-
1
-
-
84894565411
-
-
Futuyma D, Evolution. Third Edit. Sinauer Associates, Inc. 2013; p. 656.
-
(2013)
Evolution
, pp. 656
-
-
Futuyma, D.1
-
2
-
-
0016110338
-
Three flies and three islands: parallel evolution in Drosophila
-
Carson HL, Three flies and three islands: parallel evolution in Drosophila. Proc Natl Acad Sci U S A. 1974;71: 3517–3521. 4530320
-
(1974)
Proc Natl Acad Sci U S A
, vol.71
, pp. 3517-3521
-
-
Carson, H.L.1
-
3
-
-
0021607982
-
Parallel geographical patterns of allozyme variation in two sibling Drosophila species
-
Anderson PR, Oakeshott JG, Parallel geographical patterns of allozyme variation in two sibling Drosophila species. Nature. 1984;308: 729–731
-
(1984)
Nature
, vol.308
, pp. 729-731
-
-
Anderson, P.R.1
Oakeshott, J.G.2
-
4
-
-
0038517876
-
Regulatory evolution of shavenbaby/ovo underlies multiple cases of morphological parallelism
-
Sucena E, Delon I, Jones I, Payre F, Stern DL, Regulatory evolution of shavenbaby/ovo underlies multiple cases of morphological parallelism. Nature. 2003;424: 935–938. 12931187
-
(2003)
Nature
, vol.424
, pp. 935-938
-
-
Sucena, E.1
Delon, I.2
Jones, I.3
Payre, F.4
Stern, D.L.5
-
5
-
-
16344387924
-
Parallel genotypic adaptation: When evolution repeats itself
-
Wood TE, Burke JM, Rieseberg LH, Parallel genotypic adaptation: When evolution repeats itself. Genetica. 2005;123: 157–170. 15881688
-
(2005)
Genetica
, vol.123
, pp. 157-170
-
-
Wood, T.E.1
Burke, J.M.2
Rieseberg, L.H.3
-
6
-
-
34548694067
-
Adaptive variation in beach mice produced by two interacting pigmentation genes
-
Steiner CC, Weber JN, Hoekstra HE, Adaptive variation in beach mice produced by two interacting pigmentation genes. PLoS Biol. 2007;5: 1880–1889.
-
(2007)
PLoS Biol
, vol.5
, pp. 1880-1889
-
-
Steiner, C.C.1
Weber, J.N.2
Hoekstra, H.E.3
-
7
-
-
69549110251
-
On the origin and spread of an adaptive allele in deer mice
-
Linnen CR, Kingsley EP, Jensen JD, Hoekstra HE, On the origin and spread of an adaptive allele in deer mice. Science. 2009;325: 1095–8. doi: 10.1126/science.1175826 19713521
-
(2009)
Science
, vol.325
, pp. 1095-1098
-
-
Linnen, C.R.1
Kingsley, E.P.2
Jensen, J.D.3
Hoekstra, H.E.4
-
8
-
-
76649130556
-
Molecular and functional basis of phenotypic convergence in white lizards at White Sands
-
Rosenblum EB, Römpler H, Schöneberg T, Hoekstra HE, Molecular and functional basis of phenotypic convergence in white lizards at White Sands. Proc Natl Acad Sci U S A. 2010;107: 2113–2117. doi: 10.1073/pnas.0911042107 20080544
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 2113-2117
-
-
Rosenblum, E.B.1
Römpler, H.2
Schöneberg, T.3
Hoekstra, H.E.4
-
9
-
-
0029858124
-
Parallel rise and fall of melanic peppered moths in America and Britain
-
Grant BS, Owen DF, Clarke CA, Parallel rise and fall of melanic peppered moths in America and Britain. J Hered. 1996;87: 351–357.
-
(1996)
J Hered
, vol.87
, pp. 351-357
-
-
Grant, B.S.1
Owen, D.F.2
Clarke, C.A.3
-
10
-
-
73349101520
-
Regressive evolution in Astyanax cavefish
-
Jeffery WR, Regressive evolution in Astyanax cavefish. Annu Rev Genet. 2009;43: 25–47. doi: 10.1146/annurev-genet-102108-134216 19640230
-
(2009)
Annu Rev Genet
, vol.43
, pp. 25-47
-
-
Jeffery, W.R.1
-
11
-
-
0023998356
-
Genetic variation of Drosophila melanogaster natural populations
-
David J, Capy P, Genetic variation of Drosophila melanogaster natural populations. Trends Genet. 1988;4:106–111. 3149056
-
(1988)
Trends Genet
, vol.4
, pp. 106-111
-
-
David, J.1
Capy, P.2
-
12
-
-
0027040730
-
Geographic variation in Drosophila: From molecules to morphology and back
-
Singh RS, Long AD, Geographic variation in Drosophila: From molecules to morphology and back. Trends Ecol Evol. 1992;7: 340–345. doi: 10.1016/0169-5347(92)90127-W 21236059
-
(1992)
Trends Ecol Evol
, vol.7
, pp. 340-345
-
-
Singh, R.S.1
Long, A.D.2
-
13
-
-
15944388815
-
Relative importance of plastic vs genetic factors in adaptive differentiation: Geographical variation for stress resistance in Drosophila melanogaster from eastern Australia
-
Hoffmann AA, Shirriffs J, Scott M, Relative importance of plastic vs genetic factors in adaptive differentiation: Geographical variation for stress resistance in Drosophila melanogaster from eastern Australia. Funct Ecol. 2005;19: 222–227.
