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  1 / 15844 MEDLINE  
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[PMID]:29220443
[Au] Autor:Rosikiewicz W; Kabza M; Kosinski JG; Ciomborowska-Basheer J; Kubiak MR; Makalowska I
[Ad] Endereço:Department of Integrative Genomics, Institute of Anthropology, Faculty of Biology, Adam Mickiewicz University in Poznan, Umultowska 89, 61-614, Poznan, Poland.
[Ti] Título:RetrogeneDB-a database of plant and animal retrocopies.
[So] Source:Database (Oxford);2017, 2017 Jan 01.
[Is] ISSN:1758-0463
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Database URL: http://yeti.amu.edu.pl/retrogenedb. Secondary database URL: http://rhesus.amu.edu.pl/retrogenedb.
[Mh] Termos MeSH primário: Bases de Dados Genéticas
Eucariotos/genética
Genoma/genética
Plantas/genética
RNA/genética
Análise de Sequência de RNA
[Mh] Termos MeSH secundário: Animais
Etiquetas de Sequências Expressas
Filogenia
Interface Usuário-Computador
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
63231-63-0 (RNA)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180308
[Lr] Data última revisão:
180308
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171209
[St] Status:MEDLINE
[do] DOI:10.1093/database/bax038


  2 / 15844 MEDLINE  
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[PMID]:28741379
[Au] Autor:Choi JW; Um JH; Cho JH; Lee HJ
[Ad] Endereço:1 Department of Microbiology and Immunology, Kyungpook National University School of Dentistry, Daegu 41940, Korea.
[Ti] Título:Tiny RNAs and their voyage via extracellular vesicles: Secretion of bacterial small RNA and eukaryotic microRNA.
[So] Source:Exp Biol Med (Maywood);242(15):1475-1481, 2017 09.
[Is] ISSN:1535-3699
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:MicroRNAs are small non-coding RNAs that bind to the 3'-untranslated region of target mRNAs and have transcriptional or translational inhibitory function in eukaryotes. Before microRNAs were widely known, bacterial non-coding small RNAs around 50-200 nt in length were discovered whose mechanism of action resembled that of microRNAs. Recently, RNAs that are of similar size to or smaller than microRNAs have been discovered in bacteria and indeed, this class of small RNAs have been found throughout all domains of life. Moreover, recent findings suggest that these tiny RNAs can be released via extracellular vesicles (such as exosomes in eukaryotes and outer membrane vesicles in bacteria), which in turn heralds a new field of research, interkingdom communication. This review discusses two similar classes of small RNAs in evolutionarily distinct eukaryotes and bacteria. In addition to their biogenesis and regulation, we discuss small RNA vehicles and their secretion. Impact statement The possible endogenous functions of small RNAs such as regulatory small RNAs in bacteria and microRNAs in eukaryotes have been extensively studied since they were first discovered. However, their powerful functions should not be seen as limited to their cells of origin. Recently, several papers have demonstrated that small RNAs function as signaling molecules between cells. This is possible because small RNAs can be shuttled around after being incorporated into environmentally protective extracellular vesicles. It is now clearly plausible that secreted small RNAs can regulate other types of cells through biofluids. Given their "common molecule" status, the role of small RNAs in mediating bacteria-human crosstalk is an emerging and competitive area of genetic research. This review provides insight into the function of small RNAs in intercellular and even interkingdom communication.
