Functional annotation of rhizospheric phageome of the wild plant species Moringa oleifera

Frontiers in Microbiology

Microbiology

Aala A. Abulfaraj¹  Manal A. Tashkandi²  Israa J. Hakeem²  Mohammed Y. Refai²  Lina Baz³  Sahar A. Alshareef⁴  Fatmah O. Sefrji⁵  Ruba A. Ashy⁶  Rewaa S. Jalal⁶  Mashael D. Alqahtani⁷  Hana S. Sonbol⁷  Haneen W. Abuauf⁸  Fatimah M. Alshehrei⁹ 

[1] Biological Sciences Department, College of Science & Arts, King AbdulAziz University, Rabigh, Saudi Arabia;Department of Biochemistry, College of Science, University of Jeddah, Jeddah, Saudi Arabia;Department of Biochemistry, Faculty of Science, King AbdulAziz University, Jeddah, Saudi Arabia;Department of Biology, College of Science and Arts at Khulis, University of Jeddah, Jeddah, Saudi Arabia;Department of Biology, College of Science, Taibah University, Al-Madinah Al-Munawwarah, Saudi Arabia;Department of Biology, College of Science, University of Jeddah, Jeddah, Saudi Arabia;Department of Biology, College of Sciences, Princess Nourah bint Abdulrahman University, Riyadh, Saudi Arabia;Department of Biology, Faculty of Applied Science, Umm Al-Qura University, Makkah, Saudi Arabia;Department of Biology, Jumum College University, Umm Al-Qura University, Makkah, Saudi Arabia;

关键词: CAZyme;    KEGG;    ARG;    HGT;    cell membrane;    antibiotics;   

DOI  :  10.3389/fmicb.2023.1166148

 received in 2023-02-15, accepted in 2023-04-10,  发布年份 2023

来源: Frontiers

【 摘 要 】

IntroductionThe study aims to describe phageome of soil rhizosphere of M.oleifera in terms of the genes encoding CAZymes and other KEGG enzymes.MethodsGenes of the rhizospheric virome of the wild plant species Moringa oleifera were investigated for their ability to encode useful CAZymes and other KEGG (Kyoto Encyclopedia of Genes and Genomes) enzymes and to resist antibiotic resistance genes (ARGs) in the soil.ResultsAbundance of these genes was higher in the rhizospheric microbiome than in the bulk soil. Detected viral families include the plant viral family Potyviridae as well as the tailed bacteriophages of class Caudoviricetes that are mainly associated with bacterial genera Pseudomonas, Streptomyces and Mycobacterium. Viral CAZymes in this soil mainly belong to glycoside hydrolase (GH) families GH43 and GH23. Some of these CAZymes participate in a KEGG pathway with actions included debranching and degradation of hemicellulose. Other actions include biosynthesizing biopolymer of the bacterial cell wall and the layered cell wall structure of peptidoglycan. Other CAZymes promote plant physiological activities such as cell-cell recognition, embryogenesis and programmed cell death (PCD). Enzymes of other pathways help reduce the level of soil H2O2 and participate in the biosynthesis of glycine, malate, isoprenoids, as well as isoprene that protects plant from heat stress. Other enzymes act in promoting both the permeability of bacterial peroxisome membrane and carbon fixation in plants. Some enzymes participate in a balanced supply of dNTPs, successful DNA replication and mismatch repair during bacterial cell division. They also catalyze the release of signal peptides from bacterial membrane prolipoproteins. Phages with the most highly abundant antibiotic resistance genes (ARGs) transduce species of bacterial genera Pseudomonas, Streptomyces, and Mycobacterium. Abundant mechanisms of antibiotic resistance in the rhizosphere include “antibiotic efflux pump” for ARGs soxR, OleC, and MuxB, “antibiotic target alteration” for parY mutant, and “antibiotic inactivation” for arr-1.DiscussionThese ARGs can act synergistically to inhibit several antibiotics including tetracycline, penam, cephalosporin, rifamycins, aminocoumarin, and oleandomycin. The study highlighted the issue of horizontal transfer of ARGs to clinical isolates and human gut microbiome.

【 授权许可】

Unknown   
Copyright © 2023 Ashy, Jalal, Sonbol, Alqahtani, Sefrji, Alshareef, Alshehrei, Abuauf, Baz, Tashkandi, Hakeem, Refai and Abulfaraj.