Publications

Manthey Google Scholar Profile
Data used in publications

  1. Hruska JP & Manthey JD. 2021. De Novo assembly of a chromosome-scale reference genome for the Northern Flicker Colaptes auratus. G3 Genes | Genomes | Genetics 11 (1): 1-7. [link]
  2. Campillo LC, Manthey JD, RC Thomson, PA Hosner, & Moyle RG. 2020. Genomic differentiation in an endemic Philippine genus (Aves: Sarcophanops) owing to geographical isolation on recently disassociated islands. Biological Journal of the Linnean Society 131 (4): 814-821 [link]
  3. Manthey JD, Oliveros CH, Andersen MJ, Filardi CE & Moyle RG. 2020. Gene flow and rapid differentiation characterize a rapid insular radiation in the southwest Pacific (Aves: Zosterops). Evolution doi: 10.1111/evo.14043 [link]
  4. Salter JF, Oliveros CH, Hosner PA, Manthey JD, Robbins MB, Moyle RG, Brumfield RT & Faircloth BC. 2020. Extensive paraphyly in the typical owl family (Strigidae). The Auk: Ornithological Advances ukz070 [link]
  5. Campillo LC, Burns KJ, Moyle RG & Manthey JD. 2019. Mitochondrial genomes of the bird genus Piranga: rates of sequence evolution, and discordance between mitochondrial and nuclear markers. Mitochondrial DNA Part B 4: 2566–2569. [link]
  6. Bourgeois Y, Ruggiero RP, Manthey JD & Boissinot S. 2019. Recent secondary contacts, linked selection and variable recombination rates shape genomic diversity in the model species Anolis carolinensis. Genome Biology and Evolution 11: 2009-2022. [link]
  7. Manthey JD, Boissinot S & Moyle RG. 2019. Biodiversity genomics of North American Dryobates woodpeckers reveals little gene flow across the D. nuttallii X D. scalaris contact zone. The Auk: Ornithological Advances doi.org/10.1093/auk/ukz015 [link]
  8. Boissinot S, Bourgeois Y, Manthey JD & Ruggiero RP. 2019. The mobilome of reptiles: evolution, structure, function. Cytogenetics and Genome Research 157: 21-33. [link]
  9. Manthey JD, Moyle RG & Boissinot S. 2018. Multiple and independent phases of transposable element amplification in the genomes of Piciformes (woodpeckers and allies). Genome Biology and Evolution 10: 1445-1456. [link]
  10. Reyes-Velasco J, Manthey JD, Freilich X & Boissinot S. 2018. Diversification of African tree frogs (Genus Leptopelis) in the Highlands of Ethiopia. Molecular Ecology 27: 2256-2270. [link]
  11. Reyes-Velasco J, Manthey JD, Bourgeois Y, Freilich X & Boissinot S. 2018. Revisiting the phylogeography, demography and taxonomy of the frog genus Ptychadena in the Ethiopian Highlands with the use of genome-wide SNP data. PLoS One. [link]
  12. Andersen MJ, Manthey JD, Naikatini A & Moyle RG. 2017. Conservation genomics of the silktail (Aves: Lamprolia victoriae) suggests the need for increased protection of native forest on the Natewa Peninsula, Fiji. Conservation Genetics 18: 1277-1285. [link]
  13. Manthey JD, Reyes-Velasco J, Freilich X & Boissinot S. 2017. Diversification in a biodiversity hotspot: genomic variation in the river frog Amietia nutti across the Ethiopian Highlands. Biological Journal of the Linnean Society 122: 801-813. [link]
  14. Manthey JD, Moyle RG, Gawin DF, Rahman MA, Ramji MFS & Sheldon FH. 2017. Genomic phylogeography of the endemic Mountain Blackeye of Borneo (Chlorocharis emiliae): montane and lowland populations differ in patterns of Pleistocene diversification. Journal of Biogeography 44: 2272-2283. [link]
  15. Moyle RG, Manthey JD, Hosner PA, Rahman M, Lakim M & Sheldon FH. 2017. A genome wide assessment of stages of elevational parapatry in Bornean passerine birds reveals no introgression: implications for processes and pattern of speciation. PeerJ 5: e3335. [link]
  16. Manthey JD, Geiger M & Moyle RG. 2017. Relationships of morphological groups in the northern flicker superspecies complex (Colaptes auratus & C. chrysoides). Systematics and Biodiversity 15: 183-191. [link]
  17. Manthey JD, Tollis M, Lemmon AR, Lemmon EM & Boissinot S. 2016. Diversification in wild populations of the model organism Anolis carolinensis: a genome-wide phylogeographic investigation. Ecology and Evolution 6: 8115-8125. [link]
  18. Moyle RG, Oliveros CH, Andersen MJ, Hosner PA, Benz BW, Manthey JD, Travers SL, Brown RM & Faircloth BC. 2016. Tectonic collision and uplift of Wallacea triggered the global songbird radiation. Nature Communications 7: 12709. [pdf]
  19. Manthey JD, Campillo LC, Burns KJ & Moyle RG. 2016. Comparison of target capture and restriction-site associated DNA sequencing for phylogenomics: a test in cardinalid tanagers (Aves, Genus Piranga). Systematic Biology 65: 640-650. [pdf]
  20. Manthey JD & Robbins MB. 2016. Genomic insights into hybridization in a localized region of sympatry between pewee sister species (Contopus sordidulus x C. virens) and their chromosomal patterns of differentiation. Avian Research 7: 6. [pdf]
  21. Manthey JD, Robbins MB & Moyle RG. 2016. A genomic investigation of the putative contact zone between divergent Brown Creeper (Certhia americana) lineages: chromosomal patterns of genetic differentiation. Genome 59: 115-125. [pdf]
  22. Klicka LB, Campillo LC, Manthey JD & Qu Y. 2015. Comparative phylogeography and niche modeling for three species complexes of SE China (Paradoxornis spp., Pycnonotus spp., Spizixos spp.) Current Zoology 61: 943-950. [link]
  23. Manthey JD & Moyle RG. 2015. Isolation by environment in White-breasted Nuthatches (Sitta carolinensis) of the Madrean Archipelago sky islands: a landscape genomics approach. Molecular Ecology 24: 3628-3638. [link]
  24. Manthey JD, Klicka J, & Spellman GM. 2015. Chromosomal patterns of diversity and differentiation in creepers: a next-gen phylogeographic investigation of Certhia americana. Heredity 115: 165-172. [pdf]
  25. Manthey JD, Campbell LP, Saupe EE, Soberón J, Hensz CM, Myers CE, Owens HL, Ingenloff K, Peterson AT, Barve N, Lira-Noriega A, Barve V. 2015. A test of niche centrality as a determinant of population trends and conservation status in threatened and endangered North American birds. Endangered Species Research 26: 201-208. [pdf]
  26. Manthey JD, Klicka J & Spellman GM. 2014. Effects of climate change on the evolution of Brown Creeper (Certhia americana) lineages. The Auk: Ornithological Advances 131: 559-570. [pdf]
  27. *Lira-Noriega A & *Manthey JD. 2014. Relationship of genetic diversity and niche centrality: a survey and analysis. Evolution 68: 1082-1093. *co-first authors [link]
  28. Manthey JD & Spellman GM. 2014. Increased differentiation and reduced gene flow in sex chromosomes relative to autosomes between lineages of the brown creeper (Certhia americana). Journal of Avian Biology 45: 149-156. [pdf]
  29. Manthey JD, Klicka J & Spellman GM. 2012. Is gene flow promoting the reversal of Pleistocene divergence in the Mountain Chickadee (Poecile gambeli)? PLoS One 7: e49218. [pdf]
  30. Siemens DH, Duvall-Jisha J, Jacobs J, Manthey J, Haugen R & Matzner S. 2012. Water deficiency induces stress-tolerance-chemical defense evolutionary tradeoff that may help explain local range limits in plants. Oikos 121: 790-800.
  31. Manthey JD, Klicka J & Spellman GM. 2011. Isolation driven divergence: speciation in a widespread North American songbird (Aves: Certhiidae). Molecular Ecology 20: 4371-4384. [pdf]
  32. Manthey JD, Klicka J & Spellman GM. 2011. Cryptic diversity in a widespread North American songbird: phylogeography of the Brown Creeper (Certhia americana). Molecular Phylogenetics and Evolution 58: 502-512. [pdf]