-
1
-
-
84917691034
-
An integrative approach to understanding bird origins
-
Xu, X., Z. Zhou, R. Dudley, et al. 2014. An integrative approach to understanding bird origins. Science 346: 1253293.
-
(2014)
Science
, vol.346
, pp. 1253293
-
-
Xu, X.1
Zhou, Z.2
Dudley, R.3
-
3
-
-
84871922008
-
An update of Wallace's zoogeographic regions of the world
-
Holt, B.G., J.-P. Lessard, M.K. Borregaard, et al. 2013. An update of Wallace's zoogeographic regions of the world. Science 339: 74–78.
-
(2013)
Science
, vol.339
, pp. 74-78
-
-
Holt, B.G.1
Lessard, J.-P.2
Borregaard, M.K.3
-
4
-
-
84869088692
-
The global diversity of birds in space and time
-
Jetz, W., G. Thomas, J. Joy, et al. 2012. The global diversity of birds in space and time. Nature 491: 444–448.
-
(2012)
Nature
, vol.491
, pp. 444-448
-
-
Jetz, W.1
Thomas, G.2
Joy, J.3
-
5
-
-
84874376138
-
Genomic diversity and evolution of the head crest in the rock pigeon
-
Shapiro, M.D., Z. Kronenberg, C. Li, et al. 2013. Genomic diversity and evolution of the head crest in the rock pigeon. Science 339: 1063–1067.
-
(2013)
Science
, vol.339
, pp. 1063-1067
-
-
Shapiro, M.D.1
Kronenberg, Z.2
Li, C.3
-
6
-
-
80052413579
-
Insights into bird wing evolution and digit specification from polarizing region fate maps
-
Towers, M., J. Signolet, A. Sherman, et al. 2011. Insights into bird wing evolution and digit specification from polarizing region fate maps. Nat. Commun. 2: 426.
-
(2011)
Nat. Commun
, vol.2
, pp. 426
-
-
Towers, M.1
Signolet, J.2
Sherman, A.3
-
7
-
-
77950080740
-
Whole-genome resequencing reveals loci under selection during chicken domestication
-
Rubin, C.-J., M.C. Zody, J. Eriksson, et al. 2010. Whole-genome resequencing reveals loci under selection during chicken domestication. Nature 464: 587–591.
-
(2010)
Nature
, vol.464
, pp. 587-591
-
-
Rubin, C.-J.1
Zody, M.C.2
Eriksson, J.3
-
8
-
-
0034632857
-
Behaviourally driven gene expression reveals song nuclei in hummingbird brain
-
Jarvis, E.D., S. Ribeiro, M.L. da Silva, et al. 2000. Behaviourally driven gene expression reveals song nuclei in hummingbird brain. Nature 406: 628–632.
-
(2000)
Nature
, vol.406
, pp. 628-632
-
-
Jarvis, E.D.1
Ribeiro, S.2
da Silva, M.L.3
-
9
-
-
63449102727
-
FOXP2 as a molecular window into speech and language
-
Fisher, S.E. & C. Scharff. 2009. FOXP2 as a molecular window into speech and language. Trends Genet. 25: 166–177.
-
(2009)
Trends Genet
, vol.25
, pp. 166-177
-
-
Fisher, S.E.1
Scharff, C.2
-
10
-
-
84917708482
-
Whole genome analyses resolve the early branches in the tree of life of modern birds
-
Jarvis, E.D., S. Mirarab, A.J. Aberer, et al. 2014. Whole genome analyses resolve the early branches in the tree of life of modern birds. Science 346: 1320–1331.
-
(2014)
Science
, vol.346
, pp. 1320-1331
-
-
Jarvis, E.D.1
Mirarab, S.2
Aberer, A.J.3
-
11
-
-
84944911288
-
A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing
-
Prum, R.O., J.S. Berv, A. Dornburg, et al. 2015. A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing. Nature 526: 569–573.
-
(2015)
Nature
, vol.526
, pp. 569-573
-
-
Prum, R.O.1
Berv, J.S.2
Dornburg, A.3
-
12
-
-
84940641284
-
The dynamics of incomplete lineage sorting across the ancient adaptive radiation of neoavian birds
-
Suh, A., L. Smeds & H. Ellegren. 2015. The dynamics of incomplete lineage sorting across the ancient adaptive radiation of neoavian birds. PLoS Biol. 13: e1002224.
-
(2015)
PLoS Biol
, vol.13
-
-
Suh, A.1
Smeds, L.2
Ellegren, H.3
-
13
-
-
84988935122
-
The phylogenomic forest of bird trees contains a hard polytomy at the root of Neoaves
-
Suh, A. 2016. The phylogenomic forest of bird trees contains a hard polytomy at the root of Neoaves. Zool. Scripta 45: 50–62.
-
(2016)
Zool. Scripta
, vol.45
, pp. 50-62
-
-
Suh, A.1
-
14
-
-
84923353165
-
Evolution of Darwin's finches and their beaks revealed by genome sequencing
-
Lamichhaney, S., J. Berglund, M.S. Almen, et al. 2015. Evolution of Darwin's finches and their beaks revealed by genome sequencing. Nature 518: 371–375.
-
(2015)
Nature
, vol.518
, pp. 371-375
-
-
Lamichhaney, S.1
Berglund, J.2
Almen, M.S.3
-
15
-
-
84946553571
-
Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum in Ficedula flycatchers
-
Burri, R., A. Nater, T. Kawakami, et al. 2015. Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum in Ficedula flycatchers. Genome Res. 25: 1656–1665.
-
(2015)
Genome Res
, vol.25
, pp. 1656-1665
-
-
Burri, R.1
Nater, A.2
Kawakami, T.3
-
16
-
-
84902665599
-
The genomic landscape underlying phenotypic integrity in the face of gene flow in crows
-
Poelstra, J.W., N. Vijay, C.M. Bossu, et al. 2014. The genomic landscape underlying phenotypic integrity in the face of gene flow in crows. Science 344: 1410–1414.
-
(2014)
Science
, vol.344
, pp. 1410-1414
-
-
Poelstra, J.W.1
Vijay, N.2
Bossu, C.M.3
-
17
-
-
84870297139
-
The genomic landscape of species divergence in Ficedula flycatchers
-
Ellegren, H., L. Smeds, R. Burri, et al. 2012. The genomic landscape of species divergence in Ficedula flycatchers. Nature 491: 756–760.
-
(2012)
Nature
, vol.491
, pp. 756-760
-
-
Ellegren, H.1
Smeds, L.2
Burri, R.3
-
18
-
-
84955710521
-
The genetic basis of color-related local adaptation in a ring-like colonization around the Mediterranean
-
Burri, R., S. Antoniazza, A. Gaigher, et al. 2016. The genetic basis of color-related local adaptation in a ring-like colonization around the Mediterranean. Evolution 70: 140–153.
-
(2016)
Evolution
, vol.70
, pp. 140-153
-
-
Burri, R.1
Antoniazza, S.2
Gaigher, A.3
-
20
-
-
10644283823
-
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
-
Hillier, L.W., W. Miller, E. Birney, et al. 2004. Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature 432: 695–716.
-
(2004)
Nature
, vol.432
, pp. 695-716
-
-
Hillier, L.W.1
Miller, W.2
Birney, E.3
-
21
-
-
77957903598
-
Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis
-
Dalloul, R.A., J.A. Long, A.V. Zimin, et al. 2010. Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis. PLoS Biol. 8: 1–21.
-
(2010)
PLoS Biol
, vol.8
, pp. 1-21
-
-
Dalloul, R.A.1
Long, J.A.2
Zimin, A.V.3
-
23
-
-
84935840605
-
Using the canary genome to decipher the evolution of hormone-sensitive gene regulation in seasonal singing birds
-
Frankl-Vilches, C., H. Kuhl, M. Werber, et al. 2015. Using the canary genome to decipher the evolution of hormone-sensitive gene regulation in seasonal singing birds. Genome Biol. 16: 19.
-
(2015)
Genome Biol
, vol.16
, pp. 19
-
-
Frankl-Vilches, C.1
Kuhl, H.2
Werber, M.3
-
24
-
-
84905465421
-
A high-density linkage map enables a second-generation collared flycatcher genome assembly and reveals the patterns of avian recombination rate variation and chromosomal evolution
-
Kawakami, T., L. Smeds, N. Backström, et al. 2014. A high-density linkage map enables a second-generation collared flycatcher genome assembly and reveals the patterns of avian recombination rate variation and chromosomal evolution. Mol. Ecol. 23: 4035–4058.
-
(2014)
Mol. Ecol
, vol.23
, pp. 4035-4058
-
-
Kawakami, T.1
Smeds, L.2
Backström, N.3
-
25
-
-
84955477815
-
Evolutionary signals of selection on cognition from the great tit genome and methylome
-
Laine, V.N., T.I. Gossmann, K.M. Schachtschneider, et al. 2016. Evolutionary signals of selection on cognition from the great tit genome and methylome. Nat. Commun. 7: 10474.
-
(2016)
Nat. Commun
, vol.7
, pp. 10474
-
-
Laine, V.N.1
Gossmann, T.I.2
Schachtschneider, K.M.3
-
26
-
-
84917678595
-
Comparative genomics reveals insights into avian genome evolution and adaptation
-
Zhang, G., C. Li, Q. Li, et al. 2014. Comparative genomics reveals insights into avian genome evolution and adaptation. Science 346: 1311–1320.
-
(2014)
Science
, vol.346
, pp. 1311-1320
-
-
Zhang, G.1
Li, C.2
Li, Q.3
-
27
-
-
84979582275
-
Improving the ostrich genome assembly using optical mapping data
-
Zhang, J., C. Li, Q. Zhou, et al. 2015. Improving the ostrich genome assembly using optical mapping data. Gigascience 4: 24.
-
(2015)
Gigascience
, vol.4
, pp. 24
-
-
Zhang, J.1
Li, C.2
Zhou, Q.3
-
28
-
-
84959058509
-
Perspectives from the Avian Phylogenomics Project: questions that can be answered with sequencing all genomes of a vertebrate class
-
Jarvis, E.D. 2016. Perspectives from the Avian Phylogenomics Project: questions that can be answered with sequencing all genomes of a vertebrate class. Annu. Rev. Anim. Biosci. 4: 45–59.
-
(2016)
Annu. Rev. Anim. Biosci
, vol.4
, pp. 45-59
-
-
Jarvis, E.D.1
-
29
-
-
1542513556
-
Mobile elements: drivers of genome evolution
-
Kazazian, H.H, Jr. 2004. Mobile elements: drivers of genome evolution. Science 303: 1626–1632.
-
(2004)
Science
, vol.303
, pp. 1626-1632
-
-
Kazazian, H.H.1
-
30
-
-
33646566617
-
Transposable elements
-
In, T.R. Gregory, Ed., Elsevier Academic Press
-
Kidwell, M. 2005. Transposable elements. In The Evolution of the Genome. T.R. Gregory, Ed.: 165–221. Elsevier Academic Press.
