-
1
-
-
84857551173
-
Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversity
-
Andersen, E. C., J. P. Gerke, J. A. Shapiro, J. R. Crissman, R. Ghosh et al., 2012 Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversity. Nat. Genet. 44: 285-290.
-
(2012)
Nat. Genet.
, vol.44
, pp. 285-290
-
-
Andersen, E.C.1
Gerke, J.P.2
Shapiro, J.A.3
Crissman, J.R.4
Ghosh, R.5
-
2
-
-
79952255486
-
Functional conservation of nucleosome formation selectively biases presumably neutral molecular variation in yeast genomes
-
Babbitt, G. A., and C. R. Cotter, 2011 Functional conservation of nucleosome formation selectively biases presumably neutral molecular variation in yeast genomes. Genome Biol. Evol. 3: 15-22.
-
(2011)
Genome Biol. Evol.
, vol.3
, pp. 15-22
-
-
Babbitt, G.A.1
Cotter, C.R.2
-
3
-
-
20244378694
-
Comparative evolutionary genetics of spontaneous mutations affecting fitness in rhabditid nematodes
-
Baer, C. F., F. Shaw, C. Steding, M. Baumgartner, A. Hawkins et al., 2005 Comparative evolutionary genetics of spontaneous mutations affecting fitness in rhabditid nematodes. Proc. Natl. Acad. Sci. USA 102: 5785-5790.
-
(2005)
Proc. Natl. Acad. Sci. USA
, vol.102
, pp. 5785-5790
-
-
Baer, C.F.1
Shaw, F.2
Steding, C.3
Baumgartner, M.4
Hawkins, A.5
-
4
-
-
77952980794
-
Proteogenomics of Pristionchus pacificus reveals distinct proteome structure of nematode models
-
Borchert, N., C. Dieterich, K. Krug, W. Schütz, S. Jung et al., 2010 Proteogenomics of Pristionchus pacificus reveals distinct proteome structure of nematode models. Genome Res. 20: 837-846.
-
(2010)
Genome Res.
, vol.20
, pp. 837-846
-
-
Borchert, N.1
Dieterich, C.2
Krug, K.3
Schütz, W.4
Jung, S.5
-
5
-
-
70349507538
-
A genome-wide view of Caenorhabditis elegans base-substitution mutation processes
-
Denver, D. R., P. C. Dolan, L. J. Wilhelm, W. Sung, J. I. Lucas-Lledó et al., 2009 A genome-wide view of Caenorhabditis elegans base-substitution mutation processes. Proc. Natl. Acad. Sci. USA 106: 16310-16314.
-
(2009)
Proc. Natl. Acad. Sci. USA
, vol.106
, pp. 16310-16314
-
-
Denver, D.R.1
Dolan, P.C.2
Wilhelm, L.J.3
Sung, W.4
Lucas-Lledó, J.I.5
-
6
-
-
84864089075
-
Variation in base-substitution mutation in experimental and natural lineages of Caenorhabditis nematodes
-
Denver, D. R., L. J. Wilhelm, D. K. Howe, K. Gafner, P. C. Dolan et al., 2012 Variation in base-substitution mutation in experimental and natural lineages of Caenorhabditis nematodes. Genome Biol. Evol. 4: 513-522.
-
(2012)
Genome Biol. Evol.
, vol.4
, pp. 513-522
-
-
Denver, D.R.1
Wilhelm, L.J.2
Howe, D.K.3
Gafner, K.4
Dolan, P.C.5
-
7
-
-
52949136971
-
The Pristionchus pacificus genome provides a unique perspective on nematode lifestyle and parasitism
-
Dieterich, C., S. W. Clifton, L. N. Schuster, A. Chinwalla, K. Delehaunty et al., 2008 The Pristionchus pacificus genome provides a unique perspective on nematode lifestyle and parasitism. Nat. Genet. 40: 1193-1198.
-
(2008)
Nat. Genet.
