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USA"},{"issue":"7","key":"10.1016\/j.bbamcr.2026.120171_bb0315","doi-asserted-by":"crossref","first-page":"958","DOI":"10.1261\/rna.039743.113","article-title":"Thermostable group II intron reverse transcriptase fusion proteins and their use in cDNA synthesis and next-generation RNA sequencing","volume":"19","author":"Mohr","year":"2013","journal-title":"RNA"},{"issue":"10","key":"10.1016\/j.bbamcr.2026.120171_bb0320","doi-asserted-by":"crossref","first-page":"3338","DOI":"10.1016\/j.jmb.2020.03.022","article-title":"Sequencing and structure probing of long RNAs using MarathonRT: a next-generation reverse transcriptase","volume":"432","author":"Guo","year":"2020","journal-title":"J. Mol. Biol."},{"issue":"11","key":"10.1016\/j.bbamcr.2026.120171_bb0325","doi-asserted-by":"crossref","first-page":"1643","DOI":"10.1038\/nprot.2015.103","article-title":"Selective 2\u2032-hydroxyl acylation analyzed by primer extension and mutational profiling (SHAPE-MaP) for direct, versatile and accurate RNA structure analysis","volume":"10","author":"Smola","year":"2015","journal-title":"Nat. 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Biol."},{"issue":"16","key":"10.1016\/j.bbamcr.2026.120171_bb0395","doi-asserted-by":"crossref","first-page":"9710","DOI":"10.1093\/nar\/gkae645","article-title":"The human mitochondrial translation factor TACO1 alleviates mitoribosome stalling at polyproline stretches","volume":"52","author":"Brischigliaro","year":"2024","journal-title":"Nucleic Acids Res."},{"issue":"1","key":"10.1016\/j.bbamcr.2026.120171_bb0400","doi-asserted-by":"crossref","first-page":"181","DOI":"10.1016\/j.cell.2018.02.034","article-title":"Pervasive regulatory functions of mRNA structure revealed by high-resolution SHAPE probing","volume":"173","author":"Mustoe","year":"2018","journal-title":"Cell"},{"issue":"22","key":"10.1016\/j.bbamcr.2026.120171_bb0405","doi-asserted-by":"crossref","first-page":"4279","DOI":"10.1016\/j.molcel.2025.10.022","article-title":"Monitoring the complexity and dynamics of mitochondrial translation","volume":"85","author":"Wakigawa","year":"2025","journal-title":"Mol. 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Microbiol."},{"issue":"10","key":"10.1016\/j.bbamcr.2026.120171_bb0425","doi-asserted-by":"crossref","first-page":"946","DOI":"10.1038\/nbt.1568","article-title":"Automated design of synthetic ribosome binding sites to control protein expression","volume":"27","author":"Salis","year":"2009","journal-title":"Nat. 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Sci."},{"issue":"5","key":"10.1016\/j.bbamcr.2026.120171_bb0485","doi-asserted-by":"crossref","first-page":"582","DOI":"10.1038\/nsmb.2544","article-title":"Dynamics of translation by single ribosomes through mRNA secondary structures","volume":"20","author":"Chen","year":"2013","journal-title":"Nat. Struct. Mol. Biol."},{"issue":"5807","key":"10.1016\/j.bbamcr.2026.120171_bb0490","doi-asserted-by":"crossref","first-page":"1930","DOI":"10.1126\/science.1131262","article-title":"Human catechol-O-methyltransferase haplotypes modulate protein expression by altering mRNA secondary structure","volume":"314","author":"Nackley","year":"2006","journal-title":"Science"},{"issue":"5 Pt A","key":"10.1016\/j.bbamcr.2026.120171_bb0495","doi-asserted-by":"crossref","first-page":"758","DOI":"10.1016\/j.jmb.2015.11.012","article-title":"Protein structure is related to RNA structural reactivity in vivo","volume":"428","author":"Tang","year":"2016","journal-title":"J. Mol. Biol."},{"issue":"7256","key":"10.1016\/j.bbamcr.2026.120171_bb0500","doi-asserted-by":"crossref","first-page":"711","DOI":"10.1038\/nature08237","article-title":"Architecture and secondary structure of an entire HIV-1 RNA genome","volume":"460","author":"Watts","year":"2009","journal-title":"Nature"},{"issue":"5","key":"10.1016\/j.bbamcr.2026.120171_bb0505","doi-asserted-by":"crossref","first-page":"853","DOI":"10.1038\/s41594-026-01803-w","article-title":"Membrane insertion of mitochondrial-encoded proteins regulates ribosome decoding speed","volume":"33","author":"Sch\u00f6ndorf","year":"2026","journal-title":"Nat. Struct. Mol. Biol."},{"issue":"5","key":"10.1016\/j.bbamcr.2026.120171_bb0510","doi-asserted-by":"crossref","first-page":"730","DOI":"10.1038\/s41594-026-01799-3","article-title":"When membrane insertion sets the pace of mitochondrial translation","volume":"33","author":"Brischigliaro","year":"2026","journal-title":"Nat. Struct. Mol. 