Comparative Genomics and CAZyme Genome Repertoires of Marine Zobellia amurskyensis KMM 3526T and Zobellia laminariae KMM 3676T

Abstract

We obtained two novel draft genomes of type Zobellia strains with estimated genome sizes of 5.14 Mb for Z. amurskyensis KMM 3526Т and 5.16 Mb for Z. laminariae KMM 3676Т. Comparative genomic analysis has been carried out between obtained and known genomes of Zobellia representatives. The pan-genome of Zobellia genus is composed of 4853 orthologous clusters and the core genome was estimated at 2963 clusters. The genus CAZome was represented by 775 GHs classified into 62 families, 297 GTs of 16 families, 100 PLs of 13 families, 112 CEs of 13 families, 186 CBMs of 18 families and 42 AAs of six families. A closer inspection of the carbohydrate-active enzyme (CAZyme) genomic repertoires revealed members of new putative subfamilies of GH16 and GH117, which can be biotechnologically promising for production of oligosaccharides and rare monomers with different bioactivities. We analyzed AA3s, among them putative FAD-dependent glycoside oxidoreductases (FAD-GOs) being of particular interest as promising biocatalysts for glycoside deglycosylation in food and pharmaceutical industries.

CAZymes inMaribacter dokdonensis62-1 from the Patagonian shelf: Genomics and physiology compared to related flavobacteria and a co-occurringAlteromonasstrain

“…Strain 62-1 furthermore encodes PL33 and PL40 lyases that potentially target ulvan (Table 1). CAZyme numbers and diversity match the hydrolytic potential of related Maribacter and Zobellia strains included for comparison ( Supplementary Table S1), corroborating the adaptation of these taxa to algal substrates and surfaces (Bakunina et al 2012, Martin et al 2015, Kwak et al 2017, Zhan et al 2017, Chernysheva et al 2019.…”

The Role of Petrimonas mucosa ING2-E5AT in Mesophilic Biogas Reactor Systems as Deduced from Multiomics Analyses

“…Of a total of 233 CAZymes encoded in the ING2-E5A T genome, 154 GHs account for 44 different families ( Figure 3 ). Previous studies on Gram-negative bacteria of the phylum Bacteroidetes also reported on a large variety of different GH families in these species (up to 62) [ 64 ]. Based on these observations, a broad biodegradation potential regarding carbohydrates is proposed for this phylum.…”

Genomics Reveals the Metabolic Potential and Functions in the Redistribution of Dissolved Organic Matter in Marine Environments of the Genus Thalassotalea

“…The PS06 genome harbored various genes involved in carbohydrate metabolism, including genes encoding carbohydrate-active enzymes (CAZymes). The identified CAZymes provide insight into their lifestyles and potential applications in biomedicine or biotechnology [ 72 , 73 ]. CAZymes have been classified by following modules: glycoside hydrolases (GHs), glycosyltransferases (GTs), polysaccharide lyases (PLs), carbohydrate esterases (CEs), auxiliary activities (AAs), and carbohydrate-binding modules (CBMs).…”

“…CAZymes have been classified by following modules: glycoside hydrolases (GHs), glycosyltransferases (GTs), polysaccharide lyases (PLs), carbohydrate esterases (CEs), auxiliary activities (AAs), and carbohydrate-binding modules (CBMs). Also, bacterial CAZymes have been characterized for synthesis and degradation of polysaccharides as a rich source of bioactive compounds in algae including seaweeds and recognized as an eco-friendly enzyme for improving the yield and quality for derivatives of algal polysaccharides [ 73 , 74 ]. Although a number of marine heterotrophic bacteria are involved in the degradation of various biopolymers including, polysaccharide degradation, little is known about the gene repertories of hydrolytic systems in the genus Thalassotalea .…”