-
(2005)
The Evolution of the Genome
, pp. 165-221
-
-
Kidwell, M.1
-
31
-
-
78649718268
-
Endogenous viral elements in animal genomes
-
Katzourakis, A. & R.J. Gifford. 2010. Endogenous viral elements in animal genomes. PLoS Genet. 6: e1001191.
-
(2010)
PLoS Genet
, vol.6
-
-
Katzourakis, A.1
Gifford, R.J.2
-
32
-
-
84919663851
-
Early Mesozoic coexistence of amniotes and Hepadnaviridae
-
Suh, A., C.C. Weber, C. Kehlmaier, et al. 2014. Early Mesozoic coexistence of amniotes and Hepadnaviridae. PLoS Genet. 10: e1004559.
-
(2014)
PLoS Genet
, vol.10
-
-
Suh, A.1
Weber, C.C.2
Kehlmaier, C.3
-
33
-
-
84933578221
-
Endogenous viruses: connecting recent and ancient viral evolution
-
Aiewsakun, P. & A. Katzourakis. 2015. Endogenous viruses: connecting recent and ancient viral evolution. Virology 479–480: 26–37.
-
(2015)
Virology
, vol.479-480
, pp. 26-37
-
-
Aiewsakun, P.1
Katzourakis, A.2
-
34
-
-
80054890343
-
The evolution of endogenous viral elements
-
Holmes, E.C. 2011. The evolution of endogenous viral elements. Cell Host Microbe 10: 368–377.
-
(2011)
Cell Host Microbe
, vol.10
, pp. 368-377
-
-
Holmes, E.C.1
-
35
-
-
84858429240
-
Endogenous viruses: insights into viral evolution and impact on host biology
-
Feschotte, C. & C. Gilbert. 2012. Endogenous viruses: insights into viral evolution and impact on host biology. Nat. Rev. Genet. 13: 283–296.
-
(2012)
Nat. Rev. Genet
, vol.13
, pp. 283-296
-
-
Feschotte, C.1
Gilbert, C.2
-
36
-
-
84877750431
-
Our viral inheritance
-
Weiss, R.A. & J.P. Stoye. 2013. Our viral inheritance. Science 340: 820–821.
-
(2013)
Science
, vol.340
, pp. 820-821
-
-
Weiss, R.A.1
Stoye, J.P.2
-
37
-
-
36249023071
-
A unified classification system for eukaryotic transposable elements
-
Wicker, T., F. Sabot, A. Hua-Van, et al. 2007. A unified classification system for eukaryotic transposable elements. Nat. Rev. Genet. 8: 973–982.
-
(2007)
Nat. Rev. Genet
, vol.8
, pp. 973-982
-
-
Wicker, T.1
Sabot, F.2
Hua-Van, A.3
-
38
-
-
42349111552
-
A universal classification of eukaryotic transposable elements implemented in Repbase
-
Kapitonov, V.V. & J. Jurka. 2008. A universal classification of eukaryotic transposable elements implemented in Repbase. Nat. Rev. Genet. 9: 411–412.
-
(2008)
Nat. Rev. Genet
, vol.9
, pp. 411-412
-
-
Kapitonov, V.V.1
Jurka, J.2
-
39
-
-
84923103071
-
Polintons: a hotbed of eukaryotic virus, transposon and plasmid evolution
-
Krupovic, M. & E.V. Koonin. 2015. Polintons: a hotbed of eukaryotic virus, transposon and plasmid evolution. Nat. Rev. Microbiol. 13: 105–115.
-
(2015)
Nat. Rev. Microbiol
, vol.13
, pp. 105-115
-
-
Krupovic, M.1
Koonin, E.V.2
-
40
-
-
77951562146
-
Transposable elements in natural populations of Drosophila melanogaster
-
Lee, Y.C.G. & C.H. Langley. 2010. Transposable elements in natural populations of Drosophila melanogaster. Philos. Trans. R. Soc. Lond. B Biol. Sci. 365: 1219–1228.
-
(2010)
Philos. Trans. R. Soc. Lond. B Biol. Sci
, vol.365
, pp. 1219-1228
-
-
Lee, Y.C.G.1
Langley, C.H.2
-
41
-
-
84940697836
-
What's in a genome? The C-value enigma and the evolution of eukaryotic genome content
-
&, 20140331
-
Elliott, T.A. & T.R. Gregory. 2015. What's in a genome? The C-value enigma and the evolution of eukaryotic genome content. Philos. Trans. R. Soc. Lond. B Biol. Sci. 370: 20140331. doi: 10.1098/rstb.2014.0331.
-
(2015)
Philos. Trans. R. Soc. Lond. B Biol. Sci
, vol.370
-
-
Elliott, T.A.1
Gregory, T.R.2
-
42
-
-
33947303168
-
Transposable elements and the epigenetic regulation of the genome
-
Slotkin, R.K. & R. Martienssen. 2007. Transposable elements and the epigenetic regulation of the genome. Nat. Rev. Genet. 8: 272–285.
-
(2007)
Nat. Rev. Genet
, vol.8
, pp. 272-285
-
-
Slotkin, R.K.1
Martienssen, R.2
-
43
-
-
34249937354
-
Thousands of human mobile element fragments undergo strong purifying selection near developmental genes
-
Lowe, C.B., G. Bejerano & D. Haussler. 2007. Thousands of human mobile element fragments undergo strong purifying selection near developmental genes. Proc. Natl. Acad. Sci. U.S.A. 104: 8005–8010.
-
(2007)
Proc. Natl. Acad. Sci. U.S.A
, vol.104
, pp. 8005-8010
-
-
Lowe, C.B.1
Bejerano, G.2
Haussler, D.3
-
44
-
-
84863393570
-
Waves of retrotransposon expansion remodel genome organization and CTCF binding in multiple mammalian lineages
-
Schmidt, D., P.C. Schwalie, M.D. Wilson, et al. 2012. Waves of retrotransposon expansion remodel genome organization and CTCF binding in multiple mammalian lineages. Cell 148: 335–348.
-
(2012)
Cell
, vol.148
, pp. 335-348
-
-
Schmidt, D.1
Schwalie, P.C.2
Wilson, M.D.3
-
45
-
-
84938930718
-
MIR retrotransposon sequences provide insulators to the human genome
-
Wang, J., C. Vicente-García, D. Seruggia, et al. 2015. MIR retrotransposon sequences provide insulators to the human genome. Proc. Natl. Acad. Sci. U.S.A. 112: E4428–E4437.
-
(2015)
Proc. Natl. Acad. Sci. U.S.A
, vol.112
, pp. E4428-E4437
-
-
Wang, J.1
Vicente-García, C.2
Seruggia, D.3
-
46
-
-
85016273278
-
Evolution and diversity of transposable elements in vertebrates
-
2016
-
Sotero-Caio, C., R.N. Platt II, A. Suh, et al. 2016. Evolution and diversity of transposable elements in vertebrates. Genome Biol. Evol. doi: 10.1093/gbe/evw264.
-
Genome Biol. Evol
-
-
Sotero-Caio, C.1
Platt, R.N.2
Suh, A.3
-
48
-
-
84886152077
-
Major events in avian genome evolution
-
&, In, G. Dyke, &, G. Kaiser, Eds., John Wiley & Sons, Ltd
-
Organ, C.L. & S.V. Edwards. 2011. Major events in avian genome evolution. In Living Dinosaurs: The Evolutionary History of Modern Birds. G. Dyke & G. Kaiser, Eds.: 325–337. John Wiley & Sons, Ltd.
-
(2011)
Living Dinosaurs: The Evolutionary History of Modern Birds
, pp. 325-337
-
-
Organ, C.L.1
Edwards, S.V.2
-
49
-
-
70449729943
-
The smallest avian genomes are found in hummingbirds
-
Gregory, T.R., C.B. Andrews, J.A. McGuire, et al. 2009. The smallest avian genomes are found in hummingbirds. Proc. Biol. Sci. 276: 3753–3757.
-
(2009)
Proc. Biol. Sci
, vol.276
, pp. 3753-3757
-
-
Gregory, T.R.1
Andrews, C.B.2
McGuire, J.A.3
-
50
-
-
33947127751
-
Origin of avian genome size and structure in non-avian dinosaurs
-
Organ, C.L., A.M. Shedlock, A. Meade, et al. 2007. Origin of avian genome size and structure in non-avian dinosaurs. Nature 446: 180–184.
-
(2007)
Nature
, vol.446
, pp. 180-184
-
-
Organ, C.L.1
Shedlock, A.M.2
Meade, A.3
-
51
-
-
84893050882
-
Metabolic ‘engines’ of flight drive genome size reduction in birds
-
Wright, N.A., T.R. Gregory & C.C. Witt. 2014. Metabolic ‘engines’ of flight drive genome size reduction in birds. Proc. Biol. Sci. 281: 20132780.
-
(2014)
Proc. Biol. Sci
, vol.281
, pp. 20132780
-
-
Wright, N.A.1
Gregory, T.R.2
Witt, C.C.3
-
52
-
-
84875077993
-
The evolution of intron size in amniotes: a role for powered flight
-
Zhang, Q. & S.V. Edwards. 2012. The evolution of intron size in amniotes: a role for powered flight? Genome Biol. Evol. 4: 1033–1043.
-
(2012)
Genome Biol. Evol
, vol.4
, pp. 1033-1043
-
-
Zhang, Q.1
Edwards, S.V.2
-
53
-
-
0029100668
-
Small genomes for better flyers
-
Hughes, A.L. & M.K. Hughes. 1995. Small genomes for better flyers. Nature 377: 391.
-
(1995)
Nature
, vol.377
, pp. 391
-
-
Hughes, A.L.1
Hughes, M.K.2
-
54
-
-
0031000757
-
Nucleotypic effect in homeotherms: body-mass independent resting metabolic rate of passerine birds is related to genome size
-
Vinogradov, A.E. 1997. Nucleotypic effect in homeotherms: body-mass independent resting metabolic rate of passerine birds is related to genome size. Evolution 51: 220–225.
-
(1997)
Evolution
, vol.51
, pp. 220-225
-
-
Vinogradov, A.E.1
-
55
-
-
84978877973
-
Genome stability and evolution: attempting a holistic view
-
Schubert, I. & G.T.H. Vu. 2016. Genome stability and evolution: attempting a holistic view. Trends Plant Sci. 21: 749–757.
-
(2016)
Trends Plant Sci
, vol.21
, pp. 749-757
-
-
Schubert, I.1
Vu, G.T.H.2
-
56
-
-
34248144955
-
The mode and tempo of genome size evolution in eukaryotes
-
Oliver, M.J., D. Petrov, D. Ackerly, et al. 2007. The mode and tempo of genome size evolution in eukaryotes. Genome Res. 17: 594–601.
