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5. Introduction to Part I

Author

Markee, Numa, Sert, Olcay, Kunitz, Silvia, Hult, Francis M., Series Editor, Cavalcanti, Marilda C., Editorial Board Member, Cenoz, Jasone, Editorial Board Member, Creese, Angela, Editorial Board Member, Gogolin, Ingrid, Editorial Board Member, Hélot, Christine, Editorial Board Member, Janks, Hilary, Editorial Board Member, Kramsch, Claire, Editorial Board Member, Leung, Constant, Editorial Board Member, Lin, Angel, Editorial Board Member, Pennycook, Alastair, Editorial Board Member, Kunitz, Silvia, editor, Markee, Numa, editor, and Sert, Olcay, editor

Published
2021
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6. Introduction: CA-SLA and the Diffusion of Innovations

Author

Markee, Numa, Kunitz, Silvia, Sert, Olcay, Hult, Francis M., Series Editor, Cavalcanti, Marilda C., Editorial Board Member, Cenoz, Jasone, Editorial Board Member, Creese, Angela, Editorial Board Member, Gogolin, Ingrid, Editorial Board Member, Hélot, Christine, Editorial Board Member, Janks, Hilary, Editorial Board Member, Kramsch, Claire, Editorial Board Member, Leung, Constant, Editorial Board Member, Lin, Angel, Editorial Board Member, Pennycook, Alastair, Editorial Board Member, Kunitz, Silvia, editor, Markee, Numa, editor, and Sert, Olcay, editor

Published
2021
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7. Classroom-Based Conversation Analytic Research: Theoretical and Applied Perspectives on Pedagogy. Educational Linguistics. Volume 46

Author

Silvia Kunitz, Numa Markee, Olcay Sert, Silvia Kunitz, Numa Markee, and Olcay Sert

Abstract

This book presents an international range of conversation analytic (CA) studies of classroom interaction which all discuss their empirical findings in terms of their theoretical and methodological contribution to the field of second language studies and their potential pedagogical relevance. The volume is thus unique in its focus on the theoretical and practical insights of CA classroom-based research and on the impact that such insights might have at the pedagogical level, from teaching to testing to teacher education. Given the growing interest in the pedagogical applicability of CA research, this book is a timely addition to the existing literature. [Individual chapters are indexed in ERIC.]

Published
2021
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8. Introduction to Part IV

Author

Kunitz, Silvia, Markee, Numa, Sert, Olcay, Hult, Francis M., Series Editor, Cavalcanti, Marilda C., Editorial Board Member, Cenoz, Jasone, Editorial Board Member, Creese, Angela, Editorial Board Member, Gogolin, Ingrid, Editorial Board Member, Hélot, Christine, Editorial Board Member, Janks, Hilary, Editorial Board Member, Kramsch, Claire, Editorial Board Member, Leung, Constant, Editorial Board Member, Lin, Angel, Editorial Board Member, Pennycook, Alastair, Editorial Board Member, Kunitz, Silvia, editor, Markee, Numa, editor, and Sert, Olcay, editor

Published
2021
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9. Introduction to Part III

Author

Sert, Olcay, Markee, Numa, Kunitz, Silvia, Hult, Francis M., Series Editor, Cavalcanti, Marilda C., Editorial Board Member, Cenoz, Jasone, Editorial Board Member, Creese, Angela, Editorial Board Member, Gogolin, Ingrid, Editorial Board Member, Hélot, Christine, Editorial Board Member, Janks, Hilary, Editorial Board Member, Kramsch, Claire, Editorial Board Member, Leung, Constant, Editorial Board Member, Lin, Angel, Editorial Board Member, Pennycook, Alastair, Editorial Board Member, Kunitz, Silvia, editor, Markee, Numa, editor, and Sert, Olcay, editor

Published
2021
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10. Mezcal worm in a bottle: DNA evidence suggests a single moth species

Author

Akito Y. Kawahara, Jose I. Martinez, David Plotkin, Amanda Markee, Violet Butterwort, Christian D. Couch, and Emmanuel F.A. Toussaint

Subjects
Agave redworm moth, Comadia redtenbacheri, Cossidae, Goat moth, Gusano del maguey, Identification, Medicine, Biology (General), QH301-705.5
Abstract

Mezcals are distilled Mexican alcoholic beverages consumed by many people across the globe. One of the most popular mezcals is tequila, but there are other forms of mezcal whose production has been part of Mexican culture since the 17th century. It was not until the 1940–50s when the mezcal worm, also known as the “tequila worm”, was placed inside bottles of non-tequila mezcal before distribution. These bottled larvae increased public attention for mezcal, especially in Asia, Europe, and the United States. Despite these larvae gaining global interest, their identity has largely remained uncertain other than that they are larvae of one of three distantly related holometabolous insects. We sequenced the COI gene from larvae in different kinds of commercially available mezcals. All larval DNA that amplified was identified as the agave redworm moth, Comadia redtenbacheri. Those that did not amplify were also confirmed morphologically to be the larva of this species.

Published
2023
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11. De Novo Long-Read Genome Assembly and Annotation of the Luna Moth (Actias luna) Fully Resolves Repeat-Rich Silk Genes.

Author

Markee, Amanda, Godfrey, Rebekah Keating, Frandsen, Paul B, Weng, Yi-Ming, Triant, Deborah A, and Kawahara, Akito Y

Subjects
*AMINO acid residues, *SILKWORMS, *SILK production, *MOTHS, *LEPIDOPTERA
Abstract

We present the first long-read de novo assembly and annotation of the luna moth (Actias luna) and provide the full characterization of heavy chain fibroin (h-fibroin), a long and highly repetitive gene (>20 kb) essential in silk fiber production. There are >160,000 described species of moths and butterflies (Lepidoptera), but only within the last 5 years have we begun to recover high-quality annotated whole genomes across the order that capture h-fibroin. Using PacBio HiFi reads, we produce the first high-quality long-read reference genome for this species. The assembled genome has a length of 532 Mb, a contig N50 of 16.8 Mb, an L50 of 14 contigs, and 99.4% completeness (BUSCO). Our annotation using Bombyx mori protein and A. luna RNAseq evidence captured a total of 20,866 genes at 98.9% completeness with 10,267 functionally annotated proteins and a full-length h-fibroin annotation of 2,679 amino acid residues. [ABSTRACT FROM AUTHOR]

Published
2024
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12. Long-read HiFi sequencing correctly assembles repetitive heavy fibroin silk genes in new moth and caddisfly genomes

Author

Akito Y. Kawahara, Caroline G. Storer, Amanda Markee, Jacqueline Heckenhauer, Ashlyn Powell, David Plotkin, Scott Hotaling, Timothy P. Cleland, Rebecca B. Dikow, Torsten Dikow, Ryoichi B. Kuranishi, Rebeccah Messcher, Steffen U. Pauls, Russell J. Stewart, Koji Tojo, and Paul B. Frandsen

Subjects
Electronic computers. Computer science, QA75.5-76.95
Abstract

Insect silk is a versatile biomaterial. Lepidoptera and Trichoptera display some of the most diverse uses of silk, with varying strength, adhesive qualities, and elastic properties. Silk fibroin genes are long (>20 Kbp), with many repetitive motifs that make them challenging to sequence. Most research thus far has focused on conserved N- and C-terminal regions of fibroin genes because a full comparison of repetitive regions across taxa has not been possible. Using the PacBio Sequel II system and SMRT sequencing, we generated high fidelity (HiFi) long-read genomic and transcriptomic sequences for the Indianmeal moth (Plodia interpunctella) and genomic sequences for the caddisfly Eubasilissa regina. Both genomes were highly contiguous (N50 = 9.7 Mbp/32.4 Mbp, L50 = 13/11) and complete (BUSCO complete = 99.3%/95.2%), with complete and contiguous recovery of silk heavy fibroin gene sequences. We show that HiFi long-read sequencing is helpful for understanding genes with long, repetitive regions.

Published
2022
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13. Population Genetic Structure of a Rare Butterfly in a Fragmented South Florida Ecosystem

Author

Emily Heffernan, Amanda Markee, Mary R. Truglio, Megan Barkdull, Sarah Steele Cabrera, and Jaret Daniels

Subjects
Ephyriades brunnea floridensis, pine rockland, microsatellites, Wolbachia, gene flow, genetic diversity, Science
Abstract

We investigated the genetic structure and diversity between populations of a rare butterfly, the Florida duskywing (Ephyriades brunnea floridensis E. Bell and W. Comstock, 1948) (Lepidoptera: Hesperiidae) across a network of South Florida pine rockland habitat fragments. Based on 81 individuals from seven populations and using multiple polymorphic microsatellite loci, our analyses support the presence of mainland Florida (peninsular) and Florida Keys (island) population groupings, with a moderate, asymmetrical gene flow connecting them, and the presence of private alleles providing unique identities to each. We additionally found that despite a prevalence in many Lepidoptera, the presence of Wolbachia was not identified in any of the samples screened. Our findings can be used to inform conservation and recovery decisions, including population monitoring, organism translocation, and priority areas for management, restoration or stepping-stone creation to help maintain the complex genetic structure of separate populations.

Published
2023
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14. Perceptions of the healthcare system among stakeholders

Author

Michael Markee, Christine Ascencio, Laura Brugger, Renee Jonas, and Hisako Matsuo

Subjects
qualitative methods, perceptions of healthcare, health policy, grounded theory, patient experience, Medicine (General), R5-920, Public aspects of medicine, RA1-1270
Abstract

The U.S. healthcare system is rife with complexities and is consistently a source of political debate. One’s interaction with the system may directly impact the understanding of the system. The objective of this research is to examine the perceptions of the United States healthcare system from the viewpoint of healthcare providers, insurers, and consumers. Using a grounded theory approach, theoretical sampling was used to explore similarities and differences between the three groups of actors in the healthcare system. Data were collected through interviews with thirty-one participants using a semi-structured interview schedule. Themes of cost, access, and inefficiency emerged from the data. The theme of cost included the ability to pay, innovative care delivery, and relation to access. Access included the need for guidance, geographical proximity to healthcare, and socioeconomic status. The theme of inefficiency included how insurance dictates care, and the unwieldy system. Similarities among groups were the high cost of care, ability to pay, and complexity. Differences discovered were the insurers’ dual role as professional and consumer, providers’ informal access to care, and differing views on who is to blame for the high cost of healthcare. This research unveils perspectives of three stakeholders of actors in the healthcare system, providing a foundation for further research to better understand these perspectives in improving equity and access in healthcare. Experience Framework This article is associated with the Staff & Provider Engagement lens of The Beryl Institute Experience Framework (https://www.theberylinstitute.org/ExperienceFramework). Access other PXJ articles related to this lens. Access other resources related to this lens.

Published
2021

17. Are Replication Studies Possible in Qualitative Second/Foreign Language Classroom Research? A Call for Comparative Re-Production Research

Author

Markee, Numa

Abstract

A widely accepted orthodoxy is that it is impossible to do replication studies within qualitative research paradigms. Ontologically and epistemologically speaking, such a view is largely correct. However, in this paper, I propose that what I call comparative re-production research--that is, the empirical study of qualitative phenomena that occur in one context, which are then shown also to obtain in another--is a well-attested practice in ethnomethodological conversation analysis (CA). By extension, I further argue that researchers who do research on second and foreign language (L2) classrooms inspired by the conversation analysis-for-second-language acquisition movement should engage in comparative re-production research in order to make broad statements about the generality or prototypicality of the qualitative organization of particular practices across languages, cultures and institutional contexts.

Published
2017
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18. Assessing the Effectiveness of a Hybrid-Flipped Model of Learning on Fluid Mechanics Instruction: Overall Course Performance, Homework, and Far- and Near-Transfer of Learning

Author

Harrison, David J., Saito, Laurel, Markee, Nancy, and Herzog, Serge

Abstract

To examine the impact of a hybrid-flipped model utilising active learning techniques, the researchers inverted one section of an undergraduate fluid mechanics course, reduced seat time, and engaged in active learning sessions in the classroom. We compared this model to the traditional section on four performance measures. We employed a propensity score method entailing a two-stage regression analysis that considered eight covariates to address the potential bias of treatment selection. First, we estimated the probability score based on the eight covariates, and second, we used the inverse of the probability score as a regression weight on the performance of learners who did not select into the hybrid course. Results suggest that enrolment in the hybrid-flipped section had a marginally significant negative impact on the total course score and a significant negative impact on homework performance, possibly because of poor video usage by the hybrid-flipped learners. Suggested considerations are also discussed.

Published
2017
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19. Taxonomic revision of the assassin-fly genus Microphontes Londt, 1994 (Insecta, Diptera, Asilidae)

Author

Amanda Markee and Torsten Dikow

Subjects
Science, Ecology, QH540-549.5, General. Including nature conservation, geographical distribution, QH1-199.5
Abstract

The genus Microphontes Londt, 1994 (Diptera: Asilidae: Brachyrhopalinae) is revised. Currently, three species are known from Namibia and western South Africa, i.e. Microphontes megoura Londt, 1994 from north-western South Africa, Microphontes safra Londt, 1994 from Namibia and Microphontes whittingtoni Londt, 1994 from western South Africa. Four new species, Microphontes ericfisheri sp. n. from the Little Karoo of South Africa, Microphontes gaiophanes sp. n. from the Namib desert of Namibia and Microphontes jasonlondti sp. n. and Microphontes kryphios sp. n. from western South Africa, are described. Distribution, occurrence in biodiversity hotspots sensu Conservation International and seasonal incidence are discussed. Descriptions/redescriptions, photographs and identification keys are provided and made openly accessible in data repositories to support future studies of the included taxa. An unusual flight pattern of male Microphontes gaiophanes sp. n. is discussed. A unique morphological feature on tergite 8 of Microphontes females, termed postero-paramedian T8 pores, is described, illustrated and discussed.

Published
2018
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27. A global phylogeny of butterflies reveals their evolutionary history, ancestral hosts and biogeographic origins

Author

Kawahara, Akito Y., primary, Storer, Caroline, additional, Carvalho, Ana Paula S., additional, Plotkin, David M., additional, Condamine, Fabien L., additional, Braga, Mariana P., additional, Ellis, Emily A., additional, St Laurent, Ryan A., additional, Li, Xuankun, additional, Barve, Vijay, additional, Cai, Liming, additional, Earl, Chandra, additional, Frandsen, Paul B., additional, Owens, Hannah L., additional, Valencia-Montoya, Wendy A., additional, Aduse-Poku, Kwaku, additional, Toussaint, Emmanuel F. A., additional, Dexter, Kelly M., additional, Doleck, Tenzing, additional, Markee, Amanda, additional, Messcher, Rebeccah, additional, Nguyen, Y-Lan, additional, Badon, Jade Aster T., additional, Benítez, Hugo A., additional, Braby, Michael F., additional, Buenavente, Perry A. C., additional, Chan, Wei-Ping, additional, Collins, Steve C., additional, Rabideau Childers, Richard A., additional, Dankowicz, Even, additional, Eastwood, Rod, additional, Fric, Zdenek F., additional, Gott, Riley J., additional, Hall, Jason P. W., additional, Hallwachs, Winnie, additional, Hardy, Nate B., additional, Sipe, Rachel L. Hawkins, additional, Heath, Alan, additional, Hinolan, Jomar D., additional, Homziak, Nicholas T., additional, Hsu, Yu-Feng, additional, Inayoshi, Yutaka, additional, Itliong, Micael G. A., additional, Janzen, Daniel H., additional, Kitching, Ian J., additional, Kunte, Krushnamegh, additional, Lamas, Gerardo, additional, Landis, Michael J., additional, Larsen, Elise A., additional, Larsen, Torben B., additional, Leong, Jing V., additional, Lukhtanov, Vladimir, additional, Maier, Crystal A., additional, Martinez, Jose I., additional, Martins, Dino J., additional, Maruyama, Kiyoshi, additional, Maunsell, Sarah C., additional, Mega, Nicolás Oliveira, additional, Monastyrskii, Alexander, additional, Morais, Ana B. B., additional, Müller, Chris J., additional, Naive, Mark Arcebal K., additional, Nielsen, Gregory, additional, Padrón, Pablo Sebastián, additional, Peggie, Djunijanti, additional, Romanowski, Helena Piccoli, additional, Sáfián, Szabolcs, additional, Saito, Motoki, additional, Schröder, Stefan, additional, Shirey, Vaughn, additional, Soltis, Doug, additional, Soltis, Pamela, additional, Sourakov, Andrei, additional, Talavera, Gerard, additional, Vila, Roger, additional, Vlasanek, Petr, additional, Wang, Houshuai, additional, Warren, Andrew D., additional, Willmott, Keith R., additional, Yago, Masaya, additional, Jetz, Walter, additional, Jarzyna, Marta A., additional, Breinholt, Jesse W., additional, Espeland, Marianne, additional, Ries, Leslie, additional, Guralnick, Robert P., additional, Pierce, Naomi E., additional, and Lohman, David J., additional

Published
2023
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29. A global phylogeny of butterflies reveals their evolutionary history, ancestral hosts and biogeographic origins

Author

Kawahara, Akito Y., Storer, Caroline, Carvalho, Ana Paula S., Plotkin, David M., Condamine, Fabien L., Braga, Mariana P., Ellis, Emily A., St Laurent, Ryan A., Li, Xuankun, Barve, Vijay, Cai, Liming, Earl, Chandra, Frandsen, Paul B., Owens, Hannah L., Valencia-Montoya, Wendy A., Aduse-Poku, Kwaku, Toussaint, Emmanuel F. A., Dexter, Kelly M., Doleck, Tenzing, Markee, Amanda, Messcher, Rebeccah, Nguyen, Y-Lan, Badon, Jade Aster T., Benítez, Hugo A., Braby, Michael F., Buenavente, Perry A. C., Chan, Wei-Ping, Collins, Steve C., Childers, Richard A. Rabideau, Dankowicz, Even, Eastwood, Rod, Fric, Zdenek F., Gott, Riley J., Hall, Jason P. W., Hallwachs, Winnie, Hardy, Nate B., Sipe, Rachel L. Hawkins, Heath, Alan, Hinolan, Jomar D., Homziak, Nicholas T., Hsu, Yu-Feng, Inayoshi, Yutaka, Itliong, Micael G. A., Janzen, Daniel H., Kitching, Ian J., Kunte, Krushnamegh, Lamas, Gerardo, Landis, Michael J., Larsen, Elise A., Larsen, Torben B., Leong, Jing V., Lukhtanov, Vladimir, Maier, Crystal A., Martinez, Jose I., Martins, Dino J., Maruyama, Kiyoshi, Maunsell, Sarah C., Mega, Nicolás Oliveira, Monastyrskii, Alexander, Morais, Ana B. B., Müller, Chris J., Naive, Mark Arcebal K., Nielsen, Gregory, Padrón, Pablo Sebastián, Peggie, Djunijanti, Romanowski, Helena Piccoli, Sáfián, Szabolcs, Saito, Motoki, Schröder, Stefan, Shirey, Vaughn, Soltis, Doug, Soltis, Pamela, Sourakov, Andrei, Talavera, Gerard, Vila, Roger, Vlasanek, Petr, Wang, Houshuai, Warren, Andrew D., Willmott, Keith R., Yago, Masaya, Jetz, Walter, Jarzyna, Marta A., Breinholt, Jesse W., Espeland, Marianne, Ries, Leslie, Guralnick, Robert P., Pierce, Naomi E., Lohman, David J., Kawahara, Akito Y., Storer, Caroline, Carvalho, Ana Paula S., Plotkin, David M., Condamine, Fabien L., Braga, Mariana P., Ellis, Emily A., St Laurent, Ryan A., Li, Xuankun, Barve, Vijay, Cai, Liming, Earl, Chandra, Frandsen, Paul B., Owens, Hannah L., Valencia-Montoya, Wendy A., Aduse-Poku, Kwaku, Toussaint, Emmanuel F. A., Dexter, Kelly M., Doleck, Tenzing, Markee, Amanda, Messcher, Rebeccah, Nguyen, Y-Lan, Badon, Jade Aster T., Benítez, Hugo A., Braby, Michael F., Buenavente, Perry A. C., Chan, Wei-Ping, Collins, Steve C., Childers, Richard A. Rabideau, Dankowicz, Even, Eastwood, Rod, Fric, Zdenek F., Gott, Riley J., Hall, Jason P. W., Hallwachs, Winnie, Hardy, Nate B., Sipe, Rachel L. Hawkins, Heath, Alan, Hinolan, Jomar D., Homziak, Nicholas T., Hsu, Yu-Feng, Inayoshi, Yutaka, Itliong, Micael G. A., Janzen, Daniel H., Kitching, Ian J., Kunte, Krushnamegh, Lamas, Gerardo, Landis, Michael J., Larsen, Elise A., Larsen, Torben B., Leong, Jing V., Lukhtanov, Vladimir, Maier, Crystal A., Martinez, Jose I., Martins, Dino J., Maruyama, Kiyoshi, Maunsell, Sarah C., Mega, Nicolás Oliveira, Monastyrskii, Alexander, Morais, Ana B. B., Müller, Chris J., Naive, Mark Arcebal K., Nielsen, Gregory, Padrón, Pablo Sebastián, Peggie, Djunijanti, Romanowski, Helena Piccoli, Sáfián, Szabolcs, Saito, Motoki, Schröder, Stefan, Shirey, Vaughn, Soltis, Doug, Soltis, Pamela, Sourakov, Andrei, Talavera, Gerard, Vila, Roger, Vlasanek, Petr, Wang, Houshuai, Warren, Andrew D., Willmott, Keith R., Yago, Masaya, Jetz, Walter, Jarzyna, Marta A., Breinholt, Jesse W., Espeland, Marianne, Ries, Leslie, Guralnick, Robert P., Pierce, Naomi E., and Lohman, David J.

Abstract

Butterflies are a diverse and charismatic insect group that are thought to have evolved with plants and dispersed throughout the world in response to key geological events. However, these hypotheses have not been extensively tested because a comprehensive phylogenetic framework and datasets for butterfly larval hosts and global distributions are lacking. We sequenced 391 genes from nearly 2,300 butterfly species, sampled from 90 countries and 28 specimen collections, to reconstruct a new phylogenomic tree of butterflies representing 92% of all genera. Our phylogeny has strong support for nearly all nodes and demonstrates that at least 36 butterfly tribes require reclassification. Divergence time analyses imply an origin ~100 million years ago for butterflies and indicate that all but one family were present before the K/Pg extinction event. We aggregated larval host datasets and global distribution records and found that butterflies are likely to have first fed on Fabaceae and originated in what is now the Americas. Soon after the Cretaceous Thermal Maximum, butterflies crossed Beringia and diversified in the Palaeotropics. Our results also reveal that most butterfly species are specialists that feed on only one larval host plant family. However, generalist butterflies that consume two or more plant families usually feed on closely related plants.

Published
2023

30. A global phylogeny of butterflies reveals their evolutionary history, ancestral hosts and biogeographic origins

Author

Kawahara, Akito Y, Storer, Caroline, Carvalho, Ana Paula S, Plotkin, David M, Condamine, Fabien L, Braga, Mariana P, Ellis, Emily A, St Laurent, Ryan A, Li, Xuankun, Barve, Vijay, Cai, Liming, Earl, Chandra, Frandsen, Paul B, Owens, Hannah L, Valencia-Montoya, Wendy A, Aduse-Poku, Kwaku, Toussaint, Emmanuel FA, Dexter, Kelly M, Doleck, Tenzing, Markee, Amanda, Messcher, Rebeccah, Nguyen, Y-Lan, Badon, Jade Aster T, Benítez, Hugo A, Braby, Michael F, Buenavente, Perry AC, Chan, Wei-Ping, Collins, Steve C, Rabideau Childers, Richard A, Dankowicz, Even, Eastwood, Rod, Fric, Zdenek F, Gott, Riley J, Hall, Jason PW, Hallwachs, Winnie, Hardy, Nate B, Sipe, Rachel L Hawkins, Heath, Alan, Hinolan, Jomar D, Homziak, Nicholas T, Hsu, Yu-Feng, Inayoshi, Yutaka, Itliong, Micael GA, Janzen, Daniel H, Kitching, I, Kunte, Krushnamegh, Lamas, Gerardo, Landis, Michael J, Larsen, Elise A, Larsen, Torben B, Leong, Jing V, Lukhtanov, Vladimir, Maier, Crystal A, Martinez, Jose I, Martins, Dino J, Maruyama, Kiyoshi, Maunsell, Sarah C, Mega, Nicolás Oliveira, Monastyrskii, Alexander, Morais, Ana BB, Müller, Chris J, Naive, Mark Arcebal K, Nielsen, Gregory, Padrón, Pablo Sebastián, Peggie, Djunijanti, Romanowski, Helena Piccoli, Sáfián, Szabolcs, Saito, Motoki, Schröder, Stefan, Shirey, Vaughn, Soltis, Doug, Soltis, Pamela, Sourakov, Andrei, Talavera, Gerard, Vila, Roger, Vlasanek, Petr, Wang, Houshuai, Warren, Andrew D, Willmott, Keith R, Yago, Masaya, Jetz, Walter, Jarzyna, Marta A, Breinholt, Jesse W, Espeland, Marianne, Ries, Leslie, Guralnick, Robert P, Pierce, Naomi E, Lohman, David J, Kawahara, Akito Y, Storer, Caroline, Carvalho, Ana Paula S, Plotkin, David M, Condamine, Fabien L, Braga, Mariana P, Ellis, Emily A, St Laurent, Ryan A, Li, Xuankun, Barve, Vijay, Cai, Liming, Earl, Chandra, Frandsen, Paul B, Owens, Hannah L, Valencia-Montoya, Wendy A, Aduse-Poku, Kwaku, Toussaint, Emmanuel FA, Dexter, Kelly M, Doleck, Tenzing, Markee, Amanda, Messcher, Rebeccah, Nguyen, Y-Lan, Badon, Jade Aster T, Benítez, Hugo A, Braby, Michael F, Buenavente, Perry AC, Chan, Wei-Ping, Collins, Steve C, Rabideau Childers, Richard A, Dankowicz, Even, Eastwood, Rod, Fric, Zdenek F, Gott, Riley J, Hall, Jason PW, Hallwachs, Winnie, Hardy, Nate B, Sipe, Rachel L Hawkins, Heath, Alan, Hinolan, Jomar D, Homziak, Nicholas T, Hsu, Yu-Feng, Inayoshi, Yutaka, Itliong, Micael GA, Janzen, Daniel H, Kitching, I, Kunte, Krushnamegh, Lamas, Gerardo, Landis, Michael J, Larsen, Elise A, Larsen, Torben B, Leong, Jing V, Lukhtanov, Vladimir, Maier, Crystal A, Martinez, Jose I, Martins, Dino J, Maruyama, Kiyoshi, Maunsell, Sarah C, Mega, Nicolás Oliveira, Monastyrskii, Alexander, Morais, Ana BB, Müller, Chris J, Naive, Mark Arcebal K, Nielsen, Gregory, Padrón, Pablo Sebastián, Peggie, Djunijanti, Romanowski, Helena Piccoli, Sáfián, Szabolcs, Saito, Motoki, Schröder, Stefan, Shirey, Vaughn, Soltis, Doug, Soltis, Pamela, Sourakov, Andrei, Talavera, Gerard, Vila, Roger, Vlasanek, Petr, Wang, Houshuai, Warren, Andrew D, Willmott, Keith R, Yago, Masaya, Jetz, Walter, Jarzyna, Marta A, Breinholt, Jesse W, Espeland, Marianne, Ries, Leslie, Guralnick, Robert P, Pierce, Naomi E, and Lohman, David J

Abstract

Butterflies are a diverse and charismatic insect group that are thought to have evolved with plants and dispersed throughout the world in response to key geological events. However, these hypotheses have not been extensively tested because a comprehensive phylogenetic framework and datasets for butterfly larval hosts and global distributions are lacking. We sequenced 391 genes from nearly 2,300 butterfly species, sampled from 90 countries and 28 specimen collections, to reconstruct a new phylogenomic tree of butterflies representing 92% of all genera. Our phylogeny has strong support for nearly all nodes and demonstrates that at least 36 butterfly tribes require reclassification. Divergence time analyses imply an origin ~100 million years ago for butterflies and indicate that all but one family were present before the K/Pg extinction event. We aggregated larval host datasets and global distribution records and found that butterflies are likely to have first fed on Fabaceae and originated in what is now the Americas. Soon after the Cretaceous Thermal Maximum, butterflies crossed Beringia and diversified in the Palaeotropics. Our results also reveal that most butterfly species are specialists that feed on only one larval host plant family. However, generalist butterflies that consume two or more plant families usually feed on closely related plants.

Published
2023

31. A global phylogeny of butterflies reveals their evolutionary history, ancestral hosts and biogeographic origins

Author

National Science Foundation (US), National Geographic Society, Research Council of Norway, Hintelmann Award for Zoological Systematics, European Research Council, Swedish Research Council, Ministerio de Ciencia e Innovación (España), Russian Science Foundation, Ministry of Science and Higher Education of the Russian Federation, Kawahara, Akito Y., Storer, Caroline, Carvalho, Ana Paula S., Plotkin, David M., Condamine, Fabien L., Braga, Mariana P., Ellis, Emily A., St Laurent, Ryan A., Li, Xuankun, Barve, Vijay, Cai, Liming, Earl, Chandra, Frandsen, Paul B., Owens, Hannah L., Valencia-Montoya, Wendy A., Aduse-Poku, Kwaku, Toussaint, Emmanuel F. A., Dexter, Kelly M., Doleck, Tenzing, Markee, Amanda, Messcher, Rebeccah, Nguyen, Y-Lan, Badon, Jade Aster T., Benítez, Hugo A., Braby, Michael F., Buenavente, Perry A. C., Chan, Wei-Ping, Collins, Steve C., Rabideau Childers, Richard A., Dankowicz, Even, Eastwood, Rod, Fric, Zdenek F., Gott, Riley J., Hall, Jason P. W., Hallwachs, Winnie, Hardy, Nate B., Sipe, Rachel L. Hawkins, Heath, Alan, Hinolan, Jomar D., Homziak, Nicholas T., Hsu, Yu-Feng, Inayoshi, Yutaka, Itliong, Micael G. A., Janzen, Daniel H., Kitching, Ian J., Kunte, Krushnamegh, Lamas, Gerardo, Landis, Michael J., Larsen, Elise A., Larsen, Torben B., Leong, Jing V., Lukhtanov, Vladimir, Maier, Crystal A., Martínez, José I., Martins, Dino J., Maruyama, Kiyoshi, Maunsell, Sarah C., Mega, Nicolás Oliveira, Monastyrskii, Alexander, Morais, Ana B., Müller, Chris J., Naive, Mark Arcebal K., Nielsen, Gregory, Padrón, Pablo Sebastián, Peggie, Djunijanti, Romanowski, Helena Piccoli, Sáfián, Szabolcs, Saito, Motoki, Schröder, Stefan, Shirey, Vaughn, Soltis, Doug, Soltis, Pamela, Sourakov, Andrei, Talavera, Gerard, Vila, Roger, Vlasanek, Petr, Wang, Houshuai, Warren, Andrew D., Willmott, K. R., Yago, Masaya, Jetz, Walter, Jarzyna, M.A., Breinholt, Jesse W., Espeland, Marianne, Ries, Leslie, Guralnick, Robert P., Pierce, Naomi E., Lohman, David J., National Science Foundation (US), National Geographic Society, Research Council of Norway, Hintelmann Award for Zoological Systematics, European Research Council, Swedish Research Council, Ministerio de Ciencia e Innovación (España), Russian Science Foundation, Ministry of Science and Higher Education of the Russian Federation, Kawahara, Akito Y., Storer, Caroline, Carvalho, Ana Paula S., Plotkin, David M., Condamine, Fabien L., Braga, Mariana P., Ellis, Emily A., St Laurent, Ryan A., Li, Xuankun, Barve, Vijay, Cai, Liming, Earl, Chandra, Frandsen, Paul B., Owens, Hannah L., Valencia-Montoya, Wendy A., Aduse-Poku, Kwaku, Toussaint, Emmanuel F. A., Dexter, Kelly M., Doleck, Tenzing, Markee, Amanda, Messcher, Rebeccah, Nguyen, Y-Lan, Badon, Jade Aster T., Benítez, Hugo A., Braby, Michael F., Buenavente, Perry A. C., Chan, Wei-Ping, Collins, Steve C., Rabideau Childers, Richard A., Dankowicz, Even, Eastwood, Rod, Fric, Zdenek F., Gott, Riley J., Hall, Jason P. W., Hallwachs, Winnie, Hardy, Nate B., Sipe, Rachel L. Hawkins, Heath, Alan, Hinolan, Jomar D., Homziak, Nicholas T., Hsu, Yu-Feng, Inayoshi, Yutaka, Itliong, Micael G. A., Janzen, Daniel H., Kitching, Ian J., Kunte, Krushnamegh, Lamas, Gerardo, Landis, Michael J., Larsen, Elise A., Larsen, Torben B., Leong, Jing V., Lukhtanov, Vladimir, Maier, Crystal A., Martínez, José I., Martins, Dino J., Maruyama, Kiyoshi, Maunsell, Sarah C., Mega, Nicolás Oliveira, Monastyrskii, Alexander, Morais, Ana B., Müller, Chris J., Naive, Mark Arcebal K., Nielsen, Gregory, Padrón, Pablo Sebastián, Peggie, Djunijanti, Romanowski, Helena Piccoli, Sáfián, Szabolcs, Saito, Motoki, Schröder, Stefan, Shirey, Vaughn, Soltis, Doug, Soltis, Pamela, Sourakov, Andrei, Talavera, Gerard, Vila, Roger, Vlasanek, Petr, Wang, Houshuai, Warren, Andrew D., Willmott, K. R., Yago, Masaya, Jetz, Walter, Jarzyna, M.A., Breinholt, Jesse W., Espeland, Marianne, Ries, Leslie, Guralnick, Robert P., Pierce, Naomi E., and Lohman, David J.

Abstract

Butterflies are a diverse and charismatic insect group that are thought to have evolved with plants and dispersed throughout the world in response to key geological events. However, these hypotheses have not been extensively tested because a comprehensive phylogenetic framework and datasets for butterfly larval hosts and global distributions are lacking. We sequenced 391 genes from nearly 2,300 butterfly species, sampled from 90 countries and 28 specimen collections, to reconstruct a new phylogenomic tree of butterflies representing 92% of all genera. Our phylogeny has strong support for nearly all nodes and demonstrates that at least 36 butterfly tribes require reclassification. Divergence time analyses imply an origin ~100 million years ago for butterflies and indicate that all but one family were present before the K/Pg extinction event. We aggregated larval host datasets and global distribution records and found that butterflies are likely to have first fed on Fabaceae and originated in what is now the Americas. Soon after the Cretaceous Thermal Maximum, butterflies crossed Beringia and diversified in the Palaeotropics. Our results also reveal that most butterfly species are specialists that feed on only one larval host plant family. However, generalist butterflies that consume two or more plant families usually feed on closely related plants.

Published
2023

38. Teachers' Answers to Students' Questions: Problematizing the Issue of Making Meaning

Author

Markee, Numa P.

Abstract

This paper analyzes how three university ESL teachers answered students' requests for help in understanding unknown vocabulary items during lessons that were mediated via a task-based, small group methodology. While considerable individual variation was observed, it was found that teachers rarely answered students' questions directly. Instead, they tended to answer learners' referential questions with display questions of their own, a strategy that is called here a counter-question strategy. It is argued that the use of this strategy for making meaning problematizes issues in the second language acquisition literature on the social construction of comprehensible input and output. Alternative interpretations of the implications of this meaning making strategy for second language acquisition theory are offered as a basis for further research.

Published
1995

40. Phylogenetic systematics, diversification, and biogeography of Cerurinae (Lepidoptera: Notodontidae) and a description of a new genus

Author

Ryan A St Laurent, Paul Z Goldstein, James S Miller, Amanda Markee, Hermann S Staude, Akito Y Kawahara, Scott E Miller, and Robert K Robbins

Subjects
Insect Science, Animal Science and Zoology, Ecology, Evolution, Behavior and Systematics, Developmental Biology
Abstract

We present the first dated molecular phylogeny of the Cerurinae moths (Notodontidae), based on sequence data for 666 loci generated by anchored hybrid enrichment. Monophyly of Cerurinae is corroborated, which includes the following genera: Pararethona Janse, Pseudorethona Janse, Oreocerura Kiriakoff, stat. rev., Cerurella Kiriakoff, Notocerura Kiriakoff, Hampsonita Kiriakoff, Afrocerura Kiriakoff, Cerurina Kiriakoff, Neoharpyia Daniel, Furcula Lamarck, Neocerura Matsumura, Americerura St Laurent and Goldstein, gen. nov., Cerura Schrank, and Kamalia Koçak & Kemal. The type species of the Neotropical genus Tecmessa Burmeister, T. annulipes (Berg), which had been incorrectly assigned to Cerurinae, is recovered in Heterocampinae; and Americeruragen. nov. is proposed to receive 17 unambiguously cerurine species transferred from Tecmessa. Divergence time estimates recover a crown age of Notodontidae roughly coincident with the K-Pg boundary, and a late-Oligocene crown age for Cerurinae. An African origin is inferred for Cerurinae, followed by colonization of the Palearctic, the Americas, Indomalaya, and Australasia during the Miocene. At least three independent colonizations of the Americas are inferred, one in the mid-Miocene associated with ancestral Americeruragen. nov. and two in the Pliocene and Pleistocene within Furcula. We hypothesize that the global spread of Cerurinae was enabled by that of its primary caterpillar foodplants in the Salicaceae. State-dependent diversification analyses suggest that cerurines diversified most rapidly in temperate climates.

Published
2023
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42. A global phylogeny of butterflies reveals their evolutionary history, ancestral hosts and biogeographic origins

Author

Akito Y. Kawahara, Caroline Storer, Ana Paula S. Carvalho, David M. Plotkin, Fabien L. Condamine, Mariana P. Braga, Emily A. Ellis, Ryan A. St Laurent, Xuankun Li, Vijay Barve, Liming Cai, Chandra Earl, Paul B. Frandsen, Hannah L. Owens, Wendy A. Valencia-Montoya, Kwaku Aduse-Poku, Emmanuel F. A. Toussaint, Kelly M. Dexter, Tenzing Doleck, Amanda Markee, Rebeccah Messcher, Y-Lan Nguyen, Jade Aster T. Badon, Hugo A. Benítez, Michael F. Braby, Perry A. C. Buenavente, Wei-Ping Chan, Steve C. Collins, Richard A. Rabideau Childers, Even Dankowicz, Rod Eastwood, Zdenek F. Fric, Riley J. Gott, Jason P. W. Hall, Winnie Hallwachs, Nate B. Hardy, Rachel L. Hawkins Sipe, Alan Heath, Jomar D. Hinolan, Nicholas T. Homziak, Yu-Feng Hsu, Yutaka Inayoshi, Micael G. A. Itliong, Daniel H. Janzen, Ian J. Kitching, Krushnamegh Kunte, Gerardo Lamas, Michael J. Landis, Elise A. Larsen, Torben B. Larsen, Jing V. Leong, Vladimir Lukhtanov, Crystal A. Maier, Jose I. Martinez, Dino J. Martins, Kiyoshi Maruyama, Sarah C. Maunsell, Nicolás Oliveira Mega, Alexander Monastyrskii, Ana B. B. Morais, Chris J. Müller, Mark Arcebal K. Naive, Gregory Nielsen, Pablo Sebastián Padrón, Djunijanti Peggie, Helena Piccoli Romanowski, Szabolcs Sáfián, Motoki Saito, Stefan Schröder, Vaughn Shirey, Doug Soltis, Pamela Soltis, Andrei Sourakov, Gerard Talavera, Roger Vila, Petr Vlasanek, Houshuai Wang, Andrew D. Warren, Keith R. Willmott, Masaya Yago, Walter Jetz, Marta A. Jarzyna, Jesse W. Breinholt, Marianne Espeland, Leslie Ries, Robert P. Guralnick, Naomi E. Pierce, David J. Lohman, National Science Foundation (US), National Geographic Society, Research Council of Norway, Hintelmann Scientific Award for Zoological Systematics, European Research Council, Swedish Research Council, Ministerio de Ciencia e Innovación (España), Russian Science Foundation, and Ministry of Science and Higher Education of the Russian Federation

Subjects
Phylogenetics, Ecology, Biodiversity, Entomology, Ecology, Evolution, Behavior and Systematics, Taxonomy
Abstract

Butterflies are a diverse and charismatic insect group that are thought to have evolved with plants and dispersed throughout the world in response to key geological events. However, these hypotheses have not been extensively tested because a comprehensive phylogenetic framework and datasets for butterfly larval hosts and global distributions are lacking. We sequenced 391 genes from nearly 2,300 butterfly species, sampled from 90 countries and 28 specimen collections, to reconstruct a new phylogenomic tree of butterflies representing 92% of all genera. Our phylogeny has strong support for nearly all nodes and demonstrates that at least 36 butterfly tribes require reclassification. Divergence time analyses imply an origin ~100 million years ago for butterflies and indicate that all but one family were present before the K/Pg extinction event. We aggregated larval host datasets and global distribution records and found that butterflies are likely to have first fed on Fabaceae and originated in what is now the Americas. Soon after the Cretaceous Thermal Maximum, butterflies crossed Beringia and diversified in the Palaeotropics. Our results also reveal that most butterfly species are specialists that feed on only one larval host plant family. However, generalist butterflies that consume two or more plant families usually feed on closely related plants., Funding came from the US National Science Foundation (NSF) GoLife ‘ButterflyNet’ collaborative grant (DEB-1541500, 1541557, 1541560) to A.Y.K., R.P.G., D.J.L. and N.E.P. Specimen collection and preservation was funded by NSF DBI-1349345, 1601369, DEB-1557007 and IOS-1920895 (A.Y.K.), NSF DEB-1120380 (D.J.L.), grants 9285-13 and WW-227R-17 from the National Geographic Society (D.J.L.), NSF DBI-1256742 (A.Y.K. and K.R.W.), NSF DEB-0639861 (K.R.W.) and NSF SES-0750480, DEB-0447244 and DEB-9615760 (N.E.P.). M.E. was supported by the Research Council of Norway (no. 204308) and the Hintelmann Scientific Award for Zoological Systematics. F.L.C. was supported by the European Research Council under the European Union’s Horizon 2020 research and innovation programme (project GAIA, no. 851188). M.P.B. was supported by the Swedish Research Council (IPG no. 2020‐06422). R.V. was supported by the Spanish Ministry of Science and Innovation grant PID2019-107078GB-I00/AEI/10.13039/501100011033. G.T. was supported by the Spanish Ministry of Science and Innovation (grants PID2020-117739GA-I00/AEI/10.13039/501100011033 and RYC2018-025335-I). V.L. was supported by the Russian Science Foundation (grant 19-14-00202) and by the Ministry of Science and Higher Education of the Russian Federation (grant 075-15-2021-1069). M.Y. was supported by MEXT KAKENHI no. 19916010 and JSPS KAKENHI grants 13010131, 23570111, 26440207, 17K07528 and 21H02215. A.B.B.M., H.P.R. and N.O.M. were supported by CNPQ grants proc 563332/2010-7 and 304273/2014-7., Main Results and discussion Methods Data availability Code availability References Acknowledgements Author information Ethics declarations Peer review Additional information Supplementary information Rights and permissions About this article

Published
2023
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43. Valkyrie: NASA's First Bipedal Humanoid Robot.

Author

Nicolaus A. Radford, Philip Strawser, Kimberly A. Hambuchen, Joshua S. Mehling, William K. Verdeyen, A. Stuart Donnan, James Holley, Jairo Sanchez, Vienny Nguyen, Lyndon B. Bridgwater, Reginald Berka, Robert O. Ambrose, Mason Myles Markee, N. J. Fraser-Chanpong, Christopher McQuin, John D. Yamokoski, Stephen Hart, Raymond Guo, Adam Parsons, Brian Wightman, Paul Dinh, Barrett Ames, Charles Blakely, Courtney Edmondson, Brett Sommers, Rochelle Rea, Chad Tobler, Heather Bibby, Brice Howard, Lei Niu, Andrew Lee, Michael Conover, Lily Truong, Ryan Reed, David Chesney, Robert Platt Jr. 0001, Gwendolyn Johnson, Chien-Liang Fok, Nicholas Paine, Luis Sentis, Eric A. Cousineau, Ryan W. Sinnet, Jordan Lack, Matthew J. Powell, Benjamin Morris 0001, Aaron D. Ames, and Jide Akinyode

Published
2015
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44. Perceptions of the healthcare system among stakeholders

Author

Laura Brugger, Hisako Matsuo, Renee Jonas, Michael D Markee, and Christine Ascencio

Subjects
Medicine (General), patient experience, Applied Mathematics, General Mathematics, media_common.quotation_subject, health policy, Grounded theory, R5-920, Nursing, perceptions of healthcare, Perception, Patient experience, Sociology, Public aspects of medicine, RA1-1270, Health policy, qualitative methods, grounded theory, media_common, Qualitative research, Healthcare system
Abstract

The U.S. healthcare system is rife with complexities and is consistently a source of political debate. One’s interaction with the system may directly impact the understanding of the system. The objective of this research is to examine the perceptions of the United States healthcare system from the viewpoint of healthcare providers, insurers, and consumers. Using a grounded theory approach, theoretical sampling was used to explore similarities and differences between the three groups of actors in the healthcare system. Data were collected through interviews with thirty-one participants using a semi-structured interview schedule. Themes of cost, access, and inefficiency emerged from the data. The theme of cost included the ability to pay, innovative care delivery, and relation to access. Access included the need for guidance, geographical proximity to healthcare, and socioeconomic status. The theme of inefficiency included how insurance dictates care, and the unwieldy system. Similarities among groups were the high cost of care, ability to pay, and complexity. Differences discovered were the insurers’ dual role as professional and consumer, providers’ informal access to care, and differing views on who is to blame for the high cost of healthcare. This research unveils perspectives of three stakeholders of actors in the healthcare system, providing a foundation for further research to better understand these perspectives in improving equity and access in healthcare. Experience Framework This article is associated with the Staff & Provider Engagement lens of The Beryl Institute Experience Framework (https://www.theberylinstitute.org/ExperienceFramework). Access other PXJ articles related to this lens. Access other resources related to this lens.

Published
2021
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45. Deploying Community Scientists to Conduct Nondestructive Genetic Sampling of Rare Butterfly Populations

Author

Kristin A. Rossetti, Christian Couch, Amanda Markee, Geena M. Hill, Caroline G. Storer, and Jaret C. Daniels

Subjects
General Immunology and Microbiology, General Chemical Engineering, General Neuroscience, Population Dynamics, Humans, Animals, Butterflies, General Biochemistry, Genetics and Molecular Biology
Abstract

Global insect declines continue to accelerate. Effective genetic sampling is critically needed to advance the understanding of many taxa and address existing knowledge gaps. This protocol represents a demonstrated method for nondestructively sampling rare butterflies for population genetic structure or DNA barcoding analyses. It uses the chorion of hatched butterfly ovae to yield sufficiently high quantity and quality DNA for successful gene sequencing to confirm species identity and quantify genetic variation. It may be particularly useful when other tissue sampling techniques are impractical or unavailable. While developed for a lepidopteran, it nonetheless could easily be adapted for use with other insect species. It was specifically designed with ease of use as a goal to help maximize broad implementation by individuals of varying experience and skill levels, such as community scientists, conservation practitioners, and students, and for use over large geographic areas to facilitate broad population sampling. The data generated can help inform taxonomic and listing decisions, conservation and management actions, and enhance basic ecological research.

Published
2022
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49. Doing Planning and Task Performance in Second Language Acquisition: An Ethnomethodological Respecification

Author

Markee, Numa and Kunitz, Silvia

Abstract

We use insights and methods from ethnomethodological conversation analysis and discursive psychology to develop an account of embodied word and grammar searches as socially distributed planning practices. These practices, which were produced by three intermediate learners of Italian as a Foreign Language (IFL), occurred massively in natural data that were gathered during a 3-week period from a third-semester IFL course at a university in the United States. We develop a behavioral analysis of these data that shows: (1) what participants do during planning talk and how they do such talk and (2) whether they actually do what they planned to do.

Published
2013
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