Genome‐Driven Analysis Reveals the Biotechnological Potential of a Novel <i>Paenibacillus</i> sp. Isolated From Crude Oil

Microbial biotechnology plays a critical role in addressing environmental challenges and promoting sustainability. Here, we report the complete genome sequencing of Paenibacillus sp. strain 210, previously isolated from Brazilian crude oil and known for its levan metabolism and biosurfactant production. With the sequenced genome, we employed bioinformatics tools for assembly and annotation, followed by comprehensive in silico analyses, including phylogenomics, biosynthetic gene cluster (BGC) identification, carbohydrate-active enzyme (CAZyme) profiling, and metabolic pathway reconstruction. The assembled 5.7 Mb genome harbors four prophage regions and 13 antimicrobial BGCs, including those encoding fusaricidin, paenicidin A, paenilan, paeninodin, and tridecaptin. Phylogenomic analysis combined with average nucleotide identity measurements indicates that this strain does not cluster with any recognized Paenibacillus species, supporting its designation as a potential new species. Notably, the identification of 259 CAZyme genes points to a strong capacity for degrading complex polysaccharides (e.g., cellulose, xylan, and pectin), positioning this bacterium as a promising candidate for biofuel production. Furthermore, the presence of complete metabolic pathways for several B vitamins highlights predicted metabolic autonomy supporting microbial interactions, reinforcing their usefulness in soil bioremediation by enhancing nutrient availability. In contrast, incomplete pathways for vitamins B2 and K2 indicate metabolic dependencies that may facilitate syntrophic interactions with other microorganisms. In silico structural analyses of selected hydrolytic enzymes (GH1, GH5, and GH11) reveal homology to functionally validated and crystallized proteins. Collectively, these findings highlight the genetic versatility of Paenibacillus sp. strain 210 and its potential for ecosystem restoration, biofuel production, plant growth promotion, and biocontrol.

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Journal
MicrobiologyOpen
Published
2025-11-24
DOI
https://doi.org/10.1002/mbo3.70159
Primary Topic
Algal biology and biofuel production
Type
article
Field-Weighted Citation Impact
0.00

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article

Genome‐Driven Analysis Reveals the Biotechnological Potential of a Novel Paenibacillus sp. Isolated From Crude Oil

Leandro Márcio Moreira, João Victor dos Anjos Almeida, Alessandro M. Varani, Carlos Mendonça et al.
MicrobiologyOpen
Algal biology and biofuel production
article

Genome‐Driven Analysis Reveals the Biotechnological Potential of a Novel Paenibacillus sp. Isolated From Crude Oil

Leandro Márcio Moreira, João Victor dos Anjos Almeida, Alessandro M. Varani, Carlos Mendonça, Mauro de Medeiros Oliveira
article en

Abstract

Microbial biotechnology plays a critical role in addressing environmental challenges and promoting sustainability. Here, we report the complete genome sequencing of Paenibacillus sp. strain 210, previously isolated from Brazilian crude oil and known for its levan metabolism and biosurfactant production. With the sequenced genome, we employed bioinformatics tools for assembly and annotation, followed by comprehensive in silico analyses, including phylogenomics, biosynthetic gene cluster (BGC) identification, carbohydrate-active enzyme (CAZyme) profiling, and metabolic pathway reconstruction. The assembled 5.7 Mb genome harbors four prophage regions and 13 antimicrobial BGCs, including those encoding fusaricidin, paenicidin A, paenilan, paeninodin, and tridecaptin. Phylogenomic analysis combined with average nucleotide identity measurements indicates that this strain does not cluster with any recognized Paenibacillus species, supporting its designation as a potential new species. Notably, the identification of 259 CAZyme genes points to a strong capacity for degrading complex polysaccharides (e.g., cellulose, xylan, and pectin), positioning this bacterium as a promising candidate for biofuel production. Furthermore, the presence of complete metabolic pathways for several B vitamins highlights predicted metabolic autonomy supporting microbial interactions, reinforcing their usefulness in soil bioremediation by enhancing nutrient availability. In contrast, incomplete pathways for vitamins B2 and K2 indicate metabolic dependencies that may facilitate syntrophic interactions with other microorganisms. In silico structural analyses of selected hydrolytic enzymes (GH1, GH5, and GH11) reveal homology to functionally validated and crystallized proteins. Collectively, these findings highlight the genetic versatility of Paenibacillus sp. strain 210 and its potential for ecosystem restoration, biofuel production, plant growth promotion, and biocontrol.

MicrobiologyOpenVol. 14(6)
Universidade Federal de Ouro Preto (BR), Núcleo de Pesquisas Aplicadas (Brazil) (BR), Pharmaceutical Biotechnology (Czechia) (CZ), Universidade Estadual Paulista (Unesp) (BR)
Fundação de Amparo à Pesquisa do Estado de São Paulo, Coordenação de Aperfeiçoamento de Pessoal de Nível Superior, Conselho Nacional de Desenvolvimento Científico e Tecnológico, Universidade Estadual Paulista, Division of Graduate Education
Openalex Percentile: Top 74%
Algal biology and biofuel production
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