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Pesquisa : B01.650.940.800.575.462.750 [Categoria DeCS]
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  1 / 116 MEDLINE  
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[PMID]:27770366
[Au] Autor:Tsuzuki M; Watanabe Y
[Ad] Endereço:Department of Life Sciences, Graduate School of Arts and Sciences, The University of Tokyo, Komaba 3-8-1, Meguro, Tokyo, 153-8902, Japan.
[Ti] Título:Profiling New Small RNA Sequences.
[So] Source:Methods Mol Biol;1456:177-188, 2017.
[Is] ISSN:1940-6029
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Small RNAs are key molecules in RNA silencing pathways that exert the sequence-specific regulation of gene expression and chromatin modifications in many eukaryotes. In plants, endogenous small RNAs, including microRNAs (miRNAs), trans-acting short interfering RNAs (tasiRNAs), and heterochromatic siRNAs (hc-siRNAs), play an important role in switching or orchestrating biological processes during the development and at the onset of stress responses. These endogenous and exogenous small RNAs are mainly 20-24 nucleotides in length. In addition, viral genome-derived siRNAs of similar lengths are produced during viral infection, and they exhibit anti-viral defense activity in RNA silencing pathway.Here, we introduce a method to isolate and characterize small RNA molecules possibly applicable to a wide range of plant resources and tissues. After purification from total RNAs, small RNAs were subjected to Illumina sequencing analysis using compatible reagents kits. Following the sample preparation protocol, small RNAs are ligated first at the 3'- and then at the 5'-end to the respective RNA adapters followed by reverse transcription with a set of primers to produce cDNAs with Index sequences at ends. After PCR amplification, cDNAs are subjected (after gel purification) to RNA-seq analysis. This method could be applied to isolate small RNAs from different sources and characterize small RNA profiles to compare different sets of samples, e.g., wild-type and mutant plants, plants under different stress environments, and virus-infected plants because the starting RNA material is free of contaminated starch or similar material which would block further analysis.
[Mh] Termos MeSH primário: Perfilação da Expressão Gênica
Pequeno RNA não Traduzido/genética
Transcriptoma
[Mh] Termos MeSH secundário: Arabidopsis/genética
Biologia Computacional/métodos
Sequenciamento de Nucleotídeos em Larga Escala
Marchantia/genética
MicroRNAs/genética
RNA de Plantas
RNA Interferente Pequeno/genética
Pequeno RNA não Traduzido/isolamento & purificação
RNA Viral/genética
Reação em Cadeia da Polimerase Via Transcriptase Reversa
Software
Navegador
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (MicroRNAs); 0 (RNA, Plant); 0 (RNA, Small Interfering); 0 (RNA, Small Untranslated); 0 (RNA, Viral)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180112
[Lr] Data última revisão:
180112
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:161023
[St] Status:MEDLINE


  2 / 116 MEDLINE  
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[PMID]:28985561
[Au] Autor:Bowman JL; Kohchi T; Yamato KT; Jenkins J; Shu S; Ishizaki K; Yamaoka S; Nishihama R; Nakamura Y; Berger F; Adam C; Aki SS; Althoff F; Araki T; Arteaga-Vazquez MA; Balasubrmanian S; Barry K; Bauer D; Boehm CR; Briginshaw L; Caballero-Perez J; Catarino B; Chen F; Chiyoda S; Chovatia M; Davies KM; Delmans M; Demura T; Dierschke T; Dolan L; Dorantes-Acosta AE; Eklund DM; Florent SN; Flores-Sandoval E; Fujiyama A; Fukuzawa H; Galik B; Grimanelli D; Grimwood J; Grossniklaus U; Hamada T; Haseloff J; Hetherington AJ; Higo A; Hirakawa Y; Hundley HN; Ikeda Y; Inoue K; Inoue SI; Ishida S
[Ad] Endereço:School of Biological Sciences, Monash University, Melbourne VIC 3800, Australia. Electronic address: john.bowman@monash.edu.