-
(2007)
Genome Res
, vol.17
, pp. 594-601
-
-
Oliver, M.J.1
Petrov, D.2
Ackerly, D.3
-
57
-
-
77950630372
-
Evolutionary stasis: the stable chromosomes of birds
-
Ellegren, H. 2010. Evolutionary stasis: the stable chromosomes of birds. Trends Ecol. Evol. 25: 283–291.
-
(2010)
Trends Ecol. Evol
, vol.25
, pp. 283-291
-
-
Ellegren, H.1
-
58
-
-
84904212145
-
Tracing the evolution of amniote chromosomes
-
Deakin, J.E. & T. Ezaz. 2014. Tracing the evolution of amniote chromosomes. Chromosoma 123: 201–216.
-
(2014)
Chromosoma
, vol.123
, pp. 201-216
-
-
Deakin, J.E.1
Ezaz, T.2
-
59
-
-
0036045092
-
Origin and evolution of avian microchromosomes
-
Burt, D.W. 2002. Origin and evolution of avian microchromosomes. Cytogenet. Genome Res. 96: 97–112.
-
(2002)
Cytogenet. Genome Res
, vol.96
, pp. 97-112
-
-
Burt, D.W.1
-
61
-
-
84973319914
-
Determinants of genetic diversity
-
Ellegren, H. & N. Galtier. 2016. Determinants of genetic diversity. Nat. Rev. Genet. 17: 422–433.
-
(2016)
Nat. Rev. Genet
, vol.17
, pp. 422-433
-
-
Ellegren, H.1
Galtier, N.2
-
62
-
-
77951880040
-
Transposable elements in reptilian and avian (Sauropsida) genomes
-
Kordiš, D. 2009. Transposable elements in reptilian and avian (Sauropsida) genomes. Cytogenet. Genome Res. 127: 94–111.
-
(2009)
Cytogenet. Genome Res
, vol.127
, pp. 94-111
-
-
Kordiš, D.1
-
63
-
-
84928236059
-
Comparative analysis of transposable elements highlights mobilome diversity and evolution in vertebrates
-
Chalopin, D., M. Naville, F. Plard, et al. 2015. Comparative analysis of transposable elements highlights mobilome diversity and evolution in vertebrates. Genome Biol. Evol. 7: 567–580.
-
(2015)
Genome Biol. Evol
, vol.7
, pp. 567-580
-
-
Chalopin, D.1
Naville, M.2
Plard, F.3
-
64
-
-
77957944090
-
Genome evolution in Reptilia, the sister group of mammals
-
Janes, D.E., C.L. Organ, M.K. Fujita, et al. 2010. Genome evolution in Reptilia, the sister group of mammals. Annu. Rev. Genomics Hum. Genet. 11: 239–264.
-
(2010)
Annu. Rev. Genomics Hum. Genet
, vol.11
, pp. 239-264
-
-
Janes, D.E.1
Organ, C.L.2
Fujita, M.K.3
-
65
-
-
84996528945
-
Low frequency of paleoviral infiltration across the avian phylogeny
-
Cui, J., W. Zhao, Z. Huang, et al. 2014. Low frequency of paleoviral infiltration across the avian phylogeny. Genome Biol. 15: 539.
-
(2014)
Genome Biol
, vol.15
, pp. 539
-
-
Cui, J.1
Zhao, W.2
Huang, Z.3
-
66
-
-
84919656263
-
Multiple lineages of ancient CR1 retroposons shaped the early genome evolution of amniotes
-
Suh, A., G. Churakov, M.P. Ramakodi, et al. 2015. Multiple lineages of ancient CR1 retroposons shaped the early genome evolution of amniotes. Genome Biol. Evol. 7: 205–217.
-
(2015)
Genome Biol. Evol
, vol.7
, pp. 205-217
-
-
Suh, A.1
Churakov, G.2
Ramakodi, M.P.3
-
67
-
-
33847281471
-
Phylogenomics of nonavian reptiles and the structure of the ancestral amniote genome
-
Shedlock, A.M., C.W. Botka, S. Zhao, et al. 2007. Phylogenomics of nonavian reptiles and the structure of the ancestral amniote genome. Proc. Natl. Acad. Sci. U.S.A. 104: 2767–2772.
-
(2007)
Proc. Natl. Acad. Sci. U.S.A
, vol.104
, pp. 2767-2772
-
-
Shedlock, A.M.1
Botka, C.W.2
Zhao, S.3
-
68
-
-
84939468193
-
The specific requirements for CR1 retrotransposition explain the scarcity of retrogenes in birds
-
Suh, A. 2015. The specific requirements for CR1 retrotransposition explain the scarcity of retrogenes in birds. J. Mol. Evol. 81: 18–20.
-
(2015)
J. Mol. Evol
, vol.81
, pp. 18-20
-
-
Suh, A.1
-
69
-
-
85013345866
-
LINEs between species: evolutionary dynamics of LINE-1 retrotransposons across the eukaryotic tree of life
-
Ivancevic, A.M., R.D. Kortschak, T. Bertozzi, et al. 2016. LINEs between species: evolutionary dynamics of LINE-1 retrotransposons across the eukaryotic tree of life. Genome Biol. Evol. doi: 10.1093/gbe/evw243.
-
(2016)
Genome Biol. Evol
-
-
Ivancevic, A.M.1
Kortschak, R.D.2
Bertozzi, T.3
-
70
-
-
44649197847
-
Mobility pathways for vertebrate L1, L2, CR1, and RTE clade retrotransposons
-
Ichiyanagi, K. & N. Okada. 2008. Mobility pathways for vertebrate L1, L2, CR1, and RTE clade retrotransposons. Mol. Biol. Evol. 25: 1148–1157.
-
(2008)
Mol. Biol. Evol
, vol.25
, pp. 1148-1157
-
-
Ichiyanagi, K.1
Okada, N.2
-
71
-
-
0027450385
-
Reverse transcription of R2Bm RNA is primed by a nick at the chromosomal target site: a mechanism for non-LTR retrotransposition
-
Luan, D.D., M.H. Korman, J.L. Jakubczak, et al. 1993. Reverse transcription of R2Bm RNA is primed by a nick at the chromosomal target site: a mechanism for non-LTR retrotransposition. Cell 72: 595–605.
-
(1993)
Cell
, vol.72
, pp. 595-605
-
-
Luan, D.D.1
Korman, M.H.2
Jakubczak, J.L.3
-
72
-
-
33645217818
-
The ORF1 protein encoded by LINE-1: structure and function during L1 retrotransposition
-
Martin, S.L. 2006. The ORF1 protein encoded by LINE-1: structure and function during L1 retrotransposition. J. Biomed. Biotechnol. 2006: 6.
-
(2006)
J. Biomed. Biotechnol
, vol.2006
, pp. 6
-
-
Martin, S.L.1
-
73
-
-
80051997952
-
Dynamic interactions between transposable elements and their hosts
-
Levin, H.L. & J.V. Moran. 2011. Dynamic interactions between transposable elements and their hosts. Nat. Rev. Genet. 12: 615–627.
-
(2011)
Nat. Rev. Genet
, vol.12
, pp. 615-627
-
-
Levin, H.L.1
Moran, J.V.2
-
74
-
-
0019838202
-
A chicken middle-repetitive DNA sequence which shares homology with mammalian ubiquitous repeats
-
Stumph, W.E., P. Kristo, M.-J. Tsai, et al. 1981. A chicken middle-repetitive DNA sequence which shares homology with mammalian ubiquitous repeats. Nucleic Acids Res. 9: 5383–5398.
-
(1981)
Nucleic Acids Res
, vol.9
, pp. 5383-5398
-
-
Stumph, W.E.1
Kristo, P.2
Tsai, M.-J.3
-
75
-
-
0021703473
-
Genomic structure and possible retroviral origin of the chicken CR1 repetitive DNA sequence family
-
Stumph, W.E., C.P. Hodgson, M.J. Tsai, et al. 1984. Genomic structure and possible retroviral origin of the chicken CR1 repetitive DNA sequence family. Proc. Natl. Acad. Sci. U.S.A. 81: 6667–6671.
-
(1984)
Proc. Natl. Acad. Sci. U.S.A
, vol.81
, pp. 6667-6671
-
-
Stumph, W.E.1
Hodgson, C.P.2
Tsai, M.J.3
-
76
-
-
0035207756
-
Evolutionary dynamics in a novel L2 clade of non-LTR retrotransposons in Deuterostomia
-
Lovšin, N., F. Gubenšek & D. Kordiš. 2001. Evolutionary dynamics in a novel L2 clade of non-LTR retrotransposons in Deuterostomia. Mol. Biol. Evol. 18: 2213–2224.
-
(2001)
Mol. Biol. Evol
, vol.18
, pp. 2213-2224
-
-
Lovšin, N.1
Gubenšek, F.2
Kordiš, D.3
-
77
-
-
0027987503
-
Evolution of chicken repeat 1 (CR1) elements: evidence for ancient subfamilies and multiple progenitors
-
Vandergon, T.L. & M. Reitman. 1994. Evolution of chicken repeat 1 (CR1) elements: evidence for ancient subfamilies and multiple progenitors. Mol. Biol. Evol. 11: 886–898.
-
(1994)
Mol. Biol. Evol
, vol.11
, pp. 886-898
-
-
Vandergon, T.L.1
Reitman, M.2
-
78
-
-
37549035420
-
Waves of genomic hitchhikers shed light on the evolution of gamebirds (Aves: Galliformes)
-
Kriegs, J.O., A. Matzke, G. Churakov, et al. 2007. Waves of genomic hitchhikers shed light on the evolution of gamebirds (Aves: Galliformes). BMC Evol. Biol. 7: 190.
-
(2007)
BMC Evol. Biol
, vol.7
, pp. 190
-
-
Kriegs, J.O.1
Matzke, A.2
Churakov, G.3
-
79
-
-
80052392767
-
Mesozoic retroposons reveal parrots as the closest living relatives of passerine birds
-
Suh, A., M. Paus, M. Kiefmann, et al. 2011. Mesozoic retroposons reveal parrots as the closest living relatives of passerine birds. Nat. Commun. 2: 443.
-
(2011)
Nat. Commun
, vol.2
, pp. 443
-
-
Suh, A.1
Paus, M.2
Kiefmann, M.3
-
80
-
-
84863634273
-
A universal method for the study of CR1 retroposons in nonmodel bird genomes
-
Suh, A., J.O. Kriegs, S. Donnellan, et al. 2012. A universal method for the study of CR1 retroposons in nonmodel bird genomes. Mol. Biol. Evol. 29: 2899–2903.
-
(2012)
Mol. Biol. Evol
, vol.29
, pp. 2899-2903
-
-
Suh, A.1
Kriegs, J.O.2
Donnellan, S.3
-
81
-
-
84861358284
-
Retroposon insertion patterns of neoavian birds: strong evidence for an extensive incomplete lineage sorting era
-
Matzke, A., G. Churakov, P. Berkes, et al. 2012. Retroposon insertion patterns of neoavian birds: strong evidence for an extensive incomplete lineage sorting era. Mol. Biol. Evol. 29: 1497–1501.
