Search Results - "Vogel, John P"

Grasses use an alternatively wired bHLH transcription factor network to establish stomatal identity by Raissig, Michael T., Abrash, Emily, Bettadapur, Akhila, Vogel, John P., Bergmann, Dominique C.

“…Stomata, epidermal valves facilitating plant–atmosphere gas exchange, represent a powerful model for understanding cell fate and pattern in plants. Core basic…”
Get full text

A truncated NLR protein, TIR-NBS2, is required for activated defense responses in the exo70B1 mutant by Zhao, Ting, Rui, Lu, Li, Juan, Nishimura, Marc T, Vogel, John P, Liu, Na, Liu, Simu, Zhao, Yaofei, Dangl, Jeffery L, Tang, Dingzhong

“…During exocytosis, the evolutionarily conserved exocyst complex tethers Golgi-derived vesicles to the target plasma membrane, a critical function for secretory…”
Get full text

Extensive gene content variation in the Brachypodium distachyon pan-genome correlates with population structure by Gordon, Sean P., Contreras-Moreira, Bruno, Woods, Daniel P., Des Marais, David L., Burgess, Diane, Shu, Shengqiang, Stritt, Christoph, Roulin, Anne C., Schackwitz, Wendy, Tyler, Ludmila, Martin, Joel, Lipzen, Anna, Dochy, Niklas, Phillips, Jeremy, Barry, Kerrie, Geuten, Koen, Budak, Hikmet, Juenger, Thomas E., Amasino, Richard, Caicedo, Ana L., Goodstein, David, Davidson, Patrick, Mur, Luis A. J., Figueroa, Melania, Freeling, Michael, Catalan, Pilar, Vogel, John P.

“…While prokaryotic pan-genomes have been shown to contain many more genes than any individual organism, the prevalence and functional significance of…”
Get full text

Mobile MUTE specifies subsidiary cells to build physiologically improved grass stomata by Raissig, Michael T., Matos, Juliana L., Gil, M. Ximena Anleu, Kornfeld, Ari, Bettadapur, Akhila, Abrash, Emily, Allison, Hannah R., Badgley, Grayson, Vogel, John P., Berry, Joseph A., Bergmann, Dominique C.

“…Plants optimize carbon assimilation while limiting water loss by adjusting stomatal aperture. In grasses, a developmental innovation—the addition of subsidiary…”
Get full text

Transcriptomic analysis of field-droughted sorghum from seedling to maturity reveals biotic and metabolic responses by Varoquaux, Nelle, Cole, Benjamin, Gao, Cheng, Pierroz, Grady, Baker, Christopher R., Patel, Dhruv, Madera, Mary, Jeffers, Tim, Hollingsworth, Joy, Sievert, Julie, Yoshinaga, Yuko, Owiti, Judith A., Singan, Vasanth R., DeGraaf, Stephanie, Xu, Ling, Blow, Matthew J., Harrison, Maria J., Visel, Axel, Jansson, Christer, Niyogi, Krishna K., Hutmacher, Robert, Coleman-Derr, Devin, O’Malley, Ronan C., Taylor, John W., Dahlberg, Jeffery, Vogel, John P., Lemaux, Peggy G., Purdom, Elizabeth

“…Drought is the most important environmental stress limiting crop yields. The C4 cereal sorghum [Sorghum bicolor (L.) Moench] is a critical food, forage, and…”
Get full text

Division in PIN-Mediated Auxin Patterning during Organ Initiation in Grasses by O'Connor, Devin L, Runions, Adam, Sluis, Aaron, Bragg, Jennifer, Vogel, John P, Prusinkiewicz, Przemyslaw, Hake, Sarah, Vernoux, Teva

“…The hormone auxin plays a crucial role in plant morphogenesis. In the shoot apical meristem, the PIN-FORMED1 (PIN1) efflux carrier concentrates auxin into…”
Get full text

Comparative plastome genomics and phylogenomics of Brachypodium: flowering time signatures, introgression and recombination in recently diverged ecotypes by Sancho, Rubén, Cantalapiedra, Carlos P, López-Alvarez, Diana, Gordon, Sean P, Vogel, John P, Catalán, Pilar, Contreras-Moreira, Bruno

“…Few pan-genomic studies have been conducted in plants, and none of them have focused on the intraspecific diversity and evolution of their plastid genomes. We…”
Get full text

Gradual polyploid genome evolution revealed by pan-genomic analysis of Brachypodium hybridum and its diploid progenitors by Gordon, Sean P., Contreras-Moreira, Bruno, Levy, Joshua J., Djamei, Armin, Czedik-Eysenberg, Angelika, Tartaglio, Virginia S., Session, Adam, Martin, Joel, Cartwright, Amy, Katz, Andrew, Singan, Vasanth R., Goltsman, Eugene, Barry, Kerrie, Dinh-Thi, Vinh Ha, Chalhoub, Boulos, Diaz-Perez, Antonio, Sancho, Ruben, Lusinska, Joanna, Wolny, Elzbieta, Nibau, Candida, Doonan, John H., Mur, Luis A. J., Plott, Chris, Jenkins, Jerry, Hazen, Samuel P., Lee, Scott J., Shu, Shengqiang, Goodstein, David, Rokhsar, Daniel, Schmutz, Jeremy, Hasterok, Robert, Catalan, Pilar, Vogel, John P.

“…Our understanding of polyploid genome evolution is constrained because we cannot know the exact founders of a particular polyploid. To differentiate between…”
Get full text

GLO-Roots: an imaging platform enabling multidimensional characterization of soil-grown root systems by Rellán-Álvarez, Rubén, Lobet, Guillaume, Lindner, Heike, Pradier, Pierre-Luc, Sebastian, Jose, Yee, Muh-Ching, Geng, Yu, Trontin, Charlotte, LaRue, Therese, Schrager-Lavelle, Amanda, Haney, Cara H, Nieu, Rita, Maloof, Julin, Vogel, John P, Dinneny, José R

“…Root systems develop different root types that individually sense cues from their local environment and integrate this information with systemic signals. This…”
Get full text

PHYTOCHROME C regulation of photoperiodic flowering via PHOTOPERIOD1 is mediated by EARLY FLOWERING 3 in Brachypodium distachyon by Woods, Daniel P, Li, Weiya, Sibout, Richard, Shao, Mingqin, Laudencia-Chingcuanco, Debbie, Vogel, John P, Dubcovsky, Jorge, Amasino, Richard M

“…Daylength sensing in many plants is critical for coordinating the timing of flowering with the appropriate season. Temperate climate-adapted grasses such as…”
Get full text

JGI Plant Gene Atlas: an updateable transcriptome resource to improve functional gene descriptions across the plant kingdom by Sreedasyam, Avinash, Plott, Christopher, Hossain, Md Shakhawat, Lovell, John T, Grimwood, Jane, Jenkins, Jerry W, Daum, Christopher, Barry, Kerrie, Carlson, Joseph, Shu, Shengqiang, Phillips, Jeremy, Amirebrahimi, Mojgan, Zane, Matthew, Wang, Mei, Goodstein, David, Haas, Fabian B, Hiss, Manuel, Perroud, Pierre-François, Jawdy, Sara S, Yang, Yongil, Hu, Rongbin, Johnson, Jenifer, Kropat, Janette, Gallaher, Sean D, Lipzen, Anna, Shakirov, Eugene V, Weng, Xiaoyu, Torres-Jerez, Ivone, Weers, Brock, Conde, Daniel, Pappas, Marilia R, Liu, Lifeng, Muchlinski, Andrew, Jiang, Hui, Shyu, Christine, Huang, Pu, Sebastian, Jose, Laiben, Carol, Medlin, Alyssa, Carey, Sankalpi, Carrell, Alyssa A, Chen, Jin-Gui, Perales, Mariano, Swaminathan, Kankshita, Allona, Isabel, Grattapaglia, Dario, Cooper, Elizabeth A, Tholl, Dorothea, Vogel, John P, Weston, David J, Yang, Xiaohan, Brutnell, Thomas P, Kellogg, Elizabeth A, Baxter, Ivan, Udvardi, Michael, Tang, Yuhong, Mockler, Todd C, Juenger, Thomas E, Mullet, John, Rensing, Stefan A, Tuskan, Gerald A, Merchant, Sabeeha S, Stacey, Gary, Schmutz, Jeremy

“…Abstract Gene functional descriptions offer a crucial line of evidence for candidate genes underlying trait variation. Conversely, plant responses to…”
Get full text

PolyCRACKER, a robust method for the unsupervised partitioning of polyploid subgenomes by signatures of repetitive DNA evolution by Gordon, Sean P, Levy, Joshua J, Vogel, John P

