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Assembly, comparative analysis, and utilization of a single haplotype reference genome for soybean.
Published in:
Plant Journal, 2024, v. 120, n. 3, p. 1221, doi. 10.1111/tpj.17026
By:
- Espina, Mary Jane C.;
- Lovell, John T.;
- Jenkins, Jerry;
- Shu, Shengqiang;
- Sreedasyam, Avinash;
- Jordan, Brandon D.;
- Webber, Jenell;
- Boston, LoriBeth;
- Brůna, Tomáš;
- Talag, Jayson;
- Goodstein, David;
- Grimwood, Jane;
- Stacey, Gary;
- Cannon, Steven B.;
- Lorenz, Aaron J.;
- Schmutz, Jeremy;
- Stupar, Robert M.
Publication type:
Article
Disturbance Regime Mediates Riparian Forest Dynamics and Physiological Performance, Arkansas River, CO.
Published in:
American Midland Naturalist, 2009, v. 162, n. 2, p. 289, doi. 10.1674/0003-0031-162.2.289
By:
- LOVELL, JOHN T.;
- GIBSON, JOSLYN;
- HESCHEL, M. SHANE
Publication type:
Article
Pests, diseases, and aridity have shaped the genome of Corymbia citriodora.
Published in:
Communications Biology, 2021, v. 4, n. 1, p. 1, doi. 10.1038/s42003-021-02009-0
By:
- Healey, Adam L.;
- Shepherd, Mervyn;
- King, Graham J.;
- Butler, Jakob B.;
- Freeman, Jules S.;
- Lee, David J.;
- Potts, Brad M.;
- Silva-Junior, Orzenil B.;
- Baten, Abdul;
- Jenkins, Jerry;
- Shu, Shengqiang;
- Lovell, John T.;
- Sreedasyam, Avinash;
- Grimwood, Jane;
- Furtado, Agnelo;
- Grattapaglia, Dario;
- Barry, Kerrie W.;
- Hundley, Hope;
- Simmons, Blake A.;
- Schmutz, Jeremy
Publication type:
Article
Biosynthesis and Emission of Stress-Induced Volatile Terpenes in Roots and Leaves of Switchgrass (Panicum virgatum L.).
Published in:
Frontiers in Plant Science, 2019, p. 1, doi. 10.3389/fpls.2019.01144
By:
- Muchlinski, Andrew;
- Chen, Xinlu;
- Lovell, John T.;
- Köllner, Tobias G.;
- Pelot, Kyle A.;
- Zerbe, Philipp;
- Ruggiero, Meredith;
- Callaway III, LeMar;
- Laliberte, Suzanne;
- Chen, Feng;
- Tholl, Dorothea
Publication type:
Article
The Genetic Architecture of Shoot and Root Trait Divergence Between Mesic and Xeric Ecotypes of a Perennial Grass.
Published in:
Frontiers in Plant Science, 2019, p. N.PAG, doi. 10.3389/fpls.2019.00366
By:
- Khasanova, Albina;
- Lovell, John T.;
- Bonnette, Jason;
- Weng, Xiaoyu;
- Jenkins, Jerry;
- Yoshinaga, Yuko;
- Schmutz, Jeremy;
- Juenger, Thomas E.
Publication type:
Article
Complex interactions between day length and diurnal patterns of gene expression drive photoperiodic responses in a perennial C<sub>4</sub> grass.
Published in:
Plant, Cell & Environment, 2019, v. 42, n. 7, p. 2165, doi. 10.1111/pce.13546
By:
- Weng, Xiaoyu;
- Lovell, John T.;
- Schwartz, Scott L.;
- Cheng, Changde;
- Haque, Taslima;
- Zhang, Li;
- Razzaque, Samsad;
- Juenger, Thomas E.
Publication type:
Article
Four chromosome scale genomes and a pan-genome annotation to accelerate pecan tree breeding.
Published in:
Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-24328-w
By:
- Lovell, John T.;
- Bentley, Nolan B.;
- Bhattarai, Gaurab;
- Jenkins, Jerry W.;
- Sreedasyam, Avinash;
- Alarcon, Yanina;
- Bock, Clive;
- Boston, Lori Beth;
- Carlson, Joseph;
- Cervantes, Kimberly;
- Clermont, Kristen;
- Duke, Sara;
- Krom, Nick;
- Kubenka, Keith;
- Mamidi, Sujan;
- Mattison, Christopher P.;
- Monteros, Maria J.;
- Pisani, Cristina;
- Plott, Christopher;
- Rajasekar, Shanmugam
Publication type:
Article
TSPmap, a tool making use of traveling salesperson problem solvers in the efficient and accurate construction of high-density genetic linkage maps.
Published in:
BioData Mining, 2017, v. 10, p. 1, doi. 10.1186/s13040-017-0158-0
By:
- Monroe, J. Grey;
- Allen, Zachariah A.;
- Tanger, Paul;
- Mullen, Jack L.;
- Lovell, John T.;
- Moyers, Brook T.;
- Whitley, Darrell;
- McKay, John K.
Publication type:
Article
A genome resource for green millet Setaria viridis enables discovery of agronomically valuable loci.