[Mh] Termos MeSH primário: Vesículas Extracelulares/metabolismo
Pequeno RNA não Traduzido/secreção
[Mh] Termos MeSH secundário: Bactérias/metabolismo
Eucariotos/metabolismo
RNA Bacteriano/secreção
[Pt] Tipo de publicação:JOURNAL ARTICLE; REVIEW; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (RNA, Bacterial); 0 (RNA, Small Untranslated)
[Em] Mês de entrada:1710
[Cu] Atualização por classe:180301
[Lr] Data última revisão:
180301
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170726
[St] Status:MEDLINE
[do] DOI:10.1177/1535370217723166


  3 / 15844 MEDLINE  
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[PMID]:29371626
[Au] Autor:Carradec Q; Pelletier E; Da Silva C; Alberti A; Seeleuthner Y; Blanc-Mathieu R; Lima-Mendez G; Rocha F; Tirichine L; Labadie K; Kirilovsky A; Bertrand A; Engelen S; Madoui MA; Méheust R; Poulain J; Romac S; Richter DJ; Yoshikawa G; Dimier C; Kandels-Lewis S; Picheral M; Searson S; Jaillon O; Aury JM; Karsenti E; Sullivan MB; Sunagawa S; Bork P; Not F; Hingamp P; Raes J; Guidi L; Ogata H; de Vargas C; Iudicone D; Bowler C; Wincker P; Tara Oceans Coordinators
[Ad] Endereço:CEA - Institut de Biologie François Jacob, Genoscope, Evry, 91057, France.
[Ti] Título:A global ocean atlas of eukaryotic genes.
[So] Source:Nat Commun;9(1):373, 2018 01 25.
[Is] ISSN:2041-1723
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:While our knowledge about the roles of microbes and viruses in the ocean has increased tremendously due to recent advances in genomics and metagenomics, research on marine microbial eukaryotes and zooplankton has benefited much less from these new technologies because of their larger genomes, their enormous diversity, and largely unexplored physiologies. Here, we use a metatranscriptomics approach to capture expressed genes in open ocean Tara Oceans stations across four organismal size fractions. The individual sequence reads cluster into 116 million unigenes representing the largest reference collection of eukaryotic transcripts from any single biome. The catalog is used to unveil functions expressed by eukaryotic marine plankton, and to assess their functional biogeography. Almost half of the sequences have no similarity with known proteins, and a great number belong to new gene families with a restricted distribution in the ocean. Overall, the resource provides the foundations for exploring the roles of marine eukaryotes in ocean ecology and biogeochemistry.
[Mh] Termos MeSH primário: Organismos Aquáticos
Eucariotos/genética
Células Eucarióticas/metabolismo
Metagenoma
Filogenia
Zooplâncton/genética
[Mh] Termos MeSH secundário: Sequência de Aminoácidos
Animais
Atlas como Assunto
Bactérias/classificação
Bactérias/genética
Biodiversidade
Ecossistema
Eucariotos/classificação
Células Eucarióticas/citologia
Metagenômica/métodos
Oceanos e Mares
Fitoplâncton/classificação
Fitoplâncton/genética
Água do Mar
Vírus/classificação
Vírus/genética
Zooplâncton/classificação
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180215
[Lr] Data última revisão:
180215
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180127
[St] Status:MEDLINE
[do] DOI:10.1038/s41467-017-02342-1


  4 / 15844 MEDLINE  
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[PMID]:28460059
[Au] Autor:Nevers Y; Prasad MK; Poidevin L; Chennen K; Allot A; Kress A; Ripp R; Thompson JD; Dollfus H; Poch O; Lecompte O
[Ad] Endereço:Complex Systems and Translational Bioinformatics, ICube UMR 7357, Université de Strasbourg, Fédération de Médecine Translationnelle, Strasbourg, France.
[Ti] Título:Insights into Ciliary Genes and Evolution from Multi-Level Phylogenetic Profiling.
[So] Source:Mol Biol Evol;34(8):2016-2034, 2017 Aug 01.
