-
1
-
-
70349325524
-
The evolutionary significance of ancient genome duplications
-
Van de Peer, Y., Maere, S., Meyer, A. The evolutionary significance of ancient genome duplications. Nat. Rev. Genet. 10, 725-732 (2009).
-
(2009)
Nat. Rev. Genet.
, vol.10
, pp. 725-732
-
-
Van De Peer, Y.1
Maere, S.2
Meyer, A.3
-
2
-
-
0028598861
-
Gene duplications and the origins of vertebrate development
-
Holland, P. W., Garcia-Fernàndez, J., Williams, N. A., Sidow, A. Gene duplications and the origins of vertebrate development. Development Suppl., 125-133 (1994).
-
(1994)
Development Suppl.
, pp. 125-133
-
-
Holland, P.W.1
Garcia-Fernàndez, J.2
Williams, N.A.3
Sidow, A.4
-
3
-
-
0001732966
-
Why polyploidy is rarer in animals than in plants
-
Muller, H. J. Why polyploidy is rarer in animals than in plants. Am. Nat. 59, 346-353 (1925).
-
(1925)
Am. Nat.
, vol.59
, pp. 346-353
-
-
Muller, H.J.1
-
4
-
-
0000986896
-
'Why polyploidy is rarer in animals than in plants' revisited
-
Orr, H. A. 'Why polyploidy is rarer in animals than in plants' revisited. Am. Nat. 136, 759-770 (1990).
-
(1990)
Am. Nat.
, vol.136
, pp. 759-770
-
-
Orr, H.A.1
-
5
-
-
84899099281
-
The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates
-
Berthelot, C. et al. The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates. Nat. Commun. 5, 3657 (2014).
-
(2014)
Nat. Commun.
, vol.5
, pp. 3657
-
-
Berthelot, C.1
-
6
-
-
24344440632
-
The zebrafish gene map defines ancestral vertebrate chromosomes
-
Woods, I. G. et al. The zebrafish gene map defines ancestral vertebrate chromosomes. Genome Res. 15, 1307-1314 (2005).
-
(2005)
Genome Res.
, vol.15
, pp. 1307-1314
-
-
Woods, I.G.1
-
7
-
-
84922482278
-
Whole-genome duplication in teleost fishes and its evolutionary consequences
-
Glasauer, S. M. K., Neuhauss, S. C. F. Whole-genome duplication in teleost fishes and its evolutionary consequences. Mol. Genet. Genomics 289, 1045-1060 (2014).
-
(2014)
Mol. Genet. Genomics
, vol.289
, pp. 1045-1060
-
-
Glasauer, S.M.K.1
Neuhauss, S.C.F.2
-
8
-
-
35548954250
-
The evolutionary consequences of polyploidy
-
Otto, S. P. The evolutionary consequences of polyploidy. Cell 131, 452-462 (2007).
-
(2007)
Cell
, vol.131
, pp. 452-462
-
-
Otto, S.P.1
-
10
-
-
46149136123
-
Genetics of polyploid Xenopus
-
Kobel, H. R., Du Pasquier, L. Genetics of polyploid Xenopus. Trends Genet. 2, 310-315 (1986).
-
(1986)
Trends Genet.
, vol.2
, pp. 310-315
-
-
Kobel, H.R.1
Du Pasquier, L.2
-
11
-
-
81055157765
-
Xenopus research: Metamorphosed by genetics and genomics
-
Harland, R. M., Grainger, R. M. Xenopus research: metamorphosed by genetics and genomics. Trends Genet. 27, 507-515 (2011).
-
(2011)
Trends Genet.
, vol.27
, pp. 507-515
-
-
Harland, R.M.1
Grainger, R.M.2
-
12
-
-
0001832110
-
A list of chromosome numbers of anuran amphibians
-
Kuramoto, M. A list of chromosome numbers of anuran amphibians. Bull. Fukuoka Univ. Educ. 39, 83-127 (1990).
