Assembly strategies for rubber-degrading microbial consortia based on omics tools

Numerous microorganisms, including bacteria and fungus, have been identified as capable of degrading rubber. Rubber biodegradation is still understudied due to its high stability and the lack of well-defined pathways and efficient enzymes involved in microorganism metabolism. However, rubber products manufacture and usage cause substantial environmental issues, and present physical-chemical methods involve dangerous chemical solvents, massive energy, and trash with health hazards. Eco-friendly solutions are required in this context, and biotechnological rubber treatment offers considerable promise. The structural and functional enzymes involved in poly (cis-1,4-isoprene) rubber and their cleavage mechanisms have been extensively studied. Similarly, novel bacterial strains capable of degrading polymers have been investigated. In contrast, relatively few studies have been conducted to establish natural rubber (NR) degrading bacterial consortia based on metagenomics, considering process optimization, cost effective approaches and larger scale experiments seeking practical and realistic applications. In light of the obstacles encountered during the constructing NR-degrading consortia, this study proposes the utilization of multi-omics tools to discern the underlying mechanisms and metabolites of rubber degradation, as well as associated enzymes and effective synthesized microbial consortia. In addition, the utilization of omics tool-based methods is suggested as a primary research direction for the development of synthesized microbial consortia in the future

Characterization of a novel glutamate dehydrogenase gene and its response to heat stress in the sea urchin Strongylocentrotus intermedius

Glutamate dehydrogenase (GDH), a key metabolic enzyme that is ubiquitous across almost all living species, is essential for cell survival. To elucidate the characteristics and functions of the GDH gene in the sea urchin, we cloned and characterized the full-length cDNA of a novel GDH homolog from Strongylocentrotus intermedius, herein designated SiGDH. The full-length SiGDH gene was 2499 bp, with an open reading frame (ORF) of 1635 bp, encoding 544 amino acids. Bioinformatic analyses revealed that the predicted SiGDH protein contained the conserved ELFV_dehydrog_N and ELFV_dehydrog domains and that this protein had the highest sequence identity with the GDH protein from Strongylocentrotus purpuratus. Tissue-specific differences in SiGDH relative expression patterns and enzyme activity levels were observed, and the highest relative expression and total enzyme activity of SiGDH were determined to be in the gonad. Changes in SiGDH relative expression and enzyme activity in the gonad were observed after both gradual and acute heat stress. Together, our observations help to clarify the characteristics of this GDH homolog, as well as its associations with heat resistance in echinoderms

New Multidrug Efflux Systems in a Microcystin-Degrading Bacterium <em>Blastomonas fulva</em> and Its Genomic Feature

A microcystin-degrading bacterial strain, Blastomonas fulva T2, was isolated from the culture of a microalgae Microcystis. The strain B. fulva T2 is Gram-stain-negative, non-motile, aerobic, non-spore-forming and phototrophic. The cells of B. fulva T2 are able to grow in ranges of temperature from 15 to 37 °C, with a pH of 6 to 8 and a salinity of 0 to 1% NaCl. Here, we sequenced the complete genome of B. fulva T2, aiming to better understand the evolutionary biology and the function of the genus Blastomonas at the molecular level. The complete genome of B. fulva T2 contained a circular chromosome (3,977,381 bp) with 64.3% GC content and a sizable plasmid (145.829 bp) with 60.7% GC content which comprises about 3.5% of the total genetic content. A total of 3842 coding genes, including 46 tRNAs and 6 rRNAs, were predicted in the genome. The genome contains genes for glycolysis, citric acid cycle, Entner–Doudoroff pathways, photoreaction center and bacteriochlorophylla synthesis. A 7.9 K gene cluster containing mlrA, mlrB, mlrC and mlrD1,2,3,4 of microcystin-degrading enzymes was identified. Notably, eight different efflux pumps categorized into RND, ABC and MFS types have been identified in the genome of strain T2. Our findings should provide new insights of the alternative reaction pathway as well as the enzymes which mediated the degradation of microcystin by bacteria, as well as the evolution, architectures, chemical mechanisms and physiological roles of the new bacterial multidrug efflux system