Browsing by Autor "Kathelyn Paredes-Villanueva"

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A dated phylogeny of the Neotropical Dipterygeae clade reveals 30 million years of winged papilionate floral conservatism in the otherwise florally labile early-branching papilionoid legumes
(Oxford University Press, 2023) Catarina Silva de Carvalho; Haroldo Cavalcante de Lima; Maristerra R. Lemes; Charles E. Zartman; Cássio van den Berg; Carmen Rosa GARCÍA-DÁVILA; Eurídice N. Honorio Coronado; Malte Mäder; Kathelyn Paredes-Villanueva; Niklas Tysklind
Abstract The early-branching clades of Fabaceae subfamily Papilionoideae are characterized by their remarkable lability in floral architecture. In contrast, more derived papilionoid lineages are marked by evolutionary conservatism towards strongly bilateral, papilionate flowers. Here, we show an unexpected example of conservatism of a unique floral architecture during the early diversification history of the papilionoids. We built the most comprehensively sampled molecular phylogenetic tree with a focus on the early-diverging papilionoid Dipterygeae clade to evaluate conservatism of the winged papilionate architecture and associated traits related to flower specialization (e.g. zygomorphy, petal differentiation, stable stamen number and stamen sheath). Dipterygeae comprise c. 22 species of mostly giant trees from across tropical forests in Central America and the Amazon, but they are also ecologically dominant in the savannas of the Brazilian Central Plateau. Phylogenetic analyses of nuclear ribosomal ITS/5.8S and plastid matK and trnL intron sequences strongly supported inter-relationships and the monophyly of each genus (Dipteryx, Monopteryx, Pterodon and Taralea). Bayesian relaxed-clock dating and a Bayesian model of ancestral character estimation revealed c. 30 Myr of conservatism of all winged papilionate-related flower traits in a clade comprising the most recent common ancestor of Dipteryx, Pterodon and Taralea, but lability in fruit morphology during the diversification of the entire Dipterygeae clade. Despite Monopteryx and remaining Dipterygeae being florally discrepant, they are collectively defined by a floral synapomorphy that is unique among all papilionoid Fabaceae: the highly differentiated calyx, where the two upper lobes are enlarged and wing-like, whereas the other three lower lobes are reduced. We suggest that the different dispersal strategies and the ancient winged papilionate floral conservatism in Dipterygeae, which has maintained effective ecological interactions with specialized pollinators and ensured the protection of young flower buds and developing fruits, may explain successful evolutionary and ecological persistence of the clade across the main Neotropical biomes.
Chemical differentiation of Bolivian Cedrela species as a tool to trace illegal timber trade
(Oxford University Press, 2018) Kathelyn Paredes-Villanueva; Edgard O. Espinoza; Jente Ottenburghs; Mark G. Sterken; Frans Bongers; Pieter A. Zuidema
Combating illegal timber trade requires the ability to identify species and verify geographic origin of timber. Forensic techniques that independently verify the declared species and geographic origin are needed, as current legality procedures are based on certificates and documents that can be falsified. Timber from the genus Cedrela is among the most economically valued tropical timbers worldwide. Three Cedrela species are included in the Appendix III of CITES: C. fissilis, C. odorata and C. angustifolia (listed as C. lilloi). Cedrela timber is currently traded with false origin declarations and under a different species name, but tools to verify this are lacking. We used Direct Analysis in Real Time Time-of-Flight Mass Spectrometry (DART-TOFMS) to chemically identify Cedrela species and sites of origin. Heartwood samples from six Cedrela species (the three CITES-listed species plus C. balansae, C. montana and C. saltensis) were collected at 11 sites throughout Bolivia. Mass spectra detected by DART-TOFMS comprised 1062 compounds; their relative intensities were analysed using Principal Component Analyses, Kernel Discriminant Analysis (KDA) and Random Forest analyses to check discrimination potential among species and sites. Species were identified with a mean discrimination error of 15–19 per cent, with substantial variation in discrimination accuracy among species. The lowest error was observed in C. fissilis (mean = 4.4 per cent). Site discrimination error was considerably higher: 43–54 per cent for C. fissilis and 42–48 per cent for C. odorata. These results provide good prospects to differentiate C. fissilis from other species, but at present there is no scope to do so for other tested species. Thus, discrimination is highly species specific. Our findings for tests of geographic origin suggest no potential to discriminate at the studied scale and for the studied species. Cross-checking results from different methods (KDA and Random Forest) reduced discrimination errors. In all, the DART-TOFMS technique allows independent verification of claimed identity of certain Cedrela species in timber trade.