[Is] ISSN:1537-1719
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Cilia (flagella) are important eukaryotic organelles, present in the Last Eukaryotic Common Ancestor, and are involved in cell motility and integration of extracellular signals. Ciliary dysfunction causes a class of genetic diseases, known as ciliopathies, however current knowledge of the underlying mechanisms is still limited and a better characterization of genes is needed. As cilia have been lost independently several times during evolution and they are subject to important functional variation between species, ciliary genes can be investigated through comparative genomics. We performed phylogenetic profiling by predicting orthologs of human protein-coding genes in 100 eukaryotic species. The analysis integrated three independent methods to predict a consensus set of 274 ciliary genes, including 87 new promising candidates. A fine-grained analysis of the phylogenetic profiles allowed a partitioning of ciliary genes into modules with distinct evolutionary histories and ciliary functions (assembly, movement, centriole, etc.) and thus propagation of potential annotations to previously undocumented genes. The cilia/basal body localization was experimentally confirmed for five of these previously unannotated proteins (LRRC23, LRRC34, TEX9, WDR27, and BIVM), validating the relevance of our approach. Furthermore, our multi-level analysis sheds light on the core gene sets retained in gamete-only flagellates or Ecdysozoa for instance. By combining gene-centric and species-oriented analyses, this work reveals new ciliary and ciliopathy gene candidates and provides clues about the evolution of ciliary processes in the eukaryotic domain. Additionally, the positive and negative reference gene sets and the phylogenetic profile of human genes constructed during this study can be exploited in future work.
[Mh] Termos MeSH primário: Cílios/genética
Ciliopatias/genética
[Mh] Termos MeSH secundário: Animais
Movimento Celular/genética
Cílios/metabolismo
Ciliopatias/metabolismo
Bases de Dados de Ácidos Nucleicos
Eucariotos
Células Eucarióticas
Evolução Molecular
Flagelos/genética
Flagelos/metabolismo
Genômica
Seres Humanos
Filogenia
Análise de Sequência de DNA/métodos
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180201
[Lr] Data última revisão:
180201
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170502
[St] Status:MEDLINE
[do] DOI:10.1093/molbev/msx146


  5 / 15844 MEDLINE  
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[PMID]:27779617
[Au] Autor:Lopes Dos Santos A; Gourvil P; Tragin M; Noël MH; Decelle J; Romac S; Vaulot D
[Ad] Endereço:Sorbonne Universités, UPMC Université Paris 06, CNRS, UMR 7144 Station Biologique de Roscoff, Roscoff, France.
[Ti] Título:Diversity and oceanic distribution of prasinophytes clade VII, the dominant group of green algae in oceanic waters.
[So] Source:ISME J;11(2):512-528, 2017 02.
[Is] ISSN:1751-7370
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Prasinophytes clade VII is a group of pico/nano-planktonic green algae (division Chlorophyta) for which numerous ribosomal RNA (rRNA) sequences have been retrieved from the marine environment in the last 15 years. A large number of strains have also been isolated but have not yet received a formal taxonomic description. A phylogenetic analysis of available strains using both the nuclear 18S and plastidial 16S rRNA genes demonstrates that this group composes at least 10 different clades: A1-A7 and B1-B3. Analysis of sequences from the variable V9 region of the 18S rRNA gene collected during the Tara Oceans expedition and in the frame of the Ocean Sampling Day consortium reveal that clade VII is the dominant Chlorophyta group in oceanic waters, replacing Mamiellophyceae, which have this role in coastal waters. At some location, prasinophytes clade VII can even be the dominant photosynthetic eukaryote representing up to 80% of photosynthetic metabarcodes overall. B1 and A4 are the overall dominant clades and different clades seem to occupy distinct niches, for example, A6 is dominant in surface Mediterranean Sea waters, whereas A4 extend to high temperate latitudes. Our work demonstrates that prasinophytes clade VII constitute a highly diversified group, which is a key component of phytoplankton in open oceanic waters but has been neglected in the conceptualization of marine microbial diversity and carbon cycle.
[Mh] Termos MeSH primário: Clorófitas/genética
Eucariotos/genética
Variação Genética
Fitoplâncton/genética
[Mh] Termos MeSH secundário: Clorófitas/classificação
DNA Ribossômico/química
DNA Ribossômico/genética
Eucariotos/classificação
Eucariotos/isolamento & purificação
Mar Mediterrâneo
Oceanos e Mares
Fotossíntese
Filogenia
Fitoplâncton/classificação
Fitoplâncton/isolamento & purificação
Água do Mar
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (DNA, Ribosomal)
[Em] Mês de entrada:1708
[Cu] Atualização por classe:180201
[Lr] Data última revisão:
180201
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:161026
[St] Status:MEDLINE
[do] DOI:10.1038/ismej.2016.120


  6 / 15844 MEDLINE  
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[PMID]:28449025
[Au] Autor:Lozano-Fernandez J; Dos Reis M; Donoghue PCJ; Pisani D
[Ad] Endereço:School of Earth Sciences, Life Sciences Building, University of Bristol, United Kingdom.