-
(2005)
Funct Ecol
, vol.19
, pp. 222-227
-
-
Hoffmann, A.A.1
Shirriffs, J.2
Scott, M.3
-
14
-
-
84867096797
-
Genome-wide patterns of latitudinal differentiation among populations of Drosophila melanogaster from North America
-
Fabian DK, Kapun M, Nolte V, Kofler R, Schmidt PS, Schlötterer C, et al. Genome-wide patterns of latitudinal differentiation among populations of Drosophila melanogaster from North America. Mol Ecol. 2012;21: 4748–4769. doi: 10.1111/j.1365-294X.2012.05731.x 22913798
-
(2012)
Mol Ecol
, vol.21
, pp. 4748-4769
-
-
Fabian, D.K.1
Kapun, M.2
Nolte, V.3
Kofler, R.4
Schmidt, P.S.5
Schlötterer, C.6
-
15
-
-
84901347145
-
-
Reinhardt JA, Kolaczkowski B, Jones CD, Begun DJ, Kern AD, Parallel geographic variation in Drosophila melanogaster. 2014;197: 361–373. doi: 10.1534/genetics.114.161463 24610860
-
(2014)
Parallel geographic variation in Drosophila melanogaster
, vol.197
, pp. 361-373
-
-
Reinhardt, J.A.1
Kolaczkowski, B.2
Jones, C.D.3
Begun, D.J.4
Kern, A.D.5
-
16
-
-
33846610647
-
Drosophila melanogaster’s history as a human commensal
-
Keller A, Drosophila melanogaster’s history as a human commensal. Curr Biol. 2007; 17: R77–81. 17276902
-
(2007)
Curr Biol
, vol.17
, pp. 77-81
-
-
Keller, A.1
-
17
-
-
33846589670
-
The recent demographic and adaptive history of Drosophila melanogaster
-
Stephan W, Li H, The recent demographic and adaptive history of Drosophila melanogaster. Heredity. 2007;98: 65–68. 17006533
-
(2007)
Heredity
, vol.98
, pp. 65-68
-
-
Stephan, W.1
Li, H.2
-
18
-
-
84871785145
-
Demographic inference reveals African and European admixture in the North American Drosophila melanogaster population
-
Duchen P, Zivkovic D, Hutter S, Stephan W, Laurent S, Demographic inference reveals African and European admixture in the North American Drosophila melanogaster population. Genetics. 2013;193: 291–301. doi: 10.1534/genetics.112.145912 23150605
-
(2013)
Genetics
, vol.193
, pp. 291-301
-
-
Duchen, P.1
Zivkovic, D.2
Hutter, S.3
Stephan, W.4
Laurent, S.5
-
19
-
-
3843103748
-
Linking phylogenetics with population genetics to reconstruct the geographic origin of a species
-
Dean MD, Ballard JWO, Linking phylogenetics with population genetics to reconstruct the geographic origin of a species. Mol Phylogenet Evol. 2004;32: 998–1009. 15288072
-
(2004)
Mol Phylogenet Evol
, vol.32
, pp. 998-1009
-
-
Dean, M.D.1
Ballard, J.W.O.2
-
20
-
-
0024058618
-
The rosy region of Drosophila melanogaster and Drosophila simulans. I. Contrasting levels of naturally occurring DNA restriction map variation and divergence
-
Aquadro CF, Lado KM, Noon WA, The rosy region of Drosophila melanogaster and Drosophila simulans. I. Contrasting levels of naturally occurring DNA restriction map variation and divergence. Genetics. 1988;119: 875–88. 2900794
-
(1988)
Genetics
, vol.119
, pp. 875-888
-
-
Aquadro, C.F.1
Lado, K.M.2
Noon, W.A.3
-
21
-
-
34250748633
-
Evidence for de novo evolution of testis-expressed genes in the Drosophila yakuba/Drosophila erecta clade
-
Begun DJ, Lindfors HA, Kern AD, Jones CD, Evidence for de novo evolution of testis-expressed genes in the Drosophila yakuba/Drosophila erecta clade. Genetics. 2007;176: 1131–1137. 17435230
-
(2007)
Genetics
, vol.176
, pp. 1131-1137
-
-
Begun, D.J.1
Lindfors, H.A.2
Kern, A.D.3
Jones, C.D.4
-
22
-
-
0020327857
-
Chromosome inversion polymorphisms in Drosophila melanogaster II. Geographic clines and climatic associations in Australasia, North America and Asia
-
Knibb WR, Chromosome inversion polymorphisms in Drosophila melanogaster II. Geographic clines and climatic associations in Australasia, North America and Asia. Genetica. 1982;58: 213–221.
