Characterization of GTPBPs involved in ribosome assembly and function in human mitochondria

Mitochondria are organelles often referred to as the powerhouses of the cell as they provide most of the chemical energy via aerobic respiration. However, in the last half a century, it has become clear that their function extends to other fundamental metabolic tasks. These fascinating organelles have their own DNA and protein synthesis machinery, the mitochondrial ribosome (mitoribosome), the latter made of a set of mitoribosomal proteins (MRPs) and rRNA that all together build a 2.7 MDa complex. The mitoribosome translates for 13 polypeptides which are later incorporated in the respiratory chain. Therefore, it is not surprising that mutations in MRPs or auxiliary factors involved in its assembly can lead to multisystemic human disorders. Here lies the importance of studying the molecular mechanisms of the mitoribosomal assembly process, which has been the focus of my PhD studies. Guanosine triphosphate binding proteins (GTPBPs) involved in ribosome biogenesis in bacteria have extensively been studied and have provided key knowledge for the understanding of the role of their human mitochondrial homologues identified so far. In my work, I have addressed the role of human mitochondrial proteins GTPBP5, GTPBP10 and GTPBP8 and their possible involvement in mitochondrial ribosome biogenesis. In paper I, we have biochemically characterised GTPBP5 by assessing its interactome and the effects of its depletion on mitochondrial functionality, showing the importance of this protein as an assembly factor. These data have later been confirmed in paper II, where we have structurally determined in more details the function of GTPBP5 as well as several other late-stage mitoribosomal assembly factors. GTPBP10 involvement in the assembly process has been determined biochemically in paper III, where we also co-immunoprecipitated GTPBP10 with the mitoribosome in vivo using a knock-in mouse model. Additionally, preliminary results discussed in this thesis regard the investigation of GTPBP8 function in mitochondrial gene expression, demonstrating its significance for mitochondrial viability

C6orf203 is an RNA-binding protein involved in mitochondrial protein synthesis.

In all biological systems, RNAs are associated with RNA-binding proteins (RBPs), forming complexes that control gene regulatory mechanisms, from RNA synthesis to decay. In mammalian mitochondria, post-transcriptional regulation of gene expression is conducted by mitochondrial RBPs (mt-RBPs) at various stages of mt-RNA metabolism, including polycistronic transcript production, its processing into individual transcripts, mt-RNA modifications, stability, translation and degradation. To date, only a handful of mt-RBPs have been characterized. Here, we describe a putative human mitochondrial protein, C6orf203, that contains an S4-like domain-an evolutionarily conserved RNA-binding domain previously identified in proteins involved in translation. Our data show C6orf203 to bind highly structured RNA in vitro and associate with the mitoribosomal large subunit in HEK293T cells. Knockout of C6orf203 leads to a decrease in mitochondrial translation and consequent OXPHOS deficiency, without affecting mitochondrial RNA levels. Although mitoribosome stability is not affected in C6orf203-depleted cells, mitoribosome profiling analysis revealed a global disruption of the association of mt-mRNAs with the mitoribosome, suggesting that C6orf203 may be required for the proper maturation and functioning of the mitoribosome. We therefore propose C6orf203 to be a novel RNA-binding protein involved in mitochondrial translation, expanding the repertoire of factors engaged in this process

Structural basis for late maturation steps of the human mitoribosomal large subunit

Mitochondrial ribosomes (mitoribosomes) are characterized by a distinct architecture and thus biogenesis pathway. Here, cryo-EM structures of mitoribosome large subunit assembly intermediates elucidate final steps of 16 S rRNA folding, methylation and peptidyl transferase centre (PTC) completion, as well as functions of several mitoribosome assembly factors

Yield behavior of random copolymers of isotactic polypropylene

The crystallographic micromechanical model (CMM) for prediction of yield stress of semicrystalline polymers, based on the thermally activated nucleation of screw dislocations at the boundary of lamellar crystals, is employed to interpret the yield behavior by effect of uniaxial drawing of some isotactic copolymers of propylene with different comonomeric units such as ethylene, 1-butene, 1-pentene, 1-hexene, and 1-octadecene (iPPEt, iPPBu, iPPPe, iPPHe and iPPOc, respectively). The samples are characterized by a random distribution of the comonomeric units. The CMM predicts that the values of stress at yield depend on the thickness of the lamellar crystals and relies on two parameters, i.e. the critical value of the free energy needed for nucleation and activation of a screw dislocation in crystallographic planes parallel to the chain axes, and the shear modulus relative to the planes of slip for the dislocations, whereas the role of the interlamellar amorphous phase is neglected. The aim of this study is to analyze to which extend the thickness of the lamellar crystals influences the yield stress for a series of propylene-based copolymers having a well-defined chain microstructure and crystallized in the α and/or γ forms, but possessing different degree of crystallinity, thickness of the lamellar crystals, stability of the crystals and also intrinsic flexibility of the portions of chains belonging to the amorphous regions, in relation with the degree of inclusion (exclusion) of the co-monomers in (from) the crystals. It is shown that, in the case of copolymers with a comonomer concentration lower than a threshold, the yield stress increases with increasing the lamellar thickness regardless of type of comonomer, the relative amount of the two polymorphs (α and γ forms), and the degree of inclusion, in good agreement with the predictions of the CMM approach. For copolymers with comonomer concentration higher than a threshold and bulky side groups, which are excluded from the crystals, the thickness of the lamellar crystals becomes low and the role of the chains in the amorphous regions becomes not negligible. In the case of copolymers with high butene concentration, instead, the stress at yield decreases with increasing the thickness of the lamellar crystals, because the high degree of inclusion of butene units in the crystals induces not only an increase in the thickness of the lamellar crystals, but also a decrease in the stability of the crystals, and the role of the chains located in the interlamellar amorphous layers acting as tie-molecules may not be disregarded