-
(2012)
Mol. Biol. Evol
, vol.29
, pp. 1497-1501
-
-
Matzke, A.1
Churakov, G.2
Berkes, P.3
-
82
-
-
33845901252
-
Insertion events of CR1 retrotransposable elements elucidate the phylogenetic branching order in galliform birds
-
Kaiser, V.B., M. van Tuinen & H. Ellegren. 2007. Insertion events of CR1 retrotransposable elements elucidate the phylogenetic branching order in galliform birds. Mol. Biol. Evol. 24: 338–347.
-
(2007)
Mol. Biol. Evol
, vol.24
, pp. 338-347
-
-
Kaiser, V.B.1
van Tuinen, M.2
Ellegren, H.3
-
83
-
-
19944432437
-
The repetitive landscape of the chicken genome
-
Wicker, T., J.S. Robertson, S.R. Schulze, et al. 2005. The repetitive landscape of the chicken genome. Genome Res. 15: 126–136.
-
(2005)
Genome Res
, vol.15
, pp. 126-136
-
-
Wicker, T.1
Robertson, J.S.2
Schulze, S.R.3
-
84
-
-
84964301332
-
Ancient horizontal transfers of retrotransposons between birds and ancestors of human pathogenic nematodes
-
Suh, A., C.C. Witt, J. Menger, et al. 2016. Ancient horizontal transfers of retrotransposons between birds and ancestors of human pathogenic nematodes. Nat. Commun. 7: 11396.
-
(2016)
Nat. Commun
, vol.7
, pp. 11396
-
-
Suh, A.1
Witt, C.C.2
Menger, J.3
-
85
-
-
0032168623
-
Unusual horizontal transfer of a long interspersed nuclear element between distant vertebrate classes
-
Kordiš, D. & F. Gubenšek. 1998. Unusual horizontal transfer of a long interspersed nuclear element between distant vertebrate classes. Proc. Natl. Acad. Sci. U.S.A. 95: 10704–10709.
-
(1998)
Proc. Natl. Acad. Sci. U.S.A
, vol.95
, pp. 10704-10709
-
-
Kordiš, D.1
Gubenšek, F.2
-
87
-
-
26444555977
-
Long-term inheritance of the 28S rDNA-specific retrotransposon R2
-
Kojima, K.K. & H. Fujiwara. 2005. Long-term inheritance of the 28S rDNA-specific retrotransposon R2. Mol. Biol. Evol. 22: 2157–2165.
-
(2005)
Mol. Biol. Evol
, vol.22
, pp. 2157-2165
-
-
Kojima, K.K.1
Fujiwara, H.2
-
88
-
-
84992096739
-
The wide distribution and change of target specificity of R2 non-LTR retrotransposons in animals
-
Kojima, K.K., Y. Seto & H. Fujiwara. 2016. The wide distribution and change of target specificity of R2 non-LTR retrotransposons in animals. PLoS One 11: e0163496.
-
(2016)
PLoS One
, vol.11
-
-
Kojima, K.K.1
Seto, Y.2
Fujiwara, H.3
-
89
-
-
0029927086
-
The 3′ ends of tRNA-derived short interspersed repetitive elements are derived from the 3′ ends of long interspersed repetitive elements
-
Ohshima, K., M. Hamada, Y. Terai, et al. 1996. The 3′ ends of tRNA-derived short interspersed repetitive elements are derived from the 3′ ends of long interspersed repetitive elements. Mol. Cell. Biol. 16: 3756–3764.
-
(1996)
Mol. Cell. Biol
, vol.16
, pp. 3756-3764
-
-
Ohshima, K.1
Hamada, M.2
Terai, Y.3
-
90
-
-
2042437650
-
Initial sequencing and analysis of the human genome
-
Lander, E.S., L.M. Linton, B. Birren, et al. 2001. Initial sequencing and analysis of the human genome. Nature 409: 860–921.
-
(2001)
Nature
, vol.409
, pp. 860-921
-
-
Lander, E.S.1
Linton, L.M.2
Birren, B.3
-
91
-
-
67349167101
-
Characterization and evolutionary landscape of AmnSINE1 in Amniota genomes
-
Hirakawa, M., H. Nishihara, M. Kanehisa, et al. 2009. Characterization and evolutionary landscape of AmnSINE1 in Amniota genomes. Gene 441: 100–110.
-
(2009)
Gene
, vol.441
, pp. 100-110
-
-
Hirakawa, M.1
Nishihara, H.2
Kanehisa, M.3
-
92
-
-
33646928347
-
A distal enhancer and an ultraconserved exon are derived from a novel retroposon
-
Bejerano, G., C.B. Lowe, N. Ahituv, et al. 2006. A distal enhancer and an ultraconserved exon are derived from a novel retroposon. Nature 441: 87–90.
-
(2006)
Nature
, vol.441
, pp. 87-90
-
-
Bejerano, G.1
Lowe, C.B.2
Ahituv, N.3
-
93
-
-
33745620751
-
Functional noncoding sequences derived from SINEs in the mammalian genome
-
Nishihara, H., A.F.A. Smit & N. Okada. 2006. Functional noncoding sequences derived from SINEs in the mammalian genome. Genome Res. 16: 864–874.
-
(2006)
Genome Res
, vol.16
, pp. 864-874
-
-
Nishihara, H.1
Smit, A.F.A.2
Okada, N.3
-
94
-
-
84917697073
-
Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs
-
Green, R.E., E.L. Braun, J. Armstrong, et al. 2014. Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs. Science 346: 1335.
-
(2014)
Science
, vol.346
, pp. 1335
-
-
Green, R.E.1
Braun, E.L.2
Armstrong, J.3
-
95
-
-
85013338350
-
De-novo emergence and template switching of SINE retroposons during the early evolution of passerine birds
-
2016
-
Suh, A., S. Bachg, S. Donnellan, et al. 2016. De-novo emergence and template switching of SINE retroposons during the early evolution of passerine birds. bioRxiv doi: 10.1101/081950.
-
bioRxiv
-
-
Suh, A.1
Bachg, S.2
Donnellan, S.3
-
97
-
-
0036061848
-
Genome size reduction through illegitimate recombination counteracts genome expansion in Arabidopsis
-
Devos, K.M., J.K.M. Brown & J.L. Bennetzen. 2002. Genome size reduction through illegitimate recombination counteracts genome expansion in Arabidopsis. Genome Res. 12: 1075–1079.
-
(2002)
Genome Res
, vol.12
, pp. 1075-1079
-
-
Devos, K.M.1
Brown, J.K.M.2
Bennetzen, J.L.3
-
98
-
-
33644828413
-
Functional human endogenous retroviral LTR transcription start sites are located between the R and U5 regions
-
Kovalskaya, E., A. Buzdin, E. Gogvadze, et al. 2006. Functional human endogenous retroviral LTR transcription start sites are located between the R and U5 regions. Virology 346: 373–378.
-
(2006)
Virology
, vol.346
, pp. 373-378
-
-
Kovalskaya, E.1
Buzdin, A.2
Gogvadze, E.3
-
99
-
-
84920982305
-
Pan-vertebrate comparative genomics unmasks retrovirus macroevolution
-
Hayward, A., C.K. Cornwallis & P. Jern. 2015. Pan-vertebrate comparative genomics unmasks retrovirus macroevolution. Proc. Natl. Acad. Sci. U.S.A. 112: 464–469.
-
(2015)
Proc. Natl. Acad. Sci. U.S.A
, vol.112
, pp. 464-469
-
-
Hayward, A.1
Cornwallis, C.K.2
Jern, P.3
-
100
-
-
84896717926
-
A novel recombinant retrovirus in the genomes of modern birds combines features of avian and mammalian retroviruses
-
Henzy, J.E., R.J. Gifford, W.E. Johnson, et al. 2014. A novel recombinant retrovirus in the genomes of modern birds combines features of avian and mammalian retroviruses. J. Virol. 88: 2398–2405.
-
(2014)
J. Virol
, vol.88
, pp. 2398-2405
-
-
Henzy, J.E.1
Gifford, R.J.2
Johnson, W.E.3
-
101
-
-
80052407723
-
Retroposon insertions and the chronology of avian sex chromosome evolution
-
Suh, A., J.O. Kriegs, J. Brosius, et al. 2011. Retroposon insertions and the chronology of avian sex chromosome evolution. Mol. Biol. Evol. 28: 2993–2997.
-
(2011)
Mol. Biol. Evol
, vol.28
, pp. 2993-2997
-
-
Suh, A.1
Kriegs, J.O.2
Brosius, J.3
-
102
-
-
84930665248
-
Evolutionary analysis of the female-specific avian W chromosome
-
Smeds, L., V. Warmuth, P. Bolivar, et al. 2015. Evolutionary analysis of the female-specific avian W chromosome. Nat. Commun. 6: 7330.
-
(2015)
Nat. Commun
, vol.6
, pp. 7330
-
-
Smeds, L.1
Warmuth, V.2
Bolivar, P.3
-
103
-
-
84994061010
-
Evolution of heterogeneous genome differentiation across multiple contact zones in a crow species complex
-
Vijay, N., C.M. Bossu, J.W. Poelstra, et al. 2016. Evolution of heterogeneous genome differentiation across multiple contact zones in a crow species complex. Nat. Commun. 7: 13195.
-
(2016)
Nat. Commun
, vol.7
, pp. 13195
-
-
Vijay, N.1
Bossu, C.M.2
Poelstra, J.W.3
-
104
-
-
37549029474
-
DNA transposons and the evolution of eukaryotic genomes
-
Feschotte, C. & E.J. Pritham. 2007. DNA transposons and the evolution of eukaryotic genomes. Annu. Rev. Genet. 41: 331–368.
-
(2007)
Annu. Rev. Genet
, vol.41
, pp. 331-368
-
-
Feschotte, C.1
Pritham, E.J.2
-
105
-
-
84877765036
-
The genome of a Mesozoic paleovirus reveals the evolution of hepatitis B viruses
-
Suh, A., J. Brosius, J. Schmitz, et al. 2013. The genome of a Mesozoic paleovirus reveals the evolution of hepatitis B viruses. Nat. Commun. 4: 1791.
-
(2013)
Nat. Commun
, vol.4
, pp. 1791
-
-
Suh, A.1
Brosius, J.2
Schmitz, J.3
-
106
-
-
84863735144
-
Endogenous hepadnaviruses in the genome of the budgerigar (Melopsittacus undulatus) and the evolution of avian hepadnaviruses
-
Cui, J. & E.C. Holmes. 2012. Endogenous hepadnaviruses in the genome of the budgerigar (Melopsittacus undulatus) and the evolution of avian hepadnaviruses. J. Virol. 86: 7688–7691.