[Ti] Título:Insights into Land Plant Evolution Garnered from the Marchantia polymorpha Genome.
[So] Source:Cell;171(2):287-304.e15, 2017 Oct 05.
[Is] ISSN:1097-4172
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:The evolution of land flora transformed the terrestrial environment. Land plants evolved from an ancestral charophycean alga from which they inherited developmental, biochemical, and cell biological attributes. Additional biochemical and physiological adaptations to land, and a life cycle with an alternation between multicellular haploid and diploid generations that facilitated efficient dispersal of desiccation tolerant spores, evolved in the ancestral land plant. We analyzed the genome of the liverwort Marchantia polymorpha, a member of a basal land plant lineage. Relative to charophycean algae, land plant genomes are characterized by genes encoding novel biochemical pathways, new phytohormone signaling pathways (notably auxin), expanded repertoires of signaling pathways, and increased diversity in some transcription factor families. Compared with other sequenced land plants, M. polymorpha exhibits low genetic redundancy in most regulatory pathways, with this portion of its genome resembling that predicted for the ancestral land plant. PAPERCLIP.
[Mh] Termos MeSH primário: Evolução Biológica
Embriófitas/genética
Genoma de Planta
Marchantia/genética
[Mh] Termos MeSH secundário: Adaptação Biológica
Embriófitas/fisiologia
Regulação da Expressão Gênica de Plantas
Marchantia/fisiologia
Anotação de Sequência Molecular
Transdução de Sinais
Transcrição Genética
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Em] Mês de entrada:1710
[Cu] Atualização por classe:171026
[Lr] Data última revisão:
171026
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171007
[St] Status:MEDLINE


  3 / 116 MEDLINE  
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[PMID]:28985556
[Au] Autor:Delwiche CF; Goodman CA; Chang C
[Ad] Endereço:Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, MD 20742, USA. Electronic address: delwiche@umd.edu.
[Ti] Título:Land Plant Model Systems Branch Out.
[So] Source:Cell;171(2):265-266, 2017 10 05.
[Is] ISSN:1097-4172
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:The genome of the liverwort Marchantia polymorpha is an important step toward development of a new plant model system (Bowman et al., 2017). Liverworts may be the sister taxon to all other land plants, and the genome shows features that illuminate the ancestor of all land plants and give insights into how plant systems function and evolved.
[Mh] Termos MeSH primário: Embriófitas
Marchantia/genética
[Mh] Termos MeSH secundário: Plantas
[Pt] Tipo de publicação:JOURNAL ARTICLE; COMMENT
[Em] Mês de entrada:1710
[Cu] Atualização por classe:171026
[Lr] Data última revisão:
171026
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171007
[St] Status:MEDLINE


  4 / 116 MEDLINE  
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[PMID]:28197715
[Au] Autor:Koselski M; Trebacz K; Dziubinska H
[Ad] Endereço:Department of Biophysics, Institute of Biology and Biochemistry, Maria Curie-Sklodowska University, Akademicka 19, 20-033, Lublin, Poland. mateusz.koselski@poczta.umcs.lublin.pl.
[Ti] Título:Vacuolar ion channels in the liverwort Marchantia polymorpha: influence of ion channel inhibitors.
[So] Source:Planta;245(5):1049-1060, 2017 May.
