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- Publications
- Influence
Rewiring the keyboard: evolvability of the genetic code
- R. D. Knight, S. Freeland, L. Landweber
- Biology, Medicine
- Nature Reviews Genetics
- 2001
The genetic code evolved in two distinct phases. First, the 'canonical' code emerged before the last universal ancestor; subsequently, this code diverged in numerous nuclear and organelle lineages.… Expand
Early fixation of an optimal genetic code.
- S. Freeland, R. D. Knight, L. Landweber, L. Hurst
- Medicine, Biology
- Molecular biology and evolution
- 1 April 2000
The evolutionary forces that produced the canonical genetic code before the last universal ancestor remain obscure. One hypothesis is that the arrangement of amino acid/codon assignments results from… Expand
The molecular basis of nuclear genetic code change in ciliates
- C. Lozupone, R. D. Knight, L. Landweber
- Biology, Medicine
- Current Biology
- 23 January 2001
BACKGROUND
The nuclear genetic code has changed in several lineages of ciliates. These changes, UAR to glutamine and UGA to cysteine, imply that eukaryotic release factor 1 (eRF1), the protein that… Expand
A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes
- R. D. Knight, S. Freeland, L. Landweber
- Biology, Medicine
- Genome Biology
- 22 March 2001
BackgroundCorrelations between genome composition (in terms of GC content) and usage of particular codons and amino acids have been widely reported, but poorly explained. We show here that a simple… Expand
Molecular computation: RNA solutions to chess problems
- D. Faulhammer, A. R. Cukras, R. J. Lipton, L. Landweber
- Biology, Computer Science
- Proc. Natl. Acad. Sci. USA
- 15 February 2000
TLDR
RNA-mediated epigenetic programming of a genome-rearrangement pathway
- M. Nowacki, Vikram Vijayan, Yi Zhou, Klaas Schotanus, T. Doak, L. Landweber
- Biology, Medicine
- Nature
- 10 January 2008
Genome-wide DNA rearrangements occur in many eukaryotes but are most exaggerated in ciliates, making them ideal model systems for epigenetic phenomena. During development of the somatic macronucleus,… Expand
The Architecture of a Scrambled Genome Reveals Massive Levels of Genomic Rearrangement during Development
- X. Chen, John R. Bracht, +9 authors L. Landweber
- Biology, Medicine
- Cell
- 28 August 2014
Programmed DNA rearrangements in the single-celled eukaryote Oxytricha trifallax completely rewire its germline into a somatic nucleus during development. This elaborate, RNA-mediated pathway… Expand
The Oxytricha trifallax Macronuclear Genome: A Complex Eukaryotic Genome with 16,000 Tiny Chromosomes
- Estienne C. Swart, John R. Bracht, +26 authors L. Landweber
- Biology, Medicine
- PLoS biology
- 1 January 2013
With more chromosomes than any other sequenced genome, the macronuclear genome of Oxytricha trifallax has a unique and complex architecture, including alternative fragmentation and predominantly… Expand
Piwi-Interacting RNAs Protect DNA against Loss during Oxytricha Genome Rearrangement
- Wenwen Fang, Xing Wang, John R. Bracht, M. Nowacki, L. Landweber
- Biology, Medicine
- Cell
- 7 December 2012
Genome duality in ciliated protozoa offers a unique system to showcase their epigenome as a model of inheritance. In Oxytricha, the somatic genome is responsible for vegetative growth, whereas the… Expand
How Mitochondria Redefine the Code
- R. D. Knight, L. Landweber, M. Yarus
- Biology, Medicine
- Journal of Molecular Evolution
- 1 October 2001
Abstract. Annotated, complete DNA sequences are available for 213 mitochondrial genomes from 132 species. These provide an extensive sample of evolutionary adjustment of codon usage and meaning… Expand