Effect of Organic and Conventional Systems Used to Grow Pecan Trees on Diversity of Soil Microbiota
Agronomic management modifies the soil bacterial communities and may alter the carbon fractions. Here, we identify differences in several chemical and biological soil variables, as well as bacterial composition between organic (Org) and conventional (Conv) agronomic management in pecan (<i>Car...
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MDPI AG
2020-11-01
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| Online Access: | https://www.mdpi.com/1424-2818/12/11/436 |
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| author | Alejandra Cabrera-Rodríguez Erika Nava-Reyna Ricardo Trejo-Calzada Cristina García-De la Peña Jesús G. Arreola-Ávila Mónica M. Collavino Felipe Vaca-Paniagua Clara Díaz-Velásquez Vicenta Constante-García |
| author_facet | Alejandra Cabrera-Rodríguez Erika Nava-Reyna Ricardo Trejo-Calzada Cristina García-De la Peña Jesús G. Arreola-Ávila Mónica M. Collavino Felipe Vaca-Paniagua Clara Díaz-Velásquez Vicenta Constante-García |
| author_sort | Alejandra Cabrera-Rodríguez |
| collection | DOAJ |
| description | Agronomic management modifies the soil bacterial communities and may alter the carbon fractions. Here, we identify differences in several chemical and biological soil variables, as well as bacterial composition between organic (Org) and conventional (Conv) agronomic management in pecan (<i>Carya illinoinensis</i>) orchards located in Coahuila, Mexico. The analyzed variables were pH, N, P, K, soil organic matter, organic matter quality, soil organic carbon, C/N ratio, carbon fractions, microbial biomass carbon, easily extractable Glomalin, colony-forming units, CO<sub>2</sub> emissions, and the enzyme activity. The DNA of soil bacteria was extracted, amplified (V3-V4 16S rRNA), and sequenced using Illumina. To compare variables between agronomic managements, <i>t</i> tests were used. Sequences were analyzed in QIIME (Quantitative Insights Into Microbial Ecology). A canonical correspondence analysis (CCA) was used to observe associations between the ten most abundant phyla and soil variables in both types of agronomic managements. In Org management, variables related to the capture of recalcitrant carbon compounds were significant, and there was a greater diversity of bacterial communities capable of promoting organic carbon sequestration. In Conv management, variables related to the increase in carbon mineralization, as well as the enzymatic activity related to the metabolism of labile compounds, were significant. The CCA suggested a separation between phyla associated with some variables. Agronomic management impacted soil chemical and biological parameters related to carbon dynamics, including bacterial communities associated with carbon sequestration. Further research is still necessary to understand the plasticity of some bacterial communities, as well as the soil–plant dynamics. |
| first_indexed | 2024-03-10T14:45:24Z |
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| institution | Directory Open Access Journal |
| issn | 1424-2818 |
| language | English |
| last_indexed | 2024-03-10T14:45:24Z |
| publishDate | 2020-11-01 |
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| spelling | doaj.art-f75f4627b9484e8fb2617b092623d7e22023-11-20T21:28:25ZengMDPI AGDiversity1424-28182020-11-01121143610.3390/d12110436Effect of Organic and Conventional Systems Used to Grow Pecan Trees on Diversity of Soil MicrobiotaAlejandra Cabrera-Rodríguez0Erika Nava-Reyna1Ricardo Trejo-Calzada2Cristina García-De la Peña3Jesús G. Arreola-Ávila4Mónica M. Collavino5Felipe Vaca-Paniagua6Clara Díaz-Velásquez7Vicenta Constante-García8Unidad Regional Universitaria de Zonas Áridas, Universidad Autónoma Chapingo, carretera Gómez Palacio-Ciudad Juárez km 40, 35230 Bermejillo, Durango, MexicoCentro Nacional de Investigación Disciplinaria en Relación Agua, Suelo, Planta, Atmósfera, Instituto Nacional de Investigaciones Forestales, Agrícolas y Pecuarias, Margen Derecho del Canal de Sacramento km 6.5, 35140 Gómez Palacio, Durango, MexicoUnidad Regional Universitaria de Zonas Áridas, Universidad Autónoma Chapingo, carretera Gómez Palacio-Ciudad Juárez km 40, 35230 Bermejillo, Durango, MexicoFacultad de Ciencias Biológicas, Universidad Juárez del Estado de Durango, Av. Universidad s/n, Fracc. Filadelfia, 35010 Gómez Palacio, Durango, MexicoUnidad