[Is] ISSN:1432-2048
[Cp] País de publicação:Germany
[La] Idioma:eng
[Ab] Resumo:MAIN CONCLUSION: Potassium-permeable slow activating vacuolar channels (SV) and chloride-permeable channels in the vacuole of the liverwort Marchantia polymorpha were characterized in respect to calcium dependence, selectivity, and pharmacology. The patch-clamp method was used in the study of ion channel activity in the vacuoles from the liverwort Marchantia polymorpha. The whole-vacuole recordings allowed simultaneous observation of two types of currents-predominant slow activated currents recorded at positive voltages and fast activated currents recorded at negative voltages. Single-channel recordings carried out in the gradient of KCl indicated that slow activated currents were carried by potassium-permeable slowly activating vacuolar channels (SV) and fast activated currents-by chloride-permeable channels. Both types of the channels were dependent in an opposite way on calcium, since elimination of this ion from the cytoplasmic side caused inhibition of SV channels, but the open probability of chloride-permeable channels even increased. The dependence of the activity of both channels on different types of ion channel inhibitors was studied. SV channels exhibited different sensitivity to potassium channel inhibitors. These channels were insensitive to 3 mM Ba , but were blocked by 3 mM tetraethyl ammonium (TEA). Moreover, the activity of the channels was modified in a different way by calcium channel inhibitors. 200 µM Gd was an effective blocker, but 50 µM ruthenium red evoked bursts of the channel activity resulting in an increase in the open probability. Different effectiveness of anion channel inhibitors was observed in chloride-permeable channels. After the application of 100 µM Zn , a decrease in the open probability was recorded but the channels were still active. 50 µM DIDS was more effective, as it completely blocked the channels.
[Mh] Termos MeSH primário: Cálcio/metabolismo
Cloretos/metabolismo
Canais Iônicos/metabolismo
Marchantia/efeitos dos fármacos
Potássio/metabolismo
[Mh] Termos MeSH secundário: Transporte Biológico
Bloqueadores dos Canais de Cálcio/farmacologia
Canais de Cálcio/efeitos dos fármacos
Canais de Cálcio/metabolismo
Canais de Cloreto/antagonistas & inibidores
Canais de Cloreto/metabolismo
Citoplasma/metabolismo
Marchantia/genética
Marchantia/metabolismo
Técnicas de Patch-Clamp
Bloqueadores dos Canais de Potássio/farmacologia
Canais de Potássio/efeitos dos fármacos
Canais de Potássio/metabolismo
Vacúolos/metabolismo
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Calcium Channel Blockers); 0 (Calcium Channels); 0 (Chloride Channels); 0 (Chlorides); 0 (Ion Channels); 0 (Potassium Channel Blockers); 0 (Potassium Channels); RWP5GA015D (Potassium); SY7Q814VUP (Calcium)
[Em] Mês de entrada:1705
[Cu] Atualização por classe:170522
[Lr] Data última revisão:
170522
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170216
[St] Status:MEDLINE
[do] DOI:10.1007/s00425-017-2661-4


  5 / 116 MEDLINE  
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[PMID]:28174248
[Au] Autor:Jones VA; Dolan L
[Ad] Endereço:Department of Plant Sciences, University of Oxford, Oxford OX1 3RB, UK.
[Ti] Título:Mp regulates air pore complex development in the liverwort .
[So] Source:Development;144(8):1472-1476, 2017 04 15.
[Is] ISSN:1477-9129
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:The colonisation of the land by plants was accompanied by the evolution of complex tissues and multicellular structures comprising different cell types as morphological adaptations to the terrestrial environment. Here, we show that the single WIP protein in the early-diverging land plant L. is required for the development of the multicellular gas exchange structure: the air pore complex. This 16-cell barrel-shaped structure surrounds an opening between epidermal cells that facilitates the exchange of gases between the chamber containing the photosynthetic cells inside the plant and the air outside. Mp is expressed in cells of the developing air pore complex and the morphogenesis of the complex is defective in plants with reduced Mp function. The role of WIP proteins in the control of different multicellular structures in and the flowering plant suggests that these proteins controlled the development of multicellular structures in the common ancestor of land plants. We hypothesise that genes were subsequently co-opted in the control of morphogenesis of novel multicellular structures that evolved during the diversification of land plants.
