Functional proteomics of light-harvesting complex proteins under varying light-conditions in diatoms

Current Status of Omics in Biological Quality Elements for Freshwater Biomonitoring

Freshwater ecosystems have been experiencing various forms of threats, mainly since the last century. The severity of this adverse scenario presents unprecedented challenges to human health, water supply, agriculture, forestry, ecological systems, and biodiversity, among other areas. Despite the progress made in various biomonitoring techniques tailored to specific countries and biotic communities, significant constraints exist, particularly in assessing and quantifying biodiversity and its interplay with detrimental factors. Incorporating modern techniques into biomonitoring methodologies presents a challenging topic with multiple perspectives and assertions. This review aims to present a comprehensive overview of the contemporary advancements in freshwater biomonitoring, specifically by utilizing omics methodologies such as genomics, metagenomics, transcriptomics, proteomics, metabolomics, and multi-omics. The present study aims to elucidate the rationale behind the imperative need for modernization in this field. This will be achieved by presenting case studies, examining the diverse range of organisms that have been studied, and evaluating the potential benefits and drawbacks associated with the utilization of these methodologies. The utilization of advanced high-throughput bioinformatics techniques represents a sophisticated approach that necessitates a significant departure from the conventional practices of contemporary freshwater biomonitoring. The significant contributions of omics techniques in the context of biological quality elements (BQEs) and their interpretations in ecological problems are crucial for biomonitoring programs. Such contributions are primarily attributed to the previously overlooked identification of interactions between different levels of biological organization and their responses, isolated and combined, to specific critical conditions.

Early dynamics of photosynthetic Lhcf2 and Lhcf15 transcription and mRNA stabilities in response to herbivory-related decadienal in Phaeodactylum tricornutum

Abiotic and biotic stresses widely reduce light harvesting complex (LHC) gene expression in higher plants and algae. However, control mechanisms and functions of these changes are not well understood. During herbivory, marine diatom species release oxylipins that impair grazer reproduction and serve as signaling molecules to nearby undamaged diatoms. To examine LHC mRNA regulation by oxylipin exposure, the diatom Phaeodactylum tricornutum was treated with a sublethal concentration of trans,trans-2,4-decadienal (DD) during the light cycle. Transcriptome analyses revealed extensive suppression of LHC mRNAs and a smaller set of up-regulated LHC mRNAs at 3 h. For two divergently regulated LHCF antennae family mRNAs, in vivo 4-thiouracil metabolic labeling was used to distinguish synthesis and degradation rates. Within 3 h of DD exposure, Lhcf2 mRNA levels and transcription were strongly suppressed and its mRNA half-life decreased. In contrast, Lhcf15 mRNA mainly accumulated between 3-9 h, its transcription increased and its mRNA was highly stabilized. Hence, DD-treated cells utilized transcriptional and mRNA stability control mechanisms which were likely major factors in the differing Lhcf2 and Lhcf15 expression patterns. Widespread LHC mRNA regulation and possible effects on photosynthesis may contribute to enhanced fitness in cells impacted by herbivory and other stresses.

Novel insights into mixotrophic cultivation of Nitzschia laevis for co-production of fucoxanthin and eicosapentaenoic acid

The aim of this study was to determine a compatible method for co-production of fucoxanthin and eicosapentaenoic acid of diatom Nitzschia laevis by mixotrophic and heterotrophic cultivation modes in view of cell growth, targeting products' contents, photosynthesis-related characteristics and carbon partitioning. The results showed that mixotrophic mode enhanced fucoxanthin and eicosapentaenoic acid yields by increasing their precursors of pyruvate and acetyl-CoA at the expense of starch. The increase of chlorophylls and glyceraldehyde 3-phosphate indicated the development of Calvin cycle and carbon repartitioning in mixotrophic mode. Consequently, microalgal cells in mixotrophic mode achieved much higher fucoxanthin (60.12%) and eicosapentaenoic acid (50.67%) contents, and lower starch content (30.2%) compared with heterotrophic mode. Furthermore, fucoxanthin content was positively correlated with eicosapentaenoic acid content (adjusted R² = 0.96). Taken together, these results showed that the mixotrophic mode could be a promising approach for the co-production of fucoxanthin and eicosapentaenoic acid by Nitzschia laevis.