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Comparative Genomics/Transcriptomics

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IDTitleSection/TopicAuthorsKeywords
488Ancient genome duplication, gene loss, and diploidization of land plantsComparative Genomics/TranscriptomicsLi, Zheng; Barker, Michael.polyploidy
Whole-genome duplication
diploidization
paleopolyploidy
207Beyond the protoplast: isolating and analyzing fixed cells for single-cell researchComparative Genomics/TranscriptomicsMarchant, Daniel Blaine; Nelms, Brad; Walbot, Virginia.single-cell
transcriptomics
maize
anther
reproduction
472Candidate Domestication Genes in Multiple Crops are Enriched With Paleologs from Ancient Whole Genome DuplicationsComparative Genomics/TranscriptomicsMcKibben, Michael; Barker, Michael.polyploidy
Crops
domestication
Whole-genome duplication
Paleologs
evolution
comparative genomics
PGLS
427Centromere protein evolution and chromosome count variation in Drosera (Droseraceae), a group with holocentromeresComparative Genomics/TranscriptomicsMohn, Rebekah; Yang, Ya.centromere
Drosera
holocentromere
phylotranscriptomics
Chromosomes
Caryophyllales
318Comparative genomics approaches as tools to unveil the drivers of evolutionary radiations : a case study in Tillandsia (Bromeliaceae)Comparative Genomics/TranscriptomicsGroot Crego , Clara; Hess, Jaqueline; de La Harpe, Marylaure; McNair, Neil; Yardeni, Gil; Paris, Margot; Barfuss, Michael H. J.; Till, Walter; Leroy, Thibault; Paun, Ovidiu; Lexer, Christian.comparative genomics
adaptive radiation
Bromeliaceae
Tillandsia
key innovation
858Comparing orthologs in two Yucca species to discover divergence in the expression patterns of genes involved in crassulacean acid metabolism (CAM)Comparative Genomics/TranscriptomicsField, Richard; Heyduk, Karolina; Angulo, Juan; Leebens-Mack, Jim.genetics
crassulacean acid metabolsim
comparative genomics
Gene expression
623Differences Between Transcriptomes of Seed Coat Phenotypes of a Wild LupineComparative Genomics/TranscriptomicsWilson, Rachel; Michaels, Helen.transcriptomics
Seed coat
Anthocyanins
Fabaceae
lupinus
polymorphic
841Divergence of duplicated genes by repeated partitioning of splice forms and subcellular localizationComparative Genomics/TranscriptomicsQiu, Yichun; Adams, Keith.Gene Duplication
duplicated genes
polyploidy
molecular evolution
chloroplasts
subcellular targeting
alternative splicing
Gene expression
451Downregulation distinguishes desert from aquatic green algal response to desiccationComparative Genomics/TranscriptomicsPeredo, Elena L.; Cardon, Zoe G..desiccation tolerance
RNA-seq
extremophiles
microalgae
648Evidence for a recent whole-genome duplication in a diatom genomeComparative Genomics/TranscriptomicsRoberts, Wade; Alverson, Andrew.Diatoms
minION genome sequencing
Whole-genome duplication
diploidization
356Exploring the dynamic plastid and and mitochondrial genomes of a new species of green algae (Chaetopeltidales, Chlorophyceae)Comparative Genomics/TranscriptomicsRobison, Tanner; Hauser, Duncan; Nelson, Jessica; Lewis, Louise; Li, Fay-Wei.
600Generating a target-enrichment bait set to explore polyploid and reticulate evolution in the tribe BrassiceaeComparative Genomics/TranscriptomicsThomas, Shawn; Pires, Joseph.Target Enrichment
polyploidy
genomics
Brassicaceae
901Genetic mechanism of the transition to red floral color in PetuniaComparative Genomics/TranscriptomicsBerardi, Andrea; Esfield, Korinna; Kuhlemeier, Cris.floral color
Anthocyanins
flavonoids
evolution
214Genomic characterization and comparison of two maples highlights genes involved in the stress response to acidic soilsComparative Genomics/TranscriptomicsMcEvoy, Susan; Trouern-Trend, Alexander; Sezen, Uzay; Wegrzyn, Jill; Swenson, Nathan.Sugar Maple
box elder
Abiotic stress
resistance
aluminum
calcium
320Hybridization might have facilitated the rapid evolution of C4 photosynthesis in closely related MolluginaceaeComparative Genomics/TranscriptomicsMunshi, Lamiaa; Christin, Pascal-Antoine.C4 photosynthesis
molecular evolution
Molluginaceae
587Intracellular Gene Transfer Dynamics in Asclepiadoideae (Apocynaceae)Comparative Genomics/TranscriptomicsKafrawi, Rizky; Livshultz, Tatyana; Fishbein, Mark; Straub, Shannon.intracellular gene transfer