[Mh] Termos MeSH primário: Marchantia/embriologia
Marchantia/metabolismo
Epiderme Vegetal/embriologia
Proteínas de Plantas/metabolismo
[Mh] Termos MeSH secundário: Marchantia/anatomia & histologia
Marchantia/ultraestrutura
Mutação/genética
Epiderme Vegetal/citologia
Epiderme Vegetal/ultraestrutura
Proteínas de Plantas/genética
Regiões Promotoras Genéticas/genética
Proteínas Repressoras/metabolismo
Transcrição Genética
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (Plant Proteins); 0 (Repressor Proteins)
[Em] Mês de entrada:1709
[Cu] Atualização por classe:171126
[Lr] Data última revisão:
171126
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170209
[St] Status:MEDLINE
[do] DOI:10.1242/dev.144287


  6 / 116 MEDLINE  
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[PMID]:28162041
[Au] Autor:Tawfik MM; Yamato KT; Kohchi T; Koeduka T; Matsui K
[Ad] Endereço:a Graduate School of Medicine (Agriculture) , Yamaguchi University , Yamaguchi , Japan.
[Ti] Título:n-Hexanal and (Z)-3-hexenal are generated from arachidonic acid and linolenic acid by a lipoxygenase in Marchantia polymorpha L.
[So] Source:Biosci Biotechnol Biochem;81(6):1148-1155, 2017 Jun.
[Is] ISSN:1347-6947
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Most terrestrial plants form green leaf volatiles (GLVs), which are mainly composed of six-carbon (C6) compounds. In our effort to study the distribution of the ability of lipoxygenase (LOX) to form GLVs, we found that a liverwort, Marchantia polymorpha, formed n-hexanal and (Z)-3-hexenal. Some LOXs execute a secondary reaction to form short chain volatiles. One of the LOXs from M. polymorpha (MpLOX7) oxygenized arachidonic and α-linolenic acids at almost equivalent efficiency and formed C6-aldehydes during its catalysis; these are likely formed from hydroperoxides of arachidonic and α-linolenic acids, with a cleavage of the bond between carbon at the base of the hydroperoxy group and carbon of double bond, which is energetically unfavorable. These lines of evidence suggest that one of the LOXs in liverwort employs an unprecedented reaction to form C6 aldehydes as by-products of its reaction with fatty acid substrates.
[Mh] Termos MeSH primário: Aldeídos/metabolismo
Ácido Araquidônico/metabolismo
Lipoxigenase/metabolismo
Marchantia/metabolismo
Proteínas de Plantas/metabolismo
Ácido alfa-Linolênico/metabolismo
[Mh] Termos MeSH secundário: Sequência de Aminoácidos
Biocatálise
Clonagem Molecular
Ensaios Enzimáticos
Escherichia coli/genética
Escherichia coli/metabolismo
Expressão Gênica
Cinética
Peróxidos Lipídicos/metabolismo
Lipoxigenase/genética
Marchantia/química
Marchantia/classificação
Filogenia
Folhas de Planta/química
Folhas de Planta/metabolismo
Proteínas de Plantas/genética
Proteínas Recombinantes/genética
Proteínas Recombinantes/metabolismo
Metabolismo Secundário
Alinhamento de Sequência
Termodinâmica
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (3-hexenal); 0 (Aldehydes); 0 (Lipid Peroxides); 0 (Plant Proteins); 0 (Recombinant Proteins); 0RBV727H71 (alpha-Linolenic Acid); 27YG812J1I (Arachidonic Acid); 9DC2K31JJQ (n-hexanal); EC 1.13.11.12 (Lipoxygenase)
[Em] Mês de entrada:1707
[Cu] Atualização por classe:170703
[Lr] Data última revisão:
170703
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170207
[St] Status:MEDLINE
[do] DOI:10.1080/09168451.2017.1285688


  7 / 116 MEDLINE  
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[PMID]:28160149
[Au] Autor:Minamino N; Kanazawa T; Nishihama R; Yamato KT; Ishizaki K; Kohchi T; Nakano A; Ueda T
[Ad] Endereço:Department of Biological Sciences, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan.
[Ti] Título:Dynamic reorganization of the endomembrane system during spermatogenesis in Marchantia polymorpha.
[So] Source:J Plant Res;130(3):433-441, 2017 May.
[Is] ISSN:1618-0860
[Cp] País de publicação:Japan
[La] Idioma:eng
[Ab] Resumo:The processes involved in sexual reproduction have been diversified during plant evolution. Whereas charales, bryophytes, pteridophytes, and some gymnosperms utilize motile sperm as male gametes, in other gymnosperms and angiosperms the immotile sperm cells are delivered to the egg cells through elongated pollen tubes. During formation of the motile sperms, cells undergo a dynamic morphological transformation including drastic changes in shape and the generation of locomotor architecture. The molecular mechanism involved in this process remains mostly unknown. Membrane trafficking fulfills the exchange of various proteins and lipids among single membrane-bound organelles in eukaryotic cells, contributing to various biological functions. RAB GTPases and SNARE proteins are evolutionarily conserved key machineries of membrane trafficking mechanisms, which regulate tethering and fusion of the transport vesicles to target membranes. Our observation of fluorescently tagged plasma membrane-resident SNARE proteins demonstrated that these proteins relocalize to spherical structures during the late stages in spermiogenesis. Similar changes in subcellular localization were also observed for other fluorescently tagged SNARE proteins and a RAB GTPase, which acts on other organelles including the Golgi apparatus and endosomes. Notably, a vacuolar SNARE, MpVAMP71, was localized on the membrane of the spherical structures. Electron microscopic analysis revealed that there are many degradation-related structures such as multi-vesicular bodies, autophagosomes, and autophagic bodies containing organelles. Our results indicate that the cell-autonomous degradation pathway plays a crucial role in the removal of membrane components and the cytoplasm during spermiogenesis of Marchantia polymorpha. This process differs substantially from mammalian spermatogenesis in which phagocytic removal of excess cytoplasm involves neighboring cells.
[Mh] Termos MeSH primário: Marchantia/metabolismo
Marchantia/fisiologia
Proteínas de Plantas/metabolismo
Reprodução/fisiologia
Espermatogênese/fisiologia
[Mh] Termos MeSH secundário: Autofagossomos/metabolismo
Autofagossomos/fisiologia
Autofagossomos/ultraestrutura
Autofagia/fisiologia
Membrana Celular/metabolismo
Membrana Celular/ultraestrutura
Endocitose/fisiologia
Endossomos/metabolismo
Endossomos/fisiologia
Complexo de Golgi/metabolismo
Complexo de Golgi/fisiologia
Complexo de Golgi/ultraestrutura
Marchantia/genética
Marchantia/ultraestrutura
Fusão de Membrana
Proteínas de Membrana/metabolismo
Microscopia Eletrônica de Varredura
Organelas/fisiologia
Organelas/ultraestrutura
Transporte Proteico/fisiologia
Proteínas SNARE/metabolismo
Vacúolos/metabolismo
Vacúolos/ultraestrutura
Proteínas rab de Ligação ao GTP/metabolismo
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Membrane Proteins); 0 (Plant Proteins); 0 (SNARE Proteins); EC 3.6.5.2 (rab GTP-Binding Proteins)
[Em] Mês de entrada:1710
[Cu] Atualização por classe:171017
[Lr] Data última revisão:
171017
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170205
[St] Status:MEDLINE
[do] DOI:10.1007/s10265-017-0909-5


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[PMID]:28153920
[Au] Autor:Shimakawa G; Ishizaki K; Tsukamoto S; Tanaka M; Sejima T; Miyake C
[Ad] Endereço:Graduate School of Agricultural Science (G.S., M.T., T.S., C.M.) and Graduate School of Science (K.I., S.T.), Kobe University, Nada, Kobe 657-8501, Japan; and.
[Ti] Título:The Liverwort, , Drives Alternative Electron Flow Using a Flavodiiron Protein to Protect PSI.
[So] Source:Plant Physiol;173(3):1636-1647, 2017 Mar.
