Cytochrome P450 diversity in the tree of life
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Fujii-Kuriyama, 1982, Primary structure of a cytochrome P-450: coding nucleotide sequence of phenobarbital-inducible cytochrome P-450 cDNA from rat liver, Proc. Natl. Acad. Sci. U. S. A., 79, 2793, 10.1073/pnas.79.9.2793
Waxman, 1982, Phenobarbital-induced rat liver cytochrome P-450. Purification and characterization of two closely related isozymic forms, J. Biol. Chem., 257, 10446, 10.1016/S0021-9258(18)34039-0
Botelho, 1979, Amino acid compositions and partial amino acid sequences of three highly purified forms of liver microsomal cytochrome P-450 from rats treated with polychlorinated biphenyls, phenobarbital, or 3-methylcholanthrene, J. Biol. Chem., 254, 5635, 10.1016/S0021-9258(18)50461-0
Ozols, 1981, Amino acid sequence of an analogous peptide from two forms of cytochrome P-450, J. Biol. Chem., 256, 11405, 10.1016/S0021-9258(19)68411-5
Nelson, 2009, The cytochrome P450 homepage, Hum. Genet., 4, 59
Matasci, 2014, Data access for the 1,000 plants (1KP) project, Gigascience, 3, 17, 10.1186/2047-217X-3-17
Wickett, 2014, Phylotranscriptomic analysis of the origin and early diversification of land plants, Proc. Natl. Acad. Sci. U. S. A., 111, E4859, 10.1073/pnas.1323926111
Xie, 2014, SOAPdenovo-Trans: de novo transcriptome assembly with short RNA-Seq reads, 1660
Johnson, 2012, Evaluating methods for isolating total RNA and predicting the success of sequencing phylogenetically diverse plant transcriptomes, PLoS One, 7, 10.1371/journal.pone.0050226
Grigoriev, 2014, MycoCosm portal: gearing up for 1000 fungal genomes, Nucleic Acids Res., 42, D699, 10.1093/nar/gkt1183
http://genome.jgi.doe.gov/programs/fungi/index.jsf (accessed March 21, 2017).
Richards, 2015, It's more than stamp collecting: how genome sequencing can unify biological research, Trends Genet., 31, 411, 10.1016/j.tig.2015.04.007
Margulis, 1998
Koutsovoulos, 2016, No evidence for extensive horizontal gene transfer in the genome of the tardigrade Hypsibius dujardini, Proc. Natl. Acad. Sci. U. S. A., 113, 5053, 10.1073/pnas.1600338113
Amborella Genome Project, 2013, The Amborella genome and the evolution of flowering plants, Science, 342, 10.1126/science.1241089
Jarvis, 2014, Whole-genome analyses resolve early branches in the tree of life of modern birds, Science, 346, 1320, 10.1126/science.1253451
Prum, 2015, A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing, Nature, 526, 569, 10.1038/nature15697
Mundy, 2016, Red carotenoid coloration in the zebra finch is controlled by a cytochrome P450 gene cluster, Curr. Biol., 26, 1435, 10.1016/j.cub.2016.04.047
Lopes, 2016, Genetic basis for red coloration in birds, Curr. Biol., 26, 1427, 10.1016/j.cub.2016.03.076
Twyman, 2016, Seeing red to being red: conserved genetic mechanism for red cone oil droplets and co-option for red coloration in birds and turtles, Proc. Biol. Sci., 283
Claeys, 1981, Lack of prostacyclin biosynthesis by aortic tissue of the chicken, Prostaglandins, 1981, 739, 10.1016/0090-6980(81)90231-8
Bult, 1981, Prostanoids and hemostasis in chickens: anti-aggregating activity of prostaglandins E1 and E2, but not of prostacyclin and prostaglandin D2, Prostaglandins, 21, 1045, 10.1016/0090-6980(81)90172-6
de Matos, 2008, Adrenal steroid metabolism in birds: anatomy, physiology, and clinical considerations, Vet. Clin. North Am. Exot. Anim. Pract., 11, 35, 10.1016/j.cvex.2007.09.006
