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This study investigates the microbial diversity associated with Argania spinosa across various compartments, including bulk soil, rhizosphere, residuesphere, soil surrounding roots, endosphere, and seed endophyte, using 16S rRNA gene sequencing of the V3 and V4 regions. Data were processed using DADA2, and taxonomy was assigned using the Silva database. Our analysis revealed significant variations in microbial community composition across these compartments. Alpha diversity metrics indicated the highest species richness and diversity in soil compartments (bulk soil, residuesphere, and soil surrounding roots), while plant-associated compartments (rhizosphere, endosphere, and seed endophyte) showed lower diversity and more specialized communities. Beta diversity analysis, through Principal Coordinate Analysis (PCA), highlighted distinct microbial communities in the endosphere and seed endophyte compared to the soil environments. Taxonomic profiling identified a notable presence of Acidobacteriota, Entotheonellaeota, and Gemmatimonadota in soil samples, absent in plant tissues. Conversely, Proteobacteria and Actinobacteria were found in both soil and plant-associated compartments, demonstrating their broad ecological versatility. Bacteroidota were exclusively abundant in the endophyte compartment, while Chloroflexi were found only in the seed endophyte. Differential taxonomy analysis using DESeq2 revealed significant variations in the abundance of these phyla, emphasizing their roles in shaping microbial community structures across Argania spinosa associated environments. These findings enhance our understanding of microbial interactions within this unique ecosystem and highlight the specialized roles of specific bacterial taxa.

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Comparative Analysis of Argania spinosa Microbiome and Its Environment Using 16S rRNA Sequencing

  • 会议论文

  • 发表日期：

    2025年

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  • Abdellah Idrissi Azami,
  • Stacy Pirro,
  • Nihal Habib,
  • Sofia Sehli,
  • Zainab El Ouafi,
  • Mariyam Khallouqi,
  • Sahar Marchouh,
  • Najib Al Idrissi,
  • Chakib Nejjari,
  • Abdehamid El Mousadik,
  • Hassan Ghazal

摘要

This study investigates the microbial diversity associated with Argania spinosa across various compartments, including bulk soil, rhizosphere, residuesphere, soil surrounding roots, endosphere, and seed endophyte, using 16S rRNA gene sequencing of the V3 and V4 regions. Data were processed using DADA2, and taxonomy was assigned using the Silva database. Our analysis revealed significant variations in microbial community composition across these compartments. Alpha diversity metrics indicated the highest species richness and diversity in soil compartments (bulk soil, residuesphere, and soil surrounding roots), while plant-associated compartments (rhizosphere, endosphere, and seed endophyte) showed lower diversity and more specialized communities. Beta diversity analysis, through Principal Coordinate Analysis (PCA), highlighted distinct microbial communities in the endosphere and seed endophyte compared to the soil environments. Taxonomic profiling identified a notable presence of Acidobacteriota, Entotheonellaeota, and Gemmatimonadota in soil samples, absent in plant tissues. Conversely, Proteobacteria and Actinobacteria were found in both soil and plant-associated compartments, demonstrating their broad ecological versatility. Bacteroidota were exclusively abundant in the endophyte compartment, while Chloroflexi were found only in the seed endophyte. Differential taxonomy analysis using DESeq2 revealed significant variations in the abundance of these phyla, emphasizing their roles in shaping microbial community structures across Argania spinosa associated environments. These findings enhance our understanding of microbial interactions within this unique ecosystem and highlight the specialized roles of specific bacterial taxa.