular e Celular
Groundwater provides an important freshwater source, that is many times overexploited and suffer pressures from superficial pollution. Therefore, it is of major interest to go further in the understanding of these environments. The present study examined, for the first time, the composition and diversity of bacterial communities present in groundwater from the Estremenho kart massif (Central-Western Portugal), through culture-independent molecular approaches, DGGE and pyrosequencing based on 16 rDNA sequences). Results showed that this particular environment was generally dominated by Proteobacteria (61.83%), with special relevance to Thiobacterales Rhodocyclales, Burkholderiales and Neisseriales (Betaproteobacteria) Orders; Sphingomonadales (Alphaproteobacteria) Order, Xanthomonadales and Acidiferrobacterales (Gammaproteobacteria) Orders. Other less abundant phyla included the Bacteroidetes, (Sphingobacteriia), Actinobacteria (Acidimicrobiia), Acidobacteria, Firmicutes (Bacilli), Elusimicrobia (Elusimicrobia), Gemmatimonadetes all normally present in freshwaters. Results from both molecular approaches showed a similar clustering observed for some samples, characterized by a direct influence from surface environments and indicating an impact from pollution sources, corroborated by the dominant taxa in those samples: genera Limnohabitans and Sphingopyxis and members of the order Sphingobacteriales, commonly related to superficial and polluted waters. These data suggest an interaction of direct impact of surface land use/land cover on groundwater bacterial communities. This study is the first research for the determination of the composition and characterization of the bacterial communities from one of the biggest and most important karst massif in Iberian Peninsula.
A água subterrânea constitui uma importante fonte de água doce, que muitas vezes é sobre explorada e impactada pela poluição superficial. É por isso, de grande interesse a compreensão deste ambiente. Neste sentido, o presente estudo pretendeu analisar pela primeira vez a composição e diversidade de comunidades bacterianas presentes nas águas subterrâneas do Maciço Calcário Estremenho (Centro-Oeste Portugal), através de abordagens moleculares independentes de cultura DGGE e Pirosequenciação. Os resultados revelaram que este ambiente em particular é geralmente dominado pelo filo Proteobacteria (61,83%) com especial relevância para as ordens Thiobacterales, Rhodocyclales, Burkholderiales e Neisseriales (Betaproteobacteria); Sphingomonadales (Alphaproteobacteria) e Xanthomonadales, Acidiferrobacterales (Gammaproteobacteria). Entre outros filos com menos representatividade como Bacteroidetes (Sphingobacteriia), Actinobacteria (Acidimicrobiia), Acidobacteria, Firmicutes (Bacilli), Elusimicrobia (Elusimicrobia), Gemmatimonadetes, todas elas presentes normalmente em águas doces. Os resultados de ambas as abordagens moleculares mostraram um agrupamento semelhante observado para algumas amostras, caracterizado por uma influência direta dos ambientes superficiais e indicando um impacto de fontes de poluição, corroborado pelos taxa dominantes nessas amostras: gêneros Limnohabitans e Sphingopyxis e membros da ordem Sphingobacteriales, normalmente relacionadas com águas superficiais e poluídas. Estes dados sugerem um impacto direto do uso de terras em comunidades de bactérias de águas subterrâneas. Este trabalho assume-se como o primeiro estudo na determinação da composição e caracterização das comunidades bacterianas de um dos maiores e mais importantes sistemas cársicos da Península Ibérica.
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Book chapters on the topic "16S rDNA"

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Arnemann, J. "16S-rDNA-Sequenzierung." In Springer Reference Medizin, 2202. Berlin, Heidelberg: Springer Berlin Heidelberg, 2019. http://dx.doi.org/10.1007/978-3-662-48986-4_3636.

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Arnemann, J. "16S-rDNA-Sequenzierung." In Lexikon der Medizinischen Laboratoriumsdiagnostik, 1. Berlin, Heidelberg: Springer Berlin Heidelberg, 2018. http://dx.doi.org/10.1007/978-3-662-49054-9_3636-1.

