Outreach and Media
Teaching




Publications (including book chapters)




Pdfs of most of the following papers are available here
Pre-print articles (non peer-reviewed) are indicated with pp



Graduate students in the lab are indicated with **, undergraduate and high school students with *






pp12) E. White**, S. Kim*, G. Wegh, Y. Chiari (2024) Thermal tolerance plasticity and dynamics of thermal tolerance in Eublepharis macularius: implications for future climate- driven heat stress. Publicly available pre-print on bioRxiv https://www.biorxiv.org/content/10.1101/2024.01.13.575519v1







62)  BT. Hastings**, A. Melnyk*, M. Ghyabi, E. White**, FM. Barroso, MA. Carretero, D. Lattanzi, J. Claude, Y. Chiari (2023) Melanistic coloration does not influence thermoregulation in the crepuscular gecko Eublepharis macularius. Biology Open, 12(10): bio060114

Software pipeline to extract melanistic coloration @ https://github.com/brandon-hastings/Lumeleon

Dataset and R codes on Dryad @ doi:10.5061/dryad.1zcrjdfzq


Outreach video summary @ https://youtu.be/iPT_4RG1OVA?si=6Ivlhzogm-IWXO_g

First author interview @ https://journals.biologists.com/bio/article/12/10/bio060176/334528/First-person-Brandon-Hastings







pp11) BT. Hastings**, A. Melnyk*, M. Ghyabi, E. White**, FM. Barroso, MA. Carretero, D. Lattanzi, J. Claude, Y. Chiari (2023) On the role of melanistic coloration on thermoregulation in the crepuscular gecko Eublepharis macularius. Publicly available pre-print on bioRxiv https://www.biorxiv.org/content/10.1101/2023.05.18.541382v1







61) S. Weber Hertel, J. Stupavsky, K. Alford*, HR. Hicks*, A. Heaton**, N. Katlein**, BT. Hastings**, A. Stern*, S. Jett, AY. Wang*, B. Wang, S. Glaberman, Y. Chiari (2023) Dominant attitudes and values towards wildlife and the environment in coastal Alabama. Conservation Science and Practice, 5(8): e12957

Data visualization available @
https://public.tableau.com/app/profile/ylenia.chiari/viz/WeberHerteletal__16599728420070/1Demographics-AtGlance

Outreach video summary @ https://youtu.be/3hlaDQnokXQ?si=Lm7lv7rNbHwqMV3b






pp10) S. Glaberman, R. Posont, H. Swain, Y. Chiari, J. Claude (2023) Baseline corticosterone is not an indicator of population health during non-El Nino conditions in Galapagos marine iguanas. Publicly available pre-print on SSRN https://papers.ssrn.com/sol3/papers.cfm?abstract_id=4437567





60) BJ. Pinto, T. Gamble, CH. Smith, SE. Keating, JC. Havird, Y. Chiari (2023) The revised leopard gecko (Eublepharis macularius) reference genome provides insight into the consideration of genome phasing and assembly. Journal of Heredity, esad016







59) Y. Chiari, L. Howard, N. Moreno**, S. Relyea, J. Dunnigan, MC. Boyer, M. Kardos, S. Glaberman, G. Luikart (2023) Influence of RNA-Seq library construction, sampling methods, and tissue harvesting time on gene expression estimation. Molecular Ecology Resources, 23: 803-817

Outreach video summary @ https://youtu.be/ExPVCY-w2ZY?si=CL7dEjKd52rDuaXX







pp9) BJ. Pinto, T. Gamble, CH. Smith, SE. Keating, JC. Havird, Y. Chiari (2023) The revised leopard gecko (Eublepharis macularius) reference genome provides insight into the consideration of genome phasing and assembly. Publicly available pre-print on bioRxiv https://www.biorxiv.org/content/10.1101/2023.01.20.523807v1







pp8) S. Weber Hertel, J. Stupavsky, K. Alford*, HR. Hicks*, A. Heaton**, N. Katlein**, B. Hastings**, A. Stern*, S. Jett, AY. Wang*, B. Wang, S. Glaberman, Y. Chiari (2023) Dominant attitudes and values towards wildlife and the environment in coastal Alabama.  Publicly available preprint on ecoevoRxiv https://ecoevorxiv.org/repository/view/4871/






