Publications

Inorganic minerals that form via regulated biological processes exhibit remarkable properties. This is due to the involvement of macromolecules that control biomineralization. Even though the interactions of these biopolymers with solid mineral phases are intensely studied, not much is known about their involvement in the preceding steps of intracellular transport of the mineral building blocks. In this work, the model system of coccolith calcite crystallization is utilized to address the role of mineral-associated polysaccharides in the transport of calcium ions. State-of-the-art cryo-electron tomography is used to image in situ ion-rich dense phases in the wild-type and in two mutant strains, defected in coccolith production. The results show that the abundance and solubility of the calcium-rich condensates need to be finely tuned for proper crystallization. When the native macromolecular assemblage is compromised, calcium is still present in the calcifying fluid as a solute, but this is not sufficient for coccolith development. These results suggest that biomineralizing systems achieve superior regulation of crystallization due to the use of dense macromolecule-rich phases.

Diatoms are unicellular algae characterized by silica cell walls. These silica elements are known to be formed intracellularly in membrane-bound silica deposition vesicles and exocytosed after completion. How diatoms maintain membrane homeostasis during the exocytosis of these large and rigid silica elements remains unknown. Here we study the membrane dynamics during cell wall formation and exocytosis in two model diatom species, using live-cell confocal microscopy, transmission electron microscopy and cryo-electron tomography. Our results show that during its formation, the mineral phase is in tight association with the silica deposition vesicle membranes, which form a precise mold of the delicate geometrical patterns. We find that during exocytosis, the distal silica deposition vesicle membrane and the plasma membrane gradually detach from the mineral and disintegrate in the extracellular space, without any noticeable endocytic retrieval or extracellular repurposing. We demonstrate that within the cell, the proximal silica deposition vesicle membrane becomes the new barrier between the cell and its environment, and assumes the role of a new plasma membrane. These results provide direct structural observations of diatom silica exocytosis, and point to an extraordinary mechanism in which membrane homeostasis is maintained by discarding, rather than recycling, significant membrane patches.

Metal sulfides are a common group of extracellular bacterial biominerals. However, only a few cases of intracellular biomineralization are reported in this group, mostly limited to greigite (Fe3S4) in magnetotactic bacteria. Here, a previously unknown periplasmic biomineralization of copper sulfide produced by the magnetotactic bacterium Desulfamplus magnetovallimortis strain BW-1, a species known to mineralize greigite (Fe3S4) and magnetite (Fe3O4) in the cytoplasm is reported. BW-1 produces hundreds of spherical nanoparticles, composed of 12 nm substructures of a poorly crystalline hexagonal copper sulfide structure that remains in a thermodynamically unstable state. The particles appear to be surrounded by an organic matrix as found from staining and electron microscopy inspection. Differential proteomics suggests that periplasmic proteins, such as a DegP-like protein and a heavy metal-binding protein, could be involved in this biomineralization process. The unexpected periplasmic formation of copper sulfide nanoparticles in BW-1 reveals previously unknown possibilities for intracellular biomineralization that involves intriguing biological control and holds promise for biological metal recovery in times of copper shortage.

Minerals are formed by organisms in all of the kingdoms of life. Mineral formation pathways all involve uptake of ions from the environment, transport of ions by cells, sometimes temporary storage, and ultimately deposition in or outside of the cells. Even though the details of how all this is achieved vary enormously, all pathways need to respect both the chemical limitations of ion manipulation, as well as the many "housekeeping"roles of ions in cell functioning. Here we provide a chemical perspective on the biological pathways of biomineralization. Our approach is to compare and contrast the ion pathways involving calcium, phosphate, and carbonate in three very different organisms: the enormously abundant unicellular marine coccolithophores, the well investigated sea urchin larval model for single crystal formation, and the complex pathways used by vertebrates to form their bones. The comparison highlights both common and unique processes. Significantly, phosphate is involved in regulating calcium carbonate deposition and carbonate is involved in regulating calcium phosphate deposition. One often overlooked commonality is that, from uptake to deposition, the solutions involved are usually supersaturated. This therefore requires not only avoiding mineral deposition where it is not needed but also exploiting this saturated state to produce unstable mineral precursors that can be conveniently stored, redissolved, and manipulated into diverse shapes and upon deposition transformed into more ordered and hence often functional final deposits.

Diatoms are an abundant group of microalgae, known for their ability to form an intricate cell wall made of silica. Silicon levels in seawater are in the micromolar range, making it a challenge for diatoms to supply the rapid intracellular silicification process with the needed flux of soluble silicon. Here, we use three-dimensional cryoelectron microscopy and spectroscopy to quantitatively analyze, at submicrometer spatial resolution and sensitivity in the millimolar range, intracellular silicon in diatom cells. Our results show that the internal silicon concentration inside the cell is ~150 mM in average, three orders of magnitude higher than the external environment. The cellular silicon content is not compartmentalized, but rather unevenly distributed throughout the cell. Unexpectedly, under silicon starvation, the internal silicon pool is not depleted, reminiscent of a constitutive metabolite. Our spatially resolved approach to analyze intracellular silicon opens avenues to investigate this homeostatic trait of diatoms.