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Rainey, Frederick A., and Erko Stackebrandt. "rDNA Amplification: Application of 16S rDNA-Based Methods for Bacterial Identification." In Nonradioactive Analysis of Biomolecules, 396–406. Berlin, Heidelberg: Springer Berlin Heidelberg, 2000. http://dx.doi.org/10.1007/978-3-642-57206-7_34.

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Sklarz, Menachem Y., Roey Angel, Osnat Gillor, and Ines M. Soares. "Amplified rDNA Restriction Analysis (ARDRA) for Identification and Phylogenetic Placement of 16S-rDNA Clones." In Handbook of Molecular Microbial Ecology I, 59–65. Hoboken, NJ, USA: John Wiley & Sons, Inc., 2011. http://dx.doi.org/10.1002/9781118010518.ch7.

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Stackebrandt, Erko, and Fred A. Rainey. "Partial and complete 16S rDNA sequences, their use in generation of 16S rDNA phylogenetic trees and their implications in molecular ecological studies." In Molecular Microbial Ecology Manual, 259–75. Dordrecht: Springer Netherlands, 1995. http://dx.doi.org/10.1007/978-94-011-0351-0_18.

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Vinuesa, Pablo, L. W. Jan Rademaker, Frans J. de Bruijn, and Dietrich Werner. "Characterization of Bradyrhizobium SPP. Strains by Rflp analysis of Amplified 16s rDNA and rDNA Intergenic Spacer Regions." In Highlights of Nitrogen Fixation Research, 275–79. Boston, MA: Springer US, 1999. http://dx.doi.org/10.1007/978-1-4615-4795-2_56.

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Huo, Da, Yang Luo, Yunsi Nie, Jing Sun, Yanan Wang, and Zhiyi Qiao. "The Distribution Characteristics of Microcystis novacekii Based on 16S rDNA Sequence." In Lecture Notes in Electrical Engineering, 31–41. Berlin, Heidelberg: Springer Berlin Heidelberg, 2015. http://dx.doi.org/10.1007/978-3-662-46318-5_4.

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Johansson, Karl-Erik, Malin U. K. Heldtander, and Bertil Pettersson. "Characterization of Mycoplasmas by PCR and Sequence Analysis with Universal 16S rDNA Primers." In Mycoplasma Protocols, 145–65. Totowa, NJ: Humana Press, 1998. http://dx.doi.org/10.1385/0-89603-525-5:145.

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Sedghi, Lea M., Stefan J. Green, and Craig D. Byron. "Measuring Effects of Dietary Fiber on the with of 16S rDNA Prior to Amplicon Synthesis." In Methods in Molecular Biology, 271–80. New York, NY: Springer US, 2021. http://dx.doi.org/10.1007/978-1-0716-1518-8_16.

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Dabert, M., J. Dabert, and K. Siuda. "Species validity of the soft-tick Argas polonicus (Acari: Argasidae) based on 16S rDNA sequence analysis." In Ecology and Evolution of the Acari, 667–71. Dordrecht: Springer Netherlands, 1999. http://dx.doi.org/10.1007/978-94-017-1343-6_58.

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Conference papers on the topic "16S rDNA"

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Norashirene, M. J., A. Ahmad Amin, D. Norhidayah, and M. A. Nurul Fithriah. "Identification of cellulolytic thermophiles based on 16S rDNA gene amplification analysis." In 2012 IEEE Colloquium on Humanities, Science and Engineering Research (CHUSER). IEEE, 2012. http://dx.doi.org/10.1109/chuser.2012.6504349.

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Xu, Xiaohong, Chundu Wu, and Degang Ning. "Detection Analysis of Pathogenic Organisms in Municipal Sewage with PCR-Based 16S rDNA Technique." In 2010 4th International Conference on Bioinformatics and Biomedical Engineering (iCBBE 2010). IEEE, 2010. http://dx.doi.org/10.1109/icbbe.2010.5518027.

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Bakhash, Rama Bakhash, Farzana Sulaiman, Mashael Al-Shafai, and Annalisa Terranegra. "The Microbiome and Epigenome Profile in Pediatric Type 1 Diabetes in Qatar." In Qatar University Annual Research Forum & Exhibition. Qatar University Press, 2020. http://dx.doi.org/10.29117/quarfe.2020.0202.

