Molecules as documents of evolutionary history.

By E. Zuckerkandl, L. Pauling. 1965

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Citations in the corpus

Better prediction of functional effects for sequence variants (2015, neutral): “Some sequence variations matter, changing native protein function or disease-causing potential, while others do not [1].”
Large-scale determination of previously unsolved protein structures using evolutionary information (2015, background): “These insights derive in part from the distribution of evolutionarily conserved residues in the models, as conserved sequence motifs tend to mark functional sites in structures ( Zuckerkandl and Pauling, 1965 ; Villar and Kauvar, 1994 ; Pei and Grishin, 2001 ; Muth et al., 2012 ).”
PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes (2013, background): “The microbial tree of life has long been of particular interest; gene and protein sequence-based approaches at its reconstruction antedate modern genomics 7 .”
Overview: A Phylogenetic Backbone and Taxonomic Framework for Procaryotic Systematics (2015, methodology): “With improvement in molecular sequencing techniques, the idea of Zuckerkandl and Pauling (1965) to deduce the phylogenetic history of organisms by comparing the primary structures of macromolecules became applicable.”
aLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity (2013, methodology): “For distance calculation in this step, several measures can be selected: the Poisson correction (25), maximum-likelihood (ML) estimation with the JTT model (26) and ML estimation with the WAG model (27).”
Synonymous but not the same: the causes and consequences of codon bias (2010, unknown): “jpg"/> When the inherent redundancy of the genetic code was discovered, scientists were rightly puzzled by the role of synonymous mutation”
Phylogenetic classification of bony fishes (2017, background): “Zuckerkandl E, Pauling L. Molecules as documents of evolutionary history.”
Size doesn’t matter: towards a more inclusive philosophy of biology (2007, background): “…the evolutionary trees inferred from the comparison of genetic or protein sequence data from different organisms would map onto those inferred from traditional phenotypic characters and thus converge upon real macroevolutionary patterns (Pauling & Zuckerkandl 1963; Zuckerkandl and Pauling 1965).”
Analysis of the taxonomy and nomenclature of the Procellariiformes based on complete nucleotide sequences of the mitochondrial cytochrome b gene (2004, background): “Zuckerkandl and Pauling (1965) noticed that an almost linear relationship could be found between the degree of sequence divergence in proteins between pairs of organisms and their putative divergence times.”
An RNA-centric historical narrative around the Protein Data Bank (2021, background): “8 billion years ago, all these RNA structures, coupled with structural alignments of homologous sequences, offer us multiple “Rosetta stones” for deciphering the RNA molecular evolution principles (125).”
Phylogenomics and the reconstruction of the tree of life (2005, background): “The introduction of the use of molecular data in phylogenetics 4 led to a revolution.”
Use of 16S rRNA and rpoB Genes as Molecular Markers for Microbial Ecology Studies (2006, background): “Pauling and Zuckerkandl (45) first proposed the use of gene sequences as a molecular clock to decipher phylogenetic relationships.”