, vol.40
, pp. 1193-1198
-
-
Dieterich, C.1
Clifton, S.W.2
Schuster, L.N.3
Chinwalla, A.4
Delehaunty, K.5
-
8
-
-
38649110663
-
BEAST: Bayesian evolutionary analysis by sampling trees
-
Drummond, A., and A. Rambaut, 2007 BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 7: 214.
-
(2007)
BMC Evol. Biol.
, vol.7
, pp. 214
-
-
Drummond, A.1
Rambaut, A.2
-
9
-
-
84864530626
-
Bayesian Phylogenetics with BEAUti and the BEAST 1.7
-
Drummond, A. J., M. A. Suchard, D. Xie, and A. Rambaut, 2012 Bayesian Phylogenetics with BEAUti and the BEAST 1.7. Mol. Biol. Evol. 29: 1969-1973.
-
(2012)
Mol. Biol. Evol.
, vol.29
, pp. 1969-1973
-
-
Drummond, A.J.1
Suchard, M.A.2
Xie, D.3
Rambaut, A.4
-
10
-
-
48049107322
-
The conditioned reconstructed process
-
Gernhard, T., 2008 The conditioned reconstructed process. J. Theor. Biol. 253: 769-778.
-
(2008)
J. Theor. Biol.
, vol.253
, pp. 769-778
-
-
Gernhard, T.1
-
11
-
-
34447637881
-
The nematode Pristionchus pacificus (Nematoda: Diplogastridae) is associated with the oriental beetle Exomala orientalis (Coleoptera: Scarabaeidae) in Japan
-
Herrmann, M., W. E. Mayer, R. L. Hong, S. Kienle, R. Minasaki et al., 2007 The nematode Pristionchus pacificus (Nematoda: Diplogastridae) is associated with the oriental beetle Exomala orientalis (Coleoptera: Scarabaeidae) in Japan. Zoolog. Sci. 24: 883-889.
-
(2007)
Zoolog. Sci.
, vol.24
, pp. 883-889
-
-
Herrmann, M.1
Mayer, W.E.2
Hong, R.L.3
Kienle, S.4
Minasaki, R.5
-
12
-
-
77952911606
-
Haplotype diversity of the nematode Pristionchus pacificus on Réunion in the Indian Ocean suggests multiple independent invasions
-
Herrmann, M., S. Kienle, J. Rochat, W. E. Mayer, and R. J. Sommer, 2010 Haplotype diversity of the nematode Pristionchus pacificus on Réunion in the Indian Ocean suggests multiple independent invasions. Biol. J. Linn. Soc. Lond. 100: 170-179.
-
(2010)
Biol. J. Linn. Soc. Lond.
, vol.100
, pp. 170-179
-
-
Herrmann, M.1
Kienle, S.2
Rochat, J.3
Mayer, W.E.4
Sommer, R.J.5
-
13
-
-
77958465787
-
High rate of large deletions in Caenorhabditis briggsae mitochondrial genome mutation processes
-
Howe, D. K., C. F. Baer, and D. R. Denver, 2010 High rate of large deletions in Caenorhabditis briggsae mitochondrial genome mutation processes. Genome Biol. Evol. 2: 29-38.
-
(2010)
Genome Biol. Evol.
, vol.2
, pp. 29-38
-
-
Howe, D.K.1
Baer, C.F.2
Denver, D.R.3
-
14
-
-
48449090786
-
NCBI BLAST: A better web interface
-
Johnson, M., I. Zaretskaya, Y. Raytselis, Y. Merezhuk, S. McGinnis et al., 2008 NCBI BLAST: a better web interface. Nucleic Acids Res. 36: W5-W9.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Johnson, M.1
Zaretskaya, I.2
Raytselis, Y.3
Merezhuk, Y.4
McGinnis, S.5
-
15
-
-
67650064592
-
Analysis of the genome sequences of three Drosophila melanogaster spontaneous mutation accumulation lines
-
Keightley, P. D., U. Trivedi, M. Thomson, F. Oliver, S. Kumar et al., 2009 Analysis of the genome sequences of three Drosophila melanogaster spontaneous mutation accumulation lines. Genome Res. 19: 1195-1201.
