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Registro Completo |
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Biblioteca(s): |
Embrapa Florestas. |
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Data corrente: |
19/11/2018 |
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Data da última atualização: |
22/02/2019 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
LAMMEL, D. R.; BARTH, G.; OVASKAINEN, O.; CRUZ, L. M.; ZANATTA, J. A.; RYO, M.; SOUZA, E. M. de; PEDROSA, F. O. |
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Afiliação: |
Daniel R. Lammel, UFPR; Gabriel Barth, ABC Research Foundation; Otso Ovaskainen, University of Helsinki; Leonardo M. Cruz, UFPR; JOSILEIA ACORDI ZANATTA, CNPF; Masahiro Ryo, 3Freie Universität Berlin and Berlin-Brandenburg Institute of Advanced Biodiversity Research (BBIB); Emanuel M. de Souza, UFPR; Fábio O. Pedrosa, UFPR. |
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Título: |
Direct and indirect effects of a pH gradient bring insights into the mechanisms driving prokaryotic community structures. |
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Ano de publicação: |
2018 |
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Fonte/Imprenta: |
Microbiome, v. 6, article 106, June 2018. 13 p. |
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DOI: |
10.1186/s40168-018-0482-8 |
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Idioma: |
Inglês |
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Conteúdo: |
Background: pH is frequently reported as the main driver for prokaryotic community structure in soils. However, pH changes are also linked to ?spillover effects? on other chemical parameters (e.g., availability of Al, Fe, Mn, Zn, and Cu) and plant growth, but these indirect effects on the microbial communities are rarely investigated. Usually, pH also co-varies with some confounding factors, such as land use, soil management (e.g., tillage and chemical inputs), plant cover, and/or edapho-climatic conditions. So, a more comprehensive analysis of the direct and indirect effects of pH brings a better understanding of the mechanisms driving prokaryotic (archaeal and bacterial) community structures. Results: We evaluated an agricultural soil pH gradient (from 4 to 6, the typical range for tropical farms), in a liming gradient with confounding factors minimized, investigating relationships between prokaryotic communities (16S rRNA) and physical?chemical parameters (indirect effects). Correlations, hierarchical modeling of species communities (HMSC), and random forest (RF) modeling indicated that both direct and indirect effects of the pH gradient affected the prokaryotic communities. Some OTUs were more affected by the pH changes (e.g., some Actinobacteria), while others were more affected by the indirect pH effects (e.g., some Proteobacteria). HMSC detected a phylogenetic signal related to the effects. Both HMSC and RF indicated that the main indirect effect was the pH changes on the availability of some elements (e.g., Al, Fe, and Cu), and secondarily, effects on plant growth and nutrient cycling also affected the OTUs. Additionally, we found that some of the OTUs that responded to pH also correlated with CO2, CH4, and N2O greenhouse gas fluxes. Conclusions: Our results indicate that there are two distinct pH-related mechanisms driving prokaryotic community structures, the direct effect and ?spillover effects? of pH (indirect effects). Moreover, the indirect effects are highly relevant for some OTUs and consequently for the community structure; therefore, it is a mechanism that should be further investigated in microbial ecology. MenosBackground: pH is frequently reported as the main driver for prokaryotic community structure in soils. However, pH changes are also linked to ?spillover effects? on other chemical parameters (e.g., availability of Al, Fe, Mn, Zn, and Cu) and plant growth, but these indirect effects on the microbial communities are rarely investigated. Usually, pH also co-varies with some confounding factors, such as land use, soil management (e.g., tillage and chemical inputs), plant cover, and/or edapho-climatic conditions. So, a more comprehensive analysis of the direct and indirect effects of pH brings a better understanding of the mechanisms driving prokaryotic (archaeal and bacterial) community