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This study focused on Qatar’s pediatric population that has witnessed a steep increase in the incidence of the disease. In order to understand this, we analyzed the blood and stool samples of a pilot group of 21 T1D subjects (age 6-12 years old) for the microbiome composition, Short Chain Fatty Acid (SCFA) levels and methylation profiles using 16s rDNA sequencing, gas Chromatography and Infinium methylation assay respectively.
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Li, He, Lin Li, Guoying Zhou, Yan Hao, and Yadi Liu. "On Optimization Study of Cultivation Conditions of a Flocculant-Producing Strain and 16s rDNA-Sequential Analysis." In 2009 3rd International Conference on Bioinformatics and Biomedical Engineering (iCBBE 2009). IEEE, 2009. http://dx.doi.org/10.1109/icbbe.2009.5163142.

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Rafedzi, E. A. K., M. Krsek, and E. M. H. Wellington. "The DGGE technique and 16S rDNA clone libraries analysis as a microbiological indicator of soil degradation." In Proceedings of the II International Conference on Environmental, Industrial and Applied Microbiology (BioMicroWorld2007). WORLD SCIENTIFIC, 2009. http://dx.doi.org/10.1142/9789812837554_0072.

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Liu Jun-ang, Pan Huaping, and Gou Zhihui. "Notice of Retraction: Screening and 16S rDNA sequence analysis of potassium bacterial strain from the Camellia oleifera rhizosphere environment." In 2010 2nd Conference on Environmental Science and Information Application Technology (ESIAT 2010). IEEE, 2010. http://dx.doi.org/10.1109/esiat.2010.5568886.

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Febriansyah, Evan, Iwan Saskiawan, Wibowo Mangunwardoyo, Tri Ratna Sulistiyani, and Eva Watamtin Widhiya. "Potency of growth promoting bacteria on mycelial growth of edible mushroom Pleurotus ostreatus and its identification based on 16S rDNA analysis." In INVENTING PROSPEROUS FUTURE THROUGH BIOLOGICAL RESEARCH AND TROPICAL BIODIVERSITY MANAGEMENT: Proceedings of the 5th International Conference on Biological Science. Author(s), 2018. http://dx.doi.org/10.1063/1.5050119.

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Júnior, Marcos De Paula, Thiago Augusto Da Costa Silva, Gustavo Augusto Lacorte, and Amanda Soriano Araújo Barezani. "BIODIVERSIDADE DAS COMUNIDADES MICROBIANAS DO SEDIMENTO DO LEITO DO RIO SÃO FRANCISCO NA SERRA DA CANASTRA EM MINAS GERAIS." In I Congresso Brasileiro de Biodiversidade Virtual. Revista Multidisciplinar de Educação e Meio Ambiente, 2021. http://dx.doi.org/10.51189/rema/1061.