-
(1982)
Genetica
, vol.58
, pp. 213-221
-
-
Knibb, W.R.1
-
23
-
-
52049084856
-
Genomic analysis of adaptive differentiation in Drosophila melanogaster
-
Turner TL, Levine MT, Eckert ML, Begun DJ, Genomic analysis of adaptive differentiation in Drosophila melanogaster. Genetics. 2008;179: 455–473. doi: 10.1534/genetics.107.083659 18493064
-
(2008)
Genetics
, vol.179
, pp. 455-473
-
-
Turner, T.L.1
Levine, M.T.2
Eckert, M.L.3
Begun, D.J.4
-
24
-
-
0016850594
-
Relationships within the melanogaster species subgroup of the genus Drosophila (Sophophora). I. Inversion polymorphisms in Drosophila melanogaster and Drosophila simulans
-
Ashburner M, Lemeunier F, Relationships within the melanogaster species subgroup of the genus Drosophila (Sophophora). I. Inversion polymorphisms in Drosophila melanogaster and Drosophila simulans. Proc R Soc B Biol Sci. 1976;193: 137–157. 5729
-
(1976)
Proc R Soc B Biol Sci
, vol.193
, pp. 137-157
-
-
Ashburner, M.1
Lemeunier, F.2
-
25
-
-
0023283959
-
Contrasting patterns of geographic variation in the cosmopolitan sibling species Drosophila melanogaster and Drosophila simulans
-
Singh RS, Choudhary M, David JR, Contrasting patterns of geographic variation in the cosmopolitan sibling species Drosophila melanogaster and Drosophila simulans. Biochem Genet. 1987;25: 27–40. 3107542
-
(1987)
Biochem Genet
, vol.25
, pp. 27-40
-
-
Singh, R.S.1
Choudhary, M.2
David, J.R.3
-
26
-
-
0024788776
-
Population genetics and evolution of species related to Drosophila melanogaster
-
Singh RS, Population genetics and evolution of species related to Drosophila melanogaster. Annu Rev Genet. 1989;23: 425–53. 2515792
-
(1989)
Annu Rev Genet
, vol.23
, pp. 425-453
-
-
Singh, R.S.1
-
27
-
-
54049103315
-
Investigating latitudinal clines for life history and stress resistance traits in Drosophila simulans from eastern Australia
-
Arthur AL, Weeks AR, Sgrò CM, Investigating latitudinal clines for life history and stress resistance traits in Drosophila simulans from eastern Australia. J Evol Biol. 2008;21: 1470–1479. doi: 10.1111/j.1420-9101.2008.01617.x 18811666
-
(2008)
J Evol Biol
, vol.21
, pp. 1470-1479
-
-
Arthur, A.L.1
Weeks, A.R.2
Sgrò, C.M.3
-
28
-
-
0034977946
-
Chill-coma tolerance, a major climatic adaptation among Drosophila species
-
Gibert P, Moreteau B, Pétavy G, Karan D, David JR, Chill-coma tolerance, a major climatic adaptation among Drosophila species. Evolution. 2001;55: 1063–1068. 11430643
-
(2001)
Evolution
, vol.55
, pp. 1063-1068
-
-
Gibert, P.1
Moreteau, B.2
Pétavy, G.3
Karan, D.4
David, J.R.5
-
29
-
-
0028426870
-
Variation in wing length in Eurasian natural populations of Drosophila melanogaster
-
Imasheva AG, Bubli OA, Lazebny OE, Variation in wing length in Eurasian natural populations of Drosophila melanogaster. Heredity. 1994;72: 508–514. 8014061
-
(1994)
Heredity
, vol.72
, pp. 508-514
-
-
Imasheva, A.G.1
Bubli, O.A.2
Lazebny, O.E.3
-
30
-
-
0029053854
-
Cellular basis and developmental timing in a size cline of Drosophila melanogaster
-
James AC, Azevedo RB, Partridge L, Cellular basis and developmental timing in a size cline of Drosophila melanogaster. Genetics. 1995;140: 659–666. 7498744
-
(1995)
Genetics
, vol.140
, pp. 659-666
-
-
James, A.C.1
Azevedo, R.B.2
Partridge, L.3
-
31
-
-
2442739337
-
Latitudinal variation in wild populations of Drosophila melanogaster: heritabilities and reaction norms
-
van’t Land J, van Putten P, Zwaan B, Kamping A, van Delden W, Latitudinal variation in wild populations of Drosophila melanogaster: heritabilities and reaction norms. J Evol Biol. 1999;12: 222–232.