Regional Universitaria de Zonas Áridas, Universidad Autónoma Chapingo, carretera Gómez Palacio-Ciudad Juárez km 40, 35230 Bermejillo, Durango, MexicoInstituto de Botánica del Nordeste, Facultad de Ciencias Agrarias, Universidad Nacional del Nordeste-CONICET, calle Sargento Cabral 2131, 34000 Corrientes, ArgentinaLaboratorio Nacional en Salud: Diagnóstico Molecular y Efecto Ambiental en Enfermedades Crónico-Degenerativas, Facultad de Estudios Superiores Iztacala, Universidad Nacional Autónoma de México, Av. de los Barrios 1, Los Reyes Iztacala, 54090 Tlalnepantla, Estado de México, MexicoLaboratorio Nacional en Salud: Diagnóstico Molecular y Efecto Ambiental en Enfermedades Crónico-Degenerativas, Facultad de Estudios Superiores Iztacala, Universidad Nacional Autónoma de México, Av. de los Barrios 1, Los Reyes Iztacala, 54090 Tlalnepantla, Estado de México, MexicoCentro Nacional de Investigación Disciplinaria en Relación Agua, Suelo, Planta, Atmósfera, Instituto Nacional de Investigaciones Forestales, Agrícolas y Pecuarias, Margen Derecho del Canal de Sacramento km 6.5, 35140 Gómez Palacio, Durango, MexicoAgronomic management modifies the soil bacterial communities and may alter the carbon fractions. Here, we identify differences in several chemical and biological soil variables, as well as bacterial composition between organic (Org) and conventional (Conv) agronomic management in pecan (<i>Carya illinoinensis</i>) orchards located in Coahuila, Mexico. The analyzed variables were pH, N, P, K, soil organic matter, organic matter quality, soil organic carbon, C/N ratio, carbon fractions, microbial biomass carbon, easily extractable Glomalin, colony-forming units, CO<sub>2</sub> emissions, and the enzyme activity. The DNA of soil bacteria was extracted, amplified (V3-V4 16S rRNA), and sequenced using Illumina. To compare variables between agronomic managements, <i>t</i> tests were used. Sequences were analyzed in QIIME (Quantitative Insights Into Microbial Ecology). A canonical correspondence analysis (CCA) was used to observe associations between the ten most abundant phyla and soil variables in both types of agronomic managements. In Org management, variables related to the capture of recalcitrant carbon compounds were significant, and there was a greater diversity of bacterial communities capable of promoting organic carbon sequestration. In Conv management, variables related to the increase in carbon mineralization, as well as the enzymatic activity related to the metabolism of labile compounds, were significant. The CCA suggested a separation between phyla associated with some variables. Agronomic management impacted soil chemical and biological parameters related to carbon dynamics, including bacterial communities associated with carbon sequestration. Further research is still necessary to understand the plasticity of some bacterial communities, as well as the soil–plant dynamics.https://www.mdpi.com/1424-2818/12/11/436organic agriculturesoil organic carbon16S rRNAsequencingstructure of the soil bacterial community |
| spellingShingle | Alejandra Cabrera-Rodríguez Erika Nava-Reyna Ricardo Trejo-Calzada Cristina García-De la Peña Jesús G. Arreola-Ávila Mónica M. Collavino Felipe Vaca-Paniagua Clara Díaz-Velásquez Vicenta Constante-García Effect of Organic and Conventional Systems Used to Grow Pecan Trees on Diversity of Soil Microbiota Diversity organic agriculture soil organic carbon 16S rRNA sequencing structure of the soil bacterial community |
| title | Effect of Organic and Conventional Systems Used to Grow Pecan Trees on Diversity of Soil Microbiota |
| title_full | Effect of Organic and Conventional Systems Used to Grow Pecan Trees on Diversity of Soil Microbiota |
| title_fullStr | Effect of Organic and Conventional Systems Used to Grow Pecan Trees on Diversity of Soil Microbiota |
| title_full_unstemmed | Effect of Organic and Conventional Systems Used to Grow Pecan Trees on Diversity of Soil Microbiota |
| title_short | Effect of Organic and Conventional Systems Used to Grow Pecan Trees on Diversity of Soil Microbiota |
| title_sort | effect of organic and conventional systems used to grow pecan trees on diversity of soil microbiota |
| topic | organic agriculture soil organic carbon 16S rRNA sequencing structure of the soil bacterial community |
| url | https://www.mdpi.com/1424-2818/12/11/436 |
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