Genomic Analysis of Paenarthrobacter sp. FR1 Reveals Its Marine-Adapted Pectin-Degrading System and Ecological Role in Carbon Cycling

TL;DR

A new marine bacterium, Paenarthrobacter sp. FR1, was found to break down pectin, playing a role in carbon cycling and offering potential for industrial waste treatment.

Contribution

Discovery of a novel pectin-degrading Paenarthrobacter strain with a unique enzymatic system for marine carbon cycling.

Findings

Paenarthrobacter sp. FR1 possesses a rich set of CAZymes for pectin degradation.

The strain can target both HG and RG pectin domains using hydrolytic and oxidative pathways.

FR1 is a rare Paenarthrobacter isolate with innate pectinolytic capability.

Abstract

Microbial degradation of pectin is a fundamental process for the carbon cycle and a strategic approach for treating industrial residues. This study characterizes a novel marine bacterium, Paenarthrobacter sp. FR1, isolated from East China Sea intertidal sediment, which exhibits the ability to utilize pectin. Its draft genome (4.83 Mb, 62.92% GC content) is predicted to encode 4498 protein-coding genes. Genomic analysis revealed a rich repertoire of Carbohydrate-Active Enzymes (CAZymes) crucial for this process, including 108 glycoside hydrolases (GHs), 7 polysaccharide lyases (PLs), 35 carbohydrate esterases (CEs), and 11 auxiliary activities (AAs). Genomic analysis provides supportive evidence that FR1 may target both homogalacturonan (HG) and rhamnogalacturonan (RG) pectin domains, potentially through complementary hydrolytic and oxidative pathways. Phylogenomic analysis based on Average Nucleotide Identity (ANI, 83.56%) and digital DNA-DNA Hybridization (dDDH, 27.8%) confirmed its status as a potential novel species. Notably, FR1 is a rare Paenarthrobacter isolate with innate pectinolytic capability, a characteristic not previously documented in this genus. This strain’s unique enzymatic machinery highlights its importance in marine carbon cycling and provides a valuable biotechnological resource for degrading pectin-rich wastes.

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