-
(1990)
Bull. Fukuoka Univ. Educ.
, vol.39
, pp. 83-127
-
-
Kuramoto, M.1
-
13
-
-
0017617781
-
Albumin phylogeny for clawed frogs (Xenopus)
-
Bisbee, C. A., Baker, M. A., Wilson, A. C., Haji-Azimi, I., Fischberg, M. Albumin phylogeny for clawed frogs (Xenopus). Science 195, 785-787 (1977).
-
(1977)
Science
, vol.195
, pp. 785-787
-
-
Bisbee, C.A.1
Baker, M.A.2
Wilson, A.C.3
Haji-Azimi, I.4
Fischberg, M.5
-
14
-
-
84886101769
-
Homoeologous chromosomes of Xenopus laevis are highly conserved after whole-genome duplication
-
Uno, Y., Nishida, C., Takagi, C., Ueno, N., Matsuda, Y. Homoeologous chromosomes of Xenopus laevis are highly conserved after whole-genome duplication. Heredity 111, 430-436 (2013).
-
(2013)
Heredity
, vol.111
, pp. 430-436
-
-
Uno, Y.1
Nishida, C.2
Takagi, C.3
Ueno, N.4
Matsuda, Y.5
-
15
-
-
84871723836
-
Inference of the protokaryotypes of amniotes and tetrapods and the evolutionary processes of microchromosomes from comparative gene mapping
-
Uno, Y. et al. Inference of the protokaryotypes of amniotes and tetrapods and the evolutionary processes of microchromosomes from comparative gene mapping. PLoS One 7, e53027 (2012).
-
(2012)
PLoS One
, vol.7
, pp. e53027
-
-
Uno, Y.1
-
16
-
-
84941941730
-
A new nomenclature of Xenopus laevis chromosomes based on the phylogenetic relationship to Silurana/Xenopus tropicalis
-
Matsuda, Y. et al. A new nomenclature of Xenopus laevis chromosomes based on the phylogenetic relationship to Silurana/Xenopus tropicalis. Cytogenet. Genome Res. 145, 187-191 (2015).
-
(2015)
Cytogenet. Genome Res.
, vol.145
, pp. 187-191
-
-
Matsuda, Y.1
-
17
-
-
40649100327
-
A W-linked DM-domain gene, DM-W, participates in primary ovary development in Xenopus laevis
-
Yoshimoto, S. et al. A W-linked DM-domain gene, DM-W, participates in primary ovary development in Xenopus laevis. Proc. Natl Acad. Sci. USA 105, 2469-2474 (2008).
-
(2008)
Proc. Natl Acad. Sci. USA
, vol.105
, pp. 2469-2474
-
-
Yoshimoto, S.1
-
18
-
-
0035940510
-
P instability factor: An active maize transposon system associated with the amplification of Tourist-like MITEs and a new superfamily of transposases
-
Zhang, X. et al. P instability factor: an active maize transposon system associated with the amplification of Tourist-like MITEs and a new superfamily of transposases. Proc. Natl Acad. Sci. USA 98, 12572-12577 (2001).
-
(2001)
Proc. Natl Acad. Sci. USA
, vol.98
, pp. 12572-12577
-
-
Zhang, X.1
-
19
-
-
0035940397
-
PIFs meet Tourists and Harbingers: A superfamily reunion
-
Jurka, J., Kapitonov, V. V. PIFs meet Tourists and Harbingers: a superfamily reunion. Proc. Natl Acad. Sci. USA 98, 12315-12316 (2001).
-
(2001)
Proc. Natl Acad. Sci. USA
, vol.98
, pp. 12315-12316
-
-
Jurka, J.1
Kapitonov, V.V.2
-
20
-
-
58049200248
-
MMTS a new subfamily of Tc1-like transposons
-
Ahn, S. J., Kim, M.-S., Jang, J. H., Lim, S. U., Lee, H. H. MMTS, a new subfamily of Tc1-like transposons. Mol. Cells 26, 387-395 (2008).
