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American Bryological and Lichenological Society (ABLS)
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Botanical Society of France
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Program for: Phylogenomics


Presentations for Society\Section: Phylogenomics

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SessionDate/TimeLocationTitleTypeAuthorsKeywords

Monday, July 27th

Monday, July 27th, 5:30 pm to 7:00 pm · Hall D/The Shaw Conference Centre
Session P: Contributed Posters: Phylogenomics Posters
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PPY001July 27th 5:30 pmHall D/The Shaw Conference CentreActive transposable elements recover species boundaries and geographic structure in Madagascan coffee species
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Poster: PhylogenomicsRoncal, Julissa; Guyot, Romain; Hamon, Perla; Nowak, Michael D.; Davis, Aaron; DeKochko, Alexandre.Madagascar
LTR retrotransposons
Diversification
Coffea canephora
Mascarocoffea
REMAP
PPY002July 27th 5:30 pmHall D/The Shaw Conference CentreRAD-seq strengthens phylogenetic resolution in Schoenoxiphium (Cyperaceae)
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Poster: PhylogenomicsVillaverde, Tamara; Maguilla, Enrique; Escudero, Marcial; Martin-Bravo, Santiago; Hipp, Andrew L.; Luceño, Modesto.RADseq
phylogenomics
Carex
Phylogenetics
next generation sequencing
taxa circumscription
restriction site associated DNA
PPY003July 27th 5:30 pmHall D/The Shaw Conference CentreExceptional reduction of the plastid genome of saguaro cactus (Carnegiea gigantea, Cactaceae)
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Poster: PhylogenomicsSanderson, Michael; Copetti, Dario; Burquez, Alberto; Bustamante, Enriquena; Charboneau, Joseph; Eguiarte, Luis E.; Kumar, Sudhir; McMahon, Michelle; Steele, Kelly; Wing, Rod; Yang, Tae-Jin; Lee, Hyun Oh; Lee, Junki; Zwickl, Derrick; Wojciechowski, Martin.plastid genome
Cactaceae
phylogenomics
PPY004July 27th 5:30 pmHall D/The Shaw Conference CentreVerdant: Automated Annotation, Alignment, and Phylogenetic Analysis for Whole Chloroplast Sequences
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Poster: PhylogenomicsHartsock, Ryan H.; McKain, Michael; Wohl, Molly; Kellogg, Elizabeth.plastid genome
phylogenomics
annotation
PPY005July 27th 5:30 pmHall D/The Shaw Conference CentreResearch on cytoplasmic genome characterization of chrysanthemum, Pyrus, Allium, and their relatives
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Poster: PhylogenomicsLee, Jungho; Kwon, Mi; Park, Jihye; Lee, Minjee; Lee, Haeyoun; Hwang, Yoon-Jung; Park, Sang Kun; Shin, Il Sheob; Kim, Se Hee; Ahn, Yul Kyun; Won, So Youn; Kim, Jungsun; Jin, Mina; Sohn, Seong-Han.chloroplast genome
Allium
Dendranthema
Chrysanthemum
Pyrus
PPY006July 27th 5:30 pmHall D/The Shaw Conference CentreComparative analysis of plastid genomes of Orobanchaceae – adding up species from Korea
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Poster: PhylogenomicsWon, Hyosig; Lee, Jungho; Kim, Kyunghee; Yang, Tae-Jin; Kim, Soonok.Comparative Genomics
plastid genome
parasitic plant
Orobanchaceae
PPY007July 27th 5:30 pmHall D/The Shaw Conference CentreSelection and validation of transcriptome-mined intronic primers for Fluidigm PCR and Illumina sequencing
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Poster: PhylogenomicsJordon-Thaden, Ingrid; Gilman, Ian; Uribe-Convers, Simon; Chamala, Srikar; Tank, David; Martine, Chris.transcriptomics
Fluidigm
introns
phylogenomics
marker development
solanaceae
Solanum
Draba
Brassicaceae

