Structural Identification of Metalloproteomes in Marine Diatoms, an Efficient Algae Model in Toxic Metals Bioremediation

Abstract

The biosorption of pollutants using microbial organisms has received growing interest in the last decades. Diatoms, the most dominant group of phytoplankton in oceans, are (i) pollution tolerant species, (ii) excellent biological indicators of water quality, and (iii) efficient models in assimilation and detoxification of toxic metal ions. Published research articles connecting proteomics with the capacity of diatoms for toxic metal removal are very limited. In this work, we employed a structural based systematic approach to predict and analyze the metalloproteome of six species of marine diatoms: Thalassiosira pseudonana, Phaeodactylum tricornutum, Fragilariopsis cylindrus, Thalassiosira oceanica, Fistulifera solaris, and Pseudo-nitzschia multistriata. The results indicate that the metalloproteome constitutes a significant proportion (~13%) of the total diatom proteome for all species investigated, and the proteins binding non-essential metals (Cd, Hg, Pb, Cr, As, and Ba) are significantly more than those identified for essential metals (Zn, Cu, Fe, Ca, Mg, Mn, Co, and Ni). These findings are most likely related to the well-known toxic metal tolerance of diatoms. In this study, metalloproteomes that may be involved in metabolic processes and in the mechanisms of bioaccumulation and detoxification of toxic metals of diatoms after exposure to toxic metals were identified and described.

Effect of Copper Antifouling Paint on Marine Degradation of Polypropylene: Uneven Distribution of Microdebris between Nagasaki Port and Goto Island, Japan

“…In addition, peeling Cu compound particles can become marine pollutants. There is no doubt that they will have different effects on marine organisms [ 33 , 34 , 35 ]. This study did not examine seafloor sediments, so the behavior of type C, which contains copper compounds, on the seafloor remains unclear.…”

Bioaccumulation of Titanium in diatom Cyclotella atomus Hust

“…Copper (Cu) adsorption and uptake were reported in the diatom under enhanced nitrogen and phosphorous intake Phaeodactylum tricornutum (Zhou et al 2022). Metalloproteome engulfs about 13% of total diatom proteome in heavy metal accumulation and detoxi cation including Hg, Cd, Pb, Cr, As, and Ba (Chasapis et al 2022).…”

Structural modeling of protein ensembles between E3 RING ligases and SARS-CoV-2: The role of zinc binding domains

“…The structures of E3 ligases RNF41, TRIM59, and MIB1 have yet to be determined experimentally. Zinc binding amino acid motifs of RNF41, TRIM59 and MIB1 were characterized using the strategy previously applied to identify putative metal-binding sites in various proteomes [19] , [20] , [21] , [22] , [23] . The list of known zinc binding domains (such as: SIAH-type Zn(II) finger, B-box type Zn (II) finger, ZZ-type Zn(II) finger and zinc domains of metalloproteases [24] , has been extracted from the Pfam library ( http://pfam.xfam.org/ ) [25] , and their 3D structures were retrieved from the Protein Data Bank (PDB; http://www.rcsb.org/pdb/ ) [26] and MetalPDB databases ( https://metalpdb.cerm.unifi.it/ ) [27] .…”