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  • 1
    In: TAXON, Wiley, Vol. 71, No. 1 ( 2022-02), p. 178-198
    Abstract: The shortage of reliable primary taxonomic data limits the description of biological taxa and the understanding of biodiversity patterns and processes, complicating biogeographical, ecological, and evolutionary studies. This deficit creates a significant taxonomic impediment to biodiversity research and conservation planning. The taxonomic impediment and the biodiversity crisis are widely recognized, highlighting the urgent need for reliable taxonomic data. Over the past decade, numerous countries worldwide have devoted considerable effort to Target 1 of the Global Strategy for Plant Conservation (GSPC), which called for the preparation of a working list of all known plant species by 2010 and an online world Flora by 2020. Brazil is a megadiverse country, home to more of the world's known plant species than any other country. Despite that, Flora Brasiliensis , concluded in 1906, was the last comprehensive treatment of the Brazilian flora. The lack of accurate estimates of the number of species of algae, fungi, and plants occurring in Brazil contributes to the prevailing taxonomic impediment and delays progress towards the GSPC targets. Over the past 12 years, a legion of taxonomists motivated to meet Target 1 of the GSPC, worked together to gather and integrate knowledge on the algal, plant, and fungal diversity of Brazil. Overall, a team of about 980 taxonomists joined efforts in a highly collaborative project that used cybertaxonomy to prepare an updated Flora of Brazil, showing the power of scientific collaboration to reach ambitious goals. This paper presents an overview of the Brazilian Flora 2020 and provides taxonomic and spatial updates on the algae, fungi, and plants found in one of the world's most biodiverse countries. We further identify collection gaps and summarize future goals that extend beyond 2020. Our results show that Brazil is home to 46,975 native species of algae, fungi, and plants, of which 19,669 are endemic to the country. The data compiled to date suggests that the Atlantic Rainforest might be the most diverse Brazilian domain for all plant groups except gymnosperms, which are most diverse in the Amazon. However, scientific knowledge of Brazilian diversity is still unequally distributed, with the Atlantic Rainforest and the Cerrado being the most intensively sampled and studied biomes in the country. In times of “scientific reductionism”, with botanical and mycological sciences suffering pervasive depreciation in recent decades, the first online Flora of Brazil 2020 significantly enhanced the quality and quantity of taxonomic data available for algae, fungi, and plants from Brazil. This project also made all the information freely available online, providing a firm foundation for future research and for the management, conservation, and sustainable use of the Brazilian funga and flora.
    Type of Medium: Online Resource
    ISSN: 0040-0262 , 1996-8175
    URL: Issue
    Language: English
    Publisher: Wiley
    Publication Date: 2022
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    SSG: 12
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  • 2
    Online Resource
    Online Resource
    Wiley ; 2019
    In:  Molecular Ecology Vol. 28, No. 5 ( 2019-03), p. 980-997
    In: Molecular Ecology, Wiley, Vol. 28, No. 5 ( 2019-03), p. 980-997
    Abstract: Wallace's Riverine Barrier hypothesis is one of the earliest biogeographic explanations for Amazon speciation, but it has rarely been tested in plants. In this study, we used three woody Amazonian plant species to evaluate Wallace's Hypothesis using tools of landscape genomics. We generated unlinked single‐nucleotide polymorphism ( SNP ) data from the nuclear genomes of 234 individuals (78 for each plant species) across 13 sampling sites along the Rio Branco, Brazil, for Amphirrhox longifolia (8,075 SNP s), Psychotria lupulina (9,501 SNP s) and Passiflora spinosa (14,536 SNP s). Although significantly different migration rates were estimated between species, the population structure data do not support the hypothesis that the Rio Branco—an allopatric barrier for primates and birds—is a significant genetic barrier for Amphirrhox longifolia , Passiflora spinosa or Psychotria lupulina . Overall, we demonstrated that medium‐sized rivers in the Amazon Basin, such as the Rio Branco, are permeable barriers to gene flow for animal‐dispersed and animal‐pollinated plant species.