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INTRODUÇÃO: Os ecossistemas de água doce sustentam uma enorme biodiversidade e fornecem bens e serviços ambientais de importância para as populações humanas. O uso do sequenciamento massivo de fragmentos amplificados de DNA derivados de amostras de ambientes fluviais poderiam ser usados para determinar a biodiversidade e composição das comunidades microbianas destes ambientes. Em ambientes aquáticos, os sedimentos se tornam um local ideal para o crescimento microbiano, uma vez que nesse ambiente os microrganismos podem se fixar e realizar seu metabolismo. As características dos sedimentos refletem o status trófico e a função ecológica dos rios, porque os sedimentos contêm milhares de microrganismos, que interagem com a matéria orgânica e afetam diretamente os ecossistemas. OBJETIVOS: Caracterizar as comunidades microbianas do sedimento do leito do Rio São Francisco na região da Serra da Canastra em Minas Gerais. MATERIAIS E METODOS: Foram coletadas amostras do sedimento do rio São Francisco em 3 áreas distintas: na nascente do rio (20°14'35.27"S 46°26'47.44"O), Casca D’Anta (20°19'52.95"S 46°21'56.53"O) e área rural (20°10'19.33"S 45°42'57.98"O). As amostras foram levadas ao laboratório para extração de DNA. A caracterização das comunidades procarióticas típicas de cada amostra foi realizada através do sequenciamento da região V4 do gene rDNA 16S. Os dados gerados foram submetidos à plataforma de análise de dados de microbiomas QIIME2TM e seguindo os parâmetros sugeridos pelo The Earth Microbiome Project. Ao final foi gerada uma tabela contento a lista de OTUs presentes em cada amostra e seu grupo procariótico classificado de Domínio à até o nível taxonômico mais refinado possível. RESULTADOS: Foram encontrados diversos filos (Cyanobacteria, Actinobacteria, Cloriflexi, Actinobacteria, Verrucomicrobia, etc), famílias (Micrococcaceae, Anaerolinaeceae, Bacillales, Pseudomonadaceae, Acidobacteriales, Burkholderiaceae e Xanthobacteriace) e gêneros (Paraburkholderia, Streptococcus, Acidothermus, Reseiarcus e Pseudomonas) sendo que alguns são dominantes em certos ambientes. CONCLUSÃO: Os resultados apresentados nesse estudo são importantes para a compreensão da ecologia e funcionalidade das comunidades microbianas nos ambientes amostrados.
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Siripornadulsil, Surasak, and Wilailak Siripornadulsil. "Characterization of Cadmium-Resistant Bacteria and Their Application for Cadmium Bioremediation." In ASME 2009 12th International Conference on Environmental Remediation and Radioactive Waste Management. ASMEDC, 2009. http://dx.doi.org/10.1115/icem2009-16072.

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On a global basis, trace-metal pollution is one of the most pervasive environmental problems. It is particularly difficult to prevent or clean up because the metals are toxic in their elemental form and cannot be decomposed. Bioremediation has been shown to be a powerful system for heavy metal pollution clean up and prevention. In this work, we characterized the cadmium (Cd)-resistant bacteria isolated from rice field soil downstream from zinc (Zn) mineralized area which the owners were contaminated at high level of cadmium content in their blood (&gt;10 μgCd/g creatinine). We found that all 24 isolated bacteria tolerated toxic Cd concentrations (2,500 μM). In order to determine whether the Cd toxicity affected the growth of isolated bacteria, we grew the isolated bacterial cells in the absence and presence of toxic concentrations of CdCl2 (500 μM). In the absence of Cd, all isolated bacterial cells grew slightly better than in the presence of toxic concentrations of Cd. In addition, the Cd binding capacity of all isolated bacteria were very high, ranging from 6.38 to 9.38 log[Cd(atom)]/cell when grown in the presence of 500 μM CdCl2. Furthermore, the stability of Cd-bacteria complex of all isolated bacteria was affected by 1mM EDTA. When grown in the presence of 500 μM CdCl2, Cd-resistant isolates S2500-6, -8, -9, -15, -17, -18, -19, and -22 increasingly produced proteins containing cysteine (SH-group) (from 1.3 to 2.2 times) as well as 11 isolates of Cd-resistant bacteria, including S2500-1, -2, -3, -5, -6, -8, -9, -11, -16, -20, and -21, increasingly produced inorganic sulfide (1.5 to 4.7 times). Furthermore, the Sulfur K-edge X-ray absorption near-edge structure (XANES) spectroscopy studies indicated that Cd-resistant isolated S2500-3 precipitated amounts of cadmium sulfide (CdS), when grown in the presence of 500 μM CdCl2. The results suggested that these Cd-resistant bacteria have potential ability to precipitate a toxic soluble CdCl2 as nontoxic insoluble CdS. Interestingly, Cd-resistant bacteria isolated S2500-3, -8, -9,and -20 increased cadmium tolerance of Thai jasmine rice (Kao Hom Mali 105) when grown in the presence of 200 μM CdCl2. These 4 isolates also decreased cadmium concentration accumulation in Kao Hom Mali 105 plant at 61, 9, 6, and 17%, respectively when grown in the presence of 200 μM CdCl2. They were identified by 16S rDNA sequence analysis and classified as Cupriavidus taiwanensis (isolate S2500-3) and Pseudomonas aeruginosa (isolates S2500-8, -9, and -20).
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Barros, Luísa Antônia Campos, Hilton Jeferson Cardoso de Aguiar, Gisele Amaro Teixeira, Danival José de Souza, Jacques Hubert Charles Delabie, and Cléa dos Santos Ferreira Mariano. "MAPEAMENTO FÍSICO DE SÍTIOS rDNA 18S NA PARASITA SOCIAL Acromyrmex ameliae (FORMICIDAE: MYRMICINAE)." In Anais do Congresso Brasileiro Interdisciplinar em Ciência e Tecnologia. Recife, Brasil: Even3, 2021. http://dx.doi.org/10.29327/143026.2-2.