-
(1999)
J Evol Biol
, vol.12
, pp. 222-232
-
-
van’t Land, J.1
van Putten, P.2
Zwaan, B.3
Kamping, A.4
van Delden, W.5
-
32
-
-
0345094915
-
QTL mapping reveals a striking coincidence in the positions of genomic regions associated with adaptive variation in body size in parallel clines of Drosophila melanogaster on different continents
-
Calboli FCF, Kennington WJ, Partridge L, QTL mapping reveals a striking coincidence in the positions of genomic regions associated with adaptive variation in body size in parallel clines of Drosophila melanogaster on different continents. Evolution. 2003;57: 2653. 14686541
-
(2003)
Evolution
, vol.57
, pp. 2653
-
-
Calboli, F.C.F.1
Kennington, W.J.2
Partridge, L.3
-
33
-
-
61449172037
-
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
-
Huang DW, Sherman BT, Lempicki RA, Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc. 2009;4: 44–57. doi: 10.1038/nprot.2008.211 19131956
-
(2009)
Nat Protoc
, vol.4
, pp. 44-57
-
-
Huang, D.W.1
Sherman, B.T.2
Lempicki, R.A.3
-
34
-
-
12344269924
-
GO::TermFinder—open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes
-
Boyle EI, Weng S, Gollub J, Jin H, Botstein D, GO::TermFinder—open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes. Bioinformatics. 2004;20: 3710–5. 15297299
-
(2004)
Bioinformatics
, vol.20
, pp. 3710-3715
-
-
Boyle, E.I.1
Weng, S.2
Gollub, J.3
Jin, H.4
Botstein, D.5
-
35
-
-
67349156693
-
Selection for cold resistance alters gene transcript levels in Drosophila melanogaster
-
Telonis-Scott M, Hallas R, McKechnie SW, Wee CW, Hoffmann AA, Selection for cold resistance alters gene transcript levels in Drosophila melanogaster. J Insect Physiol. 2009;55: 549–555. doi: 10.1016/j.jinsphys.2009.01.010 19232407
-
(2009)
J Insect Physiol
, vol.55
, pp. 549-555
-
-
Telonis-Scott, M.1
Hallas, R.2
McKechnie, S.W.3
Wee, C.W.4
Hoffmann, A.A.5
-
36
-
-
46249106059
-
Gene expression variation in African and European populations of Drosophila melanogaster
-
Hutter S, Saminadin-Peter SS, Stephan W, Parsch J, Gene expression variation in African and European populations of Drosophila melanogaster. Genome Biol. 2008;9: R12. doi: 10.1186/gb-2008-9-1-r12 18208589
-
(2008)
Genome Biol
, vol.9
, pp. R12
-
-
Hutter, S.1
Saminadin-Peter, S.S.2
Stephan, W.3
Parsch, J.4
-
37
-
-
84964315963
-
Population- and Sex-Biased Gene Expression in the excretion organs of Drosophila melanogaster
-
Huylmans AK, Parsch J, Population- and Sex-Biased Gene Expression in the excretion organs of Drosophila melanogaster. G3 (Bethesda). 2014;4:2307–15. doi: 10.1534/g3.114.013417 25246242
-
(2014)
G3 (Bethesda)
, vol.4
, pp. 2307-2315
-
-
Huylmans, A.K.1
Parsch, J.2
-
38
-
-
33644875032
-
The TRP superfamily of cation channels
-
Montell C, The TRP superfamily of cation channels. Sci STKE. 2005;2005: re3. 15728426
-
(2005)
Sci STKE
, vol.2005
, pp. re3
-
-
Montell, C.1
-
39
-
-
84859718531
-
Genome-wide transcription analysis of clinal genetic variation in Drosophila
-
Chen Y, Lee SF, Blanc E, Reuter C, Wertheim B, Martinez-Diaz P, et al. Genome-wide transcription analysis of clinal genetic variation in Drosophila. PLoS One. 2012;7: e34620. doi: 10.1371/journal.pone.0034620 22514645
-
(2012)
PLoS One
, vol.7
, pp. e34620
-
-
Chen, Y.1
Lee, S.F.2
Blanc, E.3
Reuter, C.4
Wertheim, B.5
Martinez-Diaz, P.6
-
40
-
-
20144376345
-
Genome-wide midrange transcription profiles reveal expression level relationships in human tissue specification
-
Yanai I, Benjamin H, Shmoish M, Chalifa-Caspi V, Shklar M, Ophir R, et al. Genome-wide midrange transcription profiles reveal expression level relationships in human tissue specification. Bioinformatics. 2005;21: 650–659. 15388519
-
(2005)
Bioinformatics
, vol.21
, pp. 650-659
-
-
Yanai, I.1
Benjamin, H.2
Shmoish, M.3
Chalifa-Caspi, V.4
Shklar, M.5
Ophir, R.6
-
41
-
-
84893906285
-
Origin and spread of de novo genes in Drosophila melanogaster populations
-
Zhao L, Saelao P, Jones CD, Begun DJ, Origin and spread of de novo genes in Drosophila melanogaster populations. Science. 2014;343: 769–772. doi: 10.1126/science.1248286 24457212
-
(2014)
Science
, vol.343
, pp. 769-772
-
-
Zhao, L.1
Saelao, P.2
Jones, C.D.3
Begun, D.J.4
-
42
-
-
34249804498
-
