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Publications
Journal Publications
2024
105. Buysse M., Koual R., Binetruy F., de Thoisy B., Baudrimont X., Garnier S., Douine M., Chevillon C., Delsuc F., Catzeflis F., Bouchon D. & Duron O. (2024).
Detection of Anaplasma and Ehrlichia bacteria in humans, wildlife, and ticks in the Amazon rainforest.
Nature Communications 15: 3988. [pdf]
Associated CNRS press release (in french)
104. Le Verger K., Hautier L., Bardin J., Gerber S., Delsuc F., Gonzalez-Ruiz L., Amson E. & Billet G. (2024).
Pervasive cranial allometry at different scales and variational levels in extant armadillos.
Evolution 78: 423-441. [pdf]
103. Allio R., Delsuc F., Belkhir K., Douzery E.J.P., Ranwez V. & Scornavacca C. (2024).
OrthoMaM v12: a curated database of single-copy ortholog alignments and trees to study mammalian evolutionary genomics.
Nucleic Acids Research 52: D529–D535. [pdf]
102. Tejada J.V., Antoine P.-O., Münch P., Billet G., Hautier L., Delsuc F. & Condamine F.L. (2024).
Bayesian total-evidence dating revisits sloth phylogeny and biogeography: a cautionary tale on morphological clock analyses.
Systematic Biology 73: 125-139. [pdf]
2023
101. Comte A.*, Tricou T.*, Tannier E., Joseph J., Siberchicot A., Penel S., Allio R., Delsuc F., Dray S. & de Vienne D.M. (2023).
PhylteR: Efficient identification of outlier sequences in phylogenomics datasets.
Molecular Biology and Evolution 40: msad234. [pdf]
100. Hautier L., Gomes Rodrigues H., Ferreira-Cardoso S. & Delsuc F. (2023).
3D models related to the publication: From teeth to pad, tooth loss and development of keratinous structures in sirenians.
MorphoMuseuM 9: e218. [pdf]
99. Hautier L., Gomes Rodrigues H., Ferreira-Cardoso S., Emerling C.A., Porcher M.-L., Asher R.J., Portela Miguez R. & Delsuc F. (2023).
From teeth to pad: tooth loss and development of keratinous structures in sirenians.
Proceedings of the Royal Society B 290: 20231932. [pdf]
98. Teullet S., Tilak M.-K., Magdeleine A., Schaub R., Weyer N.M., Panaino W., Fuller A., Loughry W.J., Avenant N.L., de Thoisy B., Borrel G. & Delsuc F. (2023).
Metagenomics uncovers dietary adaptations for chitin digestion in the gut microbiota of convergent myrmecophagous mammals.
mSystems 8: e00388-23. [pdf]
97. Heighton S.P.*, Allio R.*, Murienne J., Salmona J., Meng H., Scornavacca C., Bastos A.D.S., Njiokou F., Pietersen D., Tilak M.-K., Luo S.-J.*, Delsuc F.* & Gaubert P.* (2023).
Pangolin genomes offer key insights and resources for the world's most trafficked wild mammals.
Molecular Biology and Evolution 40: msad190. [pdf]
News Article by Paul Adepoju in Nature Africa
Associated Press Release at EurekAlert
96. Emerling C.A., Gibb G.C., Tilak M.-K., Hughes J.J., Kuch M., Duggan A.T., Poinar H.N., Nachman M.W. & Delsuc F. (2023).
Genomic data suggest parallel dental vestigialization within the xenarthran radiation.
Peer Community Journal 3: e75. [pdf]
Recommendation by Peer Community in Genomics
News Article by Elizabeth Pennisi in Science
95. Theissinger K.*, Fernandes C.*, Formenti G.*, Bista I., Berg P.R., Bleidorn C., Bombarely A., Crottini A., Gallo G.R, Godoy J.A., Jentoft S., Malukiewicz J., Mouton A., Oomen R.A., Paez S., Palsbøll P.J., Pampoulie C., Ruiz-Lopez M.J., Secomandi S., Svardal H., Theofanopoulou C., de Vries J., Waldvogel A.-M., Zhang G., Jarvis E.D., Bálint M., Ciofi C., Waterhouse R.M., Mazzoni C.J., Höglund J. & The European Reference Genome Atlas Consortium (including Delsuc F.) (2023).
How genomics can help biodiversity conservation.
Trends in Genetics 39: 545-559. [pdf]
2022
94. Meseguer A.S., Michel A., Fabre P.-H., Pérez-Escobar O.A., Chomicki G., Riina R., Antonelli A., Antoine P.-O., Delsuc F. & Condamine F.L. (2022).
Diversification dynamics in the Neotropics through time, clades and biogeographic regions. eLife 11: e74503. [pdf]
93. Ferreira-Cardoso S., Claude J., Goswami A., Delsuc F. & Hautier L. (2022).
Flexible conservatism in the skull modularity of convergently evolved myrmecophagous placental mammals.
BMC Ecology and Evolution 22: 87. [pdf]
92. Formenti G.*, Theissinger K.*, Fernandes C.*, Bista I., Bombarely A., Bleidorn C., Ciofi C., Crottini A., Godoy J.A., Höglund J., Malukiewicz J., Mouton A., Oomen R.A., Paez S., Palsbøll J.J., Pampoulie C., Ruiz-Lopez M.J., Svardal H., Theofanopoulou C., de Vries J., Waldvogel A.-M., Zhang G., Mazzoni C.J., Jarvis E.D., Bálint M. & The European Reference Genome Atlas consortium (including Delsuc F.) (2022).
The era of reference genomes in conservation genomics.