-
(2012)
J. Virol
, vol.86
, pp. 7688-7691
-
-
Cui, J.1
Holmes, E.C.2
-
107
-
-
84866167988
-
The first full-length endogenous hepadnaviruses: identification and analysis
-
Liu, W., S. Pan, H. Yang, et al. 2012. The first full-length endogenous hepadnaviruses: identification and analysis. J. Virol. 86: 9510–9513.
-
(2012)
J. Virol
, vol.86
, pp. 9510-9513
-
-
Liu, W.1
Pan, S.2
Yang, H.3
-
108
-
-
77957921403
-
Genomic fossils calibrate the long-term evolution of hepadnaviruses
-
Gilbert, C. & C. Feschotte. 2010. Genomic fossils calibrate the long-term evolution of hepadnaviruses. PLoS Biol. 8: e1000495.
-
(2010)
PLoS Biol
, vol.8
-
-
Gilbert, C.1
Feschotte, C.2
-
109
-
-
0345653993
-
Host-independent evolution and a genetic classification of the hepadnavirus family based on nucleotide sequences
-
Orito, E., M. Mizokami, Y. Ina, et al. 1989. Host-independent evolution and a genetic classification of the hepadnavirus family based on nucleotide sequences. Proc. Natl. Acad. Sci. U.S.A. 86: 7059–7062.
-
(1989)
Proc. Natl. Acad. Sci. U.S.A
, vol.86
, pp. 7059-7062
-
-
Orito, E.1
Mizokami, M.2
Ina, Y.3
-
110
-
-
79961147580
-
Protein X of hepatitis B virus: origin and structure similarity with the central domain of DNA glycosylase
-
van Hemert, F.J., M.A.A. van de Klundert, V.V. Lukashov, et al. 2011. Protein X of hepatitis B virus: origin and structure similarity with the central domain of DNA glycosylase. PLoS One 6: e23392.
-
(2011)
PLoS One
, vol.6
-
-
van Hemert, F.J.1
van de Klundert, M.A.A.2
Lukashov, V.V.3
-
111
-
-
84968903135
-
Coming of age: ten years of next-generation sequencing technologies
-
Goodwin, S., J.D. McPherson & W.R. McCombie. 2016. Coming of age: ten years of next-generation sequencing technologies. Nat. Rev. Genet. 17: 333–351.
-
(2016)
Nat. Rev. Genet
, vol.17
, pp. 333-351
-
-
Goodwin, S.1
McPherson, J.D.2
McCombie, W.R.3
-
112
-
-
84944441319
-
Genetic variation and the de novo assembly of human genomes
-
Chaisson, M.J.P., R.K. Wilson & E.E. Eichler. 2015. Genetic variation and the de novo assembly of human genomes. Nat. Rev. Genet. 16: 627–640.
-
(2015)
Nat. Rev. Genet
, vol.16
, pp. 627-640
-
-
Chaisson, M.J.P.1
Wilson, R.K.2
Eichler, E.E.3
-
114
-
-
84987900198
-
S correlates positively with body mass in birds, raising implications for inferring lineage-specific selection
-
S correlates positively with body mass in birds, raising implications for inferring lineage-specific selection. Genome Biol. 15: 1–13.
-
(2014)
Genome Biol
, vol.15
, pp. 1-13
-
-
Weber, C.C.1
Nabholz, B.2
Romiguier, J.3
-
115
-
-
77956858478
-
A mobile threat to genome stability: the impact of non-LTR retrotransposons upon the human genome
-
Konkel, M.K. & M.A. Batzer. 2010. A mobile threat to genome stability: the impact of non-LTR retrotransposons upon the human genome. Semin. Cancer Biol. 20: 211–221.
-
(2010)
Semin. Cancer Biol
, vol.20
, pp. 211-221
-
-
Konkel, M.K.1
Batzer, M.A.2
-
116
-
-
24344509193
-
Genomic deletions and precise removal of transposable elements mediated by short identical DNA segments in primates
-
van de Lagemaat, L.N., L. Gagnier, P. Medstrand, et al. 2005. Genomic deletions and precise removal of transposable elements mediated by short identical DNA segments in primates. Genome Res. 15: 1243–1249.
-
(2005)
Genome Res
, vol.15
, pp. 1243-1249
-
-
de van Lagemaat, L.N.1
Gagnier, L.2
Medstrand, P.3
-
117
-
-
0001592488
-
The accordion model of Mhc evolution
-
In, J. Gergely, M. Benczúr, A. Erdei, Eds., Berlin, Heidelberg, Springer
-
Klein, J., H. Ono, D. Klein, et al. 1993. The accordion model of Mhc evolution. In Progress in Immunology. Vol. VIII. J. Gergely, M. Benczúr, A. Erdei, Eds.: 137–143. Berlin, Heidelberg: Springer.
-
(1993)
Progress in Immunology
, vol.8
, pp. 137-143
-
-
Klein, J.1
Ono, H.2
Klein, D.3
-
118
-
-
0345306751
-
The origins of genome complexity
-
Lynch, M. & J.S. Conery. 2003. The origins of genome complexity. Science 302: 1401–1404.
-
(2003)
Science
, vol.302
, pp. 1401-1404
-
-
Lynch, M.1
Conery, J.S.2
-
119
-
-
34547396004
-
The frailty of adaptive hypotheses for the origins of organismal complexity
-
Lynch, M. 2007. The frailty of adaptive hypotheses for the origins of organismal complexity. Proc. Natl. Acad. Sci. U.S.A. 104: 8597–8604.
-
(2007)
Proc. Natl. Acad. Sci. U.S.A
, vol.104
, pp. 8597-8604
-
-
Lynch, M.1
-
120
-
-
78650526705
-
Mutation rate is linked to diversification in birds
-
Lanfear, R., S.Y.W. Ho, D. Love, et al. 2010. Mutation rate is linked to diversification in birds. Proc. Natl. Acad. Sci. U.S.A. 107: 20423–20428.
-
(2010)
Proc. Natl. Acad. Sci. U.S.A
, vol.107
, pp. 20423-20428
-
-
Lanfear, R.1
Ho, S.Y.W.2
Love, D.3
-
121
-
-
84859898660
-
A beginner's guide to eukaryotic genome annotation
-
Yandell, M. & D. Ence. 2012. A beginner's guide to eukaryotic genome annotation. Nat. Rev. Genet. 13: 329–342.
-
(2012)
Nat. Rev. Genet
, vol.13
, pp. 329-342
-
-
Yandell, M.1
Ence, D.2
-
122
-
-
83655201133
-
Molecular cytogenetic and genomic insights into chromosomal evolution
-
Ruiz-Herrera, A., M. Farré & T.J. Robinson. 2012. Molecular cytogenetic and genomic insights into chromosomal evolution. Heredity 108: 28–36.
-
(2012)
Heredity
, vol.108
, pp. 28-36
-
-
Ruiz-Herrera, A.1
Farré, M.2
Robinson, T.J.3
-
123
-
-
0001866813
-
A miscellaneous collection of bird karyotypes
-
Belterman, R.H.R. & L.E.M. De Boer. 1990. A miscellaneous collection of bird karyotypes. Genetica 83: 17–29.
-
(1990)
Genetica
, vol.83
, pp. 17-29
-
-
Belterman, R.H.R.1
De Boer, L.E.M.2
-
124
-
-
34250140760
-
A karyological study of 55 species of birds, including karyotypes of 39 species new to cytology
-
Belterman, R.H.R. & L.E.M. De Boer. 1984. A karyological study of 55 species of birds, including karyotypes of 39 species new to cytology. Genetica 65: 39–82.
-
(1984)
Genetica
, vol.65
, pp. 39-82
-
-
Belterman, R.H.R.1
De Boer, L.E.M.2
-
125
-
-
1542668502
-
Studies on the karyotypes of birds XII. 15 species of nonpasserines (Aves)
-
Bian, X., H. Cai, S. Ning, et al. 1991. Studies on the karyotypes of birds XII. 15 species of nonpasserines (Aves). Zool. Res. 4: 016.
-
(1991)
Zool. Res
, vol.4
, pp. 016
-
-
Bian, X.1
Cai, H.2
Ning, S.3
-
126
-
-
84880128508
-
Chromosomal characterization of four Antarctic Procellariiformes
-
Garnero, A.D.V., M. Boccelli, J.C.P. Oliveira, et al. 2013. Chromosomal characterization of four Antarctic Procellariiformes. Mar. Ornithol. 41: 63–68.
-
(2013)
Mar. Ornithol
, vol.41
, pp. 63-68
-
-
Garnero, A.D.V.1
Boccelli, M.2
Oliveira, J.C.P.3
-
127
-
-
34248231212
-
The evolution of the avian genome as revealed by comparative molecular cytogenetics
-
Griffin, D.K., L.B.W. Robertson, H.G. Tempest, et al. 2007. The evolution of the avian genome as revealed by comparative molecular cytogenetics. Cytogenet. Genome Res. 117: 64–77.
-
(2007)
Cytogenet. Genome Res
, vol.117
, pp. 64-77
-
-
Griffin, D.K.1
Robertson, L.B.W.2
Tempest, H.G.3
-
128
-
-
84979856712
-
Reconstruction of gross avian genome structure, organization and evolution suggests that the chicken lineage most closely resembles the dinosaur avian ancestor
-
Romanov, M., M. Farre, P. Lithgow, et al. 2014. Reconstruction of gross avian genome structure, organization and evolution suggests that the chicken lineage most closely resembles the dinosaur avian ancestor. BMC Genomics 15: 1060.
-
(2014)
BMC Genomics
, vol.15
, pp. 1060
-
-
Romanov, M.1
Farre, M.2
Lithgow, P.3
-
129
-
-
84927912146
-
Rates of karyotypic evolution in Estrildid finches differ between island and continental clades
-
Hooper, D.M. & T.D. Price. 2015. Rates of karyotypic evolution in Estrildid finches differ between island and continental clades. Evolution 69: 890–903.
-
(2015)
Evolution
, vol.69
, pp. 890-903
-
-
Hooper, D.M.1
Price, T.D.2
-
130
-
-
84989336841
-
Fitness consequences of polymorphic inversions in the zebra finch genome
-
Knief, U., G. Hemmrich-Stanisak, M. Wittig, et al. 2016. Fitness consequences of polymorphic inversions in the zebra finch genome. Genome Biol. 17: 1–22.
-
(2016)
Genome Biol
, vol.17
, pp. 1-22
-
-
Knief, U.1
Hemmrich-Stanisak, G.2
Wittig, M.3
-
131
-
-
84999103148
-
Novel insights into chromosome evolution in birds, archosaurs, and reptiles
-
Farré, M., J. Narayan, G.T. Slavov, et al. 2016. Novel insights into chromosome evolution in birds, archosaurs, and reptiles. Genome Biol. Evol. 8: 2442–2451.
