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Article ; Online: Noise constrains the evolution of call frequency contours in flowing water frogs

Longhui Zhao / Juan C. Santos / Jichao Wang / Jianghong Ran / Yezhong Tang / Jianguo Cui

Frontiers in Zoology, Vol 18, Iss 1, Pp 1-

a comparative analysis in two clades

2021 Volume 10

Abstract: Abstract Background The acoustic adaptation hypothesis (AAH) states that signals should evolve towards an optimal transmission of the intended information from senders to intended receivers given the environmental constraints of the medium that they ... ...

Abstract	Abstract Background The acoustic adaptation hypothesis (AAH) states that signals should evolve towards an optimal transmission of the intended information from senders to intended receivers given the environmental constraints of the medium that they traverse. To date, most AAH studies have focused on the effect of stratified vegetation on signal propagation. These studies, based on the AAH, predict that acoustic signals should experience less attenuation and degradation where habitats are less acoustically complex. Here, we explored this effect by including an environmental noise dimension to test some AAH predictions in two clades of widespread amphibians (Bufonidae and Ranidae) that actively use acoustic signals for communication. By using data from 106 species in these clades, we focused on the characterization of the differences in dominant frequency (DF) and frequency contour (i.e., frequency modulation [FM] and harmonic performances) of mating calls and compared them between species that inhabit flowing-water or still-water environments. Results After including temperature, body size, habitat type and phylogenetic relationships, we found that DF differences among species were explained mostly by body size and habitat structure. We also showed that species living in lentic habitats tend to have advertisement calls characterized by well-defined FM and harmonics. Likewise, our results suggest that flowing-water habitats can constrain the evolutionary trajectories of the frequency-contour traits of advertisement calls in these anurans. Conclusions Our results may support AAH predictions in frogs that vocalize in noisy habitats because flowing-water environments often produce persistent ambient noise. For instance, these anurans tend to generate vocalizations with less well-defined FM and harmonic traits. These findings may help us understand how noise in the environment can influence natural selection as it shapes acoustic signals in affected species.
Keywords	Acoustic signals ; Anurans ; Ecological selection ; Frequency-contour complexity ; Noise ; Zoology ; QL1-991
Subject code	590
Language	English
Publishing date	2021-08-01T00:00:00Z
Publisher	BMC
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Computational Modeling of the Interaction of Silver Clusters with Carbohydrates

Felipe E. Gallegos / Lorena M. Meneses / Sebastián A. Cuesta / Juan C. Santos / Josefa Arias / Pamela Carrillo / Fernanda Pilaquinga

ACS Omega, Vol 7, Iss 6, Pp 4750-

2022 Volume 4756

Keywords	Chemistry ; QD1-999
Language	English
Publishing date	2022-02-01T00:00:00Z
Publisher	American Chemical Society
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: 2b or not 2b? 2bRAD is an effective alternative to ddRAD for phylogenomics

E. Anne Chambers / Rebecca D. Tarvin / Juan C. Santos / Santiago R. Ron / Mileidy Betancourth‐Cundar / David M. Hillis / Mikhail V. Matz / David C. Cannatella

Ecology and Evolution, Vol 13, Iss 3, Pp n/a-n/a (2023)

2023

Abstract: Abstract Restriction‐site‐associated DNA sequencing (RADseq) has become an accessible way to obtain genome‐wide data in the form of single‐nucleotide polymorphisms (SNPs) for phylogenetic inference. Nonetheless, how differences in RADseq methods ... ...

Abstract	Abstract Restriction‐site‐associated DNA sequencing (RADseq) has become an accessible way to obtain genome‐wide data in the form of single‐nucleotide polymorphisms (SNPs) for phylogenetic inference. Nonetheless, how differences in RADseq methods influence phylogenetic estimation is poorly understood because most comparisons have largely relied on conceptual predictions rather than empirical tests. We examine how differences in ddRAD and 2bRAD data influence phylogenetic estimation in two non‐model frog groups. We compare the impact of method choice on phylogenetic information, missing data, and allelic dropout, considering different sequencing depths. Given that researchers must balance input (funding, time) with output (amount and quality of data), we also provide comparisons of laboratory effort, computational time, monetary costs, and the repeatability of library preparation and sequencing. Both 2bRAD and ddRAD methods estimated well‐supported trees, even at low sequencing depths, and had comparable amounts of missing data, patterns of allelic dropout, and phylogenetic signal. Compared to ddRAD, 2bRAD produced more repeatable datasets, had simpler laboratory protocols, and had an overall faster bioinformatics assembly. However, many fewer parsimony‐informative sites per SNP were obtained from 2bRAD data when using native pipelines, highlighting a need for further investigation into the effects of each pipeline on resulting datasets. Our study underscores the importance of comparing RADseq methods, such as expected results and theoretical performance using empirical datasets, before undertaking costly experiments.
Keywords	Dendrobatidae ; missing data ; phylogenetic signal ; Ranidae ; restriction‐site‐associated DNA sequencing ; Ecology ; QH540-549.5
Subject code	310
Language	English
Publishing date	2023-03-01T00:00:00Z
Publisher	Wiley
Document type	Article ; Online
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Article ; Online: Aposematism facilitates the diversification of parental care strategies in poison frogs