Trends in Ecology and Evolution 37: 197-202. [pdf]
2021
91. Emerling C.A., Springer M.S., Gatesy J., Jones Z., Hamilton D., Xia-Zhu D., Collin M.A. & Delsuc F. (2021).
Genomic evidence for the parallel regression of melatonin synthesis and signaling pathways in placental mammals.
Open Research Europe 1: 75. [pdf]
90. Allio R., Tilak M.-K., Scornavacca C., Avenant N.L., Kitchener A.C., Corre E., Nabholz B. & Delsuc F. (2021).
High-quality carnivoran genomes from roadkill samples enable comparative species delineation in aardwolf and bat-eared fox.
eLife 10: e63167. [pdf]
2020
89. Le Verger K., Hautier L., Bardin J., Gerber S., Delsuc F. & Billet G. (2020).
Ontogenetic and static allometry in the skull and cranial units of nine-banded armadillos (Cingulata: Dasypodidae: Dasypus novemcinctus).
Biological Journal of the Linnean Society 131: 673-698. [pdf]
88. Ferreira-Cardoso S., Fabre P.-H., de Thoisy B., Delsuc F. & Hautier L. (2020).
3D models related to the publication: “Comparative masticatory myology in anteaters and its implications for interpreting morphological convergence in myrmecophagous placentals”.
MorphoMuseuM 6: e114. [pdf]
87. Ferreira-Cardoso S., Fabre P.-H., de Thoisy B., Delsuc F. & Hautier L. (2020).
Comparative masticatory myology in anteaters and its implications for interpreting morphological convergence in myrmecophagous placentals.
PeerJ 8: e9690. [pdf]
86. Meseguer A.S., Antoine P.-O., Fouquet A., Delsuc F. & Condamine F.L. (2020).
The role of the Neotropics as a source of world tetrapod biodiversity.
Global Ecology and Biogeography 29: 1565-1578. [pdf]
85. Allio R., Schomaker-Bastos A., Romiguier J., Prosdocimi F., Nabholz B. & Delsuc F. (2020).
MitoFinder: efficient automated large-scale extraction of mitogenomic data in target enrichment phylogenomics.
Molecular Ecology Resources 20: 892-905. [pdf]
84. Ripple W.J, Wolf C., Newsome T.M., Barnard P., Moomaw W.R. & 11,258 scientist signatories from 153 countries (including Delsuc F.) (2020).
World scientists’ warning of a climate emergency.
Bioscience 70: 8-12. [pdf]
83. Song S.J.*, Sanders J.*, Delsuc F., Metcalf J.L., Amato K.R., Taylor M.W., Mazel F., Lutz H.L., Winker K., Graves G.R., Humphrey G., Gilbert J.A., Hackett S.J., White K.P., Skeen H.R., Kurtis S.M., Withrow J., Braile T., Miller M., McCracken K., Maley J., Blanto, J.M., McKenzie V.J. & Knight R. (2020).
Comparative analyses of vertebrate gut microbiomes reveal convergence between birds and bats.
mBio 11: e02901-19. [pdf]
Associated CNRS press release (in french)
Associated UC San Diego Today press release (in english)
82. Ferreira-Cardoso S., Billet G., Gaubert P., Delsuc F. & Hautier L. (2020).
Skull shape variation in extant pangolins (Manidae, Pholidota): allometric patterns and systematic implications.
Zoological Journal of the Linnean Society 188: 255-275. [pdf]
2019
81. Santos, P.M. and 501 co-authors (including Delsuc F.) (2019).
Neotropical xenarthrans: a dataset of occurrence of xenarthran species in the Neotropics.
Ecology 100:e02663. [pdf]
80. Delsuc F., Kuch M., Gibb G.C., Karpinski E., Hackenberger D., Szpak P., Martínez J.G., Mead J.I., McDonald H.G., MacPhee R.D.E., Billet G., Hautier L. & Poinar H.N. (2019).
Ancient mitogenomes reveal the evolutionary history and biogeography of sloths.
Current Biology 29: 2031-2042. [pdf]
Feature article by Michael Gross in Current Biology
Blog article by Brian Switek in Scientific American
79. Scornavacca C., Belkhir K., Lopez J., Dernat R., Delsuc F., Douzery E.J.P. & Ranwez V. (2019).
OrthoMaM v10: scaling-up orthologous coding sequence and exon alignments with more than one hundred mammalian genomes.
Molecular Biology and Evolution 36: 861-862. [pdf]
78. Ferreira-Cardoso S., Delsuc F. & Hautier L. (2019).
Evolutionary tinkering of the mandibular canal linked to convergent regression of teeth in placental mammals.
Current Biology 29: 468-475. [pdf]
77. Springer M.S., Emerling C.A., Gatesy J., Randall J., Collin M., Hecker N., Hiller M. & Delsuc F. (2019). Odontogenic Ameloblast-associated (ODAM) is inactivated in toothless/enamelless placental mammals and toothed whales.
BMC Evolutionary Biology 19: 31. [pdf]
76. Delsuc F., Emerling C.A. & Nachman M.W. (2019).
Les chitinases, témoins de la radiation des mammifères placentaires.
Médecine/Sciences 35:12-15. [pdf]
2018
75. Ranwez V., Douzery E.J.P., Cambon C., Chantret N. & Delsuc F. (2018).
MACSE v2: toolkit for the alignment of coding sequences accounting for frameshifts and stop codons. Molecular Biology and Evolution 35: 2582–2584. [pdf]
74. Botero-Castro F., Tilak M.-K., Justy F., Catzeflis F., Delsuc F. & Douzery E.J.P. (2018).
In cold blood: compositional bias and positive selection drive the high evolutionary rate of vampire bats mitochondrial genomes.
