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Dr Ludovic Dutoit

Email: ludovic.dutoit@otago.ac.nz

Ldutoit_small

Phone: +64 03 479 7984

Website: https://ldutoit.github.io/

Google Scholar profile

Teaching

I am also an organiser of data analysis workshops such as:

Research Interests

I have a range of research interests within evolutionary genomics. I am using eDNA, transcriptomics and population genomics tools to approach research question in Ecology and Evolution. I have specific interests in understanding genomic signatures of sexual conflict, the speciation process and the evolutionary forces shaping genomic shaping both fundamentally and in the context of conservation biology.

Prospective Students

I am always happy to discuss research opportunities with prospective students. I have a wide range of projects available, ranging from summer projects to PhD.

Research highlights and news

Postdoctoral and postgraduate students

Postgraduate students

  • Sam Prystupa, MSc - Evolutionary Genomics of the pied currawong (Strepera graculina)
  • Aimee Stubbs, MSc - Population of captive and wild Kea (Nestor notabilis)

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Publications

Fraser, C. I., Dutoit, L., Morrison, A. K., Pardo, L. M., Smith, S. D. A., Pearman, W. S., Parvizi, E., Waters, J., & Macaya, E. C. (2022). Southern hemisphere coasts are biologically connected by frequent, long-distance rafting events. Current Biology. Advance online publication. doi: 10.1016/j.cub.2022.05.035

McCulloch, G. A., Dutoit, L., Craw, D., Kroos, G. C., & Waters, J. M. (2022). Genomics reveals exceptional phylogenetic diversity within a narrow-range flightless insect. Insect Systematics & Diversity, 6(2), 5. doi: 10.1093/isd/ixac009

Rawlence, N. J., Salis, A. T., Spencer, H. G., Waters, J. M., Scarsbrook, L., Mitchell, K. J., … Dutoit, L., King, T. M., … Kennedy, M. (2022). Rapid radiation of Southern Ocean shags in response to receding sea ice. Journal of Biogeography. Advance online publication. doi: 10.1111/jbi.14360

Grosser, S., Dutoit, L., Foster, Y., Robertson, F., Fidler, A. E., Martini, D., Knapp, M., & Robertson, B. C. (2022). Genomic evidence of a functional RH2 opsin in New Zealand parrots and implications for pest control. New Zealand Journal of Zoology. Advance online publication. doi: 10.1080/03014223.2022.2053554

Babio, L., Lokman, P. M., Damsteegt, E. L., & Dutoit, L. (2022). Are cell junctions implicated in the regulation of vitellogenin uptake? Insights from an RNAseq-based study in eel, Anguilla australis. Cells, 11, 550. doi: 10.3390/cells11030550

Babio, L., Lokman, P. M., Damsteegt, E. L., & Dutoit, L. (2022). Are cell junctions implicated in the regulation of vitellogenin uptake? Insights from an RNAseq-based study in eel, Anguilla australis. Cells, 11, 550. doi: 10.3390/cells11030550

Journal - Research Article

Fraser, C. I., Dutoit, L., Morrison, A. K., Pardo, L. M., Smith, S. D. A., Pearman, W. S., Parvizi, E., Waters, J., & Macaya, E. C. (2022). Southern hemisphere coasts are biologically connected by frequent, long-distance rafting events. Current Biology. Advance online publication. doi: 10.1016/j.cub.2022.05.035

Journal - Research Article

Grosser, S., Dutoit, L., Foster, Y., Robertson, F., Fidler, A. E., Martini, D., Knapp, M., & Robertson, B. C. (2022). Genomic evidence of a functional RH2 opsin in New Zealand parrots and implications for pest control. New Zealand Journal of Zoology. Advance online publication. doi: 10.1080/03014223.2022.2053554

Journal - Research Article

McCulloch, G. A., Dutoit, L., Craw, D., Kroos, G. C., & Waters, J. M. (2022). Genomics reveals exceptional phylogenetic diversity within a narrow-range flightless insect. Insect Systematics & Diversity, 6(2), 5. doi: 10.1093/isd/ixac009