Combining wood traits as a promising timber origin verification and its application in the Brazilian trade chain
(Elsevier BV, 2025) Bruna Hornink; Daigard Ricardo Ortega Rodríguez; Deoclécio Jardim Amorim; Peter Groenendijk; Kathelyn Paredes-Villanueva; José Guilherme Roquette; Ana Carolina Maioli Campos Barbosa; Edson Vidal; Alexandre Bahia Gontijo; Monique Silva Costa
Development of a DNA macroarray for the molecular biological identification of trade-relevant tropical CITES timber species and their look-alikes
(De Gruyter, 2024) Anna C. Bogun; Kathelyn Paredes-Villanueva; Maurizio Mascarello; Elisabeth Magel
Abstract The control authorities of timber trade lack quick and easy methods to verify the legality of the traded product. This includes the clear identification of the timber species. In this study, a simple genetic method, the macroarray technique, was modified and optimised for this purpose. The internal transcribed spacer (ITS) was used as barcode region. Specific probes were designed and tested using this barcode of trade-relevant, CITES protected wood species and their look-alikes. The results reveal that 61 of these probes are suitable for identification purposes. Hence, 32 of the 50 investigated species can be clearly identified using the developed macroarray. Additional 15 species are represented by probes in groups of two to three species, which enables a delimitation of the species present. For four species, no identification was possible applying the probes created. The findings indicate the potential of time and cost savings compared to currently established methods in species control in the timber trade.
Development of a set of SNP markers for population genetics studies of Ipe (Handroanthus sp.), a valuable tree genus from Latin America
(Springer Science+Business Media, 2017) Barbara Rocha Venâncio Meyer-Sand; Céline Blanc-Jolivet; Malte Mäder; Kathelyn Paredes-Villanueva; Niklas Tysklind; Alexandre Magno Sebbenn; Erwan Guichoux; Бернд Деген
Development of nuclear and plastid SNP and INDEL markers for population genetic studies and timber traceability of Carapa species
(Springer Science+Business Media, 2019) Niklas Tysklind; Céline Blanc-Jolivet; Malte Mäder; Barbara Rocha Venâncio Meyer-Sand; Kathelyn Paredes-Villanueva; Eurídice N. Honorio Coronado; Carmen Rosa GARCÍA-DÁVILA; Alexandre Magno Sebbenn; Henri Caron; Valérie Troispoux
Development of nuclear and plastid SNP markers for genetic studies of Dipteryx tree species in Amazonia
(Springer Science+Business Media, 2019) Eurídice N. Honorio Coronado; Céline Blanc-Jolivet; Malte Mäder; Carmen Rosa GARCÍA-DÁVILA; Alexandre Magno Sebbenn; Barbara Rocha Venâncio Meyer-Sand; Kathelyn Paredes-Villanueva; Niklas Tysklind; Valérie Troispoux; Marie Massot
Genetic differences among Cedrela odorata sites in Bolivia provide limited potential for fine-scale timber tracing
(Springer Science+Business Media, 2019) Kathelyn Paredes-Villanueva; G.A. de Groot; Ivo Laros; J. Bovenschen; Frans Bongers; Pieter A. Zuidema
Nuclear and chloroplastic SNP markers for genetic studies of timber origin for Hymenaea trees
(Springer Science+Business Media, 2018) Camila Lucas Chaves; Céline Blanc-Jolivet; Alexandre Magno Sebbenn; Malte Mäder; Barbara Rocha Venâncio Meyer-Sand; Kathelyn Paredes-Villanueva; Eurídice N. Honorio Coronado; Carmen Rosa GARCÍA-DÁVILA; Niklas Tysklind; Valérie Troispoux
Nuclear and plastid SNP markers for tracing Cedrela timber in the tropics
(Springer Science+Business Media, 2019) Kathelyn Paredes-Villanueva; Céline Blanc-Jolivet; Malte Mäder; Eurídice N. Honorio Coronado; Carmen Rosa GARCÍA-DÁVILA; Alexandre Magno Sebbenn; Barbara Rocha Venâncio Meyer-Sand; Henri Caron; Niklas Tysklind; Stephen Cavers
Nuclear and plastidial SNP and INDEL markers for genetic tracking studies of Jacaranda copaia
(Springer Science+Business Media, 2019) Alexandre Magno Sebbenn; Céline Blanc-Jolivet; Malte Mäder; Barbara Rocha Venâncio Meyer-Sand; Kathelyn Paredes-Villanueva; Eurídice N. Honorio Coronado; Carmen Rosa GARCÍA-DÁVILA; Niklas Tysklind; Valérie Troispoux; Adline Delcamp