[Ti] Título:RelTime Rates Collapse to a Strict Clock When Estimating the Timeline of Animal Diversification.
[So] Source:Genome Biol Evol;9(5):1320-1328, 2017 May 01.
[Is] ISSN:1759-6653
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Establishing an accurate timescale for the history of life is crucial to understand evolutionary processes. For this purpose, relaxed molecular clock models implemented in a Bayesian MCMC framework are generally used. However, these methods are time consuming. RelTime, a non-Bayesian method implementing a fast, ad hoc, algorithm for relative dating, was developed to overcome the computational inefficiencies of Bayesian software. RelTime was recently used to investigate the timing of origin of animals, yielding results consistent with early strict clock studies from the 1980s and 1990s, estimating metazoans to have a Mesoproterozoic origin-over a billion years ago. RelTime results are unexpected and disagree with the largest majority of modern, relaxed, Bayesian molecular clock analyses, which suggest animals originated in the Tonian-Cryogenian (less that 850 million years ago). Here, we demonstrate that RelTime-inferred divergence times for the origin of animals are spurious, a consequence of the inability of RelTime to relax the clock along the internal branches of the animal phylogeny. RelTime-inferred divergence times are comparable to strict-clock estimates because they are essentially inferred under a strict clock. Our results warn us of the danger of using ad hoc algorithms making implicit assumptions about rate changes along a tree. Our study roundly rejects a Mesoproterozoic origin of animals; metazoans emerged in the Tonian-Cryogenian, and diversified in the Ediacaran, in the immediate prelude to the routine fossilization of animals in the Cambrian associated with the emergence of readily preserved skeletons.
[Mh] Termos MeSH primário: Algoritmos
Biodiversidade
Evolução Biológica
Fósseis
[Mh] Termos MeSH secundário: Animais
Bactérias/genética
Biologia Computacional/métodos
Simulação por Computador
Eucariotos/genética
Especiação Genética
Variação Genética
Modelos Genéticos
Filogenia
Fatores de Tempo
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180124
[Lr] Data última revisão:
180124
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170428
[St] Status:MEDLINE
[do] DOI:10.1093/gbe/evx079


  7 / 15844 MEDLINE  
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[PMID]:29283231
[Au] Autor:Mustafin RN; Khusnutdinova EK
[Ti] Título:The Role of Transposable Elements in Ontogenesis.
[So] Source:Usp Fiziol Nauk;47(3):70-96, 2016 Jul-Sep.
[Is] ISSN:0301-1798
[Cp] País de publicação:Russia (Federation)
[La] Idioma:rus
[Ab] Resumo:The article describes the role of transposable elements in the ontogenesis of eukaryotes. Adaptive and controlled transposition of mobile elements occurs at different stages of development of an organism, causing dramatic changes in the regulation of gene expression, representing a cascade of reactions inherited genome evolutionary fixed at the species level. At this cascade of reactions involved regulatory system of tissue-specific expression of proteins splice variants in connection with the role of adaptive genes mosaic structure to numerous transpositions and the interconnectedness of mechanisms their evolutionary stabilization. Important role in the transposition of mobile elements and their interaction with groups of genes play epigenetic mechanisms - DNA methylation, histone modification, the expression of non-coding RNA. The genome structures responsible for the epigenetic regulation can have a transposons origin. In contrast to the previously established hypotheses on transpositions of mobile elements in the ontogenesis as a chaotic process, causing the destabilization of genotype, with a modern viewpoint, this mechanism has a species-specific patterns, formed evolutionarily. Mechanisms of the evolutionary transformation of genomes by natural selection create a relatively stable complex regulatory epigenetic characteristics of transpositions in the process of individual development, acting among individuals of the same species. The stability of the complex genomic information regulation in ontogenesis provides a specific set of transposons. Changing this regulation set transposons can cause fatal for the development of events. Dysregulation of transposons, not involved in the developmental restructuring, can give the inheritance of these changes. The aging process is a consequence of the evolutionary relationship of species-specific features of the regulation of mobile elements in ontogenesis, aimed at continuity and continuous increase in living matter for maximum adaptability. In the overall scheme of ontogenetic development process can be described as a way to implement the established evolutionary genomic information in time by means of gradually stabilized complex interaction of regulators of transpositions of mobile elements of the genome with a differentiated pattern of gene expression and regulation of splicing variants of their products. These transpositions vary with each cell division, especially by implementing the expression of sets of genes, the products of which affect the nature of the further transposition and change of regulation in the subsequent stages of development of an organism.