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Reports on the topic "16S rDNA"

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Jurkevitch, Edouard, Carol Lauzon, Boaz Yuval, and Susan MacCombs. role of nitrogen-fixing bacteria in survival and reproductive success of Ceratitis capitata, the Mediterranean fruit fly. United States Department of Agriculture, September 2005. http://dx.doi.org/10.32747/2005.7695863.bard.

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Objectives: to demonstrate nitrogen fixation in the gut of Ceratitiscapitata, the Mediterranean fruit fly and that fixed nitrogen is important for the fly. Background: Fruit flies (Diptera: Tephritidae) are a highly successful, widespread group of insects causing enormous economic damage in agriculture. They are anautogenous, i.e. the acquisition of nitrogenous compounds by both male and female is essential for the realization of their reproductive potential. Nitrogen, although abundant in the atmosphere, is paradoxically a limiting resource for multicellular organisms. In the Animalia, biological nitrogen fixation has solely been demonstrated in termites. Major achievements and conclusions: We found that all individuals of field-collected medflies harbor large diazotrophicenterobacterial populations that express dinitrogenreductase in the gut. Moreover, nitrogen fixation was demonstrated in isolated guts and in live flies and may significantly contribute to the fly’s nitrogen intake. Specific components of these communities were shown to be transmitted vertically between flies. Moreover, we found that the gut bacterial community changes during the fly’s active season both in composition and complexity. Moreover, strong changes in community structure were also observed between the fly's various developmental stages. An initial analysis using SuPERPCR, a technology enabling the detection of minor populations by selective elimination of the dominant 16S rDNA sequences revealed that Pseudomonasspp. may also be part of the gut community. Implications: The presence of similar bacterial consortia in additional insect orders suggests that nitrogen fixation occurs in vast pools of terrestrial insects. On such a large scale, this phenomenon may have a considerable impact on the nitrogen cycle.
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Bercovier, Herve, and Paul Frelier. Pathogenic Streptococcus in Tilapia: Rapid Diagnosis, Epidemiology and Pathophysiology. United States Department of Agriculture, October 1994. http://dx.doi.org/10.32747/1994.7568776.bard.

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Within the project "Pathogenic Streptococcus in Tilapia", gram positive cocci pathogens of fish in Israel and in the United States were characterized. We showed that Streptococcus shiloi, the name for an agent causing septicemic infection in fish, is a junior synonym of Streptococcus iniae and that Enterococcus seriolicida is a junior synonym of Lactococcus garvieae, a causative agent of septicemia and meningo-encephalitis in fish. Molecular epidemiology studies on these two pathogens, based on 16S rDNA sequences and ribotyping showed that although each country had specific clones, S. iniae originated probably from the U.S. and L. garvieae from Japan. PCR assays were developed for both pathogens and applied to clinical samples. S. agalactiael S. difficile was also recognized for the first time in the U.S. in tilapia. Our histopathological studies explained the noted paradox (abundant in vitro growth often accompanied by scant to small numbers of organisms within the meninges in histologic sections of brain) in diagnostic of fish streptococcus. The greatest concentration of cocci were consistently observed within macrophages infiltrating the extrameningeal fibroadipose tissue surrounding the brain within the calvarium. These results also suggests that the primary route of meningeal infection may be extension from the extrameningeal connective tissue rather than meningeal vascular emigration of cocci-containing macrophages. Our work has resulted in a cognizance of streptococcus as fish pathogen which goes beyond the pathology observed in tilapia and is already extended to many aquaculture fish species in Israel and in the United States. Finally, our data suggest that vaccines (bivalent or trivalent) could be developed to prevent most of the damages caused by streptococcus in aquaculture.
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