Juan D. Carvajal-Castro / Fernando Vargas-Salinas / Santiago Casas-Cardona / Bibiana Rojas / Juan C. Santos

Scientific Reports, Vol 11, Iss 1, Pp 1-

2021 Volume 15

Abstract: Abstract Many organisms have evolved adaptations to increase the odds of survival of their offspring. Parental care has evolved several times in animals including ectotherms. In amphibians, ~ 10% of species exhibit parental care. Among these, poison ... ...

Abstract	Abstract Many organisms have evolved adaptations to increase the odds of survival of their offspring. Parental care has evolved several times in animals including ectotherms. In amphibians, ~ 10% of species exhibit parental care. Among these, poison frogs (Dendrobatidae) are well-known for their extensive care, which includes egg guarding, larval transport, and specialized tadpole provisioning with trophic eggs. At least one third of dendrobatids displaying aposematism by exhibiting warning coloration that informs potential predators about the presence of defensive skin toxins. Aposematism has a central role in poison frog diversification, including diet specialization, and visual and acoustic communication; and it is thought to have impacted their reproductive biology as well. We tested the latter association using multivariate phylogenetic methods at the family level. Our results show complex relationships between aposematism and certain aspects of the reproductive biology in dendrobatids. In particular, aposematic species tend to use more specialized tadpole-deposition sites, such as phytotelmata, and ferry fewer tadpoles than non-aposematic species. We propose that aposematism may have facilitated the diversification of microhabitat use in dendrobatids in the context of reproduction. Furthermore, the use of resource-limited tadpole-deposition environments may have evolved in tandem with an optimal reproductive strategy characterized by few offspring, biparental care, and female provisioning of food in the form of unfertilized eggs. We also found that in phytotelm-breeders, the rate of transition from cryptic to aposematic phenotype is 17 to 19 times higher than vice versa. Therefore, we infer that the aposematism in dendrobatids might serve as an umbrella trait for the evolution and maintenance of their complex offspring-caring activities.
Keywords	Medicine ; R ; Science ; Q
Subject code	590
Language	English
Publishing date	2021-09-01T00:00:00Z
Publisher	Nature Portfolio
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: The birth of aposematism: High phenotypic divergence and low genetic diversity in a young clade of poison frogs

Tarvin, Rebecca D / David C. Cannatella / Emily A. Powell / Juan C. Santos / Santiago R. Ron

Molecular phylogenetics and evolution. 2017 Apr., v. 109

2017

Abstract: Rapid radiation coupled with low genetic divergence often hinders species delimitation and phylogeny estimation even if putative species are phenotypically distinct. Some aposematic species, such as poison frogs (Dendrobatidae), have high levels of ... ...

Abstract	Rapid radiation coupled with low genetic divergence often hinders species delimitation and phylogeny estimation even if putative species are phenotypically distinct. Some aposematic species, such as poison frogs (Dendrobatidae), have high levels of intraspecific color polymorphism, which can lead to overestimation of species when phenotypic divergence primarily guides species delimitation. We explored this possibility in the youngest origin of aposematism (3–7 MYA) in poison frogs, Epipedobates, by comparing genetic divergence with color and acoustic divergence. We found low genetic divergence (2.6% in the 16S gene) despite substantial differences in color and acoustic signals. While chemical defense is inferred to have evolved in the ancestor of Epipedobates, aposematic coloration evolved at least twice or was lost once in Epipedobates, suggesting that it is evolutionarily labile. We inferred at least one event of introgression between two cryptically colored species with adjacent ranges (E. boulengeri and E. machalilla). We also find evidence for peripheral isolation resulting in phenotypic divergence and potential speciation of the aposematic E. tricolor from the non-aposematic E. machalilla. However, we were unable to estimate a well-supported species tree or delimit species using multispecies coalescent models. We attribute this failure to factors associated with recent speciation including mitochondrial introgression, incomplete lineage sorting, and too few informative molecular characters. We suggest that species delimitation within young aposematic lineages such as Epipedobates will require genome-level molecular studies. We caution against relying solely on DNA barcoding for species delimitation or identification and highlight the value of phenotypic divergence and natural history in delimiting species.
Keywords	acoustics ; aposematic species ; chemical defenses ; color ; DNA barcoding ; Epipedobates ; genes ; genetic variation ; introgression ; mimicry (behavior) ; mitochondria ; models ; natural history ; phenotypic variation ; phylogeny ; poisonous frogs
Language	English
Dates of publication	2017-04
Size	p. 283-295.
Publishing place	Elsevier Inc.
Document type	Article
ZDB-ID	33610-5
ISSN	1095-9513 ; 1055-7903
ISSN (online)	1095-9513
ISSN	1055-7903
DOI	10.1016/j.ympev.2016.12.035
Database	NAL-Catalogue (AGRICOLA)