-
(2009)
Genome Res.
, vol.19
, pp. 1195-1201
-
-
Keightley, P.D.1
Trivedi, U.2
Thomson, M.3
Oliver, F.4
Kumar, S.5
-
16
-
-
33646106807
-
Relative contribution of homologous recombination and non-homologous end-joining to DNA double-strand break repair after oxidative stress in Saccharomyces cerevisiae
-
Letavayová, L., E. Marková, K. Hermanská, V. Vlčková, D. Vlasáková et al., 2006 Relative contribution of homologous recombination and non-homologous end-joining to DNA double-strand break repair after oxidative stress in Saccharomyces cerevisiae. DNA Repair 5: 602-610.
-
(2006)
DNA Repair
, vol.5
, pp. 602-610
-
-
Letavayová, L.1
Marková, E.2
Hermanská, K.3
Vlčková, V.4
Vlasáková, D.5
-
17
-
-
68549104404
-
The Sequence Alignment/Map format and SAMtools
-
Li, H., B. Handsaker, A. Wysoker, T. Fennell, J. Ruan et al., 2009 The Sequence Alignment/Map format and SAMtools. Bioinformatics 25: 2078-2079.
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
Handsaker, B.2
Wysoker, A.3
Fennell, T.4
Ruan, J.5
-
18
-
-
84863229351
-
Analysis of Arabidopsis genome-wide variations before and after meiosis and meiotic recombination by re-sequencing Landsberg erecta and all four products of a single meiosis
-
Lu, P., X. Han, J. Qi, J. Yang, A. J. Wijeratne et al., 2011 Analysis of Arabidopsis genome-wide variations before and after meiosis and meiotic recombination by re-sequencing Landsberg erecta and all four products of a single meiosis. Genome Res. 22: 508-518.
-
(2011)
Genome Res.
, vol.22
, pp. 508-518
-
-
Lu, P.1
Han, X.2
Qi, J.3
Yang, J.4
Wijeratne, A.J.5
-
19
-
-
79956307251
-
Stampy: A statistical algorithm for sensitive and fast mapping of Illumina sequence reads
-
Lunter, G., and M. Goodson, 2011 Stampy: a statistical algorithm for sensitive and fast mapping of Illumina sequence reads. Genome Res. 21: 936-939.
-
(2011)
Genome Res.
, vol.21
, pp. 936-939
-
-
Lunter, G.1
Goodson, M.2
-
21
-
-
77955090647
-
Evolution of the mutation rate
-
Lynch, M., 2010a Evolution of the mutation rate. Trends Genet. 26: 345-352.
-
(2010)
Trends Genet.
, vol.26
, pp. 345-352
-
-
Lynch, M.1
-
22
-
-
75749103383
-
Rate, molecular spectrum, and consequences of human mutation
-
Lynch, M., 2010b Rate, molecular spectrum, and consequences of human mutation. Proc. Natl. Acad. Sci. USA 107: 961-968.
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 961-968
-
-
Lynch, M.1
-
23
-
-
48249133274
-
A genome-wide view of the spectrum of spontaneous mutations in yeast
-
Lynch, M., W. Sung, K. Morris, N. Coffey, C. R. Landry et al., 2008 A genome-wide view of the spectrum of spontaneous mutations in yeast. Proc. Natl. Acad. Sci. USA 105: 9272-9277.
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 9272-9277
-
-
Lynch, M.1
Sung, W.2
Morris, K.3
Coffey, N.4
Landry, C.R.5
-
24
-
-
0038543069
-
Biased gene conversion: Implications for genome and sex evolution
-
Marais, G., 2003 Biased gene conversion: implications for genome and sex evolution. Trends Genet. 19: 330-338.
-
(2003)
Trends Genet.