    Type of Medium: Online Resource
    ISSN: 0962-1083 , 1365-294X
    URL: Issue
    RVK:
    Language: English
    Publisher: Wiley
    Publication Date: 2019
    detail.hit.zdb_id: 2020749-9
    detail.hit.zdb_id: 1126687-9
    SSG: 12
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  • 3
    Online Resource
    Online Resource
    Wiley ; 2017
    In:  Applications in Plant Sciences Vol. 5, No. 10 ( 2017-10)
    In: Applications in Plant Sciences, Wiley, Vol. 5, No. 10 ( 2017-10)
    Abstract: We developed chloroplast microsatellite markers (cpSSRs) to be used to study the patterns of genetic structure and genetic diversity of populations of Stizophyllum riparium (Bignonieae, Bignoniaceae). Methods and Results: We used genomic data obtained through an Illumina HiSeq sequencing platform to develop a set of cpSSRs for S. riparium . A total of 36 primer pairs were developed, of which 28 displayed polymorphisms across 59 individuals from three populations. Two to 12 alleles were recorded, and the unbiased haploid diversity per locus ranged from 0.037 to 0.905. All 28 cpSSRs presented transferability to two closely related species, S. inaequilaterum and S. perforatum . Conclusions: We report a set of 28 cpSSRs for S. riparium . All markers were shown to be variable in S. riparium , indicating that these markers will be valuable for population genetic studies across S. riparium and congeneric species.
    Type of Medium: Online Resource
    ISSN: 2168-0450 , 2168-0450
    Language: English
    Publisher: Wiley
    Publication Date: 2017
    detail.hit.zdb_id: 2699923-7
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  • 4
    Online Resource
    Online Resource
    Wiley ; 2017
    In:  Molecular Ecology Resources Vol. 17, No. 6 ( 2017-11), p. 1136-1147
    In: Molecular Ecology Resources, Wiley, Vol. 17, No. 6 ( 2017-11), p. 1136-1147
    Abstract: High‐throughput DNA sequencing facilitates the analysis of large portions of the genome in nonmodel organisms, ensuring high accuracy of population genetic parameters. However, empirical studies evaluating the appropriate sample size for these kinds of studies are still scarce. In this study, we use double‐digest restriction‐associated DNA sequencing (ddRADseq) to recover thousands of single nucleotide polymorphisms (SNPs) for two physically isolated populations of Amphirrhox longifolia (Violaceae), a nonmodel plant species for which no reference genome is available. We used resampling techniques to construct simulated populations with a random subset of individuals and SNPs to determine how many individuals and biallelic markers should be sampled for accurate estimates of intra‐ and interpopulation genetic diversity. We identified 3646 and 4900 polymorphic SNPs for the two populations of A. longifolia , respectively. Our simulations show that, overall, a sample size greater than eight individuals has little impact on estimates of genetic diversity within A. longifolia populations, when 1000 SNPs or higher are used. Our results also show that even at a very small sample size (i.e. two individuals), accurate estimates of F ST can be obtained with a large number of SNPs (≥1500). These results highlight the potential of high‐throughput genomic sequencing approaches to address questions related to evolutionary biology in nonmodel organisms. Furthermore, our findings also provide insights into the optimization of sampling strategies in the era of population genomics.