Relationships among lamellar morphology parameters, structure and thermal behavior of isotactic propene-pentene copolymers: The role of incorporation of comonomeric units in the crystals

The correlations between the thermal behavior and the crystal morphology of isotactic propene-pentene copolymers were studied through wide-angle (WAXS) and small-angle (SAXS) X-ray diffraction. Copolymers with pentene concentration lower than 11mol% crystallize in the α form of isotactic polypropylene (iPP) and a concomitant decrease of melting temperature and of the thickness of crystalline lamellae with increasing pentene concentration has been observed. At higher pentene concentrations the trigonal form of iPP crystallizes and a neat increase crystalline lamellar thickness and of the long period, with a slower decrease of melting temperature and crystallinity have been observed. These results have been treated in the general framework of copolymer crystallization theories, using a method proposed by Crist and correlated with the different level of inclusion of pentene co-units in the crystals ofαand trigonal forms. For copolymers with pentene concentration lower than 11mol% pentene co-units are in part incorporated in the crystals of α form. For higher pentene concentrations the decrease of melting temperature coupled with the increase of lamellae thickness with increasing comonomer content is the hallmark of the almost total inclusion of pentene co-units in the crystals of the trigonal form

MitoRibo-Tag Mice Provide a Tool for In Vivo Studies of Mitoribosome Composition

Mitochondria harbor specialized ribosomes (mitoribosomes) necessary for the synthesis of key membrane proteins of the oxidative phosphorylation (OXPHOS) machinery located in the mitochondrial inner membrane. To date, no animal model exists to study mitoribosome composition and mitochondrial translation coordination in mammals in vivo. Here, we create MitoRibo-Tag mice as a tool enabling affinity purification and proteomics analyses of mitoribosomes and their interactome in different tissues. We also define the composition of an assembly intermediate formed in the absence of MTERF4, necessary for a late step in mitoribosomal biogenesis. We identify the orphan protein PUSL1, which interacts with a large subunit assembly intermediate, and demonstrate that it is an inner-membrane-associated mitochondrial matrix protein required for efficient mitochondrial translation. This work establishes MitoRibo-Tag mice as a powerful tool to study mitoribosomes in vivo, enabling future studies on the mitoribosome interactome under different physiological states, as well as in disease and aging

Translation initiation of leaderless and polycistronic transcripts in mammalian mitochondria.

Funder: International Helmholtz Research School of Biophysics and Soft MatterFunder: Karolinska InstitutetThe synthesis of mitochondrial OXPHOS complexes is central to cellular metabolism, yet many molecular details of mitochondrial translation remain elusive. It has been commonly held view that translation initiation in human mitochondria proceeded in a manner similar to bacterial systems, with the mitoribosomal small subunit bound to the initiation factors, mtIF2 and mtIF3, along with initiator tRNA and an mRNA. However, unlike in bacteria, most human mitochondrial mRNAs lack 5' leader sequences that can mediate small subunit binding, raising the question of how leaderless mRNAs are recognized by mitoribosomes. By using novel in vitro mitochondrial translation initiation assays, alongside biochemical and genetic characterization of cellular knockouts of mitochondrial translation factors, we describe unique features of translation initiation in human mitochondria. We show that in vitro, leaderless mRNA transcripts can be loaded directly onto assembled 55S mitoribosomes, but not onto the mitoribosomal small subunit (28S), in a manner that requires initiator fMet-tRNAMet binding. In addition, we demonstrate that in human cells and in vitro, mtIF3 activity is not required for translation of leaderless mitochondrial transcripts but is essential for translation of ATP6 in the case of the bicistronic ATP8/ATP6 transcript. Furthermore, we show that mtIF2 is indispensable for mitochondrial protein synthesis. Our results demonstrate an important evolutionary divergence of the mitochondrial translation system and further our fundamental understanding of a process central to eukaryotic metabolism

GTPBP8 plays a role in mitoribosome formation in human mitochondria.

Acknowledgements: The work was funded by Max Planck Institute, Karolinska Institute, the Knut & Alice Wallenberg Foundation (WAF2017 and KAW 2018.0080 awarded to JR, KAW 2017.0080 and 2018.0080 awarded to BMH), the Swedish Research Council (VR2016-02179, awarded to JR) and EMBO (LTF-2020-606 to MDN).Mitochondrial gene expression relies on mitoribosomes to translate mitochondrial mRNAs. The biogenesis of mitoribosomes is an intricate process involving multiple assembly factors. Among these factors, GTP-binding proteins (GTPBPs) play important roles. In bacterial systems, numerous GTPBPs are required for ribosome subunit maturation, with EngB being a GTPBP involved in the ribosomal large subunit assembly. In this study, we focus on exploring the function of GTPBP8, the human homolog of EngB. We find that ablation of GTPBP8 leads to the inhibition of mitochondrial translation, resulting in significant impairment of oxidative phosphorylation. Structural analysis of mitoribosomes from GTPBP8 knock-out cells shows the accumulation of mitoribosomal large subunit assembly intermediates that are incapable of forming functional monosomes. Furthermore, fPAR-CLIP analysis reveals that GTPBP8 is an RNA-binding protein that interacts specifically with the mitochondrial ribosome large subunit 16 S rRNA. Our study highlights the role of GTPBP8 as a component of the mitochondrial gene expression machinery involved in mitochondrial large subunit maturation