, vol.19
, pp. 330-338
-
-
Marais, G.1
-
25
-
-
84876684114
-
Unraveling the evolutionary history of the nematode Pristionchus pacificus: From lineage diversification to island colonization
-
McGaughran, A., K. Morgan, and R. J. Sommer, 2013 Unraveling the evolutionary history of the nematode Pristionchus pacificus: from lineage diversification to island colonization. Ecol. Evol. 3: 667-675.
-
(2013)
Ecol. Evol.
, vol.3
, pp. 667-675
-
-
McGaughran, A.1
Morgan, K.2
Sommer, R.J.3
-
26
-
-
79961041294
-
Mutation rates and intraspecific divergence of the mitochondrial genome of Pristionchus pacificus
-
Molnar, R. I., G. Bartelmes, I. Dinkelacker, H. Witte, and R. J. Sommer, 2011 Mutation rates and intraspecific divergence of the mitochondrial genome of Pristionchus pacificus. Mol. Biol. Evol. 28: 2317-2326.
-
(2011)
Mol. Biol. Evol.
, vol.28
, pp. 2317-2326
-
-
Molnar, R.I.1
Bartelmes, G.2
Dinkelacker, I.3
Witte, H.4
Sommer, R.J.5
-
27
-
-
84855438947
-
Multi locus analysis of Pristionchus pacificus on La Réunion Island reveals an evolutionary history shaped by multiple introductions, constrained dispersal events and rare out-crossing
-
Morgan, K., A. McGaughran, L. Villate, M. Herrmann, H. Witte et al., 2012 Multi locus analysis of Pristionchus pacificus on La Réunion Island reveals an evolutionary history shaped by multiple introductions, constrained dispersal events and rare out-crossing. Mol. Ecol. 21: 250-266.
-
(2012)
Mol. Ecol.
, vol.21
, pp. 250-266
-
-
Morgan, K.1
McGaughran, A.2
Villate, L.3
Herrmann, M.4
Witte, H.5
-
28
-
-
78651159254
-
The genetic structure of natural populations of Drosophila melanogaster
-
Mukai, T., 1964 The genetic structure of natural populations of Drosophila melanogaster. Genetics 50: 1-19.
-
(1964)
Genetics
, vol.50
, pp. 1-19
-
-
Mukai, T.1
-
29
-
-
0021022685
-
Evolution of a large population under gene conversion
-
Nagylaki, T., 1983 Evolution of a large population under gene conversion. Proc. Natl. Acad. Sci. USA 80: 5941-5945.
-
(1983)
Proc. Natl. Acad. Sci. USA
, vol.80
, pp. 5941-5945
-
-
Nagylaki, T.1
-
30
-
-
74849090833
-
The rate andmolecular spectrum of spontaneous mutations in Arabidopsis thaliana
-
Ossowski, S., K. Schneeberger, J. I. Lucas-Lledó, N. Warthmann, R. M. Clark et al., 2010 The rate andmolecular spectrum of spontaneous mutations in Arabidopsis thaliana. Science 327: 92-94.
-
(2010)
Science
, vol.327
, pp. 92-94
-
-
Ossowski, S.1
Schneeberger, K.2
Lucas-Lledó, J.I.3
Warthmann, N.4
Clark, R.M.5
-
31
-
-
84900500340
-
Characterization of genetic diversity in the nematode Pristionchus pacificus from population-scale resequencing data
-
Rödelsperger, C., R. A. Neher, A. M. Weller, G. Eberhardt, H. Witte et al., 2014 Characterization of genetic diversity in the nematode Pristionchus pacificus from population-scale resequencing data. Genetics 196: 1153-1166.
-
(2014)
Genetics
, vol.196
, pp. 1153-1166
-
-
Rödelsperger, C.1
Neher, R.A.2
Weller, A.M.3
Eberhardt, G.4
Witte, H.5
-
32
-
-
45849121794
-
The rate and spectrum of microsatellite mutation in Caenorhabditis elegans and Daphnia pulex
-
Seyfert, A. L., M. E. A. Cristescu, L. Frisse, S. Schaack, W. K. Thomas et al., 2008 The rate and spectrum of microsatellite mutation in Caenorhabditis elegans and Daphnia pulex. Genetics 178: 2113-2121.