[Mh] Termos MeSH primário: Envelhecimento/genética
Elementos de DNA Transponíveis
Regulação da Expressão Gênica no Desenvolvimento
Genoma
Morfogênese/genética
[Mh] Termos MeSH secundário: Processamento Alternativo
Evolução Biológica
Metilação de DNA
Epigênese Genética
Eucariotos/crescimento & desenvolvimento
Eucariotos/metabolismo
Histonas/genética
Histonas/metabolismo
RNA não Traduzido/genética
RNA não Traduzido/metabolismo
Seleção Genética
Transdução de Sinais
Especificidade da Espécie
[Pt] Tipo de publicação:JOURNAL ARTICLE; REVIEW
[Nm] Nome de substância:
0 (DNA Transposable Elements); 0 (Histones); 0 (RNA, Untranslated)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180116
[Lr] Data última revisão:
180116
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171229
[St] Status:MEDLINE


  8 / 15844 MEDLINE  
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[PMID]:29232693
[Au] Autor:Rai SK; Sangesland M; Lee M; Esnault C; Cui Y; Chatterjee AG; Levin HL
[Ad] Endereço:Section on Eukaryotic Transposable Elements, Division of Molecular and Cellular Biology, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health (NIH), Bethesda, Maryland, United States of America.
[Ti] Título:Host factors that promote retrotransposon integration are similar in distantly related eukaryotes.
[So] Source:PLoS Genet;13(12):e1006775, 2017 12.
[Is] ISSN:1553-7404
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Retroviruses and Long Terminal Repeat (LTR)-retrotransposons have distinct patterns of integration sites. The oncogenic potential of retrovirus-based vectors used in gene therapy is dependent on the selection of integration sites associated with promoters. The LTR-retrotransposon Tf1 of Schizosaccharomyces pombe is studied as a model for oncogenic retroviruses because it integrates into the promoters of stress response genes. Although integrases (INs) encoded by retroviruses and LTR-retrotransposons are responsible for catalyzing the insertion of cDNA into the host genome, it is thought that distinct host factors are required for the efficiency and specificity of integration. We tested this hypothesis with a genome-wide screen of host factors that promote Tf1 integration. By combining an assay for transposition with a genetic assay that measures cDNA recombination we could identify factors that contribute differentially to integration. We utilized this assay to test a collection of 3,004 S. pombe strains with single gene deletions. Using these screens and immunoblot measures of Tf1 proteins, we identified a total of 61 genes that promote integration. The candidate integration factors participate in a range of processes including nuclear transport, transcription, mRNA processing, vesicle transport, chromatin structure and DNA repair. Two candidates, Rhp18 and the NineTeen complex were tested in two-hybrid assays and were found to interact with Tf1 IN. Surprisingly, a number of pathways we identified were found previously to promote integration of the LTR-retrotransposons Ty1 and Ty3 in Saccharomyces cerevisiae, indicating the contribution of host factors to integration are common in distantly related organisms. The DNA repair factors are of particular interest because they may identify the pathways that repair the single stranded gaps flanking the sites of strand transfer following integration of LTR retroelements.
