Molecular Biology of the Cell by Bruce Alberts, Alexander Johnson, Julian Lewis, David Morgan, Martin Raff, Keith Roberts, Peter Walter by by Bruce Alberts, Alexander Johnson, Julian Lewis, David Morg

368 Chapter 6: How Cells Read the Genome: From DNA to Protein
References
General
Atkins JF, Gesteland RF & Cech TR (eds) (2011) The RNA Worlds:
From Life’s Origins to Diversity in Gene Regulation. Cold Spring
Harbor, NY: Cold Spring Harbor Laboratory Press.
Berg JM, Tymoczko JL & Stryer L (2012) Biochemistry, 7th ed.
New York: WH Freeman.
Brown TA (2007) Genomes 3. New York: Garland Science.
Darnell J (2011) RNA: Life’s Indispensable Molecule. Cold Spring
Harbor, NY: Cold Spring Harbor Laboratory Press.
Hartwell L, Hood L, Goldberg ML et al. (2011) Genetics: from Genes to
Genomes, 4th ed. Boston: McGraw Hill.
Judson HF (1996) The Eighth Day of Creation, 25th anniversary ed.
Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
Lodish H, Berk A, Kaiser C et al. (2012) Molecular Cell Biology, 7th ed.
New York: WH Freeman.
Stent GS (1971) Molecular Genetics: An Introductory Narrative.
San Francisco: WH Freeman.
The Genetic Code (1966) Cold Spring Harb. Symp. Quant. Biol. 31.
The Ribosome (2001) Cold Spring Harb. Symp. Quant. Biol. 66.
Watson JD, Baker TA, Bell SP et al. (2013) Molecular Biology of the
Gene, 7th ed. Menlo Park, CA: Benjamin Cummings.
From DNA to RNA
Berget SM, Moore C & Sharp PA (1977) Spliced segments at the 5ʹ
terminus of adenovirus 2 late mRNA. Proc. Natl. Acad. Sci. USA
74, 3171–3175.
Brenner S, Jacob F & Meselson M (1961) An unstable intermediate
carrying information from genes to ribosomes for protein synthesis.
Nature 190, 576–581.
Chow LT, Gelinas RE, Broker TR et al. (1977) An amazing sequence
arrangement at the 5ʹ ends of adenovirus 2 messenger RNA. Cell
12, 1–8.
Conaway CC & Conaway JW (2011) Function and regulation of the
Mediator complex. Curr. Opin. Genet. Dev. 21, 225–230.
Cooper TA, Wan L & Dreyfuss G (2009) RNA and disease. Cell 136,
777–793.
Cramer P, Armache KJ, Baumli S et al. (2008) Structure of eukaryotic
RNA polymerases. Annu. Rev. Biophys. 37, 337–352.
Fica SM, Tuttle N, Novak T et al. (2013) RNA catalyses nuclear premRNA
splicing. Nature 503, 229–234.
Grunberg S & Hahn S (2013) Structural insights into transcription
initiation by RNA polymerases II. Trends Biochem. Sci. 38,
603–611.
Grunwald D, Singer RH & Rout M (2011) Nuclear export dynamics of
TNA-protein complexes. Nature 475, 333–341.
Kornblihtt AR, Schor IE, Allo M et al. (2013) Alternative splicing: a
pivotal step between eukaryotic transcription and translation.
Nature 14, 153–165.
Liu X, Bushnell DA & Kornberg RD (2012) RNA polymerase II
transcription: Structure and mechanism. Biochim. Biophys. Acta
1829, 2–8.
Makino DL, Halibach F & Conti E (2013) The RNA exosome and
proteasome: common principles of degradation control. Nature
14, 654–660.
Malik S & Roeder RC (2010) The metazoan mediator co-activator
complex as an integrative hub for transcriptional regulation. Nat.
Rev. Genet. 11, 761–772.
