Search Results - "Conant, Gavin"

The lasting after-effects of an ancient polyploidy on the genomes of teleosts by Conant, Gavin C

“…The ancestor of most teleost fishes underwent a whole-genome duplication event three hundred million years ago. Despite its antiquity, the effects of this…”
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POInTbrowse: orthology prediction and synteny exploration for paleopolyploid genomes by Siddiqui, Mustafa, Conant, Gavin C

“…Abstract We describe POInT browse , a web portal that gives access to the orthology inferences made for polyploid genomes with POInT, the Polyploidy Orthology…”
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Turning a hobby into a job: How duplicated genes find new functions by Wolfe, Kenneth H, Conant, Gavin C

“…Key Points Natural selection uses duplicated genes as raw material for functional innovation, co-opting their existing features to new functions. Understanding…”
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Gene expression bias between the subgenomes of allopolyploid hybrids is an emergent property of the kinetics of expression by An, Hong, Pires, J Chris, Conant, Gavin C

“…Hybridization coupled to polyploidy, or allopolyploidy, has dramatically shaped the evolution of flowering plants, teleost fishes, and other lineages. Studies…”
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Hybridization order is not the driving factor behind biases in duplicate gene losses among the hexaploid Solanaceae by McRae, Logan, Beric, Aleksandra, Conant, Gavin C

“…We model the post-hexaploidy evolution of four genomes from the Solanaceae, a group of flowering plants comprising tomatoes, potatoes and their relatives. The…”
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Dosage, duplication, and diploidization: clarifying the interplay of multiple models for duplicate gene evolution over time by Conant, Gavin C, Birchler, James A, Pires, J Chris

“…•Dosage balance is fluid and will change over time.•Duplicate genes are preserved by interplay of multiple overlapping mechanisms.•Distinguishing duplicate…”
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Comparative genomics as a time machine: how relative gene dosage and metabolic requirements shaped the time-dependent resolution of yeast polyploidy by Conant, Gavin C

“…Using a phylogenetic model of evolution after genome duplication (i.e., polyploidy) and 12 yeast genomes with a shared genome duplication, I show that the loss…”
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GenomeVx: simple web-based creation of editable circular chromosome maps by Conant, Gavin C., Wolfe, Kenneth H.

“…We describe GenomeVx, a web-based tool for making editable, publication-quality, maps of mitochondrial and chloroplast genomes and of large plasmids. These…”
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butterfly plant arms-race escalated by gene and genome duplications by Edger, Patrick P, Hanna M. Heidel-Fischer, Michaël Bekaert, Jadranka Rota, Gernot Glëöckner, Adrian E. Platts, David G. Heckel, Joshua P. Der, Eric K. Wafula, Michelle Tang, Johannes A. Hofberger, Ann Smithson, Jocelyn C. Hall, Matthieu Blanchette, Thomas E. Bureau, Stephen I. Wright, Claude W. dePamphilis, M. Eric Schranz, Michael S. Barker, Gavin C. Conant, Niklas Wahlberg, Heiko Vogel, J. Chris Pires, Christopher W. Wheat

“…Coevolutionary interactions are thought to have spurred the evolution of key innovations and driven the diversification of much of life on Earth. However, the…”
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Shared single copy genes are generally reliable for inferring phylogenetic relationships among polyploid taxa by Naranjo, Jaells G., Sither, Charles B., Conant, Gavin C.

“…[Display omitted] Polyploidy, or whole-genome duplication, is expected to confound the inference of species trees with phylogenetic methods for two reasons…”
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Transcriptome and organellar sequencing highlights the complex origin and diversification of allotetraploid Brassica napus by An, Hong, Qi, Xinshuai, Gaynor, Michelle L., Hao, Yue, Gebken, Sarah C., Mabry, Makenzie E., McAlvay, Alex C., Teakle, Graham R., Conant, Gavin C., Barker, Michael S., Fu, Tingdong, Yi, Bin, Pires, J. Chris

“…Brassica napus , an allotetraploid crop, is hypothesized to be a hybrid from unknown varieties of Brassica rapa and Brassica oleracea . Despite the economic…”
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POInT: Modeling Polyploidy in the Era of Ubiquitous Genomics by Conant, Gavin C

“…Thirteen years ago, we described an evolutionary modeling tool that could resolve the orthology relationships among the homologous genomic regions created by a…”
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Integrating Networks, Phylogenomics, and Population Genomics for the Study of Polyploidy by Blischak, Paul D, Mabry, Makenzie E, Conant, Gavin C, Pires, J. Chris

“…Duplication events are regarded as sources of evolutionary novelty, but our understanding of general trends for the long-term trajectory of additional genomic…”
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Preferential retention of genes from one parental genome after polyploidy illustrates the nature and scope of the genomic conflicts induced by hybridization by Emery, Marianne, Willis, M Madeline S, Hao, Yue, Barry, Kerrie, Oakgrove, Khouanchy, Peng, Yi, Schmutz, Jeremy, Lyons, Eric, Pires, J Chris, Edger, Patrick P, Conant, Gavin C

“…Polyploidy is increasingly seen as a driver of both evolutionary innovation and ecological success. One source of polyploid organisms' successes may be their…”
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Metabolic and evolutionary costs of herbivory defense: systems biology of glucosinolate synthesis by Bekaert, Michaël, Edger, Patrick P., Hudson, Corey M., Pires, J.Chris, Conant, Gavin C.

“…Here, we describe our updated mathematical model of Arabidopsis thaliana Columbia metabolism, which adds the glucosinolates, an important group of secondary…”
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Robust Yet Fragile: Expression Noise, Protein Misfolding, and Gene Dosage in the Evolution of Genomes by Pires, J. Chris, Conant, Gavin C

“…The complex manner in which organisms respond to changes in their gene dosage has long fascinated geneticists. Oddly, although the existence of dominance…”
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Increased glycolytic flux as an outcome of whole-genome duplication in yeast by Conant, Gavin C, Wolfe, Kenneth H

“…After whole‐genome duplication (WGD), deletions return most loci to single copy. However, duplicate loci may survive through selection for increased dosage…”
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RUMINNAT NUTRITION SYMPOSIUM: Tiny but mighty: the role of the rumen microbes in livestock production by Cammack, Kristi M, Austin, Kathleen J, Lamberson, William R, Conant, Gavin C, Cunningham, Hannah C

“…The microbes inhabiting the rumen convert low-quality, fibrous, plant material into useable energy for the host ruminant. Consisting of bacteria, protozoa,…”
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The players may change but the game remains: network analyses of ruminal microbiomes suggest taxonomic differences mask functional similarity by Taxis, Tasia M, Wolff, Sara, Gregg, Sarah J, Minton, Nicholas O, Zhang, Chiqian, Dai, Jingjing, Schnabel, Robert D, Taylor, Jeremy F, Kerley, Monty S, Pires, J Chris, Lamberson, William R, Conant, Gavin C

“…By mapping translated metagenomic reads to a microbial metabolic network, we show that ruminal ecosystems that are rather dissimilar in their taxonomy can be…”
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Genes derived from ancient polyploidy have higher genetic diversity and are associated with domestication in Brassica rapa by Qi, Xinshuai, An, Hong, Hall, Tara E., Di, Chenlu, Blischak, Paul D., McKibben, Michael T. W., Hao, Yue, Conant, Gavin C., Pires, J. Chris, Barker, Michael S.

“…Summary Many crops are polyploid or have a polyploid ancestry. Recent phylogenetic analyses have found that polyploidy often preceded the domestication of crop…”
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