Using FlyAtlas to identify better Drosophila melanogaster models of human disease
-
Chintapalli VR, Wang J, Dow JA, Using FlyAtlas to identify better Drosophila melanogaster models of human disease. Nat Genet. 2007;39: 715–720. 17534367
-
(2007)
Nat Genet
, vol.39
, pp. 715-720
-
-
Chintapalli, V.R.1
Wang, J.2
Dow, J.A.3
-
43
-
-
4844222675
-
A survey of ovary-, testis-, and soma-biased gene expression in Drosophila melanogaster adults
-
Parisi M, Nuttall R, Edwards P, Minor J, Naiman D, Lü J, et al. A survey of ovary-, testis-, and soma-biased gene expression in Drosophila melanogaster adults. Genome Biol. 2004;5: R40. 15186491
-
(2004)
Genome Biol
, vol.5
, pp. R40
-
-
Parisi, M.1
Nuttall, R.2
Edwards, P.3
Minor, J.4
Naiman, D.5
Lü, J.6
-
44
-
-
79953043801
-
The developmental transcriptome of Drosophila melanogaster
-
Graveley BR, Brooks AN, Carlson JW, Duff MO, Landolin JM, Yang L, et al. The developmental transcriptome of Drosophila melanogaster. Nature. 2011;471: 473–479. doi: 10.1038/nature09715 21179090
-
(2011)
Nature
, vol.471
, pp. 473-479
-
-
Graveley, B.R.1
Brooks, A.N.2
Carlson, J.W.3
Duff, M.O.4
Landolin, J.M.5
Yang, L.6
-
45
-
-
0042692890
-
Rapid evolution of male-biased gene expression in Drosophila
-
Meiklejohn CD, Parsch J, Ranz JM, Hartl DL, Rapid evolution of male-biased gene expression in Drosophila. Proc Natl Acad Sci U S A. 2003;100: 9894–9899. 12907700
-
(2003)
Proc Natl Acad Sci U S A
, vol.100
, pp. 9894-9899
-
-
Meiklejohn, C.D.1
Parsch, J.2
Ranz, J.M.3
Hartl, D.L.4
-
46
-
-
79960559081
-
Somatic sex-specific transcriptome differences in Drosophila revealed by whole transcriptome sequencing
-
Chang PL, Dunham JP, Nuzhdin S V, Arbeitman MN, Somatic sex-specific transcriptome differences in Drosophila revealed by whole transcriptome sequencing. BMC Genomics. 2011;12: 364. doi: 10.1186/1471-2164-12-364 21756339
-
(2011)
BMC Genomics
, vol.12
, pp. 364
-
-
Chang, P.L.1
Dunham, J.P.2
Nuzhdin S, V.3
Arbeitman, M.N.4
-
47
-
-
0017806202
-
Inversions fail to account for allozyme clines
-
Voelker RA, Cockerham CC, Johnson FM, Inversions fail to account for allozyme clines. Genetics. 1978;88:515–527. 17248810
-
(1978)
Genetics
, vol.88
, pp. 515-527
-
-
Voelker, R.A.1
Cockerham, C.C.2
Johnson, F.M.3
-
48
-
-
84896912463
-
Inference of chromosomal inversion dynamics from Pool-Seq data in natural and laboratory populations of Drosophila melanogaster
-
Kapun M, Van Schalkwyk H, McAllister B, Flatt T, Schlötterer C, Inference of chromosomal inversion dynamics from Pool-Seq data in natural and laboratory populations of Drosophila melanogaster. Mol Ecol. 2014;23: 1813–1827. doi: 10.1111/mec.12594 24372777
-
(2014)
Mol Ecol
, vol.23
, pp. 1813-1827
-
-
Kapun, M.1
Van Schalkwyk, H.2
McAllister, B.3
Flatt, T.4
Schlötterer, C.5
-
49
-
-
78951483665
-
-
Kolaczkowski B, Kern AD, Holloway AK, Begun DJ, Genomic differentiation between temperate and tropical Australian populations of Drosophila melanogaster. 2011;187: 245–260. doi: 10.1534/genetics.110.123059 21059887
-
(2011)
Genomic differentiation between temperate and tropical Australian populations of Drosophila melanogaster
, vol.187
, pp. 245-260
-
-
Kolaczkowski, B.1
Kern, A.D.2
Holloway, A.K.3
Begun, D.J.4
-
50
-
-
84870693546
-
Genomic variation and its impact on gene expression in Drosophila melanogaster
-
Massouras A, Waszak SM, Albarca-Aguilera M, Hens K, Holcombe W, Ayroles JF, et al. Genomic variation and its impact on gene expression in Drosophila melanogaster. PLoS Genet. 2012;8: e1003055. doi: 10.1371/journal.pgen.1003055 23189034
-
(2012)
PLoS Genet
, vol.8
, pp. e1003055
-
-
Massouras, A.1
Waszak, S.M.2
Albarca-Aguilera, M.3
Hens, K.4
Holcombe, W.5
Ayroles, J.F.6
-
51
-
-
78650467110
-
Whole-genome expression plasticity across tropical and temperate Drosophila melanogaster populations from Eastern Australia
-
Levine MT, Eckert ML, Begun DJ, Whole-genome expression plasticity across tropical and temperate Drosophila melanogaster populations from Eastern Australia. Mol Biol Evol. 2011;28: 249–56. doi: 10.1093/molbev/msq197 20671040
-
(2011)
Mol Biol Evol
, vol.28
, pp. 249-256
-
-
Levine, M.T.1
Eckert, M.L.2
Begun, D.J.3
-
52
-
-
3042722019
-