As important optical devices, including diffuse scatterers, broadband reflectors, and image-forming mirrors with superior properties, biological guanine crystals have been thoroughly investigated in recent years. However, controlling the polymorph and morphology of synthetic guanine crystals is still highly challenging. Herein, a pure phase of the anhydrous guanine (AG) ss form was obtained via transformation of a hydrated amorphous guanine phase (HAmG) in solvents such as formamide, DMSO and DMF. The AG ss crystals can be stable for up to three months in the above solvents. The AG ss nano-platelets obtained in DMSO exposed the (100) plane when polyvinylpyrrolidone (PVP) was applied as an additive. The AG ss nano-platelets were about 100 nm in length, 40 nm in width, and 10-20 nm in thickness. Solid-state NMR (ssNMR) characterization indicated that the HAmG precursor had a similar short-range order as AG ss, which might be the reason for the formation of AG ss instead of the thermodynamically more stable AG a. The delicate control of the polymorph and morphology of the guanine crystals via an amorphous phase strategy may inspire the formation of highly ordered hierarchical structures of guanine crystals with unique optical properties.

Many organisms form minerals from precursor phases that crystallize under strict biological control. The dynamic intracellular processes of formation, transport, and deposition of these precursor phases are challenging to identify. An unusual situation is recently revealed for the calcifying alga Emiliania huxleyi, as the cells contain a compartment filled with a concentrated Ca and P phase but the final calcite crystals, which are nucleated in a different compartment, are P-free. Thus, the connection of the Ca-P-rich pool to the mineralization process remains unclear. Here, pulse-chase experiments are used with Sr to label the Ca-P-rich phase in E. huxleyi cells, and cryo X-ray absorption spectroscopy and analytical transmission electron microscopy to follow the Sr within cells. It is found that Sr is first found in the Ca-P-rich phase and then becomes incorporated into the calcite. This demonstrates that the calcium used by the cells to build calcite originates from the Ca-P-rich pool.

Many organisms form elaborate mineralized structures, constituted of highly organized arrangements of crystals and organic macromolecules. The localization of crystals within these structures is presumably determined by the interaction of nucleating macromolecules with the mineral phase. Here we show that, preceding nucleation, a specific interaction between soluble organic molecules and an organic backbone structure directs mineral components to specific sites. This strategy underlies the formation of coccoliths, which are highly ordered arrangements of calcite crystals produced by marine microalgae. On combining the insoluble organic coccolith scaffold with coccolith-associated soluble macromolecules in vitro, we found a massive accretion of calcium ions at the sites where the crystals form in vivo. The in vitro process exhibits profound similarities to the initial stages of coccolith biogenesis in vivo.

Many organisms form crystals from transient amorphous precursor phases. In cases where the precursor phases were imaged, they were seen to consist of nanosphere particles. Interestingly, some mature biogenic crystals also have a nanosphere particle morphology, but some are characterized by crystallographic faces that are smooth at the nanometer level. There are also biogenic crystals that have both crystallographic faces and nanosphere particle morphology. This highlight presents a working hypothesis, stating that some biomineralization processes involve growth by nanosphere particle accretion, where amorphous nanoparticles are incorporated as such into growing crystals and their morphology is preserved upon crystallization. This process produces biogenic crystals with a nanosphere particle morphology. Other biomineralization processes proceed by ion-by-ion growth, and some cases of biological crystal growth involve both processes. We also identify several biomineralization processes which do not seem to fit this working hypothesis. It is our hope that this highlight will inspire studies that will shed more light on the underlying crystallization mechanisms in biology.

Amorphous calcium carbonate phases, either synthesized artificially or generated biogenically, can be identified from broadened peaks in X-ray or electron diffraction profiles. It is conceivable that randomly oriented nanocrystals, approximately 1 nm in size, could give rise to coherent diffraction profiles that are characterized as amorphous. The coherent diffraction profiles for 200 keV electrons, as might be used in an electron microscope, and Cu Kα X-rays were calculated for needle-shaped calcite crystals bounded by {1121} facets and rhomb-shaped crystals bounded by {1014} facets. Crystals of about 1.0 nm in size gave a profile that is consistent with the X-ray measurements of amorphous calcium carbonate. The relative intensity of high-angle broadened peaks and changes in the IR spectrum are best explained by disorder in the nanocrystallites. The presence of randomly oriented nanocrystallites also explains the lack of optical birefringence.

An ugly duckling grows into a swan: Many organisms grow their crystalline mineral phases through the secondary nucleation of nanospheres made of an amorphous precursor phase. Stable amorphous calcium carbonate biominerals were used to induce a similar transformation in vitro. The amorphous nanospheres underwent a solidphase transformation that resulted in highly ordered calcite crystals composed of aggregated particles.

Plant cystoliths are mineralized objects that are formed by specialized cells in the leaves of certain plants. The main mineral component of cystoliths by volume is amorphous calcium carbonate (ACC) and the minor component is silica. We show that the silica stalk is formed first and is essential for ACC formation. Furthermore, the cystolith is shown to be composed of four distinct mineral phases with different chemical properties: an almost pure silica phase grades into a Mg-rich silica phase. This Mg-rich silica is overlaid by a relatively stable ACC phase. A bulky and less stable ACC phase encapsulates the first ACC phase. This architecture poses interesting questions about the role of Mg in the silica phase and suggests a strategy for ACC stabilization that takes advantage of a precise regulation of the mineral-growth microenvironment. The fantastic four: Cystoliths are mineralized objects that are mainly composed of amorphous calcium carbonate (ACC), which is found in the leaves of several plants. They have a unique composition and architecture of four distinct amorphous phases. A Mg-rich silica phase is essential for the formation of two distinct ACC phases. The inner ACC phase has inherently higher stability, presumably required by the sequential formation mechanism.