structures. Results: We evaluated an agricultural soil pH gradient (from 4 to 6, the typical range for tropical farms), in a liming gradient with confounding factors minimized, investigating relationships between prokaryotic communities (16S rRNA) and physical?chemical parameters (indirect effects). Correlations, hierarchical modeling of species communities (HMSC), and random forest (RF) modeling indicated that both direct and indirect effects of the pH gradient affected the prokaryotic communities. Some OTUs were more affected by the pH changes (e.g., some Actinobacteria), while others were more affected by the indirect pH effects (e.g., some Proteobacteria). HMSC detected a phylogenetic signal related to the effects. Both HMSC and RF indicated that the main indirect effect was the pH changes on... Mostrar Tudo |
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Palavras-Chave: |
16S rRNA; Ecologia microbiana; Illumina sequencing; Solo sub tropical; Sub-tropical soil. |
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Thesagro: |
Bactéria; Ph; Química do Solo. |
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Thesaurus Nal: |
Archaea; Microbial ecology; Soil chemistry. |
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Categoria do assunto: |
P Recursos Naturais, Ciências Ambientais e da Terra |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/186279/1/2018-Josi-Microbiome-Direct.pdf
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Marc: |
LEADER 03160naa a2200349 a 4500
001 2099575
005 2019-02-22
008 2018 bl uuuu u00u1 u #d
024 7 $a10.1186/s40168-018-0482-8$2DOI
100 1 $aLAMMEL, D. R.
245 $aDirect and indirect effects of a pH gradient bring insights into the mechanisms driving prokaryotic community structures.$h[electronic resource]
260 $c2018
520 $aBackground: pH is frequently reported as the main driver for prokaryotic community structure in soils. However, pH changes are also linked to ?spillover effects? on other chemical parameters (e.g., availability of Al, Fe, Mn, Zn, and Cu) and plant growth, but these indirect effects on the microbial communities are rarely investigated. Usually, pH also co-varies with some confounding factors, such as land use, soil management (e.g., tillage and chemical inputs), plant cover, and/or edapho-climatic conditions. So, a more comprehensive analysis of the direct and indirect effects of pH brings a better understanding of the mechanisms driving prokaryotic (archaeal and bacterial) community structures. Results: We evaluated an agricultural soil pH gradient (from 4 to 6, the typical range for tropical farms), in a liming gradient with confounding factors minimized, investigating relationships between prokaryotic communities (16S rRNA) and physical?chemical parameters (indirect effects). Correlations, hierarchical modeling of species communities (HMSC), and random forest (RF) modeling indicated that both direct and indirect effects of the pH gradient affected the prokaryotic communities. Some OTUs were more affected by the pH changes (e.g., some Actinobacteria), while others were more affected by the indirect pH effects (e.g., some Proteobacteria). HMSC detected a phylogenetic signal related to the effects. Both HMSC and RF indicated that the main indirect effect was the pH changes on the availability of some elements (e.g., Al, Fe, and Cu), and secondarily, effects on plant growth and nutrient cycling also affected the OTUs. Additionally, we found that some of the OTUs that responded to pH also correlated with CO2, CH4, and N2O greenhouse gas fluxes. Conclusions: Our results indicate that there are two distinct pH-related mechanisms driving prokaryotic community structures, the direct effect and ?spillover effects? of pH (indirect effects). Moreover, the indirect effects are highly relevant for some OTUs and consequently for the community structure; therefore, it is a mechanism that should be further investigated in microbial ecology.
650 $aArchaea
650 $aMicrobial ecology
650 $aSoil chemistry
650 $aBactéria
650 $aPh
650 $aQuímica do Solo
653 $a16S rRNA
653 $aEcologia microbiana
653 $aIllumina sequencing
653 $aSolo sub tropical
653 $aSub-tropical soil
700 1 $aBARTH, G.
700 1 $aOVASKAINEN, O.
700 1 $aCRUZ, L. M.
700 1 $aZANATTA, J. A.
700 1 $aRYO, M.
700 1 $aSOUZA, E. M. de
700 1 $aPEDROSA, F. O.
773 $tMicrobiome$gv. 6, article 106, June 2018. 13 p.