Evolutionary changes in cis and trans gene regulation
-
Wittkopp PJ, Haerum BK, Clark AG, Evolutionary changes in cis and trans gene regulation. Nature. 2004;430: 85–8. 15229602
-
(2004)
Nature
, vol.430
, pp. 85-88
-
-
Wittkopp, P.J.1
Haerum, B.K.2
Clark, A.G.3
-
53
-
-
83855163414
-
Cis-regulatory elements: molecular mechanisms and evolutionary processes underlying divergence
-
Wittkopp PJ, Kalay G, Cis-regulatory elements: molecular mechanisms and evolutionary processes underlying divergence. Nat Rev Genet. 2012;13: 59–69. doi: 10.1038/nrg3095 22143240
-
(2012)
Nat Rev Genet
, vol.13
, pp. 59-69
-
-
Wittkopp, P.J.1
Kalay, G.2
-
54
-
-
84876855375
-
Reference-free population genomics from next-generation transcriptome data and the vertebrate-invertebrate gap
-
Gayral P, Melo-Ferreira J, Glémin S, Bierne N, Carneiro M, Nabholz B, et al. Reference-free population genomics from next-generation transcriptome data and the vertebrate-invertebrate gap. PLoS Genet. 2013;9: e1003457. doi: 10.1371/journal.pgen.1003457 23593039
-
(2013)
PLoS Genet
, vol.9
, pp. e1003457
-
-
Gayral, P.1
Melo-Ferreira, J.2
Glémin, S.3
Bierne, N.4
Carneiro, M.5
Nabholz, B.6
-
55
-
-
33847057226
-
The evolutionary significance of cis-regulatory mutations
-
Wray GA, The evolutionary significance of cis-regulatory mutations. Nat Rev Genet. 2007;8: 206–216. 17304246
-
(2007)
Nat Rev Genet
, vol.8
, pp. 206-216
-
-
Wray, G.A.1
-
56
-
-
84858379682
-
Selective sweep of a cis-regulatory sequence in a non-African population of Drosophila melanogaster
-
Saminadin-Peter SS, Kemkemer C, Pavlidis P, Parsch J, Selective sweep of a cis-regulatory sequence in a non-African population of Drosophila melanogaster. Mol Biol Evol. 2012;29: 1167–1174. doi: 10.1093/molbev/msr284 22101416
-
(2012)
Mol Biol Evol
, vol.29
, pp. 1167-1174
-
-
Saminadin-Peter, S.S.1
Kemkemer, C.2
Pavlidis, P.3
Parsch, J.4
-
57
-
-
84866081815
-
Genomic Variation in Natural Populations of Drosophila melanogaster
-
Langley CH, Stevens K, Cardeno C, Lee YCG, Schrider DR, Pool JE, et al. Genomic Variation in Natural Populations of Drosophila melanogaster. Genetics. 2012;192: 533–598. doi: 10.1534/genetics.112.142018 22673804
-
(2012)
Genetics
, vol.192
, pp. 533-598
-
-
Langley, C.H.1
Stevens, K.2
Cardeno, C.3
Lee, Y.C.G.4
Schrider, D.R.5
Pool, J.E.6
-
59
-
-
0042968976
-
The power of the 3’ UTR: translational control and development
-
Kuersten S, Goodwin EB, The power of the 3’ UTR: translational control and development. Nat Rev Genet. 2003;4: 626–637. 12897774
-
(2003)
Nat Rev Genet
, vol.4
, pp. 626-637
-
-
Kuersten, S.1
Goodwin, E.B.2
-
60
-
-
53249143880
-
3′ UTRs Are the primary regulators of gene expression in the C. elegans germline
-
Merritt C, Rasoloson D, Ko D, Seydoux G, 3′ UTRs Are the primary regulators of gene expression in the C. elegans germline. Curr Biol. 2008;18: 1476–1482. doi: 10.1016/j.cub.2008.08.013 18818082
-
(2008)
Curr Biol
, vol.18
, pp. 1476-1482
-
-
Merritt, C.1
Rasoloson, D.2
Ko, D.3
Seydoux, G.4
-
61
-
-
35349001696
-
Which evolutionary processes influence natural genetic variation for phenotypic traits?
-
Mitchell-Olds T, Willis JH, Goldstein DB, Which evolutionary processes influence natural genetic variation for phenotypic traits? Nat Rev Genet. 2007;8: 845–856. 17943192
-
(2007)
Nat Rev Genet
, vol.8
, pp. 845-856
-
-
Mitchell-Olds, T.1
Willis, J.H.2
Goldstein, D.B.3
-
62
-
-
1842588977
-
Comparative analysis of morphological traits among Drosophila melanogaster and D. simulans: genetic variability, clines and phenotypic plasticity
-
Gibert P, Capy P, Imasheva A, Moreteau B, Morin JP, Petavy G, et al. Comparative analysis of morphological traits among Drosophila melanogaster and D. simulans: genetic variability, clines and phenotypic plasticity. Genetica. 2004;120: 165–179. 15088656
-
(2004)
Genetica
, vol.120
, pp. 165-179
-
-
Gibert, P.1
Capy, P.2
Imasheva, A.3
Moreteau, B.4
Morin, J.P.5
Petavy, G.6
-
63
-
-
33845976693
-
Mapping determinants of gene expression plasticity by genetical genomics in C. elegans
-
Li Y, Álvarez OA, Gutteling EW, Tijsterman M, Fu J, Riksen JAG, et al. Mapping determinants of gene expression plasticity by genetical genomics in C. elegans. PLoS Genet. 2006;2: 2155–2161.