-
(2008)
Mol. Cells
, vol.26
, pp. 387-395
-
-
Ahn, S.J.1
Kim, M.-S.2
Jang, J.H.3
Lim, S.U.4
Lee, H.H.5
-
21
-
-
33744807179
-
Sequencing and analysis of 10,967 full-length cDNA clones from Xenopus laevis and Xenopus tropicalis reveals post-tetraploidization transcriptome remodeling
-
Morin, R. D. et al. Sequencing and analysis of 10,967 full-length cDNA clones from Xenopus laevis and Xenopus tropicalis reveals post-tetraploidization transcriptome remodeling. Genome Res. 16, 796-803 (2006).
-
(2006)
Genome Res.
, vol.16
, pp. 796-803
-
-
Morin, R.D.1
-
22
-
-
34548171771
-
Accelerated gene evolution and subfunctionalization in the pseudotetraploid frog Xenopus laevis
-
Hellsten, U. et al. Accelerated gene evolution and subfunctionalization in the pseudotetraploid frog Xenopus laevis. BMC Biol. 5, 31 (2007).
-
(2007)
BMC Biol.
, vol.5
, pp. 31
-
-
Hellsten, U.1
-
23
-
-
84868029628
-
The pipid root
-
Bewick, A. J., Chain, F. J. J., Heled, J., Evans, B. J. The pipid root. Syst. Biol. 61, 913-926 (2012).
-
(2012)
Syst. Biol.
, vol.61
, pp. 913-926
-
-
Bewick, A.J.1
Chain, F.J.J.2
Heled, J.3
Evans, B.J.4
-
24
-
-
84941944238
-
Xenopus in space and time: Fossils, node calibrations, tip-dating, and paleobiogeography
-
Cannatella, D. Xenopus in space and time: fossils, node calibrations, tip-dating, and paleobiogeography. Cytogenet. Genome Res. 145, 283-301 (2015).
-
(2015)
Cytogenet. Genome Res.
, vol.145
, pp. 283-301
-
-
Cannatella, D.1
-
25
-
-
80051566443
-
Origin of amphibian and avian chromosomes by fission, fusion, and retention of ancestral chromosomes
-
Voss, S. R. et al. Origin of amphibian and avian chromosomes by fission, fusion, and retention of ancestral chromosomes. Genome Res. 21, 1306-1312 (2011).
-
(2011)
Genome Res.
, vol.21
, pp. 1306-1312
-
-
Voss, S.R.1
-
27
-
-
1542338594
-
Genomic duplication, fractionation and the origin of regulatory novelty
-
Langham, R. J. et al. Genomic duplication, fractionation and the origin of regulatory novelty. Genetics 166, 935-945 (2004).
-
(2004)
Genetics
, vol.166
, pp. 935-945
-
-
Langham, R.J.1
-
28
-
-
0002281363
-
The part played by recurrent mutation in evolution
-
Haldane, J. B. S. The part played by recurrent mutation in evolution. Am. Nat. 67, 5-19 (1933).
-
(1933)
Am. Nat.
, vol.67
, pp. 5-19
-
-
Haldane, J.B.S.1
-
29
-
-
84866294456
-
Gene balance hypothesis: Connecting issues of dosage sensitivity across biological disciplines
-
Birchler, J. A., Veitia, R. A. Gene balance hypothesis: connecting issues of dosage sensitivity across biological disciplines. Proc. Natl Acad. Sci. USA 109, 14746-14753 (2012).