Adams, 2000, The genome sequence of Drosophila melanogaster, Science, 287, 2185, 10.1126/science.287.5461.2185
Fortey, 2012
Maas, 2007, A Cambrian micro-lobopodian and the evolution of arthropod locomotion and reproduction, Chin. Sci. Bull., 52, 3385, 10.1007/s11434-007-0515-3
Hering, 2012, Opsins in onychophora (velvet worms) suggest a single origin and subsequent diversification of visual pigments in arthropods, Mol. Biol. Evol., 29, 3451, 10.1093/molbev/mss148
Kohler, 2015, Convergent losses of decay mechanisms and rapid turnover of symbiosis genes in mycorrhizal mutualists, Nat. Genet., 47, 410, 10.1038/ng.3223
Arvas, 2007, Comparison of protein coding gene contents of the fungal phyla Pezizomycotina and Saccharomycotina, BMC Genomics, 8, 325, 10.1186/1471-2164-8-325
Deng, 2007, The evolutionary history of cytochrome P450 genes in four filamentous Ascomycetes, BMC Evol. Biol., 7, 30, 10.1186/1471-2148-7-30
Moktali, 2012, Systematic and searchable classification of cytochrome P450 proteins encoded by fungal and oomycete genomes, BMC Genomics, 13, 525, 10.1186/1471-2164-13-525
Nelson, 2011, A P450-centric view of plant evolution, Plant J., 66, 194, 10.1111/j.1365-313X.2011.04529.x
https://genome10k.soe.ucsc.edu/news/article/27 (Accessed March 21, 2017).
Nelson, 1987, Evolution of cytochrome P-450 proteins, Mol. Biol. Evol., 4, 572
Nelson, 1998, Metazoan cytochrome P450 evolution, Comp. Biochem. Physiol. C, 121, 15
Nelson, 1999, Cytochrome P450 and the individuality of species, Arch. Biochem. Biophys., 369, 1, 10.1006/abbi.1999.1352
Nelson, 2012, The cytochrome P450 genesis locus and the origin of animal cytochrome P450s, Philos. Trans. R. Soc. B, 368
Lee, 2008, Structural insights into the evolutionary paths of oxylipin biosynthetic enzymes, Nature, 455, 363, 10.1038/nature07307
Nelson, 2006, Plant cytochrome P450s from moss to poplar, Phytochem. Rev., 5, 193, 10.1007/s11101-006-9015-3
Sello, 2015, Diversity and evolution of cytochrome P450 monooxygenases in Oomycetes, Sci. Rep., 5, 11572, 10.1038/srep11572
Ren, 2016, Phylogenetic resolution of deep eukaryotic and fungal relationships using highly conserved low-copy nuclear genes, Genome Biol. Evol., 8, 2683, 10.1093/gbe/evw196
Burki, 2016, Untangling the early diversification of eukaryotes: a phylogenomic study of the evolutionary origins of Centrohelida, Haptophyta and Cryptista, Proc. Biol. Sci., 283
Katz, 2015, Taxon-rich phylogenomic analyses resolve the eukaryotic tree of life and reveal the power of subsampling by sites, Syst. Biol., 64, 406, 10.1093/sysbio/syu126
Adl, 2012, The revised classification of eukaryotes, J. Eukaryot. Microbiol., 59, 429, 10.1111/j.1550-7408.2012.00644.x
Derelle, 2015, Bacterial proteins pinpoint a single eukaryotic root, Proc. Natl. Acad. Sci. U. S. A., 112, E693, 10.1073/pnas.1420657112
Burki, 2016, Untangling the early diversification of eukaryotes: a phylogenomic study of the evolutionary origins of Centrohelida, Haptophyta and Cryptista, Proc. Biol. Sci., 283
Feyereisen, 2011, Arthropod CYPomes illustrate the tempo and mode in P450 evolution, Biochim. Biophys. Acta, 1814, 19, 10.1016/j.bbapap.2010.06.012
Tomazic, 2014, Incomplete sterols and hopanoids pathways in ciliates: gene loss and acquisition during evolution as a source of biosynthetic genes, Mol. Phylogenet. Evol., 74, 122, 10.1016/j.ympev.2014.01.026
Goldstone (mollusks) this issue.
Ruggiero, 2015, A higher level classification of all living organisms, PLoS One, 10, 10.1371/journal.pone.0119248