Genome Biology and Evolution 10: 2218–2239. [pdf]
73. Alié A.*, Hiebert L.S.*, Simion P.*, Scelzo M., Prünster M.M., Lotito S., Delsuc F., Douzery E.J.P., Dantec C., Lemaire P., Darras S., Kawamura K., Brown F.D. & Tiozzo S. (2018).
Convergent acquisition of nonembryonic development in styelid ascidians.
Molecular Biology and Evolution 35: 1728-1743. [pdf]
72. Emerling C.A., Delsuc F. & Nachman M.W. (2018).
Chitinase genes (CHIAs) provide genomic footprints of a post-Cretaceous dietary radiation in placental mammals.
Science Advances 4: eaar6478. [pdf]
Associated CNRS press release (in french)
Associated Berkeley News press release (in english)
News article in french in Pour La Science
71. Delsuc F., Kuch M., Gibb G.C., Hughes J., Szpak P., Southon J., Enk J., Duggan A.T. & Poinar H.N. (2018).
Resolving the phylogenetic position of Darwin’s extinct ground sloth (Mylodon darwinii) using mitogenomic and nuclear exon data.
Proceedings of the Royal Society B 285: 20180214. [pdf]
70. Delsuc F.*, Philippe H.*, Tsagkogeorga G.*, Simion P., Tilak M.-K., Lopez-Legentil S., Turon X., Piette J., Lemaire P. & Douzery E.J.P. (2018).
A phylogenomic framework and timescale for comparative studies of tunicates.
BMC Biology 39:16. [pdf]
Commentary by Gonzalo Giribet in BMC Biology
69. Teeling E.C., Vernes S., Davalos L.M., Ray D.A., Gilbert M.T.P., Myers E. & Bat1K Consortium (including Delsuc F.) (2018).
Bat biology, genomes, and the Bat1K project: to generate chromosome-level genomes for all living bat species.
Annual Review of Animal Biosciences 6: 23-46. [pdf]
68. Brozovic M.*, Dantec C.*, Dardaillon J.*, Dauga D.*, Faure E., Gineste M., Louis A., Naville M., Nitta K.R., Piette J., Reeves W., Scornavacca C., Simion P., Vincentelli R., Bellec M., Ben Aicha S., Fagotto M., Guéroult-Bellone M., Haeussler M., Jacox E., Lowe E. K., Mendez M., Roberge A., Stolfi A., Yokomori R., Brown C.T., Cambillau C., Christiaen L., Delsuc F., Douzery E.J.P., Dumollard R., Kusakabe T., Nakai K., Nishida H., Satou Y., Swalla B., Veeman M., Volff J.-N. & Lemaire P. (2018).
ANISEED 2017: Extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets.
Nucleic Acids Research 46: D718-D725. [pdf]
2017
67. Thompson L.R., Sanders J.G., McDonald D., Amir A., Ladau J., Locey K.J., Prill R.J., Tripathi A., Gibbons S.M., Ackermann G., Navas-Molina J.A., Janssen S., Kopylova E., Vázquez-Baeza Y., González A., Morton J.T., Mirarab S., Xu Z.Z., Jiang L., Haroon M.F., Kanbar J., Zhu Q., Song S.J., Kosciolek T., Bokulich N.A., Lefler J., Brislawn C.J., Humphrey G.C., Owens S.M., Hampton-Marcell J., Berg-Lyons D., McKenzie V., Fierer N., Fuhrman J.A., Clauset A., Stevens R.L., Shade A., Pollard K.S., Goodwin K.D., Jansson J.K., Gilbert J.A., Knight R. & The Earth Microbiome Project Consortium (including Delsuc F.)(2017).
A communal catalogue reveals Earth’s multiscale microbial diversity.
Nature 551: 457-463. [pdf]
Associated News & Views by Jeroen Raes in Nature
66. McKenzie V.J., Song S.J., Delsuc F., Prest T.L., Oliverio A.M., Korpita T.M., Alexiev A., Amato K.R., Metcalf J.L., Kowalewski M., Avenant N.L., Link A., Di Fiore A., Seguin-Orlando A., Feh C., Orlando L., Mendelson J.R., Sanders J. & Knight R. (2017).
The effects of captivity on the mammalian gut microbiome.
Integrative and Comparative Biology 57: 690-704. [pdf]
65. Irisarri I., Baurain D., Brinkmann H., Delsuc F., Sire J.-Y., Kupfer A., Petersen J., Jarek M., Meyer A., Vences M. & Philippe H. (2017).
Phylotranscriptomic consolidation of the jawed vertebrate timetree.
Nature Ecology and Evolution 1: 1370-1378. [pdf]
64. Hautier L., Billet G., de Thoisy B. & Delsuc F. (2017).
Beyond the carapace: skull shape variation and morphological systematics of long-nosed armadillos (genus Dasypus).
PeerJ 5: e3650. [pdf]
63. Billet G., Hautier L., de Thoisy B. & Delsuc F. (2017).
The hidden anatomy of paranasal sinuses reveals geographically distinct morphotypes in the nine-banded armadillo (Dasypus novemcinctus).
PeerJ 5: e3593. [pdf]
62. Simion P.*, Philippe H.*, Baurain D., Jager M., Richter D., Di Franco A., Roure B., Satoh N., Quéinnec E., Ereskowsky A., Lapébie P., Corre E., Delsuc F., King N., Wörheide G. & Manuel M. (2017).