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Registro original: |
Embrapa Florestas (CNPF) |
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Biblioteca(s): |
Embrapa Caprinos e Ovinos. |
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Data corrente: |
22/05/2013 |
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Data da última atualização: |
15/04/2015 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Circulação/Nível: |
A - 2 |
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Autoria: |
MAGALHÃES, A. F. B.; LOBO, R. N. B.; FACO, O. |
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Afiliação: |
Ana Fabrícia Braga Magalhães, Universidade Estadual Paulista 'Júlio de Mesquita Filho' (UNESP) - Jaboticabal, SP; RAIMUNDO NONATO BRAGA LOBO, CNPC; OLIVARDO FACO, CNPC. |
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Título: |
Estimativas de parâmetros genéticos para características de crescimento em ovinos da raça Somalis Brasileira. |
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Ano de publicação: |
2013 |
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Fonte/Imprenta: |
Ciência Rural, Santa Maria, v. 43, n. 5, p. 884-889, maio, 2013. |
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DOI: |
http://dx.doi.org/10.1590/S0103-84782013005000043 |
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Idioma: |
Português |
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Conteúdo: |
Resumo: Objetivou-se estimar parâmetros genéticos para características de crescimento em ovinos da raça Somalis Brasileira. Os dados utilizados neste estudo foram provenientes do rebanho da Embrapa Caprinos e Ovinos, localizado na cidade de Sobral - CE. Os dados continham registros de 1.120 animais no arquivo de pedigree. As características analisadas foram: peso ao nascer (PN), peso ao desmame (PD), ganho de peso do nascimento ao desmame (GND) e peso adulto (PA). As estimativas dos componentes de (co)variâncias e os parâmetros genéticos foram obtidos pelo método da Máxima Verossimilhança Restrita não Derivativa (DFREML), utilizando o programa MTDFREML. Nas análises unicaracterística, as herdabilidades foram de magnitude baixa a moderada. As magnitudes das herdabilidades maternas foram todas superiores às herdabilidades diretas. As herdabilidades das análises multicaracterísticas entre PN, PD e GND superaram as análises unicaracterísticas. As correlações genéticas apresentaram grande variação quanto aos seus valores. [Genetic parameters estimates for growth traits in Somalis Brasileira hair sheep breed]. Abstract: The aim of this study was to estimate genetic parameters for growth traits in Somalis Brasileira hair sheep breed. The data used in this study were from the flock of Embrapa Caprinos and Ovinos, located in the city of Sobral - CE, Brazil. Data contained records of 1,120 animals in the pedigree file. The analyzed traits were birth weight (PN), weaning weight (PD), weight gain from birth to weaning (GND) and adult weight (PA). Estimates of (co)variances and genetic parameters were obtained by Derivative Free Restricted Maximum Likelihood Method (DFREML) using the MTDFREML software. The heritabilities were low to moderate in univariate analysis. The maternal heritabilities were higher than direct heritabilities. The heritabilities in multivariate analysis exceeded those in univariate analysis. The values of genetic correlations varied widely. MenosResumo: Objetivou-se estimar parâmetros genéticos para características de crescimento em ovinos da raça Somalis Brasileira. Os dados utilizados neste estudo foram provenientes do rebanho da Embrapa Caprinos e Ovinos, localizado na cidade de Sobral - CE. Os dados continham registros de 1.120 animais no arquivo de pedigree. As características analisadas foram: peso ao nascer (PN), peso ao desmame (PD), ganho de peso do nascimento ao desmame (GND) e peso adulto (PA). As estimativas dos componentes de (co)variâncias e os parâmetros genéticos foram obtidos pelo método da Máxima Verossimilhança Restrita não Derivativa (DFREML), utilizando o programa MTDFREML. Nas análises unicaracterística, as herdabilidades foram de magnitude baixa a moderada. As magnitudes das herdabilidades