Tuesday, July 28th

Tuesday, July 28th, 8:00 am to 11:45 am · Salon 11/The Shaw Conference Centre
Session 32: Contributed Papers: Phylogenomics I
Presiding: David A. Baum, University of Wisconsin - Madison; Kiela B. Caudillo-Ruiz, University of Saskatchewan
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32001July 28th 8:00 amSalon 11/The Shaw Conference CentreSpecies tree estimation of diploid Helianthus (Asteraceae) using target enrichment
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Oral PaperStephens, Jessica; Rogers, Willie; Mason, Chase; Donovan, Lisa; Malmberg, Russell.coalescent
gene capture
Phylogeny
phylogenomics
sunflower
32002July 28th 8:15 amSalon 11/The Shaw Conference CentreMultiplexed-shotgun-genotyping data resolve phylogeny within a very recently-derived insular lineage
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Oral PaperMort, Mark; Crawford, Daniel J.; Kelly, John K.; Santos-Guerra, Arnoldo; Menezes de Sequeira, Miguel; Moura, Mónica; Caujapé-Castells, Juli.Macaronesia
Asteraceae
genome sequencing
phylogenomics
Tolpis
Canary Islands
32003July 28th 8:30 amSalon 11/The Shaw Conference CentreProtocol for Targeted Enrichment of Intron-Containing Sequence Markers for Recent Radiations: A Phylogenomic Example from Heuchera (Saxifragaceae)
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Oral PaperFolk, Ryan; Mandel, Jennifer; Freudenstein, John.phylogenomics
targeted enrichment
probe capture
Rapid radiation
heuchera
saxifragaceae
marker development
32004July 28th 8:45 amSalon 11/The Shaw Conference CentrePhylogenomic Approaches in the Genus Heuchera (Saxifragaceae) Elucidate Deep Reticulation and Simultaneous Mitochondrial and Chloroplast Capture
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Oral PaperFolk, Ryan; Mandel, Jennifer; Freudenstein, John.phylogenomics
heuchera
saxifragaceae
hybridization
ancient reticulation
gene tree discord
phylogenomic discord
coalescent
concatenation
32005July 28th 9:00 amSalon 11/The Shaw Conference CentreHigh-throughput sequencing of chloroplast genomes to resolve a rapidly evolving lineage - a case study in Chinese lianoid Gnetum (Gnetales)
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Oral PaperHou, Chen; Saunders, Richard M.K.; Wikström, Niklas; Strijk, Joeri S.; Rydin, Catarina.High-throughput Sequencing
chloroplast genome
Gnetales
conservation biology
32006July 28th 9:15 amSalon 11/The Shaw Conference CentreNext generation sampling: obtaining genomic data from large sets of herbarium specimens
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Oral PaperBeck, James; Semple, John.Solidago
Species delimitation
phylogenomics
genotyping by sequencing
herbarium specimen
32007July 28th 9:30 amSalon 11/The Shaw Conference CentreRADseq phylogeography of Demosthenesia mandonii (Ericaceae:Vaccinieae), a blueberry from the Andean cloud forest
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Oral PaperOrtiz, Edgardo M.; Juenger, Thomas; Simspon, Beryl.Demosthenesia
Demosthenesia mandonii
Vaccinieae
Ericaceae
Phylogeography
RADseq
ddRAD
Pleistocene
cloud forest
Andes
Species Distribution Model
July 28th 9:45 amSalon 11/The Shaw Conference CentreBreak
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32009July 28th 10:15 amSalon 11/The Shaw Conference CentreGenealogical concordance in Adansonia (Malvaceae) as inferred from hyb-seq data
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Oral PaperBaum, David A.; Grover, Corrinne E.; Karimi, Nisa; Stenz, Noah; Gallagher, Joseph P.; Wendel, Jonathan.Sequence capture
genealogical concordance
32010July 28th 10:30 amSalon 11/The Shaw Conference CentreCreating an Updatable Community Resource for Chloroplast Phylogenomics
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Oral PaperPayton, Adam; Burleigh, Gordon.Phylogenetics
chloroplast
32011July 28th 10:45 amSalon 11/The Shaw Conference CentreAssessing allelic diversity in polyploid complexes of Phlox (Polemoniaceae) using next-generation amplicon sequencing
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Oral PaperWaselkov, Katherine; Fehlberg, Shannon D.; Prather, L. Alan; Wright, Bethany; Ferguson, Carolyn J..amplicon
hybridization
next generation sequencing
Phlox
Polemoniaceae
Polyploidy
32012July 28th 11:00 amSalon 11/The Shaw Conference CentreSpecies identification of the stemphylium blight pathogen in Saskatchewan
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Oral PaperCaudillo-Ruiz, Kiela B.; Banniza, Sabine.stemphylium blight
Stemphylium botryosum
Phylogeny
32013July 28th 11:15 amSalon 11/The Shaw Conference CentreEvolution of adaptations to drought, with an emphasis on photosynthetic physiology in Anacampseros (Anacampserotaceae, Caryophyllales) using targeted sequence capture
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Oral PaperMoore, Abigail J.; de Vos, Jurriaan M.; Edwards, Erika J..Portulacineae
CAM
Anacampserotaceae
Sequence capture
32014July 28th 11:30 amSalon 11/The Shaw Conference CentrePhylotranscriptomic insights into the radiation of mosses: gene family expansions and paleopolyploidy
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Oral PaperJohnson, Matthew; Wickett, Norm; Medina, Rafael; Liu, Yang; Devos, Nicolas; Shaw, Jonathan; Goffinet, Bernard.Bryophyte
Transcriptome
gene family
orthologs