A large and consistent phylogenomic dataset supports sponges as the sister group to all other animals.
Current Biology 27: 958-967. [pdf]
Associated dispatch by D. Timothy J. Littlewood in Current Biology
61. Philippe H., De Vienne D.M., Ranwez V., Roure B., Baurain D. & Delsuc F. (2017).
Pitfalls in supermatrix phylogenomics.
European Journal of Taxonomy 283: 1-25. [pdf]
60. Le Gall L., Delsuc F., Hourdez S., Lecointre G. & Rasplus J.-Y. (2017).
Towards the DNA library of life.
European Journal of Taxonomy 266: 1-9. [pdf]
2016
59. Malicorne S., Vernochet C., Cornelis G., Mulot B., Delsuc F., Heidmann O., Heidmann T. & Dupressoir A. (2016).
Genome-wide screening of retroviral envelope genes in the nine-banded armadillo (Dasypus novemcinctus, Xenarthra) reveals an unfixed chimeric endogenous betaretrovirus using the ASCT2 receptor.
Journal of Virology 90: 8132-8149. [pdf]
58. Nardelli M., Ibanez E.A., Dobler D., Justy F., Delsuc F., Abba A.M., Cassini M.H. & Tunez J.I. (2016).
Genetic differentiation in a relictual population of screaming hairy armadillo (Chaetophractus vellerosus) in Argentina revealed by a set of novel microstatellite loci.
Genetica 144: 469-476. [pdf]
57. Kadowaki K., Barbera C.G., Godsoe W. Delsuc F. & Mouquet N. (2016).
Predicting biotic interactions and their variability in a changing environment.
Biology Letters 12: 20151073. [pdf]
56. Delsuc F., Gibb G.C., Kuch M., Billet G., Hautier L., Southon J., Rouillard J.-M., Fernicola J.C.,Vizcaíno S.F., McPhee R.D.M & Poinar H.N. (2016).
The phylogenetic affinities of the extinct glyptodonts.
Current Biology 24: R155-R156. [pdf]
Associated CNRS press release (in french)
Associated University of McMaster press release (in english)
55. Gibb G.C., Condamine F.L., Kuch M., Enk J., Moraes-Barros N., Superina M., Poinar H.N. & Delsuc F. (2016).
Shotgun mitogenomics provides a reference phylogenetic framework and timescale for living xenarthrans.
Molecular Biology and Evolution 33: 621-642. [pdf]
54. Brozovic M.*, Martin C.*, Dantec C.*, Dauga D.*, Mendez M., Simion P., Percher M., Laporte B., Scornavacca C., Di Gregorio A., Fujiwara S., Gineste M., Lowe E.K., Piette J., Racciopi C., Ristoratore F., Sasakura Y., Takatori N., Brown T.C., Delsuc F., Douzery E.J.P., Gissi C., McDougall A., Nishida H., Sawada H., Swalla B.J., Yasuo H. & Lemaire P. (2016).
ANISEED 2015: a digital framework for the comparative developmental biology of ascidians.
Nuclear Acids Research 44: D808-D818. [pdf]
53. Botero-Castro F., Delsuc F. & Douzery E.J.P. (2016).
Thrice better than once: quality control guidelines for reporting new mitogenomes.
Mitochondrial DNA 27: 449-454. [pdf]
2015
52. Abba A.M., Cassini G.H., Valverde G., Tilak M.-K., Vizcaíno S.F., Superina M. & Delsuc F. (2015).
Systematics of hairy armadillos and the taxonomic status of the Andean hairy armadillo (Chaetophractus nationi).
Journal of Mammalogy 96: 673-689. [pdf]
51. Delsuc F., Gasse B. & Sire J.-Y. (2015).
Evolutionary analysis of selective constraints identifies ameloblastin (AMBN) as a potential candidate for amelogenesis imperfecta.
BMC Evolutionary Biology 15: 148. [pdf]
50. Fort P., Kajava A.V., Delsuc F. & Coux O. (2015).
Evolution of proteasome regulation in Eukaryotes.
Genome Biology and Evolution 7: 1363-1379. [pdf]
49. Delsuc F. & Tilak M.-K. (2015).
Naked but not hairless: The pitfalls of analyses of molecular adaptation based on few genome sequence comparisons.
Genome Biology and Evolution 7: 768-774. [pdf]
48. Tilak M.-K.*, Justy F.*, Debiais-Thibaud M., Botero-Castro F., Delsuc F. & Douzery E.J.P. (2015).
A cost-effective straightforward protocol for shotgun Illumina libraries designed to assemble complete mitogenomes.
Conservation Genetics Resources 7: 37-40. [pdf]
2014
47. Douzery E.J.P., Scornavacca C., Romiguier J., Belkhir K., Galtier N., Delsuc F. & Ranwez V.(2014).
OrthoMaM v8: a database of orthologous exons and coding sequences for comparative genomics in mammals.
Molecular Biology and Evolution 31: 1923-1928. [pdf]
46. Malé P.-J.G., Bardon L., Besnard G., Coissac E., Delsuc F., Engel J., Lhuillier E., Scotti-Saintagne C., Tinaut A. & Chave J. (2014).
Genome skimming by shotgun sequencing helps resolve the phylogeny of a pantropical tree.
Molecular Ecology Resources 14: 966-975. [pdf] [Dryad]
45. Delsuc F., Metcalf J.L., Wegener Parfrey L., Song S.J., Gonzalez A & Knight R. (2014).
Convergence of gut microbiomes in myrmecophagous mammals.