-
(2012)
Proc. Natl Acad. Sci. USA
, vol.109
, pp. 14746-14753
-
-
Birchler, J.A.1
Veitia, R.A.2
-
30
-
-
79952744855
-
Differentiation of the maize subgenomes by genome dominance and both ancient and ongoing gene loss
-
Schnable, J. C., Springer, N. M., Freeling, M. Differentiation of the maize subgenomes by genome dominance and both ancient and ongoing gene loss. Proc. Natl Acad. Sci. USA 108, 4069-4074 (2011).
-
(2011)
Proc. Natl Acad. Sci. USA
, vol.108
, pp. 4069-4074
-
-
Schnable, J.C.1
Springer, N.M.2
Freeling, M.3
-
31
-
-
84859919827
-
A model for biased fractionation after whole genome duplication
-
Sankoff, D., Zheng, C., Wang, B. A model for biased fractionation after whole genome duplication. BMC Genomics 13 (Suppl. 1), S8 (2012).
-
(2012)
BMC Genomics
, vol.13
, pp. S8
-
-
Sankoff, D.1
Zheng, C.2
Wang, B.3
-
32
-
-
84893062974
-
Two evolutionarily distinct classes of paleopolyploidy
-
Garsmeur, O. et al. Two evolutionarily distinct classes of paleopolyploidy. Mol. Biol. Evol. 31, 448-454 (2014).
-
(2014)
Mol. Biol. Evol.
, vol.31
, pp. 448-454
-
-
Garsmeur, O.1
-
33
-
-
46149123448
-
Preferential subfunctionalization of slow-evolving genes after allopolyploidization in Xenopus laevis
-
Sémon, M., Wolfe, K. H. Preferential subfunctionalization of slow-evolving genes after allopolyploidization in Xenopus laevis. Proc. Natl Acad. Sci. USA 105, 8333-8338 (2008).
-
(2008)
Proc. Natl Acad. Sci. USA
, vol.105
, pp. 8333-8338
-
-
Sémon, M.1
Wolfe, K.H.2
-
34
-
-
83155191058
-
The odds of duplicate gene persistence after polyploidization
-
Chain, F. J. J., Dushoff, J., Evans, B. J. The odds of duplicate gene persistence after polyploidization. BMC Genomics 12, 599 (2011).
-
(2011)
BMC Genomics
, vol.12
, pp. 599
-
-
Chain, F.J.J.1
Dushoff, J.2
Evans, B.J.3
-
35
-
-
79952163548
-
Ancient vertebrate conserved noncoding elements have been evolving rapidly in teleost fishes
-
Lee, A. P., Kerk, S. Y., Tan, Y. Y., Brenner, S., Venkatesh, B. Ancient vertebrate conserved noncoding elements have been evolving rapidly in teleost fishes. Mol. Biol. Evol. 28, 1205-1215 (2011).
-
(2011)
Mol. Biol. Evol.
, vol.28
, pp. 1205-1215
-
-
Lee, A.P.1
Kerk, S.Y.2
Tan, Y.Y.3
Brenner, S.4
Venkatesh, B.5
-
36
-
-
0032893932
-
Preservation of duplicate genes by complementary, degenerative mutations
-
Force, A. et al. Preservation of duplicate genes by complementary, degenerative mutations. Genetics 151, 1531-1545 (1999).
-
(1999)
Genetics
, vol.151
, pp. 1531-1545
-
-
Force, A.1
-
37
-
-
70349668982
-
Molecular decay of the tooth gene Enamelin (ENAM) mirrors the loss of enamel in the fossil record of placental mammals
-
Meredith, R. W., Gatesy, J., Murphy, W. J., Ryder, O. A., Springer, M. S. Molecular decay of the tooth gene Enamelin (ENAM) mirrors the loss of enamel in the fossil record of placental mammals. PLoS Genet. 5, e1000634 (2009).
-
(2009)
PLoS Genet.