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Article: New ferrocenyl-chalcones and bichalcones: Synthesis and characterization

Trujillo, Alexander / Carlos A. Escobar / Fernanda Ocayo / Jean-Yves Saillard / Juan C. Santos / Mauricio Fuentealba / Paola Jara-Ulloa / Samia Kahlal / Vania Artigas

Tetrahedron letters. 2017 Feb. 01, v. 58

2017

Abstract: Ferrocenyl-chalcones and their bichalcone analogues were characterized by IR and NMR spectroscopy, as well as electrochemically. Their UVâvisible spectra were recorded, and the electronic transitions were assigned by time-dependent DFT calculations. ... ...

Abstract	Ferrocenyl-chalcones and their bichalcone analogues were characterized by IR and NMR spectroscopy, as well as electrochemically. Their UVâvisible spectra were recorded, and the electronic transitions were assigned by time-dependent DFT calculations. The single-crystal X-ray structures were determined for two ferrocenyl bichalcones.
Keywords	chemical reactions ; chemical structure ; electrochemistry ; nuclear magnetic resonance spectroscopy ; organic compounds ; X-radiation
Language	English
Dates of publication	2017-0201
Size	p. 437-441.
Publishing place	Elsevier Ltd
Document type	Article
ZDB-ID	204287-3
ISSN	1873-3581 ; 0040-4039
ISSN (online)	1873-3581
ISSN	0040-4039
DOI	10.1016/j.tetlet.2016.12.046
Database	NAL-Catalogue (AGRICOLA)

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Article: Synthesis, characterization, and crystal structure of 2′,2′′-dihydroxy-3,3′′′-bichalcone and its related chalcone–flavanone and biflavanone analogs

Escobar, Carlos A / Alexander Trujillo / Juan C. Santos / Mauricio Fuentealba / Thierry Roisnel / Williams A. Fernández

Tetrahedron letters. 2014 Sept. 17, v. 55, no. 38

2014

Abstract: The synthesis of 3,3′-diformyl-1,1′-biphenyl 1 and its reaction in basic media with 2′-hydroxyacetophenone and paeonol, respectively, are described. The products, a bichalcone 2, it’s partially cyclized analog, a flavanone–chalcone 3 and the fully ... ...

Abstract	The synthesis of 3,3′-diformyl-1,1′-biphenyl 1 and its reaction in basic media with 2′-hydroxyacetophenone and paeonol, respectively, are described. The products, a bichalcone 2, it’s partially cyclized analog, a flavanone–chalcone 3 and the fully cyclized biflavanone 4, are reported as products for the first reaction, while only the chalcone 5 for the second. The crystalline and molecular structure, solved by X-ray diffraction analysis, for compounds 2 and 5 are also presented in this work.
Keywords	chalcone ; chemical reactions ; crystal structure ; X-ray diffraction
Language	English
Dates of publication	2014-0917
Size	p. 5271-5274.
Publishing place	Elsevier Ltd
Document type	Article
ZDB-ID	204287-3
ISSN	1873-3581 ; 0040-4039
ISSN (online)	1873-3581
ISSN	0040-4039
DOI	10.1016/j.tetlet.2014.07.111
Database	NAL-Catalogue (AGRICOLA)

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Article: Extinction risks forced by climatic change and intraspecific variation in the thermal physiology of a tropical lizard

Pontes-da-Silva, Emerson / William E. Magnusson / Barry Sinervo / Gabriel H. Caetano / Donald B. Miles / Guarino R. Colli / Luisa M. Diele-Viegas / Jessica Fenker / Juan C. Santos / Fernanda P. Werneck

Journal of thermal biology. 2018 Apr., v. 73

2018

Abstract: Temperature increases can impact biodiversity and predicting their effects is one of the main challenges facing global climate-change research. Ectotherms are sensitive to temperature change and, although predictions indicate that tropical species are ... ...