Predicting the geographic origin of Spanish Cedar (Cedrela odorata L.) based on DNA variation
(Springer Science+Business Media, 2020) Kristen N. Finch; Richard Cronn; Marianella C. Ayala Richter; Céline Blanc-Jolivet; Mónica Carola Correa Guerrero; Luis De Stefano-Beltrán; Carmen Rosa GARCÍA-DÁVILA; Eurídice N. Honorio Coronado; Sonia Palacios‐Ramos; Kathelyn Paredes-Villanueva
Abstract The legality of wood products often depends on their origin, creating a need for forensic tools that verify claims of provenance for wood products. The neotropical tree species Cedrela odorata (Spanish cedar) is economically valuable for its wood and faces threats of overexploitation. We developed a 140 SNP assay for geographic localization of C. odorata specimens. Target capture and short-read sequencing of 46 C. odorata specimens allowed us to identify 140 spatially informative SNPs that differentiate C. odorata specimens by latitude, temperature, and precipitation. We assessed the broad applicability of these SNPs on 356 specimens from eight Cedrela species, three tissue types, and a range of DNA mass inputs. Origin prediction error was evaluated with discrete and continuous spatial assignment methods focusing on C. odorata specimens. Discrete classification with random forests readily differentiated specimens originating in Central America versus South America (5.8% error), while uncertainty increased as specimens were divided into smaller regions. Continuous spatial prediction with SPASIBA showed a median prediction error of 188.7 km. Our results demonstrate that array SNPs and resulting genotypes accurately validate C. odorata geographic origin at the continental scale and show promise for country-level verification, but that finer-scale assignment likely requires denser spatial sampling. Our study underscores the important role of herbaria for developing genomic resources, and joins a growing list of studies that highlight the role of genomic tools for conservation of threatened species.
Rainfall and temperature variability in Bolivia derived from the tree-ring width of Amburana cearensis (Fr. Allem.) A.C. Smith
(Elsevier BV, 2015) Kathelyn Paredes-Villanueva; Lidio López; Matthew Brookhouse; Rafael María Navarro Cerrillo
Regional chronologies of Cedrela fissilis and Cedrela angustifolia in three forest types and their relation to climate
(Springer Science+Business Media, 2016) Kathelyn Paredes-Villanueva; Lidio López; Rafael María Navarro Cerrillo
Timber tracking of Jacaranda copaia from Amazon Forest using DNA fingerprint
(2024) Alexandre Magno Sebbenn; Lorena Frigini Moro Capo; Бернд Деген; Céline Blanc-Jolivet; Malte Mäder; Stephen Cavers; Kathelyn Paredes-Villanueva; Eurídice Honorio-Conorado; Carmen Rosa GARCÍA-DÁVILA; Niklas Tysklind
Amazon tropical forest is actually subject to strong deforestation, generally originated from illegal logging, resulting in ecological, environmental and economic problems. Aiming stop deforestation and timber commercialization of illegal logging of tropical forest, new laws has been introduced in many countries. Here we investigated the utility of DNA fingerprinting of nuclear and cytoplasmatic SNPs to timber tracking the intensive logged and commercialized of the Amazonian Neotropical tree Jacaranda copaia. Samples of 832 individuals from 43 populations from Bolivia, Brazil, French Guiana, and Peru were used to investigate the power of 113 nuclear SNPs, 11 CpSNPs, and four MtSNP loci to determine the country and population origin. The genetic differentiation among all populations and contries was high (0.233&ndash;0.942), specialy for CpMtSNP (generally&gt;0.6) loci, and there is a strong isolation by distance pathern among populations, favoring the group or individual samples tracking to correct site. For self-assignment tests, we were able to 100% correct determine country and population origin of all samples using all SNPs. Our results show that the use of 128 SNP markers is suitable to correct determination of country and population site of J. copaia timber origin and very useful tool for customs and local and international policies.