[Mh] Termos MeSH primário: Fatores Hospedeiros de Integração/genética
Recombinação Genética
Retroelementos/genética
Sequências Repetidas Terminais/genética
Ubiquitina-Proteína Ligases/genética
[Mh] Termos MeSH secundário: Reparo do DNA/genética
Eucariotos/genética
Regulação Fúngica da Expressão Gênica
Integrases/genética
Regiões Promotoras Genéticas
DNA Polimerase Dirigida por RNA/genética
Retroviridae/genética
Saccharomyces cerevisiae/genética
Proteínas de Saccharomyces cerevisiae/genética
Schizosaccharomyces/genética
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, N.I.H., EXTRAMURAL
[Nm] Nome de substância:
0 (Integration Host Factors); 0 (Retroelements); 0 (Saccharomyces cerevisiae Proteins); 0 (Spp382 protein, S cerevisiae); EC 2.3.2.27 (Rhp18 protein, S pombe); EC 2.3.2.27 (Ubiquitin-Protein Ligases); EC 2.7.7.- (Integrases); EC 2.7.7.49 (RNA-Directed DNA Polymerase); EC 2.7.7.49 (reverse transcriptase Ty3, S cerevisiae)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180111
[Lr] Data última revisão:
180111
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171213
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pgen.1006775


  9 / 15844 MEDLINE  
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[PMID]:28455334
[Au] Autor:Núñez A; Amo de Paz G; Ferencova Z; Rastrojo A; Guantes R; García AM; Alcamí A; Gutiérrez-Bustillo AM; Moreno DA
[Ad] Endereço:Escuela Técnica Superior de Ingenieros Industriales, Universidad Politécnica de Madrid (ETSII-UPM), Madrid, Spain.
[Ti] Título:Validation of the Hirst-Type Spore Trap for Simultaneous Monitoring of Prokaryotic and Eukaryotic Biodiversities in Urban Air Samples by Next-Generation Sequencing.
[So] Source:Appl Environ Microbiol;83(13), 2017 Jul 01.
[Is] ISSN:1098-5336
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Pollen, fungi, and bacteria are the main microscopic biological entities present in outdoor air, causing allergy symptoms and disease transmission and having a significant role in atmosphere dynamics. Despite their relevance, a method for monitoring simultaneously these biological particles in metropolitan environments has not yet been developed. Here, we assessed the use of the Hirst-type spore trap to characterize the global airborne biota by high-throughput DNA sequencing, selecting regions of the 16S rRNA gene and internal transcribed spacer for the taxonomic assignment. We showed that aerobiological communities are well represented by this approach. The operational taxonomic units (OTUs) of two traps working synchronically compiled >87% of the total relative abundance for bacterial diversity collected in each sampler, >89% for fungi, and >97% for pollen. We found a good correspondence between traditional characterization by microscopy and genetic identification, obtaining more-accurate taxonomic assignments and detecting a greater diversity using the latter. We also demonstrated that DNA sequencing accurately detects differences in biodiversity between samples. We concluded that high-throughput DNA sequencing applied to aerobiological samples obtained with Hirst spore traps provides reliable results and can be easily implemented for monitoring prokaryotic and eukaryotic entities present in the air of urban areas. Detection, monitoring, and characterization of the wide diversity of biological entities present in the air are difficult tasks that require time and expertise in different disciplines. We have evaluated the use of the Hirst spore trap (an instrument broadly employed in aerobiological studies) to detect and identify these organisms by DNA-based analyses. Our results showed a consistent collection of DNA and a good concordance with traditional methods for identification, suggesting that these devices can be used as a tool for continuous monitoring of the airborne biodiversity, improving taxonomic resolution and characterization together. They are also suitable for acquiring novel DNA amplicon-based information in order to gain a better understanding of the biological particles present in a scarcely known environment such as the air.