-
(2016)
Genome Biol. Evol
, vol.8
, pp. 2442-2451
-
-
Farré, M.1
Narayan, J.2
Slavov, G.T.3
-
132
-
-
83655201252
-
Intrachromosomal rearrangements in avian genome evolution: evidence for regions prone to breakpoints
-
Skinner, B.M. & D.K. Griffin. 2012. Intrachromosomal rearrangements in avian genome evolution: evidence for regions prone to breakpoints. Heredity 108: 37–41.
-
(2012)
Heredity
, vol.108
, pp. 37-41
-
-
Skinner, B.M.1
Griffin, D.K.2
-
133
-
-
62749186214
-
Avian comparative genomics: reciprocal chromosome painting between domestic chicken (Gallus gallus) and the stone curlew (Burhinus oedicnemus, Charadriiformes)—an atypical species with low diploid number
-
Nie, W., P.C.M. O'Brien, B.L. Ng, et al. 2009. Avian comparative genomics: reciprocal chromosome painting between domestic chicken (Gallus gallus) and the stone curlew (Burhinus oedicnemus, Charadriiformes)—an atypical species with low diploid number. Chromosome Res. 17: 99–113.
-
(2009)
Chromosome Res
, vol.17
, pp. 99-113
-
-
Nie, W.1
O'Brien, P.C.M.2
Ng, B.L.3
-
134
-
-
84942434139
-
Multidirectional chromosome painting substantiates the occurrence of extensive genomic reshuffling within Accipitriformes
-
Nie, W., P. O'Brien, B. Fu, et al. 2015. Multidirectional chromosome painting substantiates the occurrence of extensive genomic reshuffling within Accipitriformes. BMC Evol. Biol. 15: 205.
-
(2015)
BMC Evol. Biol
, vol.15
, pp. 205
-
-
Nie, W.1
O'Brien, P.2
Fu, B.3
-
135
-
-
39749124923
-
Characterization of chromosome structures of Falconinae (Falconidae, Falconiformes, Aves) by chromosome painting and delineation of chromosome rearrangements during their differentiation
-
Nishida, C., J. Ishijima, A. Kosaka, et al. 2008. Characterization of chromosome structures of Falconinae (Falconidae, Falconiformes, Aves) by chromosome painting and delineation of chromosome rearrangements during their differentiation. Chromosome Res. 16: 171–181.
-
(2008)
Chromosome Res
, vol.16
, pp. 171-181
-
-
Nishida, C.1
Ishijima, J.2
Kosaka, A.3
-
136
-
-
84939165698
-
Chromosomal diversity and karyotype evolution in South American macaws (Psittaciformes, Psittacidae)
-
de Oliveira Furo, I., R. Kretschmer, P.C. O'Brien, et al. 2015. Chromosomal diversity and karyotype evolution in South American macaws (Psittaciformes, Psittacidae). PLoS One 10: e0130157.
-
(2015)
PLoS One
, vol.10
-
-
de Oliveira Furo, I.1
Kretschmer, R.2
O'Brien, P.C.3
-
137
-
-
84888632073
-
Nothing in genetics makes sense except in light of genomic conflict
-
Rice, W.R. 2013. Nothing in genetics makes sense except in light of genomic conflict. Annu. Rev. Ecol. Evol. Syst. 44: 217–237.
-
(2013)
Annu. Rev. Ecol. Evol. Syst
, vol.44
, pp. 217-237
-
-
Rice, W.R.1
-
138
-
-
84968054140
-
Nothing in biology makes sense except in the light of evolution
-
Dobzhansky, T. 1973. Nothing in biology makes sense except in the light of evolution. Am. Biol. Teach. 35: 125–129.
-
(1973)
Am. Biol. Teach
, vol.35
, pp. 125-129
-
-
Dobzhansky, T.1
-
139
-
-
84941117508
-
VirHostNet 2.0: surfing on the web of virus/host molecular interactions data
-
Guirimand, T., S. Delmotte & V. Navratil. 2015. VirHostNet 2.0: surfing on the web of virus/host molecular interactions data. Nucleic Acids Res. 43: D583–D587.
-
(2015)
Nucleic Acids Res
, vol.43
, pp. D583-D587
-
-
Guirimand, T.1
Delmotte, S.2
Navratil, V.3
-
140
-
-
40349106161
-
The landscape of human proteins interacting with viruses and other pathogens
-
Dyer, M.D., T.M. Murali & B.W. Sobral. 2008. The landscape of human proteins interacting with viruses and other pathogens. PLoS Pathog. 4: e32.
-
(2008)
PLoS Pathog
, vol.4
-
-
Dyer, M.D.1
Murali, T.M.2
Sobral, B.W.3
-
141
-
-
84971645878
-
Viruses are a dominant driver of protein adaptation in mammals
-
Enard, D., L. Cai, C. Gwennap, et al. 2016. Viruses are a dominant driver of protein adaptation in mammals. Elife 5: e12469.
-
(2016)
Elife
, vol.5
-
-
Enard, D.1
Cai, L.2
Gwennap, C.3
-
142
-
-
84982112297
-
Restricting retrotransposons: a review
-
Goodier, J.L. 2016. Restricting retrotransposons: a review. Mob. DNA 7: 16.
-
(2016)
Mob. DNA
, vol.7
, pp. 16
-
-
Goodier, J.L.1
-
143
-
-
84964603345
-
DNA editing of LTR retrotransposons reveals the impact of APOBECs on vertebrate genomes
-
Knisbacher, B.A. & E.Y. Levanon. 2015. DNA editing of LTR retrotransposons reveals the impact of APOBECs on vertebrate genomes. Mol. Biol. Evol. 33: 554–567.
-
(2015)
Mol. Biol. Evol
, vol.33
, pp. 554-567
-
-
Knisbacher, B.A.1
Levanon, E.Y.2
-
144
-
-
43749098985
-
DNA methylation landscapes: provocative insights from epigenomics
-
Suzuki, M.M. & A. Bird. 2008. DNA methylation landscapes: provocative insights from epigenomics. Nat. Rev. Genet. 9: 465–476.
-
(2008)
Nat. Rev. Genet
, vol.9
, pp. 465-476
-
-
Suzuki, M.M.1
Bird, A.2
-
145
-
-
77952355762
-
Genome-wide evolutionary analysis of eukaryotic DNA methylation
-
Zemach, A., I.E. McDaniel, P. Silva, et al. 2010. Genome-wide evolutionary analysis of eukaryotic DNA methylation. Science 328: 916–919.
-
(2010)
Science
, vol.328
, pp. 916-919
-
-
Zemach, A.1
McDaniel, I.E.2
Silva, P.3
-
146
-
-
84858078622
-
Heritable genome-wide variation of gene expression and promoter methylation between wild and domesticated chickens
-
Nätt, D., C.-J. Rubin, D. Wright, et al. 2012. Heritable genome-wide variation of gene expression and promoter methylation between wild and domesticated chickens. BMC Genomics 13: 1–12.
-
(2012)
BMC Genomics
, vol.13
, pp. 1-12
-
-
Nätt, D.1
Rubin, C.-J.2
Wright, D.3
-
147
-
-
84924658469
-
Evolutionary consequences of DNA methylation on the GC content in vertebrate genomes
-
Mugal, C.F., P.F. Arndt, L. Holm, et al. 2015. Evolutionary consequences of DNA methylation on the GC content in vertebrate genomes. G3 5: 441–447.
-
(2015)
G3
, vol.5
, pp. 441-447
-
-
Mugal, C.F.1
Arndt, P.F.2
Holm, L.3
-
148
-
-
85007569618
-
Gene and transposable element methylation in great tit (Parus major) brain and blood
-
Derks, M.F.L., K.M. Schachtschneider, O. Madsen, et al. 2016. Gene and transposable element methylation in great tit (Parus major) brain and blood. BMC Genomics 17: 1–13.
-
(2016)
BMC Genomics
, vol.17
, pp. 1-13
-
-
Derks, M.F.L.1
Schachtschneider, K.M.2
Madsen, O.3
-
149
-
-
84990888281
-
AgIn: measuring the landscape of CpG methylation of individual repetitive elements
-
Suzuki, Y., J. Korlach, S.W. Turner, et al. 2015. AgIn: measuring the landscape of CpG methylation of individual repetitive elements. Bioinformatics 32: 2911–2919.
-
(2015)
Bioinformatics
, vol.32
, pp. 2911-2919
-
-
Suzuki, Y.1
Korlach, J.2
Turner, S.W.3
-
150
-
-
42349096534
-
Transposable elements and the evolution of regulatory networks
-
Feschotte, C. 2008. Transposable elements and the evolution of regulatory networks. Nat. Rev. Genet. 9: 397–405.
-
(2008)
Nat. Rev. Genet
, vol.9
, pp. 397-405
-
-
Feschotte, C.1
-
151
-
-
84938839824
-
Retrotransposition creates sloping shores: a graded influence of hypomethylated CpG islands on flanking CpG sites
-
Grandi, F.C., J.M. Rosser, S.J. Newkirk, et al. 2015. Retrotransposition creates sloping shores: a graded influence of hypomethylated CpG islands on flanking CpG sites. Genome Res. 25: 1135–1146.
-
(2015)
Genome Res
, vol.25
, pp. 1135-1146
-
-
Grandi, F.C.1
Rosser, J.M.2
Newkirk, S.J.3
-
152
-
-
84962820636
-
Divergence in gene expression within and between two closely related flycatcher species
-
Uebbing, S., A. Künstner, H. Mäkinen, et al. 2016. Divergence in gene expression within and between two closely related flycatcher species. Mol. Ecol. 25: 2015–2028.
-
(2016)
Mol. Ecol
, vol.25
, pp. 2015-2028
-
-
Uebbing, S.1
Künstner, A.2
Mäkinen, H.3
-
153
-
-
84948680438
-
Chromosomal rearrangements as barriers to genetic homogenization between archaic and modern humans
-
Rogers, R.L. 2015. Chromosomal rearrangements as barriers to genetic homogenization between archaic and modern humans. Mol. Biol. Evol. 32: 3064–3078.
-
(2015)
Mol. Biol. Evol
, vol.32
, pp. 3064-3078
-
-
Rogers, R.L.1
-
154
-
-
77950522488
-
Gene duplication and fragmentation in the zebra finch major histocompatibility complex
-
Balakrishnan, C.N., R. Ekblom, M. Völker, et al. 2010. Gene duplication and fragmentation in the zebra finch major histocompatibility complex. BMC Biol. 8: 1–19.
-
(2010)
BMC Biol
, vol.8
, pp. 1-19
-
-
Balakrishnan, C.N.1
Ekblom, R.2
Völker, M.3
-
155
-
-
84992189527
-
Early duplication of a single MHC IIB locus prior to the passerine radiations
-
Eimes, J.A., S.-I. Lee, A.K. Townsend, et al. 2016. Early duplication of a single MHC IIB locus prior to the passerine radiations. PLoS One 11: e0163456.