Molecular Ecology 23: 1301-1317. [pdf] [Dryad]
Associated INEE-CNRS prospective article (in french)
2013
44. Botero-Castro F., Tilak M.-K., Justy F., Catzeflis F., Delsuc F. & Douzery E.J.P. (2013).
Next-generation sequencing and phylogenetic signal of mitogenomes for resolving the evolutionary history of leaf-nosed bats (Phyllostomidae).
Molecular Phylogenetics and Evolution 69: 728-739. [pdf]
43. Romiguier J., Ranwez V., Delsuc F., Galtier N. & Douzery E.J.P. (2013).
Less is more in mammalian phylogenomics: AT-rich genes minimize tree conflicts and unravel the root of placental mammals.
Molecular Biology and Evolution 30: 2134-2144. [pdf]
Commentary by Emma Teeling & Blair Hedges in Molecular Biology and Evolution
42. Rubinstein N.D., Feldstein T., Shenkar N., Botero-Castro F., Griggio F., Mastrototaro F., Delsuc F., Douzery E.J.P., Gissi C. & Huchon D. (2013).
Deep sequencing of mixed total DNA without barcodes allows efficient assembly of highly plastic ascidian mitochondrial genomes.
Genome Biology and Evolution 5: 1185-1199. [pdf] [Dryad]
41. Nagy G.N., Marton L., Kramos B., Olah J., Révész A., Vékey K., Delsuc F., Hunyadi-Gulyas E., Medzihradszky K.F., Lavigne M., Vial H., Cerdan R., Vértessy B.G. (2013).
Evolutionary and mechanistic insights into substrate and product accomodation of CTP:phospocholine cytidylyltransferase from Plasmodium falciparum.
FEBS Journal 280: 3132-3148. [pdf]
2011
33. Atyame C.M., Delsuc F., Pasteur N., Weill M. & Duron 0. (2011).
Diversification of Wolbachia endosymbiont in the Culex pipiens mosquito.
Molecular Biology and Evolution 28: 2761-2772. [pdf]
32. Ranwez V., Harispe S., Delsuc F. & Douzery E.J.P. (2011).
MACSE: Multiple Alignment of Coding SEquences accounting for frameshifts and stop codons.
PLoS One 6: e22594. [pdf]
31. Dsouli N., Delsuc F., Michaux J., De Stordeur E., Couloux A., Veuille M. & Duvallet G. (2011).
Phylogenetic analyses of mitochondrial and nuclear data in haematophagous flies support the paraphyly of the genus Stomoxys (Diptera: Muscidae).
Infection, Genetics and Evolution 11: 663-670. [pdf] [Dryad]
2010
30. Denoeud F., Henriet S., Mungpakdee S., Aury J.-M., Da Silva C., Brinkmann H., Mikhaleva J., Olsen L.C., Jubin C., Cañestro C., Bouquet J.-M., Danks G., Poulain J., Campsteijn C., Adamski M., Cross I., Yadetie F., Muffato M., Louis A., Butcher S., Tsagkogeorga G., Singh S., Jensen M.F., Huynh Cong E., Eikeseth-Otteraa H., Noel B., Anthouard V., Porcel-Setterblad B., Kachouri-Lafond R., Nishino A., Ugolini M., Chourrout P., Nishida H., Aasland R., Huzurbazar S., Westhof E., Delsuc F., Lehrach H., Reinhardt R., Weissenbach J., Roy S.W., Artiguenave F., Postlethwait J.H., Manak J.R., Thompson E.M., Jaillon O., Du Pasquier L., Boudinot P., Liberles D.A., Volff J.-N., Philippe H., Lenhard B., Roest Crollius H., Wincker P. & Chourrout D. (2010).
Plasticity of animal genome architecture unmasked by rapid evolution of a pelagic tunicate.
Science 330: 1381-1385. [pdf] [Dryad]
29. Tsagkogeorga G., Turon X., Galtier N., Douzery E.J.P. & Delsuc F. (2010).
Accelerated evolutionary rate of housekeeping genes in tunicates.
Journal of Molecular Evolution 71: 153-167. [pdf] [Dryad]
2009
28. Singh T. R.*, Tsagkogeorga G.*, Delsuc F., Blanquart S., Shenkar N., Loya Y., Douzery E.J.P. &Huchon D. (2009).
Tunicate mitogenomics and phylogenetics: peculiarities of the Herdmania momus mitochondrial genome and support for the new chordate phylogeny.
BMC Genomics 10: 534. [pdf] [Dryad]
27. Tsagkogeorga G., Turon X., Hopcroft R.R., Tilak M.-K., Feldstein T., Shenkar N., Loya Y., Huchon D., Douzery E.J.P. & Delsuc F. (2009).
An updated 18S rRNA phylogeny of tunicates based on mixture and secondary structure models.
BMC Evolutionary Biology 9: 187. [pdf] [Dryad]
26. Ranwez V., Clairon N., Delsuc F., Pourali S., Auberval N., Diser S. & Berry V. (2009).
PhyloExplorer: a web server to validate, explore and query phylogenetic trees.
BMC Evolutionary Biology 9: 108. [pdf]
25. Loughry W.J., Truman R.W., McDonough C.M., Tilak M.-K., Garnier S. & Delsuc F. (2009).
Is leprosy spreading among nine-banded armadillos in the southeastern United States?
Journal of Wildlife Diseases 45: 144-152. [pdf]
2008
24. Delsuc F., Tsagkogeorga G., Lartillot N. & Philippe H. (2008).
Additional molecular support for the new chordate phylogeny.