    Type of Medium: Online Resource
    ISSN: 1755-098X , 1755-0998
    URL: Issue
    Language: English
    Publisher: Wiley
    Publication Date: 2017
    detail.hit.zdb_id: 2406833-0
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  • 5
    Online Resource
    Online Resource
    Wiley ; 2017
    In:  Molecular Ecology Vol. 26, No. 14 ( 2017-07), p. 3636-3648
    In: Molecular Ecology, Wiley, Vol. 26, No. 14 ( 2017-07), p. 3636-3648
    Abstract: Wallace's riverine barrier hypothesis postulates that large rivers, such as the Amazon and its tributaries, reduce or prevent gene flow between populations on opposite banks, leading to allopatry and areas of species endemism occupying interfluvial regions. Several studies have shown that two major tributaries, Rio Branco and Rio Negro, are important barriers to gene flow for birds, amphibians and primates. No botanical studies have considered the potential role of the Rio Branco as a barrier, while a single botanical study has evaluated the Rio Negro as a barrier. We studied an Amazon shrub, Amphirrhox longifolia (A. St.‐Hil.) Spreng (Violaceae), as a model to test the riverine barrier hypothesis. Twenty‐six populations of A. longifolia were sampled on both banks of the Rio Branco and Rio Negro in the core Amazon Basin. Double‐digest RAD seq was used to identify 8,010 unlinked SNP markers from the nuclear genome of 156 individuals. Data relating to population structure support the hypothesis that the Rio Negro acted as a significant genetic barrier for A. longifolia . On the other hand, no genetic differentiation was detected among populations spanning the narrower Rio Branco, which is a tributary of the Rio Negro. This study shows that the strength of riverine barriers for Amazon plants is dependent on the width of the river separating populations and species‐specific dispersal traits. Future studies of plants with contrasting life history traits will further improve our understanding of the landscape genetics and allopatric speciation history of Amazon plant diversity.
    Type of Medium: Online Resource
    ISSN: 0962-1083 , 1365-294X
    URL: Issue
    RVK:
    Language: English
    Publisher: Wiley
    Publication Date: 2017
    detail.hit.zdb_id: 2020749-9
    detail.hit.zdb_id: 1126687-9
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  • 6
    Online Resource
    Online Resource
    Wiley ; 2016
    In:  Applications in Plant Sciences Vol. 4, No. 9 ( 2016-09)
    In: Applications in Plant Sciences, Wiley, Vol. 4, No. 9 ( 2016-09)
    Abstract: In this study, we developed chloroplast microsatellite markers (cpSSRs) for Pachyptera kerere (Bignoniaceae) to investigate the population structure and genetic diversity of this species. Methods and Results: We used Illumina HiSeq data to reconstruct the chloroplast genome of P. kerere by a combination of de novo and reference‐guided assembly. We then used the chloroplast genome to develop a set of cpSSRs from intergenic regions. Overall, 24 primer pairs were designed, 21 of which amplified successfully and were polymorphic, presenting three to nine alleles per locus. The unbiased haploid diversity per locus varied from 0.207 (Pac28) to 0.817 (Pac04). All but one locus amplified for all other taxa of Pachyptera . Conclusions: The markers reported here will serve as a basis for studies to assess the genetic structure and phylogeographic history of Pachyptera .
    Type of Medium: Online Resource
    ISSN: 2168-0450 , 2168-0450
    Language: English
    Publisher: Wiley
    Publication Date: 2016
    detail.hit.zdb_id: 2699923-7
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  • 7
    Online Resource
    Online Resource
    Wiley ; 2009
    In:  American Journal of Botany Vol. 96, No. 9 ( 2009-09), p. 1731-1743
    In: American Journal of Botany, Wiley, Vol. 96, No. 9 ( 2009-09), p. 1731-1743
    Abstract: Bignoniaceae are woody, trees, shrubs, and lianas found in all tropical floras of the world with lesser representation in temperate regions. Phylogenetic analyses of chloroplast sequences ( rbcL, ndhF, trnL‐F ) were undertaken to infer evolutionary relationships in Bignoniaceae and to revise its classification. Eight clades are recognized as tribes (Bignonieae, Catalpeae, Coleeae, Crescentieae, Jacarandeae, Oroxyleae, Tecomeae, Tourrettieae); additional inclusive clades are named informally. Jacarandeae and Catalpeae are resurrected; the former is sister to the rest of the family, and the latter occupies an unresolved position within the “core” Bignoniaceae. Tribe Eccremocarpeae is included in Tourrettieae. Past classifications recognized a large Tecomeae, but this tribe is paraphyletic with respect to all other tribes. Here Tecomeae are reduced to a clade of approximately 12 genera with a worldwide distribution in both temperate and tropical ecosystems. Two large clades, Bignonieae and Crescentiina, account for over 80% of the species in the family. Coleeae and Crescentieae are each included in larger clades, the Paleotropical alliance and Tabebuia alliance, respectively; each alliance includes a grade of taxa assigned to the traditional Tecomeae. Parsimony inference suggests that the family originated in the neotropics, with at least five dispersal events leading to the Old World representatives.