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Commun."},{"issue":"2","key":"10.1016\/j.bbamcr.2026.120171_bb0540","doi-asserted-by":"crossref","DOI":"10.1093\/nar\/gkaa1103","article-title":"Translation elongation rate varies among organs and decreases with age","volume":"49","author":"Gerashchenko","year":"2021","journal-title":"Nucleic Acids Res."},{"issue":"19","key":"10.1016\/j.bbamcr.2026.120171_bb0545","doi-asserted-by":"crossref","first-page":"10267","DOI":"10.1093\/nar\/gkz735","article-title":"METTL15 introduces N4-methylcytidine into human mitochondrial 12S rRNA and is required for mitoribosome biogenesis","volume":"47","author":"Van Haute","year":"2019","journal-title":"Nucleic Acids Res."},{"issue":"16","key":"10.1016\/j.bbamcr.2026.120171_bb0550","doi-asserted-by":"crossref","first-page":"8720","DOI":"10.1093\/nar\/gkz559","article-title":"NSUN2 introduces 5-methylcytosines in mammalian mitochondrial tRNAs","volume":"47","author":"Van Haute","year":"2019","journal-title":"Nucleic Acids Res."},{"issue":"36","key":"10.1016\/j.bbamcr.2026.120171_bb0555","doi-asserted-by":"crossref","first-page":"24936","DOI":"10.1074\/jbc.C114.581868","article-title":"Assignment of 2\u2019-O-methyltransferases to modification sites on the mammalian mitochondrial large subunit 16 S ribosomal RNA (rRNA)","volume":"289","author":"Lee","year":"2014","journal-title":"J. Biol. Chem."},{"issue":"1","key":"10.1016\/j.bbamcr.2026.120171_bb0560","doi-asserted-by":"crossref","first-page":"929","DOI":"10.1038\/s41467-022-28503-5","article-title":"A late-stage assembly checkpoint of the human mitochondrial ribosome large subunit","volume":"13","author":"Rebelo-Guiomar","year":"2022","journal-title":"Nat. Commun."},{"issue":"5","key":"10.1016\/j.bbamcr.2026.120171_bb0565","doi-asserted-by":"crossref","first-page":"993","DOI":"10.1016\/j.molcel.2017.10.019","article-title":"Base-resolution mapping reveals distinct m(1)A methylome in nuclear- and mitochondrial-encoded transcripts","volume":"68","author":"Li","year":"2017","journal-title":"Mol. 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Genet."},{"issue":"24","key":"10.1016\/j.bbamcr.2026.120171_bb0595","doi-asserted-by":"crossref","first-page":"7442","DOI":"10.1093\/emboj\/17.24.7442","article-title":"A role for the yeast La protein in U6 snRNP assembly: evidence that the La protein is a molecular chaperone for RNA polymerase III transcripts","volume":"17","author":"Pannone","year":"1998","journal-title":"EMBO J."},{"issue":"7","key":"10.1016\/j.bbamcr.2026.120171_bb0600","doi-asserted-by":"crossref","first-page":"1874","DOI":"10.1016\/j.celrep.2016.07.031","article-title":"Hierarchical RNA processing is required for mitochondrial ribosome assembly","volume":"16","author":"Rackham","year":"2016","journal-title":"Cell Rep."},{"issue":"21","key":"10.1016\/j.bbamcr.2026.120171_bb0605","doi-asserted-by":"crossref","first-page":"12469","DOI":"10.1093\/nar\/gkx902","article-title":"The MRPP1\/MRPP2 complex is a tRNA-maturation platform in human mitochondria","volume":"45","author":"Reinhard","year":"2017","journal-title":"Nucleic Acids Res."},{"issue":"11","key":"10.1016\/j.bbamcr.2026.120171_bb0610","doi-asserted-by":"crossref","first-page":"5664","DOI":"10.1093\/nar\/gkv481","article-title":"Structure of the nuclease subunit of human mitochondrial RNase P","volume":"43","author":"Reinhard","year":"2015","journal-title":"Nucleic Acids Res."},{"issue":"3","key":"10.1016\/j.bbamcr.2026.120171_bb0615","doi-asserted-by":"crossref","first-page":"462","DOI":"10.1016\/j.cell.2008.09.013","article-title":"RNase P without RNA: identification and functional reconstitution of the human mitochondrial tRNA processing enzyme","volume":"135","author":"Holzmann","year":"2008","journal-title":"Cell"},{"issue":"10","key":"10.1016\/j.bbamcr.2026.120171_bb0620","doi-asserted-by":"crossref","first-page":"1356","DOI":"10.1017\/S1355838200001047","article-title":"Search for characteristic structural features of mammalian mitochondrial tRNAs","volume":"6","author":"Helm","year":"2000","journal-title":"RnNA"},{"issue":"1","key":"10.1016\/j.bbamcr.2026.120171_bb0625","doi-asserted-by":"crossref","first-page":"4683","DOI":"10.1038\/s41467-024-49132-0","article-title":"Structural basis for human mitochondrial tRNA maturation","volume":"15","author":"Meynier","year":"2024","journal-title":"Nat. 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