Genesis 46: 592-604. [pdf] [Dryad]
23. Pantalacci S., Chaumot A., Benoît G., Sadier A., Delsuc F., Douzery E.J.P. & Laudet V. (2008).
Conserved features and evolutionary shifts of the EDA signaling pathway involved in vertebrate skin appendage development.
Molecular Biology and Evolution 25: 912-928. [pdf]
2007
22. Ranwez V., Delsuc F., Ranwez S., Belkhir K., Tilak M.-K. & Douzery E.J.P. (2007).
OrthoMaM: a database of orthologous genomic markers for placental mammal phylogenetics.
BMC Evolutionary Biology 7: 241. [pdf]
21. Möller-Krull M.*, Delsuc F.*, Churakov G., Marker C., Superina M., Brosius J., Douzery E.J.P. & Schmitz J. (2007).
Retroposed elements and their flanking regions resolved the evolutionary history of xenarthran mammals (armadillos, anteaters and sloths).
Molecular Biology and Evolution 24: 2573-2582. [pdf] [Dryad]
20. Delsuc F., Superina M., Ferraris G., Tilak M.-K. & Douzery E.J.P. (2007).
Molecular evidence for hybridization between the two living species of South-American ratites: potential conservation implications.
Conservation Genetics 8: 503-507. [pdf]
19. Slack K.E., Delsuc F., McLenachan P.A., Arnason U. & Penny D. (2007).
Resolving the root of the avian mitogenomic tree by breaking up long branches.
Molecular Phylogenetics and Evolution 42: 1-13. [pdf]
2006
18. Chourrout D., Delsuc F., Chourrout P., Edvardsen R.B., Rentzsch F., Renfer E., Jensen M.F., Zhu B., de Jong P., Steele R.E. & Technau U. (2006).
Minimal ProtoHox cluster inferred from bilaterian and cnidarian Hox complements.
Nature 442: 684-687. [pdf] [Dryad]
Developmental Biology Select article by Priya Prakash Budde in Cell
17. Jeffroy O., Brinkmann H., Delsuc F. & Philippe H. (2006).
Phylogenomics: the beginning of incongruence?
Trends in Genetics 22: 225-231. [pdf]
16. Delsuc F., Brinkmann H., Chourrout D. & Philippe H. (2006).
Tunicates and not cephalochordates are the closest living relatives of vertebrates.
Nature 439: 965-968. [pdf] [Dryad]
News and Views article by Henry Gee in Nature
News and Views article by Peter Holland in Heredity
News article by Stéphanie Belaud in Le Journal du CNRS (in french)
Hot Paper in Phylogeny article by Jonathan Scheff in The Scientist
2005
15. Philippe H., Brinkmann H., Zhou Y., Rodrigue N. & Delsuc F. (2005).
Heterotachy and long-branch attraction in phylogenetics.
BMC Evolutionary Biology 5: 50. [pdf]
14. Philippe H., Delsuc F., Brinkmann H. & Lartillot N. (2005).
Phylogenomics.
Annual Review of Ecology, Evolution and Systematics 36: 541-562. [pdf]
13. Delsuc F., Brinkmann H. & Philippe H. (2005).
Phylogenomics and the reconstruction of the tree of life.
Nature Reviews Genetics 6: 361-375. [pdf]
12. Holland B.R., Delsuc F. & Moulton V. (2005).
Visualizing conflicting evolutionary hypotheses in large collections of trees: using consensus networks to study the origins of placentals and hexapods.
Systematic Biology 54: 1-11. [pdf]
11. Knapp M., Stöckler K., Havell D., Delsuc F., Sebastiani F. & Lockhart P.J. (2005).
Relaxed molecular clock provides evidence for long-distance dispersal of Nothofagus (southern beech).
PLoS Biology 3: e14. [pdf]
Read the associated synopsis in PLoS Biology
2004
10. Douzery E.J.P., Snell E.A., Bapteste E., Delsuc F. & Philippe H. (2004).
The timing of eukaryotic evolution: does a relaxed molecular clock reconcile proteins and fossils?
Proceedings of the National Academy of Sciences of the USA 101: 15386-15391. [pdf] [Dryad]
Commentary by Cranston & Rannala in Heredity
09. Phillips M.J., Delsuc F. & Penny D. (2004).
Genome-scale phylogeny and the detection of systematic biases.
Molecular Biology and Evolution 21: 1455-1458. [pdf]
08. Delsuc F., Vizcaíno S.F. & Douzery E.J.P. (2004).
Influence of Tertiary paleoenvironnemental changes on the diversification of South American mammals: a relaxed molecular clock study within xenarthrans.
BMC Evolutionary Biology 4: 11. [pdf] [Dryad]
2003
07. Delsuc F., Phillips M.J. & Penny D. (2003).
Comment on "Hexapod origins: monophyletic or paraphyletic?".
Science 301: 1482d. [pdf]
06. Douzery E.J.P., Delsuc F., Stanhope M.J. & Huchon D. (2003).
Local molecular clocks in three nuclear genes: divergence times for rodents and other mammals, and incompatibility among fossil calibrations.
Journal of Molecular Evolution 57: S201-S213. [pdf] [Dryad]
05. Delsuc F., Stanhope M.J. & Douzery E.J.P. (2003).
Molecular systematics of armadillos (Xenarthra, Dasypodidae): contribution of maximum likelihood and Bayesian analyses of mitochondrial and nuclear genes.
Molecular Phylogenetics and Evolution 28: 261-275. [pdf] [Dryad]
04. Douady C.J., Delsuc F., Boucher Y., Doolittle W.F. & Douzery E.J.P. (2003).
Comparison of Bayesian and maximum likelihood bootstrap measures of phylogenetic reliability.
