Mutational Patterns Cannot Explain Genome Composition: Are There Any Neutral Sites in the Genomes of Bacteria?
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Vyšlo v časopise:
Mutational Patterns Cannot Explain Genome Composition: Are There Any Neutral Sites in the Genomes of Bacteria?. PLoS Genet 6(9): e32767. doi:10.1371/journal.pgen.1001104
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prolekare.web.journal.doi_sk:
https://doi.org/10.1371/journal.pgen.1001104
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Zdroje
1. SueokaN
1961 Correlation between base composition of deoxyribonucleic acid and amino acid composiiton of protein. Proc Natl Acad Sci U S A 47 1141 1149
2. MutoA
OsawaS
1987 The guanine and cytosine content of genomic DNA and bacterial evolution. Proc Natl Acad Sci USA 84 166 169
3. HildebrandF
MeyerA
Eyre-WalkerA
2010 Evidence of selection upon genomic GC-content in bacteria. PLoS Genet 6 e1001107 doi:10.1371/journal.pgen.1001107
4. HershbergR
PetrovDA
2010 Evidence that mutation is universally biased towards AT in bacteria. PLoS Genet 6 e1001115 doi:10.1371/journal.pgen.1001115
5. MoranNA
1996 Accelerated evolution and Muller's rachet in endosymbiotic bacteria. Proc Natl Acad Sci U S A 93 2873 2878
6. MoranNA
McLaughlinHJ
SorekR
2009 The dynamics and time scale of ongoing genomic erosion in symbiotic bacteria. Science 323 379 382
7. BalbiKJ
RochaEP
FeilEJ
2009 The temporal dynamics of slightly deleterious mutations in Escherichia coli and Shigella spp. Mol Biol Evol 26 345 355
8. DuretL
GaltierN
2009 Biased gene conversion and the evolution of mammalian genomic landscapes. Annu Rev Genomic Human Gen 10 285 311
9. TouchonM
HoedeC
TenaillonO
BarbeV
BaeriswylS
2009 Organised genome dynamics in the Escherichia coli species results in highly diverse adaptive paths. PLoS Genet 5 e1000344 doi:10.1371/journal.pgen.1000344
10. RochaEPC
DanchinA
2002 Competition for scarce resources might bias bacterial genome composition. Trends Genet 18 291 294
11. NayaH
RomeroH
ZavalaA
AlvarezB
MustoH
2002 Aerobiosis increases the genomic guanine plus cytosine content (GC%) in prokaryotes. J Mol Evol 55 260 264
12. HeddiA
CharlesH
KhatchadourianC
BonnotG
NardonP
1998 Molecular characterization of the principal symbiotic bacteria of the weevil Sitophilus oryzae: a peculiar G+C content of an endocytobiotic DNA. J Mol Evol 47 52 61
13. FoerstnerKU
von MeringC
HooperSD
BorkP
2005 Environments shape the nucleotide composition of genomes. EMBO R 6 1208 1213
14. RomeroH
PereiraE
NayaH
MustoH
2009 Oxygen and guanine-cytosine profiles in marine environments. J Mol Evol 69 203 206
15. BernardiG
OlofssonB
FilipskiJ
ZerialM
SalinasJ
1985 The mosaic genome of warm-blooded vertebrates. Science 228 953 958
16. DaubinV
PerriereG
2003 G+C structuring along the genome: a common feature in prokaryotes. Mol Biol Evol 20 471 483
17. McCutcheonJP
McDonaldBR
MoranNA
2009 Origin of an alternative genetic code in the extremely small and GC-rich genome of a bacterial symbiont. PLoS Genet 5 e1000565 doi:10.1371/journal.pgen.1000565
18. OssowskiS
SchneebergerK
Lucas-LledoJI
WarthmannN
ClarkRM
2010 The rate and molecular spectrum of spontaneous mutations in Arabidopsis thaliana. Science 327 92 94
19. LindPA
AnderssonDA
2008 Whole-genome mutational biases in bacteria. Proc Natl Acad Sci U S A 105 17878 17883
20. BartonNH
CharlesworthB
1998 Why sex and recombination? Science 281 1986 1990
21. TraversAA
2004 The structural basis of DNA flexibility. Philos Transact A Math Phys Eng Sci 362 1423 1438
22. XiaX
XieZ
LiWH
2003 Effects of GC content and mutational pressure on the lengths of exons and coding sequences. J Mol Evol 56 362 370
23. OchmanH
MoranNA
2001 Genes lost and genes found: evolution of bacterial pathogenesis and symbiosis. Science 292 1096 1099
24. McEwanCE
GathererD
McEwanNR
1998 Nitrogen-fixing aerobic bacteria have higher genomic GC content than non-fixing species within the same genus. Hereditas 128 173 178
25. SeligmannH
2003 Cost-minimization of amino acid usage. J Mol Evol 56 151 161
26. Vieira-SilvaS
RochaEPC
2009 An assessment of the impacts of molecular oxygen on the evolution of proteomes. Mol Biol Evol 25 1931 1942
27. MendezR
FritscheM
PortoM
BastollaU
2010 Mutation bias favors protein folding stability in the evolution of small populations. PLoS Comput Biol 6 e1000767 doi:10.1371/journal.pcbi.1000767
28. GaltierN
LobryJR
1997 Relationships between genomic G+C content, RNA secondary structures, and optimal growth temperature in prokaryotes. J Mol Evol 44 632 636
29. ForsdykeDR
1996 Different biological species “broadcast” their DNAs at different (G+C)% “wavelengths”. J Theor Biol 178 405 417
30. KagawaY
NojimaH
NukiwaN
IshizukaM
NakajimaT
1984 High guanine plus cytosine content in the third letter of codons of an extreme thermophile. DNA sequence of the isopropylmalate dehydrogenase of Thermus thermophilus. J Biol Chem 259 2956 2960
31. MustoH
NayaH
ZavalaA
RomeroH
Alvarez-ValinF
2004 Correlations between genomic GC levels and optimal growth temperatures in prokaryotes. FEBS Lett 573 73 77
32. XiaX
WeiT
XieZ
DanchinA
2002 Genomic changes in nucleotide and dinucleotide frequencies in Pasteurella multocida cultured under high temperature. Genetics 161 1385 1394
33. SingerCE
AmesBN
1970 Sunlight ultraviolet and bacterial DNA base ratios. Science 170 822 826
34. PalmeiraL
GuéguenL
LobryJR
2006 UV-targeted dinucleotides are not depleted in light-exposed prokaryotic genomes. Mol Biol Evol 23 2214 2219
Štítky
Genetika Reprodukčná medicínaČlánok vyšiel v časopise
PLOS Genetics
2010 Číslo 9
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