-
(2016)
PLoS One
, vol.11
-
-
Eimes, J.A.1
Lee, S.-I.2
Townsend, A.K.3
-
156
-
-
84941551807
-
Evolution of the avian β-defensin and cathelicidin genes
-
Cheng, Y., M.D. Prickett, W. Gutowska, et al. 2015. Evolution of the avian β-defensin and cathelicidin genes. BMC Evol. Biol. 15: 1–17.
-
(2015)
BMC Evol. Biol
, vol.15
, pp. 1-17
-
-
Cheng, Y.1
Prickett, M.D.2
Gutowska, W.3
-
157
-
-
84866398771
-
Variation at innate immunity Toll-like receptor genes in a bottlenecked population of a New Zealand robin
-
Grueber, C.E., G.P. Wallis, T.M. King, et al. 2012. Variation at innate immunity Toll-like receptor genes in a bottlenecked population of a New Zealand robin. PLoS One 7: e45011.
-
(2012)
PLoS One
, vol.7
-
-
Grueber, C.E.1
Wallis, G.P.2
King, T.M.3
-
158
-
-
68449102355
-
OVEX1, a novel chicken endogenous retrovirus with sex-specific and left–right asymmetrical expression in gonads
-
Carré-Eusèbe, D., N. Coudouel & S. Magre. 2009. OVEX1, a novel chicken endogenous retrovirus with sex-specific and left–right asymmetrical expression in gonads. Retrovirology 6: 1–24.
-
(2009)
Retrovirology
, vol.6
, pp. 1-24
-
-
Carré-Eusèbe, D.1
Coudouel, N.2
Magre, S.3
-
159
-
-
84922971647
-
An evolutionary arms race between KRAB zinc-finger genes ZNF91/93 and SVA/L1 retrotransposons
-
Jacobs, F.M.J., D. Greenberg, N. Nguyen, et al. 2014. An evolutionary arms race between KRAB zinc-finger genes ZNF91/93 and SVA/L1 retrotransposons. Nature 516: 242–245.
-
(2014)
Nature
, vol.516
, pp. 242-245
-
-
Jacobs, F.M.J.1
Greenberg, D.2
Nguyen, N.3
-
160
-
-
84963548310
-
Long-read sequence assembly of the gorilla genome
-
Gordon, D., J. Huddleston, M.J.P. Chaisson, et al. 2016. Long-read sequence assembly of the gorilla genome. Science 352: aae0344.
-
(2016)
Science
, vol.352
, pp. aae0344
-
-
Gordon, D.1
Huddleston, J.2
Chaisson, M.J.P.3
-
161
-
-
85007197691
-
Accurate transposable element annotation is vital when analyzing new genome assemblies
-
Platt II, R.N., L. Blanco-Berdugo & D.A. Ray. 2016. Accurate transposable element annotation is vital when analyzing new genome assemblies. Genome Biol. Evol. 8: 403–410.
-
(2016)
Genome Biol. Evol
, vol.8
, pp. 403-410
-
-
Platt, R.N.1
Blanco-Berdugo, L.2
Ray, D.A.3
-
163
-
-
84930641238
-
Repbase Update, a database of repetitive elements in eukaryotic genomes
-
&, Last accessed May 27, 2016
-
Bao, W., K. Kojima & O. Kohany. 2015. Repbase Update, a database of repetitive elements in eukaryotic genomes. Mob. DNA 6: 11. Last accessed May 27, 2016.
-
(2015)
Mob. DNA
, vol.6
, pp. 11
-
-
Bao, W.1
Kojima, K.2
Kohany, O.3
-
165
-
-
84976871290
-
The Dfam database of repetitive DNA families
-
Hubley, R., R.D. Finn, J. Clements, et al. 2016. The Dfam database of repetitive DNA families. Nucleic Acids Res. 44: D81–D89.
-
(2016)
Nucleic Acids Res
, vol.44
, pp. D81-D89
-
-
Hubley, R.1
Finn, R.D.2
Clements, J.3
-
166
-
-
84984612124
-
A new look at the LTR retrotransposon content of the chicken genome
-
Mason, A.S., J.E. Fulton, P.M. Hocking, et al. 2016. A new look at the LTR retrotransposon content of the chicken genome. BMC Genomics 17: 688.
-
(2016)
BMC Genomics
, vol.17
, pp. 688
-
-
Mason, A.S.1
Fulton, J.E.2
Hocking, P.M.3
-
167
-
-
28844444029
-
Combined evidence annotation of transposable elements in genome sequences
-
Quesneville, H., C.M. Bergman, O. Andrieu, et al. 2005. Combined evidence annotation of transposable elements in genome sequences. PLoS Comput. Biol. 1: e22.
-
(2005)
PLoS Comput. Biol
, vol.1
-
-
Quesneville, H.1
Bergman, C.M.2
Andrieu, O.3
-
168
-
-
84982263988
-
Deep landscape update of dispersed and tandem repeats in the genome model of the red jungle fowl, Gallus gallus, using a series of de novo investigating tools
-
Guizard, S., B. Piégu, P. Arensburger, et al. 2016. Deep landscape update of dispersed and tandem repeats in the genome model of the red jungle fowl, Gallus gallus, using a series of de novo investigating tools. BMC Genomics 17: 1–23.
-
(2016)
BMC Genomics
, vol.17
, pp. 1-23
-
-
Guizard, S.1
Piégu, B.2
Arensburger, P.3
-
169
-
-
40849139706
-
Biased distributions and decay of long interspersed nuclear elements in the chicken genome
-
Abrusán, G., H.-J. Krambeck, T. Junier, et al. 2008. Biased distributions and decay of long interspersed nuclear elements in the chicken genome. Genetics 178: 573–581.
-
(2008)
Genetics
, vol.178
, pp. 573-581
-
-
Abrusán, G.1
Krambeck, H.-J.2
Junier, T.3
-
170
-
-
84861182813
-
Genome evolution in filamentous plant pathogens: why bigger can be better
-
Raffaele, S. & S. Kamoun. 2012. Genome evolution in filamentous plant pathogens: why bigger can be better. Nat. Rev. Micro. 10: 417–430.
-
(2012)
Nat. Rev. Micro
, vol.10
, pp. 417-430
-
-
Raffaele, S.1
Kamoun, S.2
-
171
-
-
84982953280
-
Transposons passively and actively contribute to evolution of the two-speed genome of a fungal pathogen
-
Faino, L., M.F. Seidl, X. Shi-Kunne, et al. 2016. Transposons passively and actively contribute to evolution of the two-speed genome of a fungal pathogen. Genome Res. 26: 1091–1100.
-
(2016)
Genome Res
, vol.26
, pp. 1091-1100
-
-
Faino, L.1
Seidl, M.F.2
Shi-Kunne, X.3
-
172
-
-
11144358205
-
Molecular cytogenetic definition of the chicken genome: the first complete avian karyotype
-
Masabanda, J.S., D.W. Burt, P.C.M. O'Brien, et al. 2004. Molecular cytogenetic definition of the chicken genome: the first complete avian karyotype. Genetics 166: 1367–1373.
-
(2004)
Genetics
, vol.166
, pp. 1367-1373
-
-
Masabanda, J.S.1
Burt, D.W.2
O'Brien, P.C.M.3
-
173
-
-
84951931383
-
Dynamics of vertebrate sex chromosome evolution: from equal size to giants and dwarfs
-
Schartl, M., M. Schmid & I. Nanda. 2016. Dynamics of vertebrate sex chromosome evolution: from equal size to giants and dwarfs. Chromosoma 125: 553–571.
-
(2016)
Chromosoma
, vol.125
, pp. 553-571
-
-
Schartl, M.1
Schmid, M.2
Nanda, I.3
-
175
-
-
85013269849
-
A retroposon-based view on the temporal differentiation of sex chromosomes
-
Suh, A. 2012. A retroposon-based view on the temporal differentiation of sex chromosomes. Mob. Genet. Elements 2: 158–162.
-
(2012)
Mob. Genet. Elements
, vol.2
, pp. 158-162
-
-
Suh, A.1
-
176
-
-
77956913111
-
A W-linked palindrome and gene conversion in New World sparrows and blackbirds
-
Davis, J.K., P.J. Thomas & J.W. Thomas. 2010. A W-linked palindrome and gene conversion in New World sparrows and blackbirds. Chromosome Res. 18: 543–553.
-
(2010)
Chromosome Res
, vol.18
, pp. 543-553
-
-
Davis, J.K.1
Thomas, P.J.2
Thomas, J.W.3
-
178
-
-
77956285927
-
Chickens possess centromeres with both extended tandem repeats and short non-tandem-repetitive sequences
-
Shang, W.-H., T. Hori, A. Toyoda, et al. 2010. Chickens possess centromeres with both extended tandem repeats and short non-tandem-repetitive sequences. Genome Res. 20: 1219–1228.
-
(2010)
Genome Res
, vol.20
, pp. 1219-1228
-
-
Shang, W.-H.1
Hori, T.2
Toyoda, A.3
-
179
-
-
33646420077
-
A CR1 element is embedded in a novel tandem repeat (HinfI repeat) within the chicken genome
-
Li, J. & F.C. Leung. 2006. A CR1 element is embedded in a novel tandem repeat (HinfI repeat) within the chicken genome. Genome 49: 97–103.
-
(2006)
Genome
, vol.49
, pp. 97-103
-
-
Li, J.1
Leung, F.C.2
-
180
-
-
84947487137
-
Structural and functional liaisons between transposable elements and satellite DNAs
-
Meštrović, N., B. Mravinac, M. Pavlek, et al. 2015. Structural and functional liaisons between transposable elements and satellite DNAs. Chromosome Res. 23: 583–596.
-
(2015)
Chromosome Res
, vol.23
, pp. 583-596
-
-
Meštrović, N.1
Mravinac, B.2
Pavlek, M.3
-
181
-
-
84892486707
-
Marsupial centomeres and telomeres: dynamic chromosome domains
-
&, In, E.J. Deakin, D.P. Waters, &, A.J. Marshall Graves, Eds., Dordrecht, Springer
-
Carone, D.M. & R.J. O'Neill. 2010. Marsupial centomeres and telomeres: dynamic chromosome domains. In Marsupial Genetics and Genomics. E.J. Deakin, D.P. Waters & A.J. Marshall Graves, Eds.: 55–73. Dordrecht: Springer.
-
(2010)
Marsupial Genetics and Genomics
, pp. 55-73
-
-
Carone, D.M.1
O'Neill, R.J.2
-
182
-
-
0035839066
-
The centromere paradox: stable inheritance with rapidly evolving DNA
-
Henikoff, S., K. Ahmad & H.S. Malik. 2001. The centromere paradox: stable inheritance with rapidly evolving DNA. Science 293: 1098–1102.
-
(2001)
Science
, vol.293
, pp. 1098-1102
-
-
Henikoff, S.1
Ahmad, K.2
Malik, H.S.3
-
183
-
-
84962110359
-
The ecology and evolutionary dynamics of meiotic drive
-
Lindholm, A.K., K.A. Dyer, R.C. Firman, et al. 2016. The ecology and evolutionary dynamics of meiotic drive. Trends Ecol. Evol. 31: 315–326.