Molecular Biology and Evolution 20: 248-254. [pdf]
2002
03. Delsuc F., Scally M., Madsen O., Stanhope M.J., de Jong W.W., Catzeflis F.M., Springer M.S. & Douzery E.J.P. (2002).
Molecular phylogeny of living xenarthrans and the impact of character and taxon sampling on the placental tree rooting.
Molecular Biology and Evolution 19: 1656-1671. [pdf] [Dryad]
2001
02. Delsuc F., Catzeflis F.M., Stanhope M.J. & Douzery E.J.P. (2001).
The evolution of armadillos, anteaters, and sloths depicted by nuclear and mitochondrial phylogenies: implications for the status of the enigmatic fossil Eurotamandua.
Proceedings of the Royal Society of London, Biological Sciences 268: 1605-1615. [pdf]
1999
01. Huchon D.*, Delsuc F.*, Catzeflis F.M. & Douzery E.J.P. (1999). *Equal contribution.
Armadillos exhibit less genetic polymorphism in North America than in South America: nuclear and mitochondrial data confirm a founder effect in Dasypus novemcinctus (Xenarthra).
Molecular Ecology 8: 1743-1748. [pdf]
Books
2020
01. Scornavacca C., Delsuc F. & Galtier N. (2020).
Phylogenetics in the genomic era.
No Commercial Publisher, Authors Open Access Book, 563 pages. [pdf]
Book Chapters
2021
11. Ranwez V., Chantret N., Delsuc F. (2021).
Aligning Protein-Coding Nucleotide Sequences with MACSE.
In "Methods in Molecular Biology Vol. 2231: Multiple Sequence Alignment. Humana, New York, NY. [pdf]
2020
10. Delsuc F. & Ranwez V. (2020).
Accurate alignment of (meta)barcoding datasets using MACSE.
In "Phylogenetics in the Genomic Era" edited by C. Scornavacca, F. Delsuc, N. Galtier, No Commercial Publisher, Authors Open Access Book, pp. 2.3:1-2.3:31. [pdf]
09. Simion P., Delsuc F. & Philippe H. (2020).
To what extent current limits of phylogenomics can be overcome?
In "Phylogenetics in the Genomic Era" edited par C. Scornavacca, F. Delsuc, N. Galtier, No Commercial Publisher, Authors Open Access Book, pp. 2.1:1-2.1:34. [pdf]
2019
08. Delsuc F. & Thompson L.R. (2019).
Chapitre 23 : Un inventaire de la diversité microbienne de la Terre.
Pp 92-95. Dans 101 Secrets du Vivant: l’ADN des écosystèmes sous la direction de D. Faure, D. Joly & S. Salamitou. CNRS Editions, Paris, France.
2016
07. Pompanon F., Samadi S., Debruyne R., Delsuc F., Lavergne S., Pante E., Puillandre N., Rasplus J.-Y. & Taberlet P. (2016).
Chapitre 6 : Caractériser la biodiversité.
Pp. 77-87. Dans La Génomique Environnementale : La Révolution du Séquençage à Haut Débit sous la direction de D. Faure & D. Joly. ISTE Editions, London, UK.
2015
06. Delsuc F., Dedeine F. & Vandenkoornhuyse P. (2015).
Focus: Dis moi ton microbiote et je te dirai ce que tu manges.
Pp. 108-109. Dans Empreinte du vivant : l'ADN de l'environnement édité par D. Joly, D. Faure & S. Salamitou. Le Cherche Midi, Paris, France.
2010
05. Raymond M., Godelle B., Alizon S., Bourguet D., Caillau D., Couvet D., David J., David P. Debussche M., Delsuc F., Douzery E.J.P., Machon N., Pascal R., Robert A., Ronfort J., Sarrazin F., Schoenaeur M., Tenaillon O., Theodorou K. & Thompson J. (2010).
Chapitre 19 : Applications de la biologie évolutive.
Pp. 749-788. Dans Biologie Evolutive édité par F. Thomas, T. Lefèvre & M. Raymond. De Boek Université, Bruxelles, Belgique.
04. Douzery E.JP., Blanquart S., Criscuolo A., Delsuc F., Douady C., Lartillot N., Philippe H. & Ranwez V. (2010).
Chapitre 6 : Phylogénie moléculaire.
Pp. 183-244. Dans Biologie Evolutive édité par F. Thomas, T. Lefèvre & M. Raymond. De Boek Université, Bruxelles, Belgique.
2009
03. Guindon S., Delsuc F., Dufayard J.-F. & Gascuel O. (2009).
Estimating maximum likelihood phylogenies with PhyML.
Chapter 6. Pp. 113-137. In Methods in Molecular Biology Vol. 537: Bioinformatics for DNA sequence Analysis edited by D. Posada. Humana Press, Totowa, NJ. [pdf]
02. Delsuc F. & Douzery E.J.P. (2009).
Armadillos, anteaters and sloths (Xenarthra).
Chapter 72. Pp. 475-478. In The Timetree of Life edited by S.B. Hedges & S. Kumar. Oxford University Press, London, UK. [pdf]
2008
01. Delsuc F. & Douzery E.J.P. (2008).
Recent advances and future prospects in xenarthran molecular phylogenetics.
Pp. 11-23. In The Biology of the Xenarthra edited by S.F. Vizcaíno & W.J. Loughry. University Press of Florida, Gainesville, FL. [pdf]
Book review by Bruce J. Shockey in Journal of Mammalian Evolution
Other Publications
2022
13. Delsuc F. (2022).
Making sense of vertebrate sirtuin genes.