-
(2006)
PLoS Genet
, vol.2
, pp. 2155-2161
-
-
Li, Y.1
Álvarez, O.A.2
Gutteling, E.W.3
Tijsterman, M.4
Fu, J.5
Riksen, J.A.G.6
-
64
-
-
84880950921
-
The genomic determinants of genotype X environment interactions in gene expression
-
Grishkevich V, Yanai I, The genomic determinants of genotype X environment interactions in gene expression. Trends in Genetics. 2013;8: 479–487. doi: 10.1016/j.tig.2013.05.006 23769209
-
(2013)
Trends in Genetics
, vol.8
, pp. 479-487
-
-
Grishkevich, V.1
Yanai, I.2
-
65
-
-
0001365140
-
The influence of light on the matsping behavior of seven species of the Drosophila melanogaster species group
-
Spieth HT, Hsu TC, The influence of light on the matsping behavior of seven species of the Drosophila melanogaster species group. Evolution. 1950;4:316–325.
-
(1950)
Evolution
, vol.4
, pp. 316-325
-
-
Spieth, H.T.1
Hsu, T.C.2
-
66
-
-
84921473158
-
Temperature sensation in Drosophila
-
Barbagallo B, Garrity PA, Temperature sensation in Drosophila. Curr Opin Neurobiol. 2015;34C: 8–13. doi: 10.1016/j.conb.2015.01.002 25616212
-
(2015)
Curr Opin Neurobiol
, vol.34C
, pp. 8-13
-
-
Barbagallo, B.1
Garrity, P.A.2
-
67
-
-
0033134937
-
Genetic dissection of behavior: modulation of locomotion by light in the Drosophila melanogaster larva requires genetically distinct visual system functions
-
Busto M, Iyengar B, Campos AR, Genetic dissection of behavior: modulation of locomotion by light in the Drosophila melanogaster larva requires genetically distinct visual system functions. J Neurosci. 1999;19: 3337–44. 10212293
-
(1999)
J Neurosci
, vol.19
, pp. 3337-3344
-
-
Busto, M.1
Iyengar, B.2
Campos, A.R.3
-
68
-
-
84867404270
-
Circadian rhythm of temperature preference and its neural control in Drosophila
-
Kaneko H, Head LM, Ling J, Tang X, Liu Y, Hardin PE, et al. Circadian rhythm of temperature preference and its neural control in Drosophila. Curr Biol. 2012;22: 1851–7. doi: 10.1016/j.cub.2012.08.006 22981774
-
(2012)
Curr Biol
, vol.22
, pp. 1851-1857
-
-
Kaneko, H.1
Head, L.M.2
Ling, J.3
Tang, X.4
Liu, Y.5
Hardin, P.E.6
-
69
-
-
0035923746
-
Circadian Regulation of Gene Expression Systems in the Drosophila Head
-
Claridge-Chang A, Wijnen H, Naef F, Boothroyd C, Rajewsky N, Young MW, Circadian Regulation of Gene Expression Systems in the Drosophila Head. Neuron. 2001;32: 657–671. 11719206
-
(2001)
Neuron
, vol.32
, pp. 657-671
-
-
Claridge-Chang, A.1
Wijnen, H.2
Naef, F.3
Boothroyd, C.4
Rajewsky, N.5
Young, M.W.6
-
70
-
-
0023759613
-
Low retinal noise in animals with low body temperature allows high visual sensitivity
-
Aho AC, Donner K, Hydén C, Larsen LO, Reuter T, Low retinal noise in animals with low body temperature allows high visual sensitivity. Nature. 1988;334: 348–50. 3134619
-
(1988)
Nature
, vol.334
, pp. 348-350
-
-
Aho, A.C.1
Donner, K.2
Hydén, C.3
Larsen, L.O.4
Reuter, T.5
-
71
-
-
0035171607
-
Light adaptation in Drosophila photoreceptors: II. Rising temperature increases the bandwidth of reliable signaling
-
Juusola M, Hardie RC, Light adaptation in Drosophila photoreceptors: II. Rising temperature increases the bandwidth of reliable signaling. J Gen Physiol. 2001;117: 27–42. 11134229
-
(2001)
J Gen Physiol
, vol.117
, pp. 27-42
-
-
Juusola, M.1
Hardie, R.C.2
-
72
-
-
84903710173
-
Landscape of standing variation for tandem duplications in Drosophila yakuba and Drosophila simulans
-
Rogers RL, Cridland JM, Shao L, Hu TT, Andolfatto P, Thornton KR, Landscape of standing variation for tandem duplications in Drosophila yakuba and Drosophila simulans. Mol Biol Evol. 2014;31: 1750–1766. doi: 10.1093/molbev/msu124 24710518
-
(2014)
Mol Biol Evol
, vol.31
, pp. 1750-1766
-
-
Rogers, R.L.1
Cridland, J.M.2
Shao, L.3
Hu, T.T.4
Andolfatto, P.5
Thornton, K.R.6
-
73
-
-
1842484067
-
Comparative life histories and ecophysiology of Drosophila melanogaster and D. simulans
-
David JR, Allemand R, Capy P, Chakir M, Gibert P, Pétavy G, et al. Comparative life histories and ecophysiology of Drosophila melanogaster and D. simulans. Genetica. 2004;120: 151–163. 15088655