[Is] ISSN:1532-2548
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:The diffusion efficiency of oxygen in the atmosphere, like that of CO , is approximately 10 times greater than that in aqueous environments. Consequently, terrestrial photosynthetic organisms need mechanisms to protect against potential oxidative damage. The liverwort , a basal land plant, has habitats where it is exposed to both water and the atmosphere. Furthermore, like cyanobacteria, has genes encoding flavodiiron proteins (FLV). In cyanobacteria, FLVs mediate oxygen-dependent alternative electron flow (AEF) to suppress the production of reactive oxygen species. Here, we investigated whether FLVs are required for the protection of photosynthesis in A mutant deficient in the FLV1 isozyme (Δ ) sustained photooxidative damage to photosystem I (PSI) following repetitive short-saturation pulses of light. Compared with the wild type (Takaragaike-1), Δ showed the same photosynthetic oxygen evolution rate but a lower electron transport rate during the induction phase of photosynthesis. Additionally, the reaction center chlorophyll in PSI, P700, was highly reduced in Δ but not in Takaragaike-1. These results indicate that the gene product of drives AEF to oxidize PSI, as in cyanobacteria. Furthermore, FLV-mediated AEF supports the production of a proton motive force to possibly induce the nonphotochemical quenching of chlorophyll fluorescence and suppress electron transport in the cytochrome / complex. After submerging the thalli, a decrease in photosystem II operating efficiency was observed, particularly in Δ , which implies that species living in these sorts of habitats require FLV-mediated AEF.
[Mh] Termos MeSH primário: Flavoproteínas/metabolismo
Marchantia/metabolismo
Complexo de Proteína do Fotossistema I/metabolismo
Proteínas de Plantas/metabolismo
[Mh] Termos MeSH secundário: Clorofila/metabolismo
Complexo Citocromos b6f/genética
Complexo Citocromos b6f/metabolismo
Transporte de Elétrons/genética
Flavoproteínas/genética
Regulação da Expressão Gênica de Plantas
Luz
Marchantia/genética
Mutação
Oxigênio/metabolismo
Fotossíntese/genética
Fotossíntese/efeitos da radiação
Complexo de Proteína do Fotossistema I/genética
Complexo de Proteína do Fotossistema II/genética
Complexo de Proteína do Fotossistema II/metabolismo
Proteínas de Plantas/genética
Força Próton-Motriz/efeitos da radiação
Reação em Cadeia da Polimerase Via Transcriptase Reversa
Fatores de Tempo
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Flavoproteins); 0 (Photosystem I Protein Complex); 0 (Photosystem II Protein Complex); 0 (Plant Proteins); 1406-65-1 (Chlorophyll); 9035-40-9 (Cytochrome b6f Complex); S88TT14065 (Oxygen)
[Em] Mês de entrada:1710
[Cu] Atualização por classe:171016
[Lr] Data última revisão:
171016
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170204
[St] Status:MEDLINE
[do] DOI:10.1104/pp.16.01038


  9 / 116 MEDLINE  
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[PMID]:28100647
[Au] Autor:Delmans M; Pollak B; Haseloff J
[Ad] Endereço:Department of Plant Sciences, University of Cambridge, Downing Street, Cambridge, UK.
[Ti] Título:MarpoDB: An Open Registry for Marchantia Polymorpha Genetic Parts.
[So] Source:Plant Cell Physiol;58(1):e5, 2017 01 01.
[Is] ISSN:1471-9053
[Cp] País de publicação:Japan
[La] Idioma:eng
[Ab] Resumo:Marchantia polymorpha is an extant relative of the earliest terrestrial plants and has attracted a substantial interest as a model organism for evolutionary and developmental studies. Given its relatively simple genome, compact gene families, simple morphology, ease of propagation and transformation, M. polymorpha is becoming a promising platform for plant synthetic biology. Modular genetic parts have been essential for development of synthetic biology approaches, so we sought to design an engineering oriented database for M. polymorpha genetic parts where each gene is a stand-alone functional unit. MarpoDB is a database of M. polymorpha genes and genetic parts, which is tailored to become an integral tool for a synthetic biology workflow. Among its features are precompiled cross-database querying to InterPro, Pfam signatures and non-redundant Viridiplantae BLAST annotations; BLAST querying to M. polymorpha genes; sequence export in GenBank format; recoding of sequences to the common syntax for type IIS assembly and exchange of DNA parts; and a minimalistic, intuitive and interactive user interface for gene models and sequence exploration. Furthermore, we have implemented user input to encourage feedback, collaboration and exchange between the MarpoDB community. MarpoDB source-code is released on GitHub to promote development of computational tools for synthetic biology.
[Mh] Termos MeSH primário: Biologia Computacional/métodos
Bases de Dados Genéticas
Genes de Plantas/genética
Marchantia/genética
Sistema de Registros
[Mh] Termos MeSH secundário: Regiões 3' não Traduzidas/genética
Regiões 5' não Traduzidas/genética
Regulação da Expressão Gênica de Plantas
Internet
Microscopia Confocal
Anotação de Sequência Molecular
Fases de Leitura Aberta/genética
Plantas Geneticamente Modificadas
Regiões Promotoras Genéticas/genética
Reprodutibilidade dos Testes
Transcriptoma/genética
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (3' Untranslated Regions); 0 (5' Untranslated Regions)
[Em] Mês de entrada:1707
[Cu] Atualização por classe:170723
[Lr] Data última revisão:
170723
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170120
[St] Status:MEDLINE
[do] DOI:10.1093/pcp/pcw201


  10 / 116 MEDLINE  
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[PMID]:28057327
[Au] Autor:Yokota T; Ohnishi T; Shibata K; Asahina M; Nomura T; Fujita T; Ishizaki K; Kohchi T
[Ad] Endereço:Department of Biosciences, Teikyo University, 1-1 Toyosatodai, Utsunomiya 320-8551, Japan. Electronic address: yokota@nasu.bio.teikyo-u.ac.jp.
[Ti] Título:Occurrence of brassinosteroids in non-flowering land plants, liverwort, moss, lycophyte and fern.
[So] Source:Phytochemistry;136:46-55, 2017 Apr.
[Is] ISSN:1873-3700
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Endogenous brassinosteroids (BRs) in non-flowering land plants were analyzed. BRs were found in a liverwort (Marchantia polymorpha), a moss (Physcomitrella patens), lycophytes (Selaginella moellendorffii and S. uncinata) and 13 fern species. A biologically active BR, castasterone (CS), was identified in most of these non-flowering plants but another biologically active BR, brassinolide, was not. It may be distinctive that levels of CS in non-flowering plants were orders of magnitude lower than those in flowering plants. 22-Hydroxycampesterol and its metabolites were identified in most of the non-flowering plants suggesting that the biosynthesis of BRs via 22-hydroxylation of campesterol occurs as in flowering plants. Phylogenetic analyses indicated that M. polymorpha, P. patens and S. moellendorffii have cytochrome P450s in the CYP85 clans which harbors BR biosynthesis enzymes, although the P450 profiles are simpler as compared with Arabidopsis and rice. Furthermore, these basal land plants were found to have multiple P450s in the CYP72 clan which harbors enzymes to catabolize BRs. These findings indicate that green plants were able to synthesize and inactivate BRs from the land-transition stage.
[Mh] Termos MeSH primário: Brassinosteroides/isolamento & purificação
Cycadopsida/química
[Mh] Termos MeSH secundário: Arabidopsis/química
Brassinosteroides/química
Brassinosteroides/metabolismo
Briófitas/química
Bryopsida/química
Sistema Enzimático do Citocromo P-450/metabolismo
Gleiquênias/química
Hepatófitas/química
Marchantia/química
Oryza/química
Filogenia
Selaginellaceae/química
Esteroides Heterocíclicos
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Brassinosteroids); 0 (Steroids, Heterocyclic); 9035-51-2 (Cytochrome P-450 Enzyme System); Y9IQ1L53OX (brassinolide)
[Em] Mês de entrada:1703
[Cu] Atualização por classe:171116
[Lr] Data última revisão:
171116
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170107
[St] Status:MEDLINE



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