, vol.5
, pp. e1000634
-
-
Meredith, R.W.1
Gatesy, J.2
Murphy, W.J.3
Ryder, O.A.4
Springer, M.S.5
-
38
-
-
2942744316
-
A common framework for understanding the origin of genetic dominance and evolutionary fates of gene duplications
-
Kondrashov, F. A., Koonin, E. V. A common framework for understanding the origin of genetic dominance and evolutionary fates of gene duplications. Trends Genet. 20, 287-290 (2004).
-
(2004)
Trends Genet.
, vol.20
, pp. 287-290
-
-
Kondrashov, F.A.1
Koonin, E.V.2
-
39
-
-
33750858684
-
Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia
-
Aury, J.-M. et al. Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia. Nature 444, 171-178 (2006).
-
(2006)
Nature
, vol.444
, pp. 171-178
-
-
Aury, J.-M.1
-
40
-
-
77953212314
-
The relationship among gene expression, the evolution of gene dosage, and the rate of protein evolution
-
Paramecium Post-Genomics Consortium
-
Gout, J.-F., Kahn, D., Duret, L., Paramecium Post-Genomics Consortium. The relationship among gene expression, the evolution of gene dosage, and the rate of protein evolution. PLoS Genet. 6, e1000944 (2010).
-
(2010)
PLoS Genet.
, vol.6
, pp. e1000944
-
-
Gout, J.-F.1
Kahn, D.2
Duret, L.3
-
41
-
-
79954452308
-
Mapping gene expression in two Xenopus species: Evolutionary constraints and developmental flexibility
-
Yanai, I., Peshkin, L., Jorgensen, P., Kirschner, M. W. Mapping gene expression in two Xenopus species: evolutionary constraints and developmental flexibility. Dev. Cell 20, 483-496 (2011).
-
(2011)
Dev. Cell
, vol.20
, pp. 483-496
-
-
Yanai, I.1
Peshkin, L.2
Jorgensen, P.3
Kirschner, M.W.4
-
42
-
-
84908093872
-
New insights into the maternal to zygotic transition
-
Langley, A. R., Smith, J. C., Stemple, D. L., Harvey, S. A. New insights into the maternal to zygotic transition. Development 141, 3834-3841 (2014).
-
(2014)
Development
, vol.141
, pp. 3834-3841
-
-
Langley, A.R.1
Smith, J.C.2
Stemple, D.L.3
Harvey, S.A.4
-
43
-
-
84940653986
-
Beyond the whole-genome duplication: Phylogenetic evidence for an ancient interspecies hybridization in the baker's yeast lineage
-
Marcet-Houben, M., Gabaldón, T. Beyond the whole-genome duplication: phylogenetic evidence for an ancient interspecies hybridization in the baker's yeast lineage. PLoS Biol. 13, e1002220 (2015).
-
(2015)
PLoS Biol.
, vol.13
, pp. e1002220
-
-
Marcet-Houben, M.1
Gabaldón, T.2
-
44
-
-
0021715393
-
The significance of responses of the genome to challenge
-
McClintock, B. The significance of responses of the genome to challenge. Science 226, 792-801 (1984).
-
(1984)
Science
, vol.226
, pp. 792-801
-
-
McClintock, B.1
-
45
-
-
80051839847
-
Meraculous: De novo genome assembly with short paired-end reads
-
Chapman, J. A. et al. Meraculous: de novo genome assembly with short paired-end reads. PLoS One 6, e23501 (2011).
-
(2011)
PLoS One
, vol.6
, pp. e23501
-
-
Chapman, J.A.1
-
46
-
-
84862917808
-
Genome architectures revealed by tethered chromosome conformation capture and population-based modeling
-
Chen, L. et al. Genome architectures revealed by tethered chromosome conformation capture and population-based modeling. Nat. Biotechnol. 30, 90-98 (2011).
-
(2011)
Nat. Biotechnol.
, vol.30
, pp. 90-98
-
-
Chen, L.1
-
47
-
-
84960380290
-
Chromosome-scale shotgun assembly using an in vitro method for long-range linkage
-
Putnam, N. H. et al. Chromosome-scale shotgun assembly using an in vitro method for long-range linkage. Genome Res. 26, 342-350 (2016).