Mao YS, Zhang B & Spector DL (2011) Biogenesis and function of
nuclear bodies. Trends Genet. 27, 295–306.
Matera AG & Wang Z (2014) A day in the life of the spliceosome.
Nature 15, 108–121.
Matsui T, Segall J, Weil PA & Roeder RG (1980) Multiple factors
required for accurate initiation of transcription by purified RNA
polymerase II. J. Biol. Chem. 255, 11992–11996.
Opalka N, Brown J, Lane WJ et al. (2010) Complete structural model
of Escherichia coli RNA polymerase from a hybrid approach.
PLoS Biol. 9, 1–16.
Ruskin B, Krainer AR, Maniatis T et al. (1984) Excision of an intact
intron as a novel lariat structure during pre-mRNA splicing in vitro.
Cell 38, 317–331.
Schneider C & Tollervey D (2013) Threading the barrel of the RNA
exosome. Trends Biochem. Sci. 38, 485–493.
Semlow DR & Staley JP (2012) Staying on message: ensuring fidelity in
pre-mRNA splicing. Trends Biochem. Sci. 37, 263–273.
From RNA to Protein
Anfinsen CB (1973) Principles that govern the folding of protein chains.
Science 181, 223–230.
Crick FHC (1966) The genetic code: III. Sci. Am. 215, 55–62.
Forster F, Unverdorben P, Sledz P et al. (2013) Unveiling the long-held
secrets of the 26S proteasome. Structure 21, 1551–1562.
Hershko A, Ciechanover A & Varshavsky A (2000) The ubiquitin system.
Nat. Med. 6, 1073–1081.
Horwich AL, Fenton WA, Chapman E et al. (2007) Two families of
chaperonin: physiology and mechanism. Annu. Rev. Cell Dev. Biol.
23, 115–145.
Ling J, Reynolds N & Ibba M (2009) Aminoacyl-tRNA synthesis and
translational quality control. Annu Rev. Microbiol. 63, 61–78.
Moore PB (2012) How should we think about the ribosome? Annu. Rev.
Biophys. 41, 1–19.
Noller HF (2005) RNA structure: reading the ribosome. Science 309,
1508–1514.
Popp MW & Maquat LE (2013) Organizing principles of mammalian
nonsense-mediated mRNA decay. Annu. Rev. Genet. 47, 139–165.
Saibil H (2013) Chaperone machines for protein folding, unfolding and
disaggregation. Nature 14, 630–642.
Schmidt M & Finley D (2013) Regulation of proteasome activity in health
and disease. Biochim. Biophys. Acta 1843, 13–25.
Steitz TA (2008) A structural understanding of the dynamic ribosome
machine. Nature 9, 242–253.
Varshavsky A (2012) The ubiquitin system, an immense realm. Annu.
Rev. Biochem. 81, 167–176.
Voorhees RM & Ramakrishnan V (2013) Structural basis of the
translational elongation cycle. Annu. Rev. Biochem. 82, 203–236.
Wilson DN (2014) Ribosome-targeting antibiotics and mechanisms of
bacterial resistance. Nat. Rev. Microbiol. 12, 35–48.
Zaher HS & Green R (2009) Fidelity at the molecular level: Lessons from
protein synthesis. Cell 136, 746–762.
The RNA World and the Origins of Life
Blain JC & Szostak JW (2014) Progress Towards Synthetic Cells. Annu.
Rev. Biochem. 83, 615–640.
Cech TR (2009) Crawling out of the RNA world. Cell 136, 599–602.
Kruger K, Grabowski P, Zaug P et al. (1982) Self-splicing RNA:
Autoexcision and autocyclization of the ribosomal RNA intervening
seuence of Tetrahymena. Cell 31, 147–157.
Orgel L (2000) Origin of life. A simpler nucleic acid. Science 290,
1306–1307.
Robertson MP& Joyce GF (2012) The origins of the RNA world. Cold
Spring Harb. Perspect. Biol. 4, a003608.