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<p>In this study, we present a comprehensive characterization of a highly efficient desulfurizing bacterial isolate, SB1D. The isolate exhibited remarkable desulfurization of dibenzothiophene (DBT) and demonstrated the ability to metabolize benzothiophene (BT) and several of their alkylated derivatives. Genome-related index analyses, including 16S rRNA gene similarity (100%), Average Nucleotide Identity (ANI; 98.7%), digital DNA–DNA hybridization (dDDH; 88.7%), and phylogenomics, identified the strain as <i>Rhodococcus qingshengii</i>. Additionally, orthologous gene cluster analysis showed that SB1D shared the highest number of ortholog clusters (60) with <i>R. qingshengii</i>. The GC–MS analysis of the extracted metabolites identified 2-hydroxybiphenyl (2-HBP) and 4-methylhydroxybiphenyl (4-MHBP) as the major end-products of DBT and 4-methyldibenzothiophene (4-MDBT) desulfurization, respectively. The RAST genomic analysis revealed the presence of several organic-sulfur metabolism-related genes in the genome of SB1D. Together, these findings confirm that the isolate employs the sulfur-specific 4S pathway for the desulfurization of DBT and 4-MDBT. To our knowledge, this is the first report providing genome-based characterization and desulfurization pathway analysis of <i>R. qingshengii</i> SB1D, with the proven ability to desulfurize multiple thiophenic compounds found in diesel, and holds promise as a valuable biocatalyst for applications in biodesulfurization.</p>

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Genome-based characterization and pathway elucidation of dibenzothiophene and 4-methyldibenzothiophene desulfurization in a thiophenic compound desulfurizing Rhodococcus sp. SB1D

  • 期刊论文

  • 发表日期：

    2025年11月8日

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  • Sana Parveen,
  • Richard Burchmore,
  • Teerasak E-Kobon,
  • Kalsoom Akhtar,
  • Nasrin Akhtar

摘要

In this study, we present a comprehensive characterization of a highly efficient desulfurizing bacterial isolate, SB1D. The isolate exhibited remarkable desulfurization of dibenzothiophene (DBT) and demonstrated the ability to metabolize benzothiophene (BT) and several of their alkylated derivatives. Genome-related index analyses, including 16S rRNA gene similarity (100%), Average Nucleotide Identity (ANI; 98.7%), digital DNA–DNA hybridization (dDDH; 88.7%), and phylogenomics, identified the strain as Rhodococcus qingshengii. Additionally, orthologous gene cluster analysis showed that SB1D shared the highest number of ortholog clusters (60) with R. qingshengii. The GC–MS analysis of the extracted metabolites identified 2-hydroxybiphenyl (2-HBP) and 4-methylhydroxybiphenyl (4-MHBP) as the major end-products of DBT and 4-methyldibenzothiophene (4-MDBT) desulfurization, respectively. The RAST genomic analysis revealed the presence of several organic-sulfur metabolism-related genes in the genome of SB1D. Together, these findings confirm that the isolate employs the sulfur-specific 4S pathway for the desulfurization of DBT and 4-MDBT. To our knowledge, this is the first report providing genome-based characterization and desulfurization pathway analysis of R. qingshengii SB1D, with the proven ability to desulfurize multiple thiophenic compounds found in diesel, and holds promise as a valuable biocatalyst for applications in biodesulfurization.