maternas foram todas superiores às herdabilidades diretas. As herdabilidades das análises multicaracterísticas entre PN, PD e GND superaram as análises unicaracterísticas. As correlações genéticas apresentaram grande variação quanto aos seus valores. [Genetic parameters estimates for growth traits in Somalis Brasileira hair sheep breed]. Abstract: The aim of this study was to estimate genetic parameters for growth traits in Somalis Brasileira hair sheep breed. The data used in this study were from the flock of Embrapa Caprinos and Ovinos, located in the city of Sobral - CE, Brazil. Data contained records of 1,120 animals in the pedigree file. The analyzed traits were birth weight (PN), weaning weight (PD), w... Mostrar Tudo |
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Palavras-Chave: |
Correlação genética; Genetic parameters; Herdabilidade; Peso corporal; Raça Somalis Brasileira. |
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Thesagro: |
Crescimento; Genética animal; Ovino. |
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Thesaurus NAL: |
Body weight; Genetic correlation; Goats; Heritability. |
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Categoria do assunto: |
G Melhoramento Genético |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/83236/1/API-Estimativas-de-parametros.pdf
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Marc: |
LEADER 02939naa a2200301 a 4500
001 1958620
005 2015-04-15
008 2013 bl uuuu u00u1 u #d
024 7 $ahttp://dx.doi.org/10.1590/S0103-84782013005000043$2DOI
100 1 $aMAGALHÃES, A. F. B.
245 $aEstimativas de parâmetros genéticos para características de crescimento em ovinos da raça Somalis Brasileira.$h[electronic resource]
260 $c2013
520 $aResumo: Objetivou-se estimar parâmetros genéticos para características de crescimento em ovinos da raça Somalis Brasileira. Os dados utilizados neste estudo foram provenientes do rebanho da Embrapa Caprinos e Ovinos, localizado na cidade de Sobral - CE. Os dados continham registros de 1.120 animais no arquivo de pedigree. As características analisadas foram: peso ao nascer (PN), peso ao desmame (PD), ganho de peso do nascimento ao desmame (GND) e peso adulto (PA). As estimativas dos componentes de (co)variâncias e os parâmetros genéticos foram obtidos pelo método da Máxima Verossimilhança Restrita não Derivativa (DFREML), utilizando o programa MTDFREML. Nas análises unicaracterística, as herdabilidades foram de magnitude baixa a moderada. As magnitudes das herdabilidades maternas foram todas superiores às herdabilidades diretas. As herdabilidades das análises multicaracterísticas entre PN, PD e GND superaram as análises unicaracterísticas. As correlações genéticas apresentaram grande variação quanto aos seus valores. [Genetic parameters estimates for growth traits in Somalis Brasileira hair sheep breed]. Abstract: The aim of this study was to estimate genetic parameters for growth traits in Somalis Brasileira hair sheep breed. The data used in this study were from the flock of Embrapa Caprinos and Ovinos, located in the city of Sobral - CE, Brazil. Data contained records of 1,120 animals in the pedigree file. The analyzed traits were birth weight (PN), weaning weight (PD), weight gain from birth to weaning (GND) and adult weight (PA). Estimates of (co)variances and genetic parameters were obtained by Derivative Free Restricted Maximum Likelihood Method (DFREML) using the MTDFREML software. The heritabilities were low to moderate in univariate analysis. The maternal heritabilities were higher than direct heritabilities. The heritabilities in multivariate analysis exceeded those in univariate analysis. The values of genetic correlations varied widely.
650 $aBody weight
650 $aGenetic correlation
650 $aGoats
650 $aHeritability
650 $aCrescimento
650 $aGenética animal
650 $aOvino
653 $aCorrelação genética
653 $aGenetic parameters
653 $aHerdabilidade
653 $aPeso corporal
653 $aRaça Somalis Brasileira
700 1 $aLOBO, R. N. B.
700 1 $aFACO, O.
773 $tCiência Rural, Santa Maria$gv. 43, n. 5, p. 884-889, maio, 2013.
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Embrapa Caprinos e Ovinos (CNPC) |
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