58) JD. Daza, Y. Chiari, E. Daza-Herrera, MS. Glaberman, S. Glaberman, O. Heide, A. Herrera-Martinez, R. Thomas (2022) A rare case of caudal bifurcation in a miniaturized gecko from Puerto Rico. The Anatomical Record, 1-4







pp7) S. Bulls**, L. Platner, W. Ayub*, N. Moreno**, J-P. Arditi*, S. McCain, P. Wagner, LGR. Bruins- van Sonsbeek, VJ. Lynch, J. Claude, S. Glaberman, Y. Chiari (2022) Cancer prevalence is remarkably low in turtles and is correlated with life history traits in birds, mammals, and squamates. Publicly available pre-print on bioRxiv
https://www.biorxiv.org/content/10.1101/2022.07.12.499088v1







57) N. Moreno**, A. Heaton**, K. Bruening*, E. Milligan*, D. Nelson, S. Glaberman, Y. Chiari (2022) Hybridization and low genetic diversity in the endangered Alabama red-bellied turtle (Pseudemys alabamensis). Ecology and Evolution, 12: e8964


Photo credit: N. Moreno




56) N. Katlein**, M. Ray*, A. Wilkinson, J. Claude, MA. Kiskowski, B. Wang, S. Glaberman, Y. Chiari (2022) Does colour impact responses to images in geckos? Journal of Zoology, 317: 138-146


Photo credit: R. Moreau




55) EL. Jensen, MC. Quinzin, JM. Miller, MA. Russello, RC. Garrick, DL. Edwards, S. Glaberman, Y. Chiari, N. Poulakakis, W. Tapia, JP. Gibbs, A. Caccone (2022) A new lineage of Galapagos giant tortoises identified from museum samples. Heredity, 128: 261-270










54)
R. Roy
, N. Moreno**, SA. Brockman, A. Kostanecki, A. Zambre, C. Holl, EM. Solhaug, A. Minami, E. Snell-Rood, M. Hampton, MA. Bee, Y. Chiari, AD. Hegeman, CJ. Carter (2022) Convergent evolution of a novel blood-red nectar pigment in vertebrate-pollinated flowers. PNAS, 119: e2114420119







53) S. Glaberman, SE. Bulls, JM. Vazquez, Y. Chiari, VJ. Lynch (2021) Concurrent evolution of anti-aging gene duplications and cellular phenotypes in long-lived turtles. Genome Biology and Evolution, evab244





pp6) S. Glaberman, SE. Bulls, JM. Vazquez, Y. Chiari, VJ. Lynch (2021) Concurrent evolution of anti-aging gene duplications and cellular phenotypes in long-lived turtles.
Publicly available pre-print on bioRxiv
https://www.biorxiv.org/content/10.1101/2021.07.07.451454v1






52) T. Glimm, M.A. Kiskowski, N. Moreno**, Y. Chiari (2021) Capturing and analyzing pattern diversity: an example using the melanistic spotted patterns of leopard geckos. PeerJ, 9: e11829

Matlab codes to extract the gecko color pattern are available @ https://osf.io/zauwe/?view_only=97c4846fb5f34357b0943c2f5c6bc571







51) MM. Lamont, N. Moreno**, FY. Camacho-Sanchez, HH. Acosta-Sanchez, S. Glaberman, MA. Reyes-Lopez, Y. Chiari (2021) Genetic diversity of immature Kemp's ridley (Lepidochelys kempii) individuals from the northern Gulf of Mexico. Aquatic Conservation: Marine and Freshwater Ecosystems, 31(10): 3003 - 3010






50) K. Pabis^, Y. Chiari^, C. Sala, E. Straka, R. Giacconi, M. Provinciali, X. Li, H. Brown-Borg, K. Novikowski, T. Valancak, C. Gundacker, P. Garagnani, M. Malavolta (2021) Elevated metallothionein expression in long-lived species mediates the influence of cadmium accumulation on aging. GeroScience, 43: 1975 - 1993
^Shared first authorship






pp5) R. Roy, N. Moreno**, SA. Brockman, A. Kostanecki, A. Zambre, C. Holl, EM. Solhaug, A. Minami, E. Snell-Rood, M. Hampton, MA. Bee, Y. Chiari, AD. Hegeman, CJ. Carter (2021) Convergent evolution of a novel blood-red nectar pigment in vertebrate-pollinated flowers. Publicly available pre-print on bioRxiv
https://www.biorxiv.org/content/10.1101/2021.03.24.436888v1







pp4) T. Glimm, M.A. Kiskowski, N. Moreno**, Y. Chiari (2021) Capturing and analyzing pattern diversity: an example using the melanistic spotted patterns of leopard geckos. Publicly available pre-print on bioRxiv
https://www.biorxiv.org/content/10.1101/2021.03.23.436685v1







pp3) N. Katlein**, M. Ray*, A. Wilkinson, J. Claude, M.A. Kiskowski, B. Wang, S. Glaberman, Y. Chiari (2021) Does colour impact attention towards 2D images in geckos? Publicly available pre-print on bioRxiv
https://www.biorxiv.org/content/10.1101/2021.02.03.429594v1







pp2) N. Moreno**, L. Howard, S. Relyea, J. Dunnigan, M. Boyer, M. Kardos, S. Glaberman, G. Luikart, Y. Chiari (2021) Gene expression estimates: influence of sequencing library construction, fish sampling methods, and tissue harvesting time. Publicly available pre-print on Authorea
https://www.authorea.com/users/391297/articles/505449-gene-expression-estimates-influence-of-sequencing-library-construction-fish-sampling-methods-and-tissue-harvesting-time