Published in:
Nature Biotechnology, 2020, v. 38, n. 10, p. 1203, doi. 10.1038/s41587-020-0681-2
By:
- Mamidi, Sujan;
- Healey, Adam;
- Huang, Pu;
- Grimwood, Jane;
- Jenkins, Jerry;
- Barry, Kerrie;
- Sreedasyam, Avinash;
- Shu, Shengqiang;
- Lovell, John T.;
- Feldman, Maximilian;
- Wu, Jinxia;
- Yu, Yunqing;
- Chen, Cindy;
- Johnson, Jenifer;
- Sakakibara, Hitoshi;
- Kiba, Takatoshi;
- Sakurai, Tetsuya;
- Tavares, Rachel;
- Nusinow, Dmitri A.;
- Baxter, Ivan
Publication type:
Article
Field-based high throughput phenotyping rapidly identifies genomic regions controlling yield components in rice.
Published in:
Scientific Reports, 2017, p. 42839, doi. 10.1038/srep42839
By:
- Tanger, Paul;
- Klassen, Stephen;
- Mojica, Julius P.;
- Lovell, John T.;
- Moyers, Brook T.;
- Baraoidan, Marietta;
- Naredo, Maria Elizabeth B.;
- McNally, Kenneth L.;
- Poland, Jesse;
- Bush, Daniel R.;
- Leung, Hei;
- Leach, Jan E.;
- McKay, John K.
Publication type:
Article
Cytochrome P450-catalyzed biosynthesis of furanoditerpenoids in the bioenergy crop switchgrass (Panicum virgatum L.).
Published in:
Plant Journal, 2021, v. 108, n. 4, p. 1053, doi. 10.1111/tpj.15492
By:
- Muchlinski, Andrew;
- Meirong Jia;
- Tiedge, Kira;
- Fell, Jason S.;
- Pelot, Kyle A.;
- Chew, Lisl;
- Davisson, Danielle;
- Yuxuan Chen;
- Siegel, Justin;
- Lovell, John T.;
- Zerbe, Philipp
Publication type:
Article
Mating system and environmental variation drive patterns of adaptation in Boechera spatifolia ( Brassicaceae).
Published in:
Molecular Ecology, 2014, v. 23, n. 18, p. 4486, doi. 10.1111/mec.12879
By:
- Lovell, John T.;
- Grogan, Kelsi;
- Sharbel, Timothy F.;
- McKay, John K.
Publication type:
Article
Boechera Summit 2011.
Published in:
Molecular Ecology, 2011, v. 20, n. 23, p. 4840, doi. 10.1111/j.1365-294X.2011.05346.x
By:
- LOVELL, JOHN T.
Publication type:
Article
Genetic dissection of natural variation in oilseed traits of camelina by whole‐genome resequencing and QTL mapping.
Published in:
Plant Genome, 2021, v. 14, n. 2, p. 1, doi. 10.1002/tpg2.20110
By:
- Li, Huang;
- Hu, Xiao;
- Lovell, John T.;
- Grabowski, Paul P.;
- Mamidi, Sujan;
- Chen, Cindy;
- Amirebrahimi, Mojgan;
- Kahanda, Indika;
- Mumey, Brendan;
- Barry, Kerrie;
- Kudrna, David;
- Schmutz, Jeremy;
- Lachowiec, Jennifer;
- Lu, Chaofu
Publication type:
Article
Interpersonal Relationship And Pupil Progress.
Published in:
Personnel & Guidance Journal, 1965, v. 44, n. 4, p. 396, doi. 10.1002/j.2164-4918.1965.tb03533.x
By:
- Lewis, William A.;
- Lovell, John T.;
- Jessee, B. E.
Publication type:
Article
GENESPACE tracks regions of interest and gene copy number variation across multiple genomes.
Published in:
eLife, 2022, p. 1, doi. 10.7554/eLife.78526
By:
- Lovell, John T.;
- Sreedasyam, Avinash;
- Schranz, M. Eric;
- Wilson, Melissa;
- Carlson, Joseph W.;
- Harkess, Alex;
- Emms, David;
- Goodstein, David M.;
- Schmutz, Jeremy
Publication type:
Article
Components of the ribosome biogenesis pathway underlie establishment of telomere length set point in Arabidopsis.
Published in:
Nature Communications, 2019, v. 10, n. 1, p. N.PAG, doi. 10.1038/s41467-019-13448-z
By:
- Abdulkina, Liliia R.;
- Kobayashi, Callie;
- Lovell, John T.;
- Chastukhina, Inna B.;
- Aklilu, Behailu B.;
- Agabekian, Inna A.;
- Suescún, Ana V.;
- Valeeva, Lia R.;
- Nyamsuren, Chuluuntsetseg;
- Aglyamova, Galina V.;
- Sharipova, Margarita R.;
- Shippen, Dorothy E.;
- Juenger, Thomas E.;
- Shakirov, Eugene V.
Publication type:
Article
The genomic landscape of molecular responses to natural drought stress in Panicum hallii.
Published in:
Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-07669-x
By:
- Lovell, John T.;
- Jenkins, Jerry;
- Lowry, David B.;
- Mamidi, Sujan;
- Sreedasyam, Avinash;
- Weng, Xiaoyu;
- Barry, Kerrie;
- Bonnette, Jason;
- Campitelli, Brandon;
- Daum, Chris;
- Gordon, Sean P.;
- Gould, Billie A.;
- Khasanova, Albina;
- Lipzen, Anna;
- