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John W Kress - One of the best experts on this subject based on the ideXlab platform.
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Tropical Plant–Herbivore Networks: Reconstructing Species Interactions Using DNA Barcodes
2016Co-Authors: David L. Erickson, Charles L. Staines, Terry L. Erwin, John W KressAbstract:Plants and their associated insect herbivores, represent more than 50 % of all known species on earth. The first step in understanding the mechanisms generating and maintaining this important component of biodiversity is to identify Plant-herbivore associations. In this study we determined insect-host Plant associations for an entire guild of insect herbivores using Plant DNA extracted from insect gut contents. Over two years, in a Tropical rain forest in Costa Rica (La Selva Biological Station), we recorded the full diet breadth of rolled-leaf beetles, a group of herbivores that feed on Plants in the order Zingiberales. Field observations were used to determine the accuracy of diet identifications using a three-locus DNA barcode (rbcL, trnH-psbA and ITS2). Using extraction techniques for ancient DNA, we obtained high-quality sequences for two of these loci from gut contents (rbcL and ITS2). Sequences were then compared to a comprehensive DNA barcode library of the Zingiberales. The rbcL locus identified host Plants to family (success/sequence = 58.8%) and genus (success/ sequence = 47%). For all Zingiberales except Heliconiaceae, ITS2 successfully identified host Plants to genus (success/ sequence = 67.1%) and species (success/sequence = 61.6%). Kindt’s sampling estimates suggest that by collecting ca. four individuals representing each Plant-herbivore interaction, 99 % of all host associations included in this study can be identified to genus. For Plants that amplified ITS2, 99 % of the hosts can be identified to species after collecting at least four individuals representing each interaction. Our study demonstrates that host Plant identifications at the species-level usin
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pollinator recognition by a keystone Tropical Plant
Proceedings of the National Academy of Sciences of the United States of America, 2015Co-Authors: Matthew G Betts, Adam S Hadley, John W KressAbstract:By using structural characteristics, such as long tubular flowers, Plants are known to achieve selective visitation by certain pollinator species. These morphological traits typically arise over evolutionary timescales. We show for the first time, to our knowledge, that at least one Plant has also evolved the capacity to recognize pollinator species immediately after visitation, thereby increasing the likelihood that a flower visitor has delivered high-quality pollen. This novel responsiveness by the Plant leads to functional specialization in an apparently generalized Tropical Plant–pollinator network. Such specialized linkages likely facilitate coevolution but also, render pollination mutualisms more vulnerable to environmental change.
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Tropical Plant herbivore networks reconstructing species interactions using dna barcodes
PLOS ONE, 2013Co-Authors: Carlos Garciarobledo, Charles L. Staines, Terry L. Erwin, David L. Erickson, John W KressAbstract:Plants and their associated insect herbivores, represent more than 50% of all known species on earth. The first step in understanding the mechanisms generating and maintaining this important component of biodiversity is to identify Plant-herbivore associations. In this study we determined insect-host Plant associations for an entire guild of insect herbivores using Plant DNA extracted from insect gut contents. Over two years, in a Tropical rain forest in Costa Rica (La Selva Biological Station), we recorded the full diet breadth of rolled-leaf beetles, a group of herbivores that feed on Plants in the order Zingiberales. Field observations were used to determine the accuracy of diet identifications using a three-locus DNA barcode (rbcL, trnH-psbA and ITS2). Using extraction techniques for ancient DNA, we obtained high-quality sequences for two of these loci from gut contents (rbcL and ITS2). Sequences were then compared to a comprehensive DNA barcode library of the Zingiberales. The rbcL locus identified host Plants to family (success/sequence = 58.8%) and genus (success/sequence = 47%). For all Zingiberales except Heliconiaceae, ITS2 successfully identified host Plants to genus (success/sequence = 67.1%) and species (success/sequence = 61.6%). Kindt's sampling estimates suggest that by collecting ca. four individuals representing each Plant-herbivore interaction, 99% of all host associations included in this study can be identified to genus. For Plants that amplified ITS2, 99% of the hosts can be identified to species after collecting at least four individuals representing each interaction. Our study demonstrates that host Plant identifications at the species-level using DNA barcodes are feasible, cost-effective, and reliable, and that reconstructing Plant-herbivore networks with these methods will become the standard for a detailed understanding of these interactions.
Herve Sauquet - One of the best experts on this subject based on the ideXlab platform.
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which frugivory related traits facilitated historical long distance dispersal in the custard apple family annonaceae
Journal of Biogeography, 2019Co-Authors: Renske E Onstein, Thomas L P Couvreur, Herve Sauquet, Daniel W Kissling, Lars W Chatrou, Helene MorlonAbstract:AIM: Long‐distance dispersal has contributed to the disjunct biogeographical distribution of rain forest Plants—something that has fascinated biogeographers since Humboldt's time. However, the dispersal agent for these Tropical Plant lineages remains puzzling. Here, we investigate which frugivory‐related traits may have facilitated past intercontinental long‐distance dispersal in the custard apple family (Annonaceae), a major vertebrate‐dispersed Tropical Plant family. We hypothesize that long‐distance dispersal was associated with the evolution of traits related to dispersal by large‐bodied mammals (e.g., large, dull‐coloured, “megafaunal” fruits) and strong‐flying, ocean‐crossing birds and bats (e.g., dehiscent, moniliform or cauliflorous fruits). LOCATION: Global. TAXON: Annonaceae. METHODS: We used a fossil‐calibrated phylogenetic framework to infer the biogeographic history of 234 Annonaceae species (10%, covering nearly all genera) in relation to the evolution of 15 frugivory‐related traits, using maximum likelihood and Bayesian inferences. Furthermore, we used linear and generalized linear models and phylogenetic simulations to test whether ancestral fruit traits during intercontinental dispersal were different from those of other lineages not involved in long‐distance dispersal. RESULTS: We inferred the ancestral Annonaceae fruits to be small with a single or few small seeds and a small number of fruitlets. These fruits were most probably apocarpous, indehiscent and/or moniliform (i.e., long beads of fruitlets). Furthermore, most of the long‐distance dispersal events in Annonaceae occurred via the expanded Tropical forests in the Early Cenozoic (“geodispersal”), and were significantly associated with large (c. 3 cm long), dull‐coloured fruits and short stipes. Additionally, long‐distance dispersal was also facilitated by dehiscent, moniliform and non‐cauliflorous fruits. MAIN CONCLUSIONS: We suggest that the evolution of frugivory‐related traits associated with dispersal by frugivores that frequently move across large distances and/or barriers, such as large‐bodied mammals and strong‐flying birds, has contributed to the disjunct Tropical biogeographical distribution of Annonaceae, and probably of Tropical rain forest Plants more generally.
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Data_Sheet_1_Phylogenomics of the Major Tropical Plant Family Annonaceae Using Targeted Enrichment of Nuclear Genes.PDF
2019Co-Authors: Thomas L P Couvreur, Herve Sauquet, Andrew J. Helmstetter, Erik J. M. Koenen, Rita D. Brandão, Stefan A. Little, Kevin Bethune, Roy H J ErkensAbstract:Targeted enrichment and sequencing of hundreds of nuclear loci for phylogenetic reconstruction is becoming an important tool for Plant systematics and evolution. Annonaceae is a major panTropical Plant family with 110 genera and ca. 2,450 species, occurring across all major and minor Tropical forests of the world. Baits were designed by sequencing the transcriptomes of five species from two of the largest Annonaceae subfamilies. Orthologous loci were identified. The resulting baiting kit was used to reconstruct phylogenetic relationships at two different levels using concatenated and gene tree approaches: a family wide Annonaceae analysis sampling 65 genera and a species level analysis of tribe Piptostigmateae sampling 29 species with multiple individuals per species. DNA extraction was undertaken mainly on silicagel dried leaves, with two samples from herbarium dried leaves. Our kit targets 469 exons (364,653 bp of sequence data), successfully capturing sequences from across Annonaceae. Silicagel dried and herbarium DNA worked equally well. We present for the first time a nuclear gene-based phylogenetic tree at the generic level based on 317 supercontigs. Results mainly confirm previous chloroplast based studies. However, several new relationships are found and discussed. We show significant differences in branch lengths between the two large subfamilies Annonoideae and Malmeoideae. A new tribe, Annickieae, is erected containing a single African genus Annickia. We also reconstructed a well-resolved species-level phylogenetic tree of the Piptostigmteae tribe. Our baiting kit is useful for reconstructing well-supported phylogenetic relationships within Annonaceae at different taxonomic levels. The nuclear genome is mainly concordant with plastome information with a few exceptions. Moreover, we find that substitution rate heterogeneity between the two subfamilies is also found within the nuclear compartment, and not just plastomes and ribosomal DNA as previously shown. Our results have implications for understanding the biogeography, molecular dating and evolution of Annonaceae.