“…Our understanding of polyploid genomes is limited by our inability to definitively assign sequences to a specific subgenome without extensive prior knowledge…”
Get full text

Association mapping by aerial drone reveals 213 genetic associations for Sorghum bicolor biomass traits under drought by Spindel, Jennifer E, Dahlberg, Jeffery, Colgan, Matthew, Hollingsworth, Joy, Sievert, Julie, Staggenborg, Scott H, Hutmacher, Robert, Jansson, Christer, Vogel, John P

“…Sorghum bicolor is the fifth most commonly grown cereal worldwide and is remarkable for its drought and abiotic stress tolerance. For these reasons and the…”
Get full text

Overexpression of the maize Corngrass1 microRNA prevents flowering, improves digestibility, and increases starch content of switchgrass by Chuck, George S, Tobias, Christian, Sun, Lan, Kraemer, Florian, Li, Chenlin, Dibble, Dean, Arora, Rohit, Bragg, Jennifer N, Vogel, John P, Singh, Seema, Simmons, Blake A, Pauly, Markus, Hake, Sarah

“…Biofuels developed from biomass crops have the potential to supply a significant portion of our transportation fuel needs. To achieve this potential, however,…”
Get full text

Transposition of HOPPLA in siRNA-deficient plants suggests a limited effect of the environment on retrotransposon mobility in Brachypodium distachyon by Thieme, Michael, Minadakis, Nikolaos, Himber, Christophe, Keller, Bettina, Xu, Wenbo, Rutowicz, Kinga, Matteoli, Calvin, Böhrer, Marcel, Rymen, Bart, Laudencia-Chingcuanco, Debbie, Vogel, John P, Sibout, Richard, Stritt, Christoph, Blevins, Todd, Roulin, Anne C

“…Long terminal repeat retrotransposons (LTR-RTs) are powerful mutagens regarded as a major source of genetic novelty and important drivers of evolution. Yet,…”
Get full text

Variation in Adult Plant Phenotypes and Partitioning among Seed and Stem-Borne Roots across Brachypodium distachyon Accessions to Exploit in Breeding Cereals for Well-Watered and Drought Environments by Chochois, Vincent, Vogel, John P, Rebetzke, Gregory J, Watt, Michelle

“…Seedling roots enable plant establishment. Their small phenotypes are measured routinely. Adult root systems are relevant to yield and efficiency, but…”
Get full text

Mixed-Linkage Glucan Is the Main Carbohydrate Source and Starch Is an Alternative Source during Brachypodium Grain Germination by Francin-Allami, Mathilde, Bouder, Axelle, Geairon, Audrey, Alvarado, Camille, Le-Bot, Lucie, Daniel, Sylviane, Shao, Mingqin, Laudencia-Chingcuanco, Debbie, Vogel, John P, Guillon, Fabienne, Bonnin, Estelle, Saulnier, Luc, Sibout, Richard

“…Seeds of the model grass are unusual because they contain very little starch and high levels of mixed-linkage glucan (MLG) accumulated in thick cell walls. It…”
Get full text

Generation and Characterization of the Western Regional Research Center Brachypodium T-DNA Insertional Mutant Collection by Bragg, Jennifer N, Wu, Jiajie, Gordon, Sean P, Guttman, Mara E, Thilmony, Roger, Lazo, Gerard R, Gu, Yong Q, Vogel, John P, Hazen, Samuel P

“…The model grass Brachypodium distachyon (Brachypodium) is an excellent system for studying the basic biology underlying traits relevant to the use of grasses…”
Get full text

Cross-species functional diversity within the PIN auxin efflux protein family by O'Connor, Devin Lee, Elton, Samuel, Ticchiarelli, Fabrizio, Hsia, Mon Mandy, Vogel, John P, Leyser, Ottoline

“…In Arabidopsis, development during flowering is coordinated by transport of the hormone auxin mediated by polar-localized PIN-FORMED1 (AtPIN1). However…”
Get full text

A New Method to Correct for Habitat Filtering in Microbial Correlation Networks by Brisson, Vanessa, Schmidt, Jennifer, Northen, Trent R, Vogel, John P, Gaudin, Amélie

“…Amplicon sequencing of 16S, ITS, and 18S regions of microbial genomes is a commonly used first step toward understanding microbial communities of interest for…”
Get full text