| ID | Title | Section/Topic | Authors | Keywords |
|---|
| 898 | A case of the blues, reds, and purples: flavonoid biosynthesis and evolution in Vaccinium L
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Drummond, Chloe Pak; Chamberlain, Ian; Renner, Tanya. | Vaccinium L.
bilberry
Flavonoids
Comparative genomics
transcriptomics |
| 864 | A chromosome-scale genome assembly of the fern Marsilea vestita
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Rahmatpour, Nasim; Kuo, Li-Yaung; Kang, Jessica; Herman, Elaina; Zhou, Junhui; Wolniak, Stephen; Zipper, Richard; Delwiche, Charles; Mount, Stephan M; Li, Fay-Wei. | Marsilea vestita
chromosome number
genome evolution |
| 994 | A highly contiguous Vossia cuspidata genome provides insights into the diploidization of maize
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Deb, Sontosh; Carey, Sarah; Harkess, Alex; Lewis, Michelle; McKain, Michael. | polyploidy
Homoeologous exchange
Subgenome
phylogenomics |
| 749 | Canceled An annotated chromosome-scale Pedicularis genome assembly enables comparative transcriptomic investigations of floral diversity in the Hengduan Mountains
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Jin, JianJun; Xu, YuXing; McKenzie, Patrick; Meek, Jared; Cohen, Rachel; Li, DeZhu; Yi, Tingshuang; Ree, Richard; Eaton, Deren. | Pedicularis
Genome
Transcriptome
floral evolution
Orobanchaceae
Lamiales |
| 174 | An unquiet sequence: mobility, evolution, and epigenetics of 5S rRNA genes in plants
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Garcia, Sonia; Vitales, Daniel; Pascual-Díaz, Joan Pere; Heitkam, Tony; Baader, Luisa; Maiwald, Sophie; Mann, Ludwig; Weber, Beatrice; Rodriguez, Roi; Kovarik, Ales. | ribosomal DNA
repetitive DNA
molecular evolution
eccDNA
transposable elements
Asteraceae
cytogenetics
concerted evolution |
| 282 | Applying Machine Learning to Classify the Origins of Gene Duplications
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | McKibben, Michael; Barker, Michael S.. | Machine learning
Whole genome duplication
Genetics
Tools
Paleologs
genome evolution
polyploidy |
| 516 | A Reference Quality Genome Assembly and Investigation of Genome Duplication in the Mimosoid Legume Leucaena trichandra
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Bailey, C. Donovan; Strickler, Susan; Ringelberg, Jens J.; Koenen, Erik J.M.; Liston, Aaron; Nagaswara-Rao, Madhugiri; Abair, Alexander; Hughes, Colin E. | genomics
Comparative genomics
PacBio
Genome Duplication |
| 348 | Assessing data quality among archived plastid genomes via novel software tools
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Gruenstaeudl, Michael. | plastid genome
Genome Assembly
sequence annotation
sequence coverage
quality control
software tool |
| 925 | Assessing genetic differences related to differential resistance in hemlocks (Tsuga sp.) through comparative transcriptomics
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Vuruputoor, Vidya; Wegrzyn, Jill. | transcriptomics
genomics
Tsuga sp.