-
(2016)
Genome Res.
, vol.26
, pp. 342-350
-
-
Putnam, N.H.1
-
48
-
-
84961014614
-
Genic control and hormonal reversal of sex differentiation in Xenopus
-
Chang, C. Y., Witschi, E. Genic control and hormonal reversal of sex differentiation in Xenopus. Proc. Soc. Exp. Biol. Med. 93, 140-144 (1956).
-
(1956)
Proc. Soc. Exp. Biol. Med.
, vol.93
, pp. 140-144
-
-
Chang, C.Y.1
Witschi, E.2
-
49
-
-
84857996686
-
From expression cloning to gene modeling: The development of Xenopus gene sequence resources
-
Gilchrist, M. J. From expression cloning to gene modeling: the development of Xenopus gene sequence resources. Genesis 50, 143-154 (2012).
-
(2012)
Genesis
, vol.50
, pp. 143-154
-
-
Gilchrist, M.J.1
-
51
-
-
84946074739
-
The InterPro protein families database: The classification resource after 15 years
-
Mitchell, A. et al. The InterPro protein families database: the classification resource after 15 years. Nucleic Acids Res. 43, D213-D221 (2015).
-
(2015)
Nucleic Acids Res.
, vol.43
, pp. D213-D221
-
-
Mitchell, A.1
-
52
-
-
84891760956
-
Data, information, knowledge and principle: Back to metabolism in KEGG
-
Kanehisa, M. et al. Data, information, knowledge and principle: back to metabolism in KEGG. Nucleic Acids Res. 42, D199-D205 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. D199-D205
-
-
Kanehisa, M.1
-
53
-
-
84979518589
-
MitoCarta2.0: An updated inventory of mammalian mitochondrial proteins
-
Calvo, S. E., Clauser, K. R., Mootha, V. K. MitoCarta2.0: an updated inventory of mammalian mitochondrial proteins. Nucleic Acids Res. 44, D1251-D1257 (2016).
-
(2016)
Nucleic Acids Res.
, vol.44
, pp. D1251-D1257
-
-
Calvo, S.E.1
Clauser, K.R.2
Mootha, V.K.3
-
54
-
-
60549111634
-
WGCNA: An R package for weighted correlation network analysis
-
Langfelder, P., Horvath, S. WGCNA: an R package for weighted correlation network analysis. BMC Bioinformatics 9, 559 (2008).
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 559
-
-
Langfelder, P.1
Horvath, S.2
-
55
-
-
16344384870
-
Identification of Xenopus CENP-A and an associated centromeric DNA repeat
-
Edwards, N. S., Murray, A. W. Identification of Xenopus CENP-A and an associated centromeric DNA repeat. Mol. Biol. Cell 16, 1800-1810 (2005).
-
(2005)
Mol. Biol. Cell
, vol.16
, pp. 1800-1810
-
-
Edwards, N.S.1
Murray, A.W.2
-
56
-
-
84891910353
-
Ohnologs are overrepresented in pathogenic copy number mutations
-
McLysaght, A. et al. Ohnologs are overrepresented in pathogenic copy number mutations. Proc. Natl. Acad. Sci. USA 111, 361-366 (2014).
-
(2014)
Proc. Natl. Acad. Sci. USA
, vol.111
, pp. 361-366
-
-
McLysaght, A.1
-
57
-
-
84871994580
-
RNA sequencing reveals a diverse and dynamic repertoire of the Xenopus tropicalis transcriptome over development
-
Tan, M. H. et al. RNA sequencing reveals a diverse and dynamic repertoire of the Xenopus tropicalis transcriptome over development. Genome Res. 23, 201-216 (2013).
-
(2013)
Genome Res.
, vol.23
, pp. 201-216
-
-
Tan, M.H.1
|