Journal - Research Article

Parvizi, E., Dutoit, L., Fraser, C. I., Craw, D., & Waters, J. M. (2022). Concordant phylogeographic responses to large-scale coastal disturbance in intertidal macroalgae and their epibiota. Molecular Ecology, 31, 646-657. doi: 10.1111/mec.16245

Journal - Research Article

Perry, B. J., Mohammadi Darestani, M., Ara, M. G., Hoste, A., Jandt, J. M., Dutoit, L., … Ingram, T., & Geoghegan, J. L. (2022). Viromes of freshwater fish with lacustrine and diadromous life histories differ in composition. Viruses, 14(2), 257. doi: 10.3390/v14020257

Journal - Research Article

Rawlence, N. J., Salis, A. T., Spencer, H. G., Waters, J. M., Scarsbrook, L., Mitchell, K. J., … Dutoit, L., King, T. M., … Kennedy, M. (2022). Rapid radiation of Southern Ocean shags in response to receding sea ice. Journal of Biogeography. Advance online publication. doi: 10.1111/jbi.14360

Journal - Research Article

Foster, Y., Dutoit, L., Grosser, S., Dussex, N., Foster, B. J., Dodds, K. G., … Robertson, F., … Robertson, B. C. (2021). Genomic signatures of inbreeding in a critically endangered parrot, the kākāpō. Genes Genomes Genetics. Advance online publication. doi: 10.1093/g3journal/jkab307

Journal - Research Article

McCulloch, G. A., Foster, B. J., Dutoit, L., Harrop, T. W. R., Guhlin, J., Dearden, P. K., & Waters, J. M. (2021). Genomics reveals widespread ecological speciation in flightless insects. Systematic Biology, 70(5), 863-876. doi: 10.1093/sysbio/syaa094

Journal - Research Article

McCulloch, G. A., Guhlin, J., Dutoit, L., Harrop, T. W. R., Dearden, P. K., & Waters, J. M. (2021). Genomic signatures of parallel alpine adaptation in recently-evolved flightless insects. Molecular Ecology. Advance online publication. doi: 10.1111/mec.16204

Journal - Research Article

McCulloch, G. A., Madeira, P. T., Makinson, J. R., Dutoit, L., Blair, Z., Walter, G. H., … Purcell, M. F. (2021). Phylogenomics resolves the invasion history of Acacia auriculiformis in Florida. Journal of Biogeography, 48, 453-464. doi: 10.1111/jbi.14013

Journal - Research Article

Nadachowska-Brzyska, K., Dutoit, L., Smeds, L., Kardos, M., Gustafsson, L., & Ellegren, H. (2021). Genomic inference of contemporary effective population size in a large island population of collared flycatchers (Ficedula albicollis). Molecular Ecology. Advance online publication. doi: 10.1111/mec.16025

Journal - Research Article

Donald, K. M., McCulloch, G. A., Dutoit, L., & Spencer, H. G. (2020). Population structure of the New Zealand whelk, Cominella glandiformis (Gastropoda: Buccinidae), suggests sporadic dispersal of a direct developer. Biological Journal of the Linnean Society, 130, 49-60. doi: 10.1093/biolinnean/blaa033

Journal - Research Article

Ingram, T., Dutoit, L., Mikheev, P., Khan, S., & Schallenberg, M. (2020). Phenotypic, ecological and genomic variation in common bully (Gobiomorphus cotidianus) populations along depth gradients in New Zealand's Southern Great Lakes. Canadian Journal of Fisheries & Aquatic Sciences, 77(10), 1678-1687. doi: 10.1139/cjfas-2020-0015

Journal - Research Article

Mugal, C. F., Wang, M., Backström, N., Wheatcroft, D., Ålund, M., Sémon, N., … Dutoit, L., … Ellegren, H. (2020). Tissue-specific patterns of regulatory changes underlying gene expression differences among Ficedula flycatchers and their naturally occurring F1 hybrids. Genome Research, 31(12), 1727-1739. doi: 10.1101/gr.254508.119

Journal - Research Article

Padovan, A., Chick, R. C., Cole, V. J., Dutoit, L., Hutchings, P. A., Jack, C., & Fraser, C. I. (2020). Genomic analyses suggest strong population connectivity over large spatial scales of the commercially important baitworm, Australonuphis teres (Onuphidae). Marine & Freshwater Research, 71(11), 1549-1556. doi: 10.1071/MF20044

Journal - Research Article

Parvizi, E., Fraser, C. I., Dutoit, L., Craw, D., & Waters, J. M. (2020). The genomic footprint of coastal earthquake uplift. Proceedings of the Royal Society of London: Series B, 287, 20200712. doi: 10.1098/rspb.2020.0712

Journal - Research Article

Peters, J. C., Waters, J. M., Dutoit, L., & Fraser, C. I. (2020). SNP analyses reveal a diverse pool of potential colonists to earthquake-uplifted coastlines. Molecular Ecology, 29, 149-159. doi: 10.1111/mec.15303

Journal - Research Article

Ruzicka, F., Dutoit, L., Czuppon, P., Jordan, C. Y., Li, X.-Y., Olito, C., … Connallon, T. (2020). The search for sexually antagonistic genes: Practical insights from studies of local adaptation and statistical genomics. Evolution Letters, 4(5), 398-415. doi: 10.1002/evl3.192

Journal - Research Article

Young, M. J., Dutoit, L., Robertson, F., van Heezik, Y., Seddon, P. J., & Robertson, B. C. (2020). Species in the faeces: DNA metabarcoding as a method to determine the diet of the endangered yellow-eyed penguin. Wildlife Research, 47(6), 509-522. doi: 10.1071/wr19246

Journal - Research Article

Cole, T. L., Dutoit, L., Dussex, N., Hart, T., Alexander, A., Younger, J. L., … Ellenberg, U., … Mattern, T., … Waters, J. M. (2019). Receding ice drove parallel expansions in Southern Ocean penguins. PNAS, 116(52), 26690-26696. doi: 10.1073/pnas.1904048116

Journal - Research Article

McCulloch, G. A., Foster, B. J., Dutoit, L., Ingram, T., Hay, E., Veale, A. J., Dearden, P. K., & Waters, J. M. (2019). Ecological gradients drive insect wing loss and speciation: The role of the alpine treeline. Molecular Ecology, 28, 3141-3150. doi: 10.1111/mec.15114

Journal - Research Article

Rexer-Huber, K., Veale, A. J., Catry, P., Cherel, Y., Dutoit, L., Foster, Y., … Waters, J., & Robertson, B. C. (2019). Genomics detects population structure within and between ocean basins in a circumpolar seabird: The white-chinned petrel. Molecular Ecology, 28, 4552-4572. doi: 10.1111/mec.15248

Journal - Research Article

Bolívar, P., Mugal, C. F., Rossi, M., Nater, A., Wang, M., Dutoit, L., & Ellegren, H. (2018). Biased inference of selection due to GC-biased gene conversion and the rate of protein evolution in flycatchers when accounting for it. Molecular Biology & Evolution, 35(10), 2475-2486. doi: 10.1093/molbev/msy149

Journal - Research Article

Connallon, T., Olito, C., Dutoit, L., Papoli, H., Ruzicka, F., & Yong, L. (2018). Local adaptation and the evolution of inversions on sex chromosomes and autosomes. Philosophical Transactions of the Royal Society B, 373(1757), 20170423. doi: 10.1098/rstb.2017.0423

Journal - Research Article

Dutoit, L., Mugal, C. F., Bolívar, P., Wang, M., Nadachowska-Brzyska, K., Smeds, L., … Ellegren, H. (2018). Sex‐biased gene expression, sexual antagonism and levels of genetic diversity in the collared flycatcher (Ficedula albicollis) genome. Molecular Ecology, 27(18), 3572-3581. doi: 10.1111/mec.14789

Journal - Research Article

Dutoit, L., Burri, R., Nater, A., Mugal, C. F., & Ellegren, H. (2017). Genomic distribution and estimation of nucleotide diversity in natural populations: Perspectives from the collared flycatcher (Ficedula albicollis) genome. Molecular Ecology Resources, 17(4), 586-597. doi: 10.1111/1755-0998.12602

Journal - Research Article

Dutoit, L., Vijay, N., Mugal, C. F., Bossu, C. M., Burri, R., Wolf, J., & Ellegren, H. (2017). Covariation in levels of nucleotide diversity in homologous regions of the avian genome long after completion of lineage sorting. Proceedings of the Royal Society B, 284(1849), 20162756. doi: 10.1098/rspb.2016.2756

Journal - Research Article

Uebbing, S., Künstner, A., Mäkinen, H., Backström, N., Bolivar, P., Burri, R., Dutoit, L., … Ellegren, H. (2016). Divergence in gene expression within and between two closely related flycatcher species. Molecular Ecology, 25(9), 2015-2028. doi: 10.1111/mec.13596

Journal - Research Article

Burri, R., Nater, A., Kawakami, T., Mugal, C. F., Olason, P. I., Smeds, L., … Dutoit, L., … Ellegren, H. (2015). Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers. Genome Research, 25(11), 1656-1665. doi: 10.1101/gr.196485.115

Journal - Research Article

Witsenburg, F., Clément, L., López-Baucells, A., Palmeirim, J., Pavlinić, I., Scaravelli, D., … Dutoit, L., … Christe, P. (2015). How a haemosporidian parasite of bats gets around: The genetic structure of a parasite, vector and host compared. Molecular Ecology, 24(4), 926-940. doi: 10.1111/mec.13071

Journal - Research Article

Alexander, A., & Dutoit, L. (2020). Roe deer on ice: Selection despite limited effective population size through the Pleistocene. Molecular Ecology, 29, 2765-2767. doi: 10.1111/mec.15511

Journal - Research Other

Cadzow, M., Dutoit, L., Senanayake, D., Bixley, M., & Faya, N. (2021). Otago bioinformatics spring school. Proceedings of the eResearch NZ Conference. (pp. 18-19). Retrieved from https://www.eresearchnz2021.org.nz

Conference Contribution - Published proceedings: Abstract

Eda, A. R. A., Centeno, F., Bishop, P., Godfrey, S., Dutoit, L., Rand, C., Easton, L., & Stanton, J. (2021). Evaluation of DNA extraction kits for examining skin microbial composition of New Zealand native frog. Proceedings of the University of Otago Student Research Symposium: Te Wānaka Rakahau: Ākoka. (pp. 26). [Abstract]

Conference Contribution - Published proceedings: Abstract

Stubbs, A., Dutoit, L., Foster, Y., Robertson, F., Van Stijn, T., & Robertson, B. (2021). Genetics to inform conservation management of kea (Nestor notabilis) in New Zealand. Proceedings of the University of Otago Student Research Symposium: Te Wānaka Rakahau: Ākoka. (pp. 58). [Abstract]

Conference Contribution - Published proceedings: Abstract

Ragsdale, A. K., Dutoit, L., Besson, A. A., King, T., Gemmell, N. J., Hore, T., & Johnson, S. L. (2020). Paternal hypoxia exposure primes offspring for increased hypoxia resistance. Integrative & Comparative Biology, 60(Suppl. 1), (pp. E192). doi: 10.1093/icb/icaa006

Conference Contribution - Published proceedings: Abstract

Cole, T. L., Dutoit, L., Dussex, N., Hart, T., Alexander, A., Frugone, M. J., … Ellenberg, U., … Mattern, T., … Waters, J. M. (2019). Contrasting demographic histories between widespread and endemic penguin taxa. Proceedings of the 10th International Penguin Conference (IPC10). (pp. 39-40). Retrieved from https://www.penguin-conference.com

Conference Contribution - Published proceedings: Abstract

Cole, T., Dutoit, L., Dussex, N., Hart, T., Alexander, A., Frugone, M. J., … Ellenberg, U., … Mattern, T., … Waters, J. (2019). Receding ice drove rapid expansions in eight Southern Ocean penguins. Proceedings of the Genetics Society of Australasia (GSA) Conference. Retrieved from https://event.crowdcompass.com/gsa2019

Conference Contribution - Published proceedings: Abstract

Foster, Y. A. L., Dutoit, L., & Robertson, B. C. (2019). Genomic architecture of inbreeding in all living adults of the critically endangered kākāpō parrot (Strigops habroptilus). Proceedings of the Genetics Society of Australasia (GSA) Conference. Retrieved from https://event.crowdcompass.com/gsa2019

Conference Contribution - Published proceedings: Abstract

Ragsdale, A., Dutoit, L., Chia, J., Gemmell, N., & Johnson, S. (2019). It's in your head: How echoes of the past shape future progeny. Proceedings of the Genetics Society of Australasia (GSA) Conference. Retrieved from https://event.crowdcompass.com/gsa2019

Conference Contribution - Published proceedings: Abstract

Young, M. J., Robertson, F., Dutoit, L., Mattern, T., Seddon, P. J., Robertson, B. C., & van Heezik, Y. (2019). Evidence for declining diet quality of mainland yellow-eyed penguins (Megadyptes antipodes): Is this their final dive? Proceedings of the 10th International Penguin Conference (IPC10). (pp. 73). Retrieved from https://www.penguin-conference.com

Conference Contribution - Published proceedings: Abstract

Dutoit, L. (2016). Co-variation in levels of nucleotide diversity in the avian genome long after completion of lineage sorting. Proceedings of the 22nd European Annual Meeting for PhD Students in Evolutionary Biology (EMPSEB 22). (pp. 37). Retrieved from https://empseb22dotorg.wordpress.com

Conference Contribution - Published proceedings: Abstract

Dutoit, L. (2015, June). Guidelines for samping of genetic diversity based on whole-genome re-sequencing data from collared flycatchers (Ficedula albicollis). Poster session presented at the Evolution, Guarujá, Brazil.

Conference Contribution - Poster Presentation (not in published proceedings)

Dutoit, L., Vijay, N., Kawakami, T., Burri, R., Wolf, J., & Ellegren, H. (2014, January). Conservation of local levels of genetic diversity between two distantly related bird species. Poster session presented at the 47th Population Genetics Group Annual Meeting (PopGroup 47), Bath, UK.

Conference Contribution - Poster Presentation (not in published proceedings)

Dutoit, L., Vijay, N., Mugal, C. F., Bossu, C. M., Burri, R., Wolf, J., & Ellegren, H. (2017, January). Co-variation in levels of nucleotide diversity in homologous regions of the avian genome long after completion of lineage sorting. Verbal presentation at the 50th Population Genetics Group Annual Meeting (PopGroup 50), Cambridge, UK.

Conference Contribution - Verbal presentation and other Conference outputs

Dutoit, L. (2015, September). Conservation of the genetic diversity landscape across two distantly related passerine species. Verbal presentation at the 21st European Annual Meeting for PhD Students in Evolutionary Biology (EMPSEB 21), Stirling, UK.

Conference Contribution - Verbal presentation and other Conference outputs

Dutoit, L. (2017). Determinants of genomic diversity in the collared flycatcher (Ficedula albicollis) (PhD). Uppsala University, Uppsala, Sweden. Retrieved from http://uu.diva-portal.org/smash/record.jsf?pid=diva2%3A1150692&dswid=7366

Awarded Doctoral Degree

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