gene conversion
plastome
Mitochondrial genome
Asclepiadoideae
Apocynaceae
54Involvement of Gbwri1 in fiber development and fatty acid biosynthesis in Gossypium barbadenseComparative Genomics/TranscriptomicsQaisar, Uzma; Imran, Mahnoor; Bano, Shaher; But, Maria.Gossypium
wrinkled1
fattyacid biosynthesis
fiber development
677Less than evergreen: Leaf senescence transcriptomics in Larix laricinaComparative Genomics/TranscriptomicsScott, Alison; Maher, Olivia; Ferreira, Alyssa; Trouern-Trend, Alexander; Figueroa-Corona, Laura; Matallana, Lilian; Whetten, Ross; Wegrzyn, Jill.senescence
conifer
Gene expression
transcriptome
deciduous
219Multispecies fruit transcriptomes highlight divergence across developmental and evolutionary timeComparative Genomics/TranscriptomicsRajewski, Alex; Maheepala, Dinusha; Litt, Amy.tomato
tobacco
Arabidopsis
transcriptome
fruit
pericarp
ortholog
domestication
537Preliminary annotation and analysis of the Arctostaphylos glauca genomeComparative Genomics/TranscriptomicsHuang, Yi; Huang, Yi; Morrison , Glen R; Wilson, Sarah; Li, Zheng; Barker, Michael; Litt, Amy.synteny
Ericaceae
Whole-genome duplication
genome assembly
606Single nucleus analysis of Arabidopsis endosperm reveals new, transcriptionally distinct cell typesComparative Genomics/TranscriptomicsPicard, Colette; Povilus, Rebecca; Williams, Ben; Gehring, Mary.Single-nuclei sequencing
Endosperm
Seed Biology
Cell-cycle
380Structure and evolution of drought responsive dehydrin genes across species and ecotypes of the monocot Brachypodium model systemComparative Genomics/TranscriptomicsDecena Rodriguez , Maria Angeles; Galvez-Rojas, Sergio; Contreras-Moreira, Bruno; Hernandez, Pilar; Catalan, Pilar.Bdhn genes
Brachypodium
cis-regulatory elements
comparative genomics
dehydrins
Phylogenetic analysis
250Subgenome-detection algorithms and cross-bracing dating approaches reveal the ancestry of known and ‘ghost’ homeologous subgenomes in grass Brachypodium allopolyploidsComparative Genomics/TranscriptomicsCatalan, Pilar; Sancho, Ruben; Inda, Luis Angel; Diaz-Perez, Antonio; Des Marais, David; Gordon, Sean; Vogel, John; Contreras-Moreira, Bruno.allopolyploidy
Brachypodium
 core genes
homeologous subgenomes
phylogenomics
RNA-seq
196The genomic signatures of convergent evolution of pollination syndromes in Costus (Costaceae)Comparative Genomics/TranscriptomicsLandis, Jacob; Valderrama, Eugenio; Grunder, Nikolaus; Skinner, David; Sass, Chodon; Vargas , Maria Pinila; Guan, Clarice; Almeida, Ana Maria; Specht, Chelsea.genome assembly
insect pollination
bird pollination
comparative genomics
pollination syndromes
signatures of selection
268The origin and evolution of plastid genome downsizing in Southern Hemispheric cypresses (Cupressaceae)Comparative Genomics/TranscriptomicsSudianto, Edi; Wu, Chung-Shien; Chaw, Shu-Miaw.callitroids
Callitroideae
cupressophytes
plastid genome
genome downsizing
Southern Hemisphere
852The Role of Gene Duplication in the Evolution of the Glucosinolate (Mustard Oil) MAM LocusComparative Genomics/TranscriptomicsAbrahams, Richard; Pires, Joseph; Schranz, M. Eric.synteny
Brassicaceae
Metabolism
Gene Duplication
Gene Family
Glucosinolate
413Transcriptome dynamics of the inflorescence in reciprocally formed allopolyploid Tragopogon miscellus (Asteraceae)Comparative Genomics/TranscriptomicsShan, Shengchen; Boatwright, J. Lucas; Liu, Xiaoxian; Chanderbali, Andre; Fu, Chaonan; Soltis, Pamela; Soltis, Douglas.homeolog
inflorescence
nonadditive expression
polyploidy
reciprocal formation
Tragopogon
transcriptome
722Twelve high-quality genomes highlight genomic diversity across the hornwortsComparative Genomics/TranscriptomicsSchafran, Peter; Xu, Xia; Robison, Tanner; Hauser, Duncan; Gunadi, Andika; Wickell, David; Villarreal Aguilar, Juan Carlos; Li, Fay-Wei.hornworts
bryophytes
Genomes
Nanopore
533Variation of transposable elements across Steinchisma hians (Poaceae) populations in the Southeastern USAComparative Genomics/TranscriptomicsDeb, Sontosh; Lewis, Michelle; Jones, Sydney; Risman, Daniel; McKain, Michael.transposable elements
population genomics
herbarium specimens
chloroplast phylogenomics

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