Molecular Identification of Dominant Microorganisms Associated With the Spoilage of Strawberries and Oranges Using Ribosomal RNA Gene Sequencing
Elbadawy, S., Sharoba, A., K.Morsy, M. (2025). Molecular Identification of Dominant Microorganisms Associated With the Spoilage of Strawberries and Oranges Using Ribosomal RNA Gene Sequencing. EKB Journal Management System, 10(6), 83-91. doi: 10.21608/bjas.2025.366800.1615
Samar Gomaa Elbadawy; Ashraf Sharoba; Mohamed K.Morsy. "Molecular Identification of Dominant Microorganisms Associated With the Spoilage of Strawberries and Oranges Using Ribosomal RNA Gene Sequencing". EKB Journal Management System, 10, 6, 2025, 83-91. doi: 10.21608/bjas.2025.366800.1615
Elbadawy, S., Sharoba, A., K.Morsy, M. (2025). 'Molecular Identification of Dominant Microorganisms Associated With the Spoilage of Strawberries and Oranges Using Ribosomal RNA Gene Sequencing', EKB Journal Management System, 10(6), pp. 83-91. doi: 10.21608/bjas.2025.366800.1615
Elbadawy, S., Sharoba, A., K.Morsy, M. Molecular Identification of Dominant Microorganisms Associated With the Spoilage of Strawberries and Oranges Using Ribosomal RNA Gene Sequencing. EKB Journal Management System, 2025; 10(6): 83-91. doi: 10.21608/bjas.2025.366800.1615

Molecular Identification of Dominant Microorganisms Associated With the Spoilage of Strawberries and Oranges Using Ribosomal RNA Gene Sequencing

Benha Journal of Applied Sciences
Volume 10, Issue 6, June 2025, Pages 83-91    PDF (816.43 K)
Document Type: Original Research Papers
DOI: 10.21608/bjas.2025.366800.1615
Authors
Samar Gomaa Elbadawy* 1; Ashraf Sharoba2; Mohamed K.Morsy2
1Department of Agricultural Microbiology, Faculty of Agriculture, Ain Shams University, P.O. Box 68, Hadayek Shobra, Cairo, Egypt
2Food Technology Dept., Faculty of Agriculture, Moshtohor, P.O. Box 13736, Benha University, Qalyubia, Egypt
Abstract
This study aimed at the molecular identification of dominant microorganisms associated with the spoilage of strawberries and oranges using ribosomal RNA genes (16S rRNA and 18S rRNA) and the nuclear ribosomal internal transcribed spacer (ITS) region. Samples of strawberries exhibiting grey mold and oranges exhibiting green mold were collected from Al-Obour market. Microbial total counts were determined, and three bacterial isolates (coded Sab-01, Sab-02, and Sab-03) and two fungal isolates (Sa02 (F1) and Sa04 (F2)) were selected from the spoiled fruits. The isolates were purified and morphologically identified as Gram-positive bacilli (Sab-01), Gram-negative short rods (Sab-02 and Sab-03), Botrytis sp. (Sa02 (F1)), and Penicillium sp. (Sa04 (F2)). Molecular identification using the 16S rRNA gene sequence identified the bacterial isolates as Bacillus subtilis (Sab-01-RSDS), Stenotrophomonas maltophilia (Sab-02-RSDS), and Pseudomonas putida (Sab-03-RSDS), while the 18S rRNA and ITS region identified the fungal isolates as Penicillium digitatum (Sa04-RODS) and Botrytis cinerea (Sa02-RSDS). These strains were deposited in GenBank under accession numbers LC784320.1, LC784321.1, LC784322.1, LC784323.1, and LC784324.1, respectively. Sequence alignments of the 16S rRNA, 18S rRNA genes, and ITS region showed identities close to 100% with the most similar strains in GenBank. Phylogenetic analysis confirmed the genetic relationships between the isolates and their corresponding species, supporting the use of ribosomal RNA genes and the ITS region for accurate microbial identification.
Keywords
Strawberries; Oranges; 16S rRNA; 18S rRNA; ITS region
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