Wednesday, July 29th

Wednesday, July 29th, 1:30 pm to 5:00 pm · Salon 9/The Shaw Conference Centre
Session 73: Contributed Papers: Phylogenomics II
Presiding: Sarah Mathews, CSIRO National Research Collections Australia; Mark Fishbein, Oklahoma State University
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73001July 29th 1:30 pmSalon 9/The Shaw Conference CentreOptimizing RADseq data for deep-scale phylogenomics: an example from Viburnum (Adoxaceae)
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Oral PaperRobert Eaton, Deren Alexander; Spriggs, Beth; Park, Brian; Donoghue, Michael.RADseq
supertree
discordance
Phylogeny
missing data
informativeness
73002July 29th 1:45 pmSalon 9/The Shaw Conference CentreThe highly reduced plastid genome of mycoheterotrophic Sciaphila densiflora (Triuridaceae) is colinear with its close green relatives and under strong purifying selection
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Oral PaperLam, Vivienne K.Y.; Soto Gomez, Marybel; Graham, Sean W..gene loss
genome reduction
mycoheterotrophy
Pandanales
Triuridaceae
purifying selection
heterotrophic plants
rate elevation
73003July 29th 2:00 pmSalon 9/The Shaw Conference CentreResolving the evolutionary history of the Australian grass trees, Xanthorrhoea, using multiple next-generation seqeuncing techiques
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Oral PaperMcLay, Todd; Doyle, Stephen; Tibbits, Josquin; Bayly, Mike.RADseq
amplicon
marker development
Species delimitation
73004July 29th 2:15 pmSalon 9/The Shaw Conference CentreHigh quality sequence data from poor quality herbarium DNAs through hybridization-based target enrichment
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Oral PaperVillegas-Ramirez, Berenice; Yant, Levi; Xi, Zhenxiang; Webb, Campbell; Mathews, Sarah.Alangium
species phylogeny
herbarium DNA
Sequence capture
73005July 29th 2:30 pmSalon 9/The Shaw Conference CentrePhylogenomic approach to resolve the genus Pythium and the order Pythiales
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Oral PaperSpies, Christoffel F. J.; Morisson, Hannah; Rintoul, Tara L.; Lévesque, C. André.Oomycetes
Pythium
taxonomy
phytopathology
73006July 29th 2:45 pmSalon 9/The Shaw Conference CentrePlastid genome degradation in fully and partially mycoheterotrophic eudicots
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Oral PaperDarby, Hayley; Merckx, Vincent S.F.T.; Graham, Sean W..plastid genome
genome reduction
gene loss
mycoheterotrophy
heterotrophic plants
Gentianaceae
Polygalaceae
July 29th 3:00 pmSalon 9/The Shaw Conference CentreBreak
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73008July 29th 3:45 pmSalon 9/The Shaw Conference CentreTrees on trees: Resolving the hexaploid origin of coast redwood (Sequoia sempervirens) with phylotranscriptomics
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Oral PaperScott, Alison; Stenz, Noah; Baum, David A..Polyploidy
gymnosperm
Cupressaceae
concordance analysis
73009July 29th 4:00 pmSalon 9/The Shaw Conference Centre
Canceled
Genome evolution in Parasitaxus usta, a podocarp conifer with a unique form of heterotrophy
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Oral PaperGerelle, Wesley; Lam, Vivienne K.Y.; Wulff, Adrien; Leebens-Mack, James H.; dePamphilis, Claude D.; Wong, Gane Ka-Shu; Graham, Sean W..mycoheterotrophy
heterotrophy
Transcriptome
Evolution
1KP
Gene ontology
Conifer
73010July 29th 4:15 pmSalon 9/The Shaw Conference CentreHow Many Plastomes Does it Take to Estimate the Matrilineal Phylogeny of Asclepias?
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Oral PaperFishbein, Mark; Straub, Shannon; Hansen, Kimberley; Cronn, Richard C.; Liston, Aaron.milkweed
phylogenomics
Apocynaceae
data partition
model selection
classification
73011July 29th 4:30 pmSalon 9/The Shaw Conference CentreHow much plastome data is enough to resolve the backbone of a phylogeny in a rapid radiation of species? The genus Anthurium (Araceae) as a case study
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Oral PaperCarlsen, Monica Maria.Anthurium
Araceae
Genome skimming
High-throughput Sequencing
plastomes
phylogenomics
73012July 29th 4:45 pmSalon 9/The Shaw Conference CentreA phylogeny of the world’s oaks
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Oral PaperHipp, Andrew L.; Manos, Paul; McVay, John D.; Cavender-Bares, Jeannine; Gonzalez Rodriguez, Antonio; Romero-Severson, Jeanne; Hahn, Marlene; Brown, Bethany H.; Budaitis, Breane; Deng, Min; Grimm, Guido; Fitzek, Elisabeth; Cronn, Richard C.; Jennings, Tara L.; Avishai, Michael; Simeone, Marco C..AFLP
Cyclobalanopsis
Fagaceae
next-generation sequencing
phylogenomics
Quercus
RADseq
restriction site associated DNA

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