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Volume 45, IECA 2025
 
 
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Biol. Life Sci. Forum, 2025, ECM 2025

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9 pages, 734 KiB  
Proceeding Paper
Comparative Evaluation of 16S rRNA and Housekeeping Gene-Specific Primer Pairs for Rhizobia and Agrobacteria Metagenomics
by Romain Kouakou Fossou and Adolphe Zézé
Biol. Life Sci. Forum 2025, 46(1), 1; https://doi.org/10.3390/blsf2025046001 - 2 Jul 2025
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Abstract
Of many housekeeping genes, gyrB and rpoB are used as alternative markers to 16S rDNA to analyze Rhizobia and Agrobacteria communities. However, the extent to which the targeted genes and their corresponding primers could be suitable in metagenomic studies within communities belonging to [...] Read more.
Of many housekeeping genes, gyrB and rpoB are used as alternative markers to 16S rDNA to analyze Rhizobia and Agrobacteria communities. However, the extent to which the targeted genes and their corresponding primers could be suitable in metagenomic studies within communities belonging to the two taxa remains elusive. This work evaluates in silico the taxonomic resolution of partial regions of two housekeeping and 16S rRNA genes in differentiating between Rhizobia and Agrobacteria. The study confirmed V5–V7 as the best 16S rDNA variable region for differentiating all the genera at a 100% threshold. However, rpoB and gyrB markers outcompeted the 16S rDNA in terms of taxonomic resolution regardless of the threshold, possibly replacing the use of 16S rDNA V-regions in metagenomics studies of Rhizobia and Agrobacteria. Full article
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