conservation |
| 862 | Characterization of a mobile sex-determining region in Fragaria chiloensis with a haplotype-resolved genome assembly
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Cauret, Caroline; Ashman, Tia-Lynn; Liston, Aaron. | sex chromosomes
strawberry
Genome Assembly |
| 998 | Characterization of GmWRKYs involved in a 3-way Interaction of Soybean, Soybean-Aphid and Soybean-Cyst-Nematode
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Pradhan, Bijaya; Nelson, Dillon; Neupane, Surendra; Nepal, Madhav. | WRKY genes
Soybean-SA-SCN intercation
abiotic and biotic stress
Plant stress regulation |
| 525 | Characterization of WHY1 in Corallorhiza: evolution, expression, and selection across a trophic gradient
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Muti, Rachel; Barrett, Craig; Sinn, Brandon. | Corallorhiza
WHY1
Whirly transcription factors
mycoheterotrophy
alternative splicing
nonsynonymous substitutions
differential gene expression |
| 780 | Chromosome-level genome assembly and annotation of invasive Japanese stiltgrass (Microstegium vimineum)
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Ramachandran, Dhanushya; Corbett, Cameron; Huebner, Cynthia; Daly, Mark; Haimovitz, Jasmine; McKain, Michael; Swale, Thomas; Barrett, Craig. | Japanese stiltgrass
genome
Genome Assembly
Annotation
polyploidization
transposable elements
invasive species
Grasses
rapid adaptation
Comparative genomics |
| 327 | Comparative genomic approaches reveal differing stress response strategies in maples
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | McEvoy, Susan; Trouern-Trend, Alexander; Sezen, Uzay; Wegrzyn, Jill; Swenson, Nathan. | maple
forest
tree
abiotic stress
calcium
genomics
soil |
| 164 | Deeply Altered Genome Architecture in the Endoparasitic Flowering Plant Sapria himalayana Griff. (Rafflesiaceae)
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Cai, Liming; Arnold, Brian; Xi, Zhenxiang; Khost, Danielle E.; Patel, Nikisha; Hartmann, Claire B.; Manickam, Sugumaran; Sasirat, Sawitree; Nikolov, Lachezar; Mathews, Sarah; Sackton, Timothy B.; Davis, Charles. | horizontal gene transfer
gene loss
codon bias
transposable elements
intron loss |
| 600 | Differential Gene Expression of Smoke Induced Seed Germination of Shortgrass Prairie Native Species
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Chen, Yanni; Johnson, Matthew. | Smoke
differential gene expression
Seed Germination
Native Species
Karrikin Insensive 2 (KAI2) |
| 482 | Disentangling the maze of maize anther development with single-cell RNA-seq
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Marchant, Daniel Blaine; Walbot, Virginia. | maize
development
single-cell RNA-seq
anther
transcriptomics |
| 737 | Five gigs and then some: assembling a large reference genome in the Liliales (Calochortus venustus; Liliaceae)
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Landis, Jacob; Hernandez, Adriana; Pinilla Vargas, Maria; Zhang, Jing; Karimi, Nisa; Chan, Pattricia; Eifler, Evan; Givnish, Thomas; Strickler, Susan; Specht, Chelsea. | Calochortus
Genome Assembly
Liliaceae
Flye |
| 233 | Gene co-expression reveals evolutionarily conserved and distinct photosynthetic networks in C4+CAM Portulaca
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Gilman, Ian S.; Moreno-Villena, Jose; Zachary, Lewis; Goolsby, Eric; Edwards, Erika J.. | photosynthsis
CAM
C4
transcriptomics
co-expression network
Portulaca
genomics |
| 874 | Gene expression across fertilization and seed development in the minute water lily, Nymphaea thermarum (Nymphaeales): insights on epigenetic regulation during reproduction
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Povilus, Rebecca; Friedman, William. | Nymphaeales
seed development
epigenetics
transcriptomics |
| 733 | Genome evolution in California redwoods
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Scott, Alison Dawn; Zaman, Sumaira; Shrestha, Bikash; Vuruputoor, Vidya; Wegrzyn, Jill. | redwood
conifer
Gymnosperm
polyploidy |
| 838 | Insights into ancient polyploidy and photosynthetic gene family evolution from newly sequenced Yucca genomes
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Heyduk, Karolina; Jenkins, Jerry; Shu, Shengqiang; Field, Richard; MacNeill, Bryan; McKain, Michael; Barry, Kerrie; Schmutz, Jeremy; Leebens-Mack, Jim. | karyotype
chromosome
Photosynthesis
Genome Duplication
Yucca
CAM |
| 657 | Modeling the stepwise evolution of sex chromosomes in the genus Asparagus
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Bentz, Philip; Carey, Sarah; Harkess, Alex; Leebens-Mack, Jim. | phylogenetics