    Type of Medium: Online Resource
    ISSN: 0002-9122 , 1537-2197
    RVK:
    Language: English
    Publisher: Wiley
    Publication Date: 2009
    detail.hit.zdb_id: 2053581-8
    SSG: 12
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  • 8
    Online Resource
    Online Resource
    Wiley ; 2019
    In:  American Journal of Botany Vol. 106, No. 12 ( 2019-12), p. 1589-1601
    In: American Journal of Botany, Wiley, Vol. 106, No. 12 ( 2019-12), p. 1589-1601
    Abstract: The tribe Jacarandeae includes Jacaranda (49 species) and Digomphia (3 species), two genera of trees and woody shrubs with Neotropical distribution. Jacarandeae is sister to the rest of the Bignoniaceae, but not much is known about interspecific and intergeneric relationships within this group. Methods We reconstructed the phylogeny of Jacarandeae using chloroplast ( ndh F, rpl 32‐ trn L, trn L‐F) and nuclear ( ETS , PPR 62) markers. Evolutionary relationships within Jacarandeae were inferred using Bayesian, Maximum Likelihood, and species tree approaches. The resulting phylogenetic framework was used as the basis to interpret the evolution of key morphological character states (i.e., stamen and calyx traits) and revise the infra‐generic classification of the group. Results Jacaranda and Digomphia belong to a well‐supported clade, with Digomphia nested within Jacaranda . We propose the necessary taxonomic changes to recognize monophyletic taxa, including a broadly circumscribed Jacaranda divided into four sections: (1) Jacaranda sect. Nematopogon , species previously included in Digomphia and united by divided staminode apices and spathaceous calyces; (2) Jacaranda sect. Copaia , species with monothecal anthers and cupular calyces; (3) Jacaranda sect. Jacaranda , species with monothecal anthers and campanulate calyces; and (4) Jacaranda sect. Dilobos , species with dithecal anthers and cupular calyces, and including more than half of the species of the genus, all restricted to Brazil. Conclusions As circumscribed here, Jacarandeae includes only a broadly defined Jacaranda divided into four sections. Each section is defined by a unique combination of anther and calyx morphologies.