-
(2008)
Genetics
, vol.178
, pp. 2113-2121
-
-
Seyfert, A.L.1
Cristescu, M.E.A.2
Frisse, L.3
Schaack, S.4
Thomas, W.K.5
-
33
-
-
67349243011
-
The future of evo-devo: Model systems and evolutionary theory
-
Sommer, R. J., 2009 The future of evo-devo: model systems and evolutionary theory. Nat. Rev. Genet. 10: 416-422.
-
(2009)
Nat. Rev. Genet.
, vol.10
, pp. 416-422
-
-
Sommer, R.J.1
-
34
-
-
84868599895
-
Drift-barrier hypothesis and mutation-rate evolution
-
Sung, W., M. S. Ackerman, S. F. Miller, T. G. Doak, and M. Lynch, 2012 Drift-barrier hypothesis and mutation-rate evolution. Proc. Natl. Acad. Sci. USA 109: 18488-18492.
-
(2012)
Proc. Natl. Acad. Sci. USA
, vol.109
, pp. 18488-18492
-
-
Sung, W.1
Ackerman, M.S.2
Miller, S.F.3
Doak, T.G.4
Lynch, M.5
-
35
-
-
0023726166
-
The repairability of oxidative free radical mediated damage to DNA: A review
-
Teebor, G. W., R. J. Boorstein, and J. Cadet, 1988 The repairability of oxidative free radical mediated damage to DNA: a review. Int. J. Radiat. Biol. 54: 131-150.
-
(1988)
Int. J. Radiat. Biol.
, vol.54
, pp. 131-150
-
-
Teebor, G.W.1
Boorstein, R.J.2
Cadet, J.3
-
36
-
-
34547591343
-
Primer3Plus, an enhanced web interface to Primer3
-
Untergasser, A., H. Nijveen, X. Rao, T. Bisseling, R. Geurts et al., 2007 Primer3Plus, an enhanced web interface to Primer3. Nucleic Acids Res. 35: W71-W74.
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Untergasser, A.1
Nijveen, H.2
Rao, X.3
Bisseling, T.4
Geurts, R.5
-
37
-
-
0021092250
-
Role of biased gene conversion in one-locus neutral theory and genome evolution
-
Walsh, J. B., 1983 Role of biased gene conversion in one-locus neutral theory and genome evolution. Genetics 105: 461-468.
-
(1983)
Genetics
, vol.105
, pp. 461-468
-
-
Walsh, J.B.1
-
38
-
-
77953830894
-
Quantitative assessment of the nematode fauna present on Geotrupes dung beetles reveals species-rich communities with a heterogeneous distribution
-
Weller, A. M., W. E. Mayer, R. Rae, andR. J. Sommer, 2010 Quantitative assessment of the nematode fauna present on Geotrupes dung beetles reveals species-rich communities with a heterogeneous distribution. J. Parasitol. 96: 525-531.
-
(2010)
J. Parasitol.
, vol.96
, pp. 525-531
-
-
Weller, A.M.1
Mayer, W.E.2
Rae, R.3
Sommer, R.J.4
-
39
-
-
0030683599
-
PAML: A program package for phylogenetic analysis by maximum likelihood
-
Yang, Z., 1997 PAML: a program package for phylogenetic analysis by maximum likelihood. Comput. Appl. Biosci. 13: 555-556.
-
(1997)
Comput. Appl. Biosci.
, vol.13
, pp. 555-556
-
-
Yang, Z.1
-
40
-
-
0033639150
-
Statistical methods for detecting molecular adaptation
-
Yang, Z., and J. P. Bielawski, 2000 Statistical methods for detecting molecular adaptation. Trends Ecol. Evol. 15: 496-503.
-
(2000)
Trends Ecol. Evol.
, vol.15
, pp. 496-503
-
-
Yang, Z.1
Bielawski, J.P.2
|