Abstract	Temperature increases can impact biodiversity and predicting their effects is one of the main challenges facing global climate-change research. Ectotherms are sensitive to temperature change and, although predictions indicate that tropical species are highly vulnerable to global warming, they remain one of the least studied groups with respect to the extent of physiological variation and local extinction risks. We model the extinction risks for a tropical heliothermic teiid lizard (Kentropyx calcarata) integrating previously obtained information on intraspecific phylogeographic structure, eco-physiological traits and contemporary species distributions in the Amazon rainforest and its ecotone to the Cerrado savannah. We also investigated how thermal-biology traits vary throughout the species' geographic range and the consequences of such variation for lineage vulnerability. We show substantial variation in thermal tolerance of individuals among thermally distinct sites. Thermal critical limits were highly correlated with operative environmental temperatures. Our physiological/climatic model predicted relative extinction risks for local populations within clades of K. calcarata for 2050 ranging between 26.1% and 70.8%, while for 2070, extinction risks ranged from 52.8% to 92.8%. Our results support the hypothesis that tropical-lizard taxa are at high risk of local extinction caused by increasing temperatures. However, the thermo-physiological differences found across the species' distribution suggest that local adaptation may allow persistence of this tropical ectotherm in global warming scenarios. These results will serve as basis to further research to investigate the strength of local adaptation to climate change. Persistence of Kentropyx calcarata also depends on forest preservation, but the Amazon rainforest is currently under high deforestation rates. We argue that higher conservation priority is necessary so the Amazon rainforest can fulfill its capacity to absorb the impacts of temperature increase on tropical ectotherms during climate change.
Keywords	ambient temperature ; cerrado ; climate models ; deforestation ; ecophysiology ; ecotones ; ectothermy ; extinction ; forest conservation ; global warming ; heat tolerance ; intraspecific variation ; lizards ; phylogeography ; prediction ; risk ; savannas ; Amazonia
Language	English
Dates of publication	2018-04
Size	p. 50-60.
Publishing place	Elsevier Ltd
Document type	Article
ZDB-ID	1498364-3
ISSN	1879-0992 ; 0306-4565
ISSN (online)	1879-0992
ISSN	0306-4565
DOI	10.1016/j.jtherbio.2018.01.013
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Thermal physiology of Amazonian lizards (Reptilia

Luisa M Diele-Viegas / Laurie J Vitt / Barry Sinervo / Guarino R Colli / Fernanda P Werneck / Donald B Miles / William E Magnusson / Juan C Santos / Carla M Sette / Gabriel H O Caetano / Emerson Pontes / Teresa C S Ávila-Pires

PLoS ONE, Vol 13, Iss 3, p e

Squamata).

2018 Volume 0192834

Abstract: We summarize thermal-biology data of 69 species of Amazonian lizards, including mode of thermoregulation and field-active body temperatures (Tb). We also provide new data on preferred temperatures (Tpref), voluntary and thermal-tolerance ranges, and ... ...

Abstract	We summarize thermal-biology data of 69 species of Amazonian lizards, including mode of thermoregulation and field-active body temperatures (Tb). We also provide new data on preferred temperatures (Tpref), voluntary and thermal-tolerance ranges, and thermal-performance curves (TPC's) for 27 species from nine sites in the Brazilian Amazonia. We tested for phylogenetic signal and pairwise correlations among thermal traits. We found that species generally categorized as thermoregulators have the highest mean values for all thermal traits, and broader ranges for Tb, critical thermal maximum (CTmax) and optimal (Topt) temperatures. Species generally categorized as thermoconformers have large ranges for Tpref, critical thermal minimum (CTmin), and minimum voluntary (VTmin) temperatures for performance. Despite these differences, our results show that all thermal characteristics overlap between both groups and suggest that Amazonian lizards do not fit into discrete thermoregulatory categories. The traits are all correlated, with the exceptions of (1) Topt, which does not correlate with CTmax, and (2) CTmin, and correlates only with Topt. Weak phylogenetic signals for Tb, Tpref and VTmin indicate that these characters may be shaped by local environmental conditions and influenced by phylogeny. We found that open-habitat species perform well under present environmental conditions, without experiencing detectable thermal stress from high environmental temperatures induced in lab experiments. For forest-dwelling lizards, we expect warming trends in Amazonia to induce thermal stress, as temperatures surpass the thermal tolerances for these species.
Keywords	Medicine ; R ; Science ; Q
Subject code	590
Language	English
Publishing date	2018-01-01T00:00:00Z
Publisher	Public Library of Science (PLoS)
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Correction

Juan C Santos / Luis A Coloma / Kyle Summers / Janalee P Caldwell / Richard Ree / David C Cannatella

PLoS Biology, Vol 8, Iss

Amazonian Amphibian Diversity Is Primarily Derived from Late Miocene Andean Lineages.

2010 Volume 9

Keywords	Biology (General) ; QH301-705.5
Language	English
Publishing date	2010-09-01T00:00:00Z
Publisher	Public Library of Science (PLoS)
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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