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Phylogenomics of the major Tropical Plant family Annonaceae using targeted enrichment of nuclear genes
2018Co-Authors: Thomas L P Couvreur, Herve Sauquet, Andrew J. Helmstetter, Erik J. M. Koenen, Kevin Bethume, Rita D. Brandão, Stefan A. Little, Roy H J ErkensAbstract:Targeted enrichment and sequencing of hundreds of nuclear loci for phylogenetic reconstruction is becoming an important tool for Plant systematics and evolution. Annonaceae is a major panTropical Plant family with 109 genera and ca. 2450 species, occurring across all major and minor Tropical forests of the world. Baits were designed by sequencing the transcriptomes of five species from two of the largest Annonaceae subfamilies. Orthologous loci were identified. The resulting baiting kit was used to reconstruct phylogenetic relationships at two different levels using concatenated and gene tree approaches: a family wide Annonaceae analysis sampling 65 genera and a species level analysis of tribe Piptostigmateae sampling 29 species with multiple individuals per species. DNA extraction was undertaken mainly on silicagel dried leaves, with two samples from herbarium dried leaves. Our kit targets 469 exons (364,653 bp of sequence data), successfully capturing sequences from across Annonaceae. Silicagel dried and herbarium DNA worked equally well. We present for the first time a nuclear gene-based phylogenetic tree at the generic level based on 317 supercontigs. Results mainly confirm previous chloroplast based studies. However, several new relationships are found and discussed. We show significant differences in branch lengths between the two large subfamilies Annonoideae and Malmeoideae. A new tribe, Annickieae, is erected containing a single African genus Annickia. We also reconstructed a well resolved species-level phylogenetic tree of the Piptostigmteae tribe. Our baiting kit is useful for reconstructing well supported phylogenetic relationships within Annonaceae at different taxonomic levels. The nuclear genome is mainly concordant with plastome information with a few exceptions. Moreover, we find that substitution rate heterogeneity between the two subfamilies is also found within the nuclear compartment, and not just plastomes and ribosomal DNA as previously shown. Our results have implications for understanding the biogeography, molecular dating and evolution of Annonaceae.
Placebased Wac Wid Hui - One of the best experts on this subject based on the ideXlab platform.
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instructor interview for place based wac wid writing instruction in Tropical Plant and soil sciences clip 16 of 18
2015Co-Authors: Placebased Wac Wid HuiAbstract:This item includes a segment of an an instructor interview in a Writing Intensive course in Tropical Plant and Soil Sciences at the University of Hawaiʻi at Mānoa. The interview was conducted in 2013 and in this clip the interviewee is describing assignment rubrics.
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student interview for place based wac wid writing instruction in Tropical Plant and soil sciences clip 12 of 14
2015Co-Authors: Placebased Wac Wid HuiAbstract:This item includes a segment of an an instructor interview in a Writing Intensive course in Tropical Plant and Soil Sciences at the University of Hawaiʻi at Mānoa. The interview was conducted in 2013 and in this clip the interviewee is describing the demographics of the class.
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instructor interview for place based wac wid writing instruction in Tropical Plant and soil sciences clip 15 of 18
2015Co-Authors: Placebased Wac Wid HuiAbstract:This item includes a segment of an a student interview in a Writing Intensive course in Tropical Plant and Soil Sciences at the University of Hawaiʻi at Mānoa. The interview was conducted in 2015 and in this clip the interviewee is responding with general advice about Writing Intensive courses.
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student interview for place based wac wid writing instruction in Tropical Plant and soil sciences clip 10 of 14
2015Co-Authors: Placebased Wac Wid HuiAbstract:This item includes a segment of an an instructor interview in a Writing Intensive course in Tropical Plant and Soil Sciences at the University of Hawaiʻi at Mānoa. The interview was conducted in 2013 and in this clip the interviewee is explaining the role of active participation in this course.
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student interview for place based wac wid writing instruction in Tropical Plant and soil sciences clip 5 of 14
2015Co-Authors: Placebased Wac Wid HuiAbstract:This item includes a segment of an instructor interview in a Writing Intensive course in Tropical Plant and Soil Sciences at the University of Hawaiʻi at Mānoa. The interview was conducted in 2013, and in this clip the interviewee is responding to the question 'What observations on course dynamics and discussions do you have?'
Carlos Garciarobledo - One of the best experts on this subject based on the ideXlab platform.
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Tropical Plant herbivore networks reconstructing species interactions using dna barcodes
PLOS ONE, 2013Co-Authors: Carlos Garciarobledo, Charles L. Staines, Terry L. Erwin, David L. Erickson, John W KressAbstract:Plants and their associated insect herbivores, represent more than 50% of all known species on earth. The first step in understanding the mechanisms generating and maintaining this important component of biodiversity is to identify Plant-herbivore associations. In this study we determined insect-host Plant associations for an entire guild of insect herbivores using Plant DNA extracted from insect gut contents. Over two years, in a Tropical rain forest in Costa Rica (La Selva Biological Station), we recorded the full diet breadth of rolled-leaf beetles, a group of herbivores that feed on Plants in the order Zingiberales. Field observations were used to determine the accuracy of diet identifications using a three-locus DNA barcode (rbcL, trnH-psbA and ITS2). Using extraction techniques for ancient DNA, we obtained high-quality sequences for two of these loci from gut contents (rbcL and ITS2). Sequences were then compared to a comprehensive DNA barcode library of the Zingiberales. The rbcL locus identified host Plants to family (success/sequence = 58.8%) and genus (success/sequence = 47%). For all Zingiberales except Heliconiaceae, ITS2 successfully identified host Plants to genus (success/sequence = 67.1%) and species (success/sequence = 61.6%). Kindt's sampling estimates suggest that by collecting ca. four individuals representing each Plant-herbivore interaction, 99% of all host associations included in this study can be identified to genus. For Plants that amplified ITS2, 99% of the hosts can be identified to species after collecting at least four individuals representing each interaction. Our study demonstrates that host Plant identifications at the species-level using DNA barcodes are feasible, cost-effective, and reliable, and that reconstructing Plant-herbivore networks with these methods will become the standard for a detailed understanding of these interactions.
David L. Erickson - One of the best experts on this subject based on the ideXlab platform.
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Tropical Plant–Herbivore Networks: Reconstructing Species Interactions Using DNA Barcodes
2016Co-Authors: David L. Erickson, Charles L. Staines, Terry L. Erwin, John W KressAbstract:Plants and their associated insect herbivores, represent more than 50 % of all known species on earth. The first step in understanding the mechanisms generating and maintaining this important component of biodiversity is to identify Plant-herbivore associations. In this study we determined insect-host Plant associations for an entire guild of insect herbivores using Plant DNA extracted from insect gut contents. Over two years, in a Tropical rain forest in Costa Rica (La Selva Biological Station), we recorded the full diet breadth of rolled-leaf beetles, a group of herbivores that feed on Plants in the order Zingiberales. Field observations were used to determine the accuracy of diet identifications using a three-locus DNA barcode (rbcL, trnH-psbA and ITS2). Using extraction techniques for ancient DNA, we obtained high-quality sequences for two of these loci from gut contents (rbcL and ITS2). Sequences were then compared to a comprehensive DNA barcode library of the Zingiberales. The rbcL locus identified host Plants to family (success/sequence = 58.8%) and genus (success/ sequence = 47%). For all Zingiberales except Heliconiaceae, ITS2 successfully identified host Plants to genus (success/ sequence = 67.1%) and species (success/sequence = 61.6%). Kindt’s sampling estimates suggest that by collecting ca. four individuals representing each Plant-herbivore interaction, 99 % of all host associations included in this study can be identified to genus. For Plants that amplified ITS2, 99 % of the hosts can be identified to species after collecting at least four individuals representing each interaction. Our study demonstrates that host Plant identifications at the species-level usin
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Tropical Plant herbivore networks reconstructing species interactions using dna barcodes
PLOS ONE, 2013Co-Authors: Carlos Garciarobledo, Charles L. Staines, Terry L. Erwin, David L. Erickson, John W KressAbstract:Plants and their associated insect herbivores, represent more than 50% of all known species on earth. The first step in understanding the mechanisms generating and maintaining this important component of biodiversity is to identify Plant-herbivore associations. In this study we determined insect-host Plant associations for an entire guild of insect herbivores using Plant DNA extracted from insect gut contents. Over two years, in a Tropical rain forest in Costa Rica (La Selva Biological Station), we recorded the full diet breadth of rolled-leaf beetles, a group of herbivores that feed on Plants in the order Zingiberales. Field observations were used to determine the accuracy of diet identifications using a three-locus DNA barcode (rbcL, trnH-psbA and ITS2). Using extraction techniques for ancient DNA, we obtained high-quality sequences for two of these loci from gut contents (rbcL and ITS2). Sequences were then compared to a comprehensive DNA barcode library of the Zingiberales. The rbcL locus identified host Plants to family (success/sequence = 58.8%) and genus (success/sequence = 47%). For all Zingiberales except Heliconiaceae, ITS2 successfully identified host Plants to genus (success/sequence = 67.1%) and species (success/sequence = 61.6%). Kindt's sampling estimates suggest that by collecting ca. four individuals representing each Plant-herbivore interaction, 99% of all host associations included in this study can be identified to genus. For Plants that amplified ITS2, 99% of the hosts can be identified to species after collecting at least four individuals representing each interaction. Our study demonstrates that host Plant identifications at the species-level using DNA barcodes are feasible, cost-effective, and reliable, and that reconstructing Plant-herbivore networks with these methods will become the standard for a detailed understanding of these interactions.