49) Y. Chiari Morphology (2020) In "Galapagos Giant Tortoises" J. Gibbs, L. Cayot, W.A. Tapia (Eds.). Section III, Chapter 8. Publisher Elsevier






48) WL Allen, N. Moreno*, T. Gamble, Y. Chiari (2020) Ecological, behavioral, and phylogenetic influences on the evolution of dorsal color pattern in gecko. Evolution, 74: 1033 - 1047
               Digest on this article available here







47) M.A. Kiskowski, T. Glimm, N. Moreno*, T. Gamble, Y. Chiari (2019) Isolating and quantifying the role of developmental noise in generating phenotypic variation. PLoS Computational Biology, 15(4): e1006943

Outreach video summary @ https://youtu.be/pM7YGBrAutQ?si=SQrUFpk3TF3h4vHl







46) Quesada et al. (2019) Giant tortoise genomes provide insights into longevity and age-related disease. Nature Ecology and Evolution, 3: 87 - 95





pp1) M.A. Kiskowski, T. Glimm, N. Moreno*, T. Gamble, Y. Chiari (2018) Isolating and quantifying the role of developmental noise in generating phenotypic variation. Publicly available pre-print on bioRxiv 334961
https://www.biorxiv.org/content/10.1101/334961v1







45) Y. Chiari, S. Glaberman, V.J. Lynch (2018) Insights on cancer resistance in vertebrates: reptiles as a parallel system to mammals. Nature Reviews Cancer, 18: 5252 (Correspondence)







44) P. Sykora , Y. Chiari, A. Heaton**, N. Moreno**, S. Glaberman, R. Sobol (2018) Application of the CometChip platform to assess DNA damage in field collected blood samples from turtles. Environmental and Molecular Mutagenesis, 59: 322 - 333






43) A. Hylton**, Y. Chiari, I. Capellini, MG. Barron, S. Glaberman (2018) Mixed phylogenetic signal in fish acute toxicity across chemical classes. Ecological Applications, 28: 605 - 611 






42) Y. Chiari, A. van der Meijden, A. Caccone, J. Claude, B. Gilles (2017) Self-righting potential and the evolution of shell shape in Galapagos tortoises. Scientific Reports, 7: 15828








41) Y. Chiari, N. Moreno*, J. Elmore**, A. Hylton**, A. Ray*, R. Burkhardt**, S. Glaberman (2017) Widespread occurrence of Batrachochytrium dendrobatidis in Southern Alabama, USA. Herpetological Review, 48: 356 - 359






40) Y. Chiari, S. Glaberman, P. Tarroso, A. Caccone, J. Claude (2016) Ecological and evolutionary influences on body size and shape in Galapagos marine iguana (Amblyrhynchus cristatus). Oecologia, 181: 885 - 894.







39) DL. Martin, Y. Chiari, E. Boone, TD. Sherman, C. Ross, S. Wyllie-Echeverria, JK. Gaydos, AA. Boettcher (2016) Functional, phylogenetic and host-geographic signatures of Labyrinthula spp. provide for putative species delimitation and a global-scale view of seagrass wasting disease. Estuaries and Coasts 39: 1403 - 1421.






38) N. Poulakakis, DL. Edwards, Y. Chiari, RC. Garrick, E. Benavides, MA. Russello, GJ. Watkins-Colwell, S. Glaberman, W. Tapia, JP. Gibbs, LJ. Cayot, A. Caccone (2015) Description of a new Galapagos giant tortoise species (Chelonoidis, Testudines, Testudinidae) from Cerro Fatal on Santa Cruz Island. PLoS One 10: e0138779.







37) B. Gasse, Y. Chiari, J. Silvent, T. Davit-Beal, J-Y. Sire (2015) Amelotin: an enamel matrix protein that experienced distinct evolutionary pathways in amphibians, sauropsids and mammals. BMC Evolutionary Biology 15: 47.