Timber Tracking of Jacaranda copaia from the Amazon Forest Using DNA Fingerprinting
(Multidisciplinary Digital Publishing Institute, 2024) Lorena Frigini Moro Capo; Бернд Деген; Céline Blanc-Jolivet; Niklas Tysklind; Stephen Cavers; Malte Mäder; Barbara Rocha Venâncio Meyer-Sand; Kathelyn Paredes-Villanueva; Eurídice Nora Honorio Conorado; Carmen Rosa GARCÍA-DÁVILA
We investigated the utility of nuclear and cytoplasmic single nucleotide polymorphism (SNP) markers for timber tracking of the intensively logged and commercialized Amazonian tree Jacaranda copaia. Eight hundred and thirty-two trees were sampled (cambium or leaves) from 38 sampling sites in Bolivia, Brazil, French Guiana, and Peru. A total of 128 SNP markers (113 nuclear, 11 chloroplastic, and 4 mitochondrial) were used for genotyping the samples. Bayesian cluster analyses were carried out to group individuals into homogeneous genetic groups for tests to self-assign groups of individuals or individuals to their population of origin. Cluster analysis based on all the SNP markers detected seven main genetic groups. Genetic differentiation was high among populations (0.484) and among genetic groups (0.415), and populations showed a strong isolation-by-distance pattern. Self-assignment testing of the groups of individuals for all loci was able to determine the population origin of all the samples (accuracy = 100%). Self-assignment tests of individuals were able to assign the origin of 94.5%–100% of individuals (accuracy: 91.7%–100%). Our results show that the use of the 128 SNP markers is suitable to correctly determine the origin of J. copaia timber, and they should be considered a useful tool for customs and local and international police.
Tracing the world’s timber: the status of scientific verification technologies for species and origin identification
(Brill, 2022) Melita C. Low; Nele Schmitz; Laura E. Boeschoten; José Antonio Cabezas; Mathias Cramm; Volker Haag; Gerald Koch; Barbara Rocha Venâncio Meyer-Sand; Kathelyn Paredes-Villanueva; Erin Price
Summary Illegal logging and illegal timber trade is a global problem. Anatomical, genetic, and chemical techniques support illegal logging legislation by verifying the species and geographic origin of timber. In principle, these methods can be used to identify timber species and the origin of harvest, however, the availability of specific tests for important timber species is unclear. We review the status of these methods for the top 322 global priority timber taxa. Our results show that for species identification, reference data exist for 100% of taxa using wood anatomy, 86% using genetics, 41% for using DART TOFMS, and 6% using NIRS. For origin identification, data exist for 24% of taxa, with most studies applying genetic approaches (23%). No studies have developed forensic-ready tests for the global priority timber taxa. The review highlights that the current potential for identifying species is greater than for geographic origin and more research focused on determining the geographical origin of timber is required. Based on the current rate, it will take approx. 27 years to generate geographic data for all 322 priority taxa. Finally, we identify research opportunities to improve global timber tracing efforts. Our findings indicate more research is needed, and quickly so that scientific verification can support regulators to combat illegal logging.