PCI Evolutionary Biology 100151. [pdf]
2020
12. Fabre P.-H., Delsuc F., Münch P. (2020).
Les insulaires des Antilles.
Espèces 35:42-48. [pdf]
2015
11. Delsuc F. (2015).
Flawed evidence for convergent evolution of the circadian CLOCK gene in mole-rats.
BioRxiv doi: http://dx.doi.org/10.1101/022004. [pdf]
2011
10. Theulier Saint-Germain S., Beaumes V., Lallement J.-C. & Delsuc F. (2011).
Quand l'évolution se prête au jeu...
La Lettre de l'OCIM 136: 14-20. [pdf]
2010
09. Douzery E.J.P. & Delsuc F. (2010).
Les horloges de l'évolution.
Pour La Science 397: 102-107. [pdf]
2007
08. Pantalacci S., Chaumot A., Delsuc F., Sadier A., Douzery E.J.P. & Laudet V. (2007).
Evolution of the EDA pathway in vertebrates: a step towards tooth "Evo-Devo studies".
European Cells and Materials 14 suppl. 2: 118 [Meeting-Abstract]. [pdf]
07. Delsuc F., Superina M., Tilak M.-K., Douzery E.J.P. & Hassanin A. (2007).
Advances in molecular and phylogenetic studies of Xenarthra.
Journal of Morphology 268: 1066 [ICVM8-Abstract]. [pdf]
2006
06. Delsuc F., Baurain D. & Philippe H. (2006).
Origine des Vertébrés : la tunique fait-elle le moine ? [Vertebrate origin: does the tunic make the man?]
Médecine/Sciences 22: 688-690. [pdf]
2005
05. Douzery E.J.P., Delsuc F. & Philippe H. (2005).
Les datations moléculaires à l’heure de la génomique. [Molecular dating in the genomic era.]
Médecine/Sciences 22: 374-380. [pdf]
2004
04. Delsuc F. & Douzery E.J.P. (2004).
Les méthodes probabilistes en phylogénie moléculaire. (2) L’approche Bayésienne.
Biosystema : « Avenir et pertinence des méthodes d’analyses en phylogénie moléculaire »22: 75-86. [pdf]
03. Delsuc F. & Douzery E.J.P. (2004).
Les méthodes probabilistes en phylogénie moléculaire. (1) Les modèles d’évolution des séquences et le maximum de vraisemblance.
Biosystema : « Avenir et pertinence des méthodes d’analyses en phylogénie moléculaire »22: 59-74. [pdf]
2003
02. Delsuc F. (2003).
Army ants trapped by their evolutionary history.
PLoS Biology 1: e37. [pdf]
01. Delsuc F., Mauffrey J.-F. & Douzery E.J.P. (2003).
Une nouvelle classification des Mammifères.
Pour La Science 303: 62-66. [pdf]
Theses
Theses
04. Delsuc F. (2016).
Phylogénomique : la reconstruction phylogénétique et ses applications à l'ère de la génomique.
Mémoire d'Habilitation à Diriger des Recherches, Université de Montpellier. [HDR Thesis]
03. Delsuc F. (2002).
Phylogénie moléculaire des Xénarthres (tatous, fourmiliers et paresseux) : application des méthodes probabilistes à la reconstruction de leur histoire évolutive au sein des Mammifères placentaires.
Thèse de Doctorat, Université Montpellier 2. [PhD Thesis]
02. Delsuc F. (1999).
Apports des phylogénies mitochondriales et nucléaires à la systématique et à la biogéographie des tatous, fourmiliers et paresseux (Mammalia, Xenarthra).
Mémoire de DEA Biologie de l'Evolution et Ecologie, Université Montpellier 2. [Master Thesis]
01. Delsuc F. (1998).
Etude de la région de contrôle de l’ADN mitochondrial du tatou à neuf bandes (Dasypus novemcinctus) : confirmation d’une perte de polymorphisme lors de la colonisation de l’Amérique du Nord.
Mémoire de Maîtrise Biologie des Populations et Ecosystèmes, Université Montpellier 2.
Reviewing Activities
Reviewer for the following Journals and Agencies [number of manuscripts/projects]:
Journals
Molecular Biology and Evolution [12]
Systematic Biology [10]
Molecular Phylogenetics and Evolution [8]
BMC Evolutionary Biology [6]
European Journal of Taxonomy [4]
Nature [2]
Science Advances [2]
Current Biology [2]
Nuclear Acids Research [2]
Biology Letters [2]
Mammalia [2]
Molecular Ecology [1]
PLoS Genetics [1]
Genome Biology [1]
Genome Biology and Evolution [1]
Proceedings of the Royal Society of London Biological Sciences [1]
Philosophical Transactions of the Royal Society of London Biological Sciences [1]Heredity [1]
Environnemental Microbiology [1]
Zoologica Scripta [1]
Journal of Molecular Evolution [1]
Systematics and Biodiversity [1]
BMC Genetics [1]
PLoS One [1]
Chromosome Research [1]
Genomics [1]
GigaScience [1]
Comparative and Functional Genomics [1]
Edentata [1]
Senckenbergiana Biologica [1]
Zootaxa [1]
Research Agencies
Belgian National Science Foundation (FNRS) [15]
Center for the Study of Amazonian Biodiversity (CEBA) [4]
European Research Council (ERC) [2]
US National Science Foundation (NSF) [2]
French National Research Agency (ANR) [1]
French Foundation for Biodiversity Research (FRB) [1]
German Research Foundation (DFG) [1]
Swiss National Science Foundation (SNSF) [1]
Natural Sciences and Engineering Research Council of Canada (NSERC) [1]