-
(2016)
Trends Ecol. Evol
, vol.31
, pp. 315-326
-
-
Lindholm, A.K.1
Dyer, K.A.2
Firman, R.C.3
-
184
-
-
84947492787
-
Completing the human genome: the progress and challenge of satellite DNA assembly
-
Miga, K.H. 2015. Completing the human genome: the progress and challenge of satellite DNA assembly. Chromosome Res. 23: 421–426.
-
(2015)
Chromosome Res
, vol.23
, pp. 421-426
-
-
Miga, K.H.1
-
185
-
-
84964854635
-
Chromosomal-level assembly of the Asian seabass genome using long sequence reads and multi-layered scaffolding
-
Vij, S., H. Kuhl, I.S. Kuznetsova, et al. 2016. Chromosomal-level assembly of the Asian seabass genome using long sequence reads and multi-layered scaffolding. PLoS Genet. 12: e1005954.
-
(2016)
PLoS Genet
, vol.12
-
-
Vij, S.1
Kuhl, H.2
Kuznetsova, I.S.3
-
186
-
-
85013346356
-
Single-molecule sequencing and conformational capture enable de novo mammalian reference genomes
-
Bickhart, D.M., B.D. Rosen, S. Koren, et al. 2016. Single-molecule sequencing and conformational capture enable de novo mammalian reference genomes. bioRxiv doi: 10.1101/064352.
-
(2016)
bioRxiv
-
-
Bickhart, D.M.1
Rosen, B.D.2
Koren, S.3
-
187
-
-
72649095357
-
Amniotes (Amniota)
-
&, In, S.B. Hedges, &, S. Kumar, Eds., New York, Oxford University Press
-
Shedlock, A.M. & S.V. Edwards. 2009. Amniotes (Amniota). In The Timetree of Life. S.B. Hedges & S. Kumar, Eds.: 375–379. New York: Oxford University Press.
-
(2009)
The Timetree of Life
, pp. 375-379
-
-
Shedlock, A.M.1
Edwards, S.V.2
-
188
-
-
0347275780
-
Nuclear DNA content and genome size of trout and human
-
Doležel, J., J. Bartoš, H. Voglmayr, et al. 2003. Nuclear DNA content and genome size of trout and human. Cytometry A 51: 127–128.
-
(2003)
Cytometry A
, vol.51
, pp. 127-128
-
-
Doležel, J.1
Bartoš, J.2
Voglmayr, H.3
-
189
-
-
84879020737
-
The western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage
-
Shaffer, H.B., P. Minx, D. Warren, et al. 2013. The western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage. Genome Biol. 14: R28.
-
(2013)
Genome Biol
, vol.14
, pp. R28
-
-
Shaffer, H.B.1
Minx, P.2
Warren, D.3
-
190
-
-
80053359585
-
The genome of the green anole lizard and a comparative analysis with birds and mammals
-
Alföldi, J., F. Di Palma, M. Grabherr, et al. 2011. The genome of the green anole lizard and a comparative analysis with birds and mammals. Nature 477: 587–591.
-
(2011)
Nature
, vol.477
, pp. 587-591
-
-
Alföldi, J.1
Di Palma, F.2
Grabherr, M.3
-
191
-
-
84889242806
-
RNA editing regulates transposon-mediated heterochromatic gene silencing
-
Savva, Y.A., J.E.C. Jepson, Y.-J. Chang, et al. 2013. RNA editing regulates transposon-mediated heterochromatic gene silencing. Nat. Commun. 4: 2745.
-
(2013)
Nat. Commun
, vol.4
, pp. 2745
-
-
Savva, Y.A.1
Jepson, J.E.C.2
Chang, Y.-J.3
-
192
-
-
84948424417
-
Histone chaperone CAF-1 mediates repressive histone modifications to protect preimplantation mouse embryos from endogenous retrotransposons
-
Hatanaka, Y., K. Inoue, M. Oikawa, et al. 2015. Histone chaperone CAF-1 mediates repressive histone modifications to protect preimplantation mouse embryos from endogenous retrotransposons. Proc. Natl. Acad. Sci. U.S.A. 112: 14641–14646.
-
(2015)
Proc. Natl. Acad. Sci. U.S.A
, vol.112
, pp. 14641-14646
-
-
Hatanaka, Y.1
Inoue, K.2
Oikawa, M.3
-
193
-
-
4544223707
-
Meiotic catastrophe and retrotransposon reactivation in male germ cells lacking Dnmt3L
-
Bourc'his, D. & T.H. Bestor. 2004. Meiotic catastrophe and retrotransposon reactivation in male germ cells lacking Dnmt3L. Nature 431: 96–99.
-
(2004)
Nature
, vol.431
, pp. 96-99
-
-
Bourc'his, D.1
Bestor, T.H.2
-
194
-
-
84946600989
-
HENMT1 and piRNA stability are required for adult male germ cell transposon repression and to define the spermatogenic program in the mouse
-
Lim, S.L., Z.P. Qu, R.D. Kortschak, et al. 2015. HENMT1 and piRNA stability are required for adult male germ cell transposon repression and to define the spermatogenic program in the mouse. PLoS Genet. 11: e1005620.
-
(2015)
PLoS Genet
, vol.11
-
-
Lim, S.L.1
Qu, Z.P.2
Kortschak, R.D.3
-
195
-
-
84971655186
-
Evolution-guided functional analyses reveal diverse antiviral specificities encoded by IFIT1 genes in mammals
-
Daugherty, M.D., A.M. Schaller, A.P. Geballe, et al. 2016. Evolution-guided functional analyses reveal diverse antiviral specificities encoded by IFIT1 genes in mammals. Elife 5: e14228.
-
(2016)
Elife
, vol.5
-
-
Daugherty, M.D.1
Schaller, A.M.2
Geballe, A.P.3
-
196
-
-
84923329893
-
MORC1 represses transposable elements in the mouse male germline
-
Pastor, W.A., H. Stroud, K. Nee, et al. 2014. MORC1 represses transposable elements in the mouse male germline. Nat. Commun. 5: 6795.
-
(2014)
Nat. Commun
, vol.5
, pp. 6795
-
-
Pastor, W.A.1
Stroud, H.2
Nee, K.3
-
197
-
-
84868099592
-
MOV10 RNA helicase is a potent inhibitor of retrotransposition in cells
-
Goodier, J.L., L.E. Cheung & H.H. Kazazian, Jr. 2012. MOV10 RNA helicase is a potent inhibitor of retrotransposition in cells. PLoS Genet. 8: e1002941.
-
(2012)
PLoS Genet
, vol.8
-
-
Goodier, J.L.1
Cheung, L.E.2
Kazazian, H.H.3
-
198
-
-
84944457356
-
Panoramix enforces piRNA-dependent cotranscriptional silencing
-
Yu, Y., J. Gu, Y. Jin, et al. 2015. Panoramix enforces piRNA-dependent cotranscriptional silencing. Science 350: 339–342.
-
(2015)
Science
, vol.350
, pp. 339-342
-
-
Yu, Y.1
Gu, J.2
Jin, Y.3
-
199
-
-
84929380410
-
piRNA-guided transposon cleavage initiates Zucchini-dependent, phased piRNA production
-
Han, B.W., W. Wang, C. Li, et al. 2015. piRNA-guided transposon cleavage initiates Zucchini-dependent, phased piRNA production. Science 348: 817–821.
-
(2015)
Science
, vol.348
, pp. 817-821
-
-
Han, B.W.1
Wang, W.2
Li, C.3
-
200
-
-
84940885469
-
Slicing and binding by Ago3 or Aub trigger Piwi-bound piRNA production by distinct mechanisms
-
Wang, W., Bo W. Han, C. Tipping, et al. 2015. Slicing and binding by Ago3 or Aub trigger Piwi-bound piRNA production by distinct mechanisms. Mol. Cell 59: 819–830.
-
(2015)
Mol. Cell
, vol.59
, pp. 819-830
-
-
Wang, W.1
Han, B.W.2
Tipping, C.3
-
201
-
-
84884590112
-
Modulation of LINE-1 and Alu/SVA retrotransposition by Aicardi–Goutières syndrome-related SAMHD1
-
Zhao, K., J. Du, X. Han, et al. 2013. Modulation of LINE-1 and Alu/SVA retrotransposition by Aicardi–Goutières syndrome-related SAMHD1. Cell Rep. 4: 1108–1115.
-
(2013)
Cell Rep
, vol.4
, pp. 1108-1115
-
-
Zhao, K.1
Du, J.2
Han, X.3
-
202
-
-
84968779632
-
Retrotransposon derepression leads to activation of the unfolded protein response and apoptosis in pro-B cells
-
Pasquarella, A., A. Ebert, G.P. de Almeida, et al. 2016. Retrotransposon derepression leads to activation of the unfolded protein response and apoptosis in pro-B cells. Development 143: 1788–1799.
-
(2016)
Development
, vol.143
, pp. 1788-1799
-
-
Pasquarella, A.1
Ebert, A.2
de Almeida, G.P.3
-
203
-
-
84945472619
-
Systematic identification of factors for provirus silencing in embryonic stem cells
-
Yang, B.X., C.A. El Farran, H.C. Guo, et al. 2015. Systematic identification of factors for provirus silencing in embryonic stem cells. Cell 163: 230–245.
-
(2015)
Cell
, vol.163
, pp. 230-245
-
-
Yang, B.X.1
El Farran, C.A.2
Guo, H.C.3
-
204
-
-
84953337239
-
Trim33 binds and silences a class of young endogenous retroviruses in the mouse testis; a novel component of the arms race between retrotransposons and the host genome
-
Isbel, L., R. Srivastava, H. Oey, et al. 2015. Trim33 binds and silences a class of young endogenous retroviruses in the mouse testis; a novel component of the arms race between retrotransposons and the host genome. PLoS Genet. 11: e1005693.
-
(2015)
PLoS Genet
, vol.11
-
-
Isbel, L.1
Srivastava, R.2
Oey, H.3
-
205
-
-
84930817295
-
The zinc-finger antiviral protein ZAP inhibits LINE and Alu retrotransposition
-
Moldovan, J.B. & J.V. Moran. 2015. The zinc-finger antiviral protein ZAP inhibits LINE and Alu retrotransposition. PLoS Genet. 11: e1005121.
-
(2015)
PLoS Genet
, vol.11
-
-
Moldovan, J.B.1
Moran, J.V.2
-
206
-
-
85008472795
-
A new chicken genome assembly provides insight into avian genome structure
-
Warren, W.C., L.W. Hillier, C. Tomlinson, et al. 2016. A new chicken genome assembly provides insight into avian genome structure. G3. doi: 10.1534/g3.116.035923.
-
(2016)
G3
-
-
Warren, W.C.1
Hillier, L.W.2
Tomlinson, C.3
|