    Type of Medium: Online Resource
    ISSN: 0002-9122 , 1537-2197
    URL: Issue
    RVK:
    Language: English
    Publisher: Wiley
    Publication Date: 2019
    detail.hit.zdb_id: 2053581-8
    SSG: 12
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  • 9
    In: Journal of Biogeography, Wiley, Vol. 35, No. 1 ( 2008-01), p. 105-116
    Abstract: Aim  Species distribution models and geographical information system (GIS) technologies are becoming increasingly important tools in conservation planning and decision‐making. Often the rich data bases of museums and herbaria serve as the primary data for predicting species distributions. Yet key assumptions about the primary data often are untested, and violation of such assumptions may have consequences for model predictions. For example, users of primary data assume that sampling has been random with respect to geography and environmental gradients. Here we evaluate the assumption that plant voucher specimens adequately sample the climatic gradient and test whether violation of this assumption influences model predictions. Location  Bolivia and Ecuador. Methods  Using 323,711 georeferenced herbarium collections and nine climatic variables, we predicted the distribution of 76 plant species using maximum entropy models (MAXENT) with training points that sampled the climate environments randomly and training points that reflected the climate bias in the herbarium collections. To estimate the distribution of species, MAXENT finds the distribution of maximum entropy (i.e. closest to uniform) subject to the constraint that the expected value for each environmental variable under the estimated distribution matches its empirical average. The experimental design included species that differed in geographical range and elevation; all species were modelled with 20 and 100 training points. We examined the influence of the number of training points and climate bias in training points, elevation and range size on model performance using analysis of variance models. Results  We found that significant parts of the climatic gradient were poorly represented in herbarium collections for both countries. For the most part, existing climatic bias in collections did not greatly affect distribution predictions when compared with an unbiased data set. Although the effects of climate bias on prediction accuracy were found to be greater where geographical ranges were characterized by high spatial variation in the degree of climate bias (i.e. ranges where the bias of the various climates sampled by collections deviated considerably from the mean bias), the greatest influence on model performance was the number of presence points used to train the model. Main conclusions  These results demonstrate that predictions of species distributions can be quite good despite existing climatic biases in primary data found in natural history collections, if a sufficiently large number of training points is available. Because of consistent overprediction of models, these results also confirm the importance of validating models with independent data or expert opinion. Failure to include independent model validation, especially in cases where training points are limited, may potentially lead to grave errors in conservation decision‐making and planning.
    Type of Medium: Online Resource
    ISSN: 0305-0270 , 1365-2699
    URL: Issue
    Language: English
    Publisher: Wiley
    Publication Date: 2008
    detail.hit.zdb_id: 2020428-0
    detail.hit.zdb_id: 188963-1
    SSG: 12
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  • 10
    In: Journal of Ecology, Wiley, Vol. 108, No. 4 ( 2020-07), p. 1578-1591
    Abstract: Information on direct and indirect drivers of temporal variation in ant–plant interactions is scarce, compromising our ability to predict the functioning of these ecologically important interactions. We investigated the roles of precipitation, ant activity, abundance of young plant tissues bearing extrafloral nectaries (EFNs) and EFN phenotypes in the establishment of EFN‐mediated ant–plant interactions throughout the year in Amazonia, Brazil. We hypothesized that the frequency of ant–plant interactions follows a predictable seasonal pattern, being higher in wetter periods, during which plants invest more in the production of new plant tissues bearing EFNs, ultimately promoting ant attendance. We surveyed and tagged every understorey Bignonieae plant rooted inside 28,500‐m 2 plots, and recorded ant–EFN interactions on each plant five times throughout the year. We also sampled ants with honey baits to estimate temporal variation in general ant activity. Contrary to our hypothesis, the proportion of plants tended by ants in each plot was higher in drier, not wetter, months. Ant attendance was indirectly and negatively related to precipitation, which was attributed to a decrease in the proportion of plants producing new EFN‐bearing plant tissues during the wetter period. Additionally, seasonal variation in an ant activity did not explain temporal patterns of plant attendance. At the plant level, ant attendance increased strongly with the number of recently formed shoot nodes, and ants almost never attended plants with limited or no young tissue. Among the 12 most abundant Bignonieae species, the amount of young tissue was the most important predictor of ant attendance, secondarily explained by the EFN secretory area. Synthesis . Our results suggest that seasonal variation in the production of new plant tissues bearing EFNs is the primary driver of the temporal patterns of EFN–plant attendance by ants in this system. Contrary to our expectations, production of new plant tissue is higher in the drier months of the year, which in turn boosts the frequency of interactions between ants and EFN‐bearing plants in the dry season. These results highlight the role of plant phenology in the remarkable variation encountered in ant visitation to EFN‐bearing plants in both space and time.
    Type of Medium: Online Resource
    ISSN: 0022-0477 , 1365-2745
    URL: Issue
    Language: English
    Publisher: Wiley
    Publication Date: 2020
    detail.hit.zdb_id: 3023-5
    detail.hit.zdb_id: 2004136-6
    SSG: 12
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