sex chromosomes
Dioecy
evolutionary strata
asparagus
sex-determination
genomics |
| 530 | Patterns between the parents: whole-genome comparison of two diploids in the Tragopogon triangle
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Pham, Kasey; Liu, Xiaoxian; Boatwright, J. Lucas; Soltis, Douglas E.; Soltis, Pamela S.; Barbazuk, W. Brad. | Tragopogon
allopolyploid
Genome Assembly
sciart |
| 416 | Plants and Pollutants: Exploring salt and cadmium stress response in Sea Rocket
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Vanden Hoek, Kathryn; Thomas, Shawn; Mendoza-Cózatl, David; Pires, Chris. | Hydroponics
High-Throughput Phenotyping
Brassicaceae
RNAseq
Comparative genomics |
| 704 | Plant sex chromosome "Cytogenetics-By-Sequencing"
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Carey, Sarah; Bentz, Philip; Marks, Rose; VanBuren, Robert; Mercati, Francesco; Sunseri, Francesco; Leebens-Mack, Jim; Harkess, Alex. | Dioecy
sex chromosomes
methods
Angiosperms |
| 249 | Plastome evolution in Cuscuta subg. Grammica (Convolvulaceae)
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Banerjee, Arjan; Stefanovic, Sasa. | Plastid
Plastome
Cuscuta
Convolvulaceae
Dodders
parasitic plants
Heterotrophy |
| 956 | Presence of 7 cellulose synthase (CesA) genes within mosses suggests early diversification
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Hartmann, Aly; Schwartz, Rachel. | CesA
moss |
| 1065 | Progenitor-inclusive transcriptome profiling of polyploid Brassica napus reveals subgenome-dominant gene expression and alternative splicing in response to to Sclerotinia sclerotiorum
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Adams, Keith. | polyploidy
gene expression
duplicated genes
Sclerotinia sclerotiorum
alternative splicing
abiotic and biotic stress
Brassica
Transcriptome |
| 952 | Revealing the problems of whole genome duplication in regards to the search for serpentine stress QTL
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Garza, Elyssa; Daundasekara, Kasuni; Pepper, Alan. | Brassicaceae
serpentine
abiotic and biotic stress
Gene duplication
Whole genome duplication |
| 463 | Simulating Haploid-Diploid Evolution: the (real) SLiM3 shadie
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Sorojsrisom, Elissa Suphapun; Ambrose, Barbara; Eaton, Deren. | gametophyte
evolutionary simulation
alternation of generations
modeling lifecycles |
| 332 | The Coptis chinensis genome sheds light on eudicot genome duplications
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Li, Zheng; Li, Zheng; Liu, Yifei; Barker, Michael S.. | Whole genome duplication
polyploidy
genome evolution
eudicot
Ranunculaceae
Ranunculales |
| 731 | The Open Green Genomes Initiative: Comparative Investigation of Plant Genome Content and Structure Across the Land Plant Tree of Life
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Leebens-Mack, Jim. | phylogenomics
Genome Assembly
genome evolution |
| 894 | Transcriptional variation across geographically disparate accessions of the invasive species Johnsongrass (Sorghum halepense)
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Hofford, Nate; Motley, M'Kayla; McKain, Michael. | Transcriptomes
invasive species
subgenome dominance
polyploidy |
| 342 | Transposable elements (TE) dynamics in the model grass genus Brachypodium: abundance, distribution and evolution of TE families
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Sancho, Rubén; Scarlett, Virginia; Vogel, John; Des Marais, David; Catalan, Pilar. | transposable elements
Brachypodium |
| 766 | Canceled Traversome: complicated organelle genome structure resolution and isomer frequencies estimation
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Jin, JianJun; Eaton, Deren. | genome structure
graph alignment
mitochondrial genome
chloroplast genome
sub-walks binomial model
Bayesian inference |
| 739 | Using de novo assemblies to identify genomic signatures of evolution between insect and hummingbird pollination in Costus (Costaceae)
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Landis, Jacob; Valderrama, Eugenio; Grunder, Nikolaus; Skinner, David; Pinilla Vargas, Maria; Almeida, Ana; Specht, Chelsea. | Costus L.
nanopore
pollinator shifts
Genome Assembly |
| 573 | Using Iso-seq to improve reference genome annotations and identify putative polycistronic loci in Yucca aloifolia
Log in to add this item to your schedule | Comparative Genomics/Transcriptomics | Field, Richard; Heyduk, Karolina; Leebens-Mack, Jim. | Genetics
genomics
transcriptomics |