[Mh] Termos MeSH primário: Ar/análise
Bactérias/isolamento & purificação
Eucariotos/isolamento & purificação
Fungos/isolamento & purificação
Sequenciamento de Nucleotídeos em Larga Escala/métodos
Pólen/genética
[Mh] Termos MeSH secundário: Microbiologia do Ar
Bactérias/classificação
Bactérias/genética
Biodiversidade
Cidades
Eucariotos/classificação
Eucariotos/genética
Fungos/classificação
Fungos/genética
Filogenia
Estações do Ano
Esporos Fúngicos/classificação
Esporos Fúngicos/genética
Esporos Fúngicos/isolamento & purificação
[Pt] Tipo de publicação:JOURNAL ARTICLE; VALIDATION STUDIES
[Em] Mês de entrada:1712
[Cu] Atualização por classe:171225
[Lr] Data última revisão:
171225
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170430
[St] Status:MEDLINE


  10 / 15844 MEDLINE  
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[PMID]:29185664
[Au] Autor:Staley ZR; Rohr JR; Senkbeil JK; Harwood VJ
[Ti] Título:Agrochemicals indirectly increase survival of E. coli O157:H7 and indicator bacteria by reducing ecosystem services.
[So] Source:Ecol Appl;24(8):1945-53, 2014.
[Is] ISSN:1051-0761
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Storm water and agricultural runoff frequently contain agrochemicals, fecal indicator bacteria (FIB), and zoonotic pathogens. Entry of such contaminants into aquatic ecosystems may affect ecology and human health. This study tested the hypothesis that the herbicide atrazine and the fungicide chlorothalonil indirectly affect the survival of FIB (Escherichia coli and Enterococcus faecalis) and a pathogen (E. coli O157:H7) by altering densities of protozoan predators or by altering competition from autochthonous bacteria. Streptomycin-resistant E. coli, En. faecalis, and E. coli O157:H7 were added to microcosms composed of Florida river water containing natural protozoan and bacterial populations. FIB, pathogen, and protozoan densities were monitored over six days. Known metabolic inhibitors, cycloheximide and streptomycin, were used to inhibit autochthonous protozoa or bacteria, respectively. The inhibitors made it possible to isolate the effects of predation or competition on survival of allochthonous bacteria, and each treatment increased the survival of FIB and pathogens. Chlorothalonil's effect was similar to that of cycloheximide, significantly reducing protozoan densities and elevating densities of FIB and pathogens relative to the control. Atrazine treatment did not affect protozoan densities, but, through an effect on competition, resulted in significantly greater densities of En. faecalis and E. coli O157:H7. Hence, by reducing predaceous protozoa and bacterial competitors that facilitate purifying water bodies of FIBs and human pathogens, chlorothalonil and atrazine indirectly diminished an ecosystem service of fresh water.
[Mh] Termos MeSH primário: Agroquímicos
Ecossistema
Escherichia coli O157/fisiologia
Poluentes Químicos da Água/química
[Mh] Termos MeSH secundário: Antifúngicos/química
Antifúngicos/farmacologia
Atrazina/química
Atrazina/farmacologia
Conservação dos Recursos Naturais
Cicloeximida/química
Cicloeximida/farmacologia
Enterococcus faecalis/fisiologia
Monitoramento Ambiental
Eucariotos/efeitos dos fármacos
Fungicidas Industriais/química
Fungicidas Industriais/farmacologia
Herbicidas/química
Herbicidas/farmacologia
Nitrilos/química
Nitrilos/farmacologia
Microbiologia da Água
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, U.S. GOV'T, NON-P.H.S.
[Nm] Nome de substância:
0 (Agrochemicals); 0 (Antifungal Agents); 0 (Fungicides, Industrial); 0 (Herbicides); 0 (Nitriles); 0 (Water Pollutants, Chemical); 98600C0908 (Cycloheximide); J718M71A7A (tetrachloroisophthalonitrile); QJA9M5H4IM (Atrazine)
[Em] Mês de entrada:1712
[Cu] Atualização por classe:171221
[Lr] Data última revisão:
171221
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171201
[St] Status:MEDLINE



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