36) Y. Chiari, S. Glaberman, N. Serén**, MA. Carretero, I. Capellini (2015) Phylogenetic signal in amphibian sensitivity to copper sulfate relative to experimental temperature. Ecological Applications 25: 596 - 602.






35) J. Romiguier, P. Gayral, M. Ballenghien, A. Bernard, V. Cahais, A. Chenuil, Y. Chiari, R. Dernat, L. Duret, N. Faivre, E. Loire, JM. Lourenco, B. Nabholz, C. Roux, G. Tsagkogeorga, AA-T. Weber, LA. Weinert, K. Belkhir, N. Bierne, S. Glemin, N. Galtier (2014) Comparative population genomics in animals uncovers the determinants of genetic diversity. Nature 515: 261 - 263.






34) N. Serén**, S. Glaberman, MA. Carretero, Y. Chiari (2014) Molecular evolution and functional divergence of the metallothionein gene family in vertebrates. Journal of Molecular Evolution 78: 217 - 233. Journal Cover


33) E. Loire, Y. Chiari, A. Bernard, V. Cahais, J. Romiguier, B. Nabholz, JM. Lourenço, N. Galtier (2013) Population genomics of the endangered giant Galapagos tortoises. Genome Biology 14: R136.


32) Y. Chiari, A. van der Meijden, M. Mucedda, N. Wagner, M. Veith (2013) No detection of the pathogen Batrachochytrium dendrobatis in Sardinian cave salamanders, genus Hydromantes. Amphibia-Reptilia 34: 136 -141.









31) P. Orozco-terWengel, Y. Chiari, DR. Vieites, M. Perdono, E. Louis Jr (2013) Isolation and characterization of four polymorphic microsatellite loci for the Malagasy spider tortoise Pyxis arachnoides and cross-amplification in Pyxis planicauda. Amphibia-Reptilia 34: 125 - 128.








30) JM. Lourenco**, S. Glemin, Y. Chiari, N. Galtier (2013) The determinants of the molecular substitution process in turtles. Journal of Evolutionary Biology 26: 38-50.








29) Y. Chiari, V. Cahais, N. Galtier, F. Delsuc (2012) Phylogenomic analyses support the position of turtles as the sister group of birds and crocodiles (Archosauria). BMC Biology 10: 65.








28) V. Cahais, P. Gayral, G. Tsagkogeorga, J. Melo-Ferreira, M. Ballenghien, L. Weinert, Y. Chiari, K. Belkhir, V. Ranwez, N. Galtier (2012) Reference-free transcritpome assembly in non-model animals from next-generation sequencing data. Molecular Ecology Resources 12: 834-845.








27) Y. Chiari, A. van der Meijden, M. Mucedda, JM. Lourenco**, A. Hochkirch, M. Veith (2012) Phylogeography of Sardinian cave salamanders (genus Hydromantes) is mainly determined by geomorphology. PLoS One 7(3): e32332.








26) JM. Lourenco**, J. Claude, N. Galtier, Y. Chiari (2012) Dating the cryptodiran nodes: origin and diversification of the turtle superfamily Testudinoidea. Molecular Phylogenetics and Evolution 62: 496- 507.



 




25) Y. Chiari, J. Claude (2012) Morphometric identification of individuals when there are more shape variables than reference specimens: a case study in Galapagos tortoises. Comptes rendus Biologies 335: 62-68.








24) P. Gayral, L. Weinert, Y. Chiari, G. Tsagkogeorga, M. Ballenghien, N. Galtier (2011) Next-generation sequencing of transcriptomes: a guide to RNA isolation in non-model animals. Molecular Ecology Resources 11: 650-661.








23) Y. Chiari, N. Galtier (2011) RNA extraction from sauropsids blood: evaluation and improvement of methods. Amphibia-Reptilia 32: 136-139.








22) Y. Chiari, J. Claude (2011) Study of the carapace shape and growth in two Galapagos tortoise lineages. Journal of Morphology 272: 379-386.








21) Y. Chiari^, K. Dion^, J. Colborn^, A. Parmakelis, J. Powell (2010) On the possible role of tRNA base modifications in the evolution of codon usage: Queuosine and Drosophila. Journal of Molecular Evolution 70: 339-345.
^Authors contributed equally








20) Y. Chiari, A. van der Meijden, O. Madsen, M. Vences, A. Meyer (2009) Base composition, selection, and phylogenetic significance of indels in the recombination activating gene-1 in vertebrates. Frontiers in Zoology 6: 32.






19) Y. Chiari, DR. Vieites, J. Guo*, P. Bora, M. Vences (2009) High haplotype diversity in a microendemic Malagasy gecko species, Lygodactylus mirabilis (Pasteur, 1962). Zootaxa 2269: 43-52.