-
(2004)
Genetica
, vol.120
, pp. 151-163
-
-
David, J.R.1
Allemand, R.2
Capy, P.3
Chakir, M.4
Gibert, P.5
Pétavy, G.6
-
74
-
-
65449136284
-
TopHat: discovering splice junctions with RNA-Seq
-
Trapnell C, Pachter L, Salzberg SL, TopHat: discovering splice junctions with RNA-Seq. Bioinformatics. 2009;25: 1105–1111. doi: 10.1093/bioinformatics/btp120 19289445
-
(2009)
Bioinformatics
, vol.25
, pp. 1105-1111
-
-
Trapnell, C.1
Pachter, L.2
Salzberg, S.L.3
-
75
-
-
84871958299
-
A second generation assembly of the Drosophila simulans genome provides new insights into patterns of lineage-specific divergence
-
Hu TT, Eisen MB, Thornton KR, Andolfatto P, A second generation assembly of the Drosophila simulans genome provides new insights into patterns of lineage-specific divergence. Genome Res. 2013;23: 89–98. doi: 10.1101/gr.141689.112 22936249
-
(2013)
Genome Res
, vol.23
, pp. 89-98
-
-
Hu, T.T.1
Eisen, M.B.2
Thornton, K.R.3
Andolfatto, P.4
-
76
-
-
84924629414
-
Moderated estimation of fold change and dispersion for RNA-Seq data with DESeq2
-
Love MI, Huber W, Anders S, Moderated estimation of fold change and dispersion for RNA-Seq data with DESeq2. Genome Biol. 2014;15:550. 25516281
-
(2014)
Genome Biol
, vol.15
, pp. 550
-
-
Love, M.I.1
Huber, W.2
Anders, S.3
-
77
-
-
75249087100
-
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
-
Robinson MD, McCarthy DJ, Smyth GK, edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics. 2010;26: 139–140. doi: 10.1093/bioinformatics/btp616 19910308
-
(2010)
Bioinformatics
, vol.26
, pp. 139-140
-
-
Robinson, M.D.1
McCarthy, D.J.2
Smyth, G.K.3
-
78
-
-
84888141396
-
Linear Models for Microarray Data User’ s Guide
-
Smyth GK, Ritchie M, Thorne N, Linear Models for Microarray Data User’ s Guide. Bioinformatics. 2011;20: 3705–3706.
-
(2011)
Bioinformatics
, vol.20
, pp. 3705-3706
-
-
Smyth, G.K.1
Ritchie, M.2
Thorne, N.3
-
79
-
-
0001677717
-
Controlling the false discovery rate: a practical and powerful approach to multiple testing
-
Benjamini Y, Hochberg Y, Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc Ser B. 1995;57: 289–300.
-
(1995)
J R Stat Soc Ser B
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
80
-
-
77952123055
-
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
-
Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, et al. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol. 2010;28: 516–520. doi: 10.1038/nbt.1626 20436463
-
(2010)
Nat Biotechnol
, vol.28
, pp. 516-520
-
-
Trapnell, C.1
Williams, B.A.2
Pertea, G.3
Mortazavi, A.4
Kwan, G.5
van Baren, M.J.6
-
81
-
-
57149102681
-
Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps
-
Tang H, Wang XX, Bowers JE, Ming R, Alam M, Paterson AH, et al. Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps. Genome Res. 2008;18: 1944–1954. doi: 10.1101/gr.080978.108 18832442
-
(2008)
Genome Res
, vol.18
, pp. 1944-1954
-
-
Tang, H.1
Wang, X.X.2
Bowers, J.E.3
Ming, R.4
Alam, M.5
Paterson, A.H.6
-
82
-
-
84872022907
-
Population genomics of inversion polymorphisms in Drosophila melanogaster
-
Corbett-Detig RB, Hartl DL, Population genomics of inversion polymorphisms in Drosophila melanogaster. PLoS Genet. 2012;8: e1003056. doi: 10.1371/journal.pgen.1003056 23284285
-
(2012)
PLoS Genet
, vol.8
, pp. e1003056
-
-
Corbett-Detig, R.B.1
Hartl, D.L.2
-
83
-
-
67649884743
-
Fast and accurate short read alignment with Burrows-Wheeler transform
-
Li H, Durbin R, Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics. 2009;25: 1754–1760. doi: 10.1093/bioinformatics/btp324 19451168
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
84
-
-
83355175374
-
PoPoolation2: Identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq)
-
Kofler R, Pandey RV, Schlötterer C, PoPoolation2: Identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq). Bioinformatics. 2011;27: 3435–3436. doi: 10.1093/bioinformatics/btr589 22025480
-
(2011)
Bioinformatics
, vol.27
, pp. 3435-3436
-
-
Kofler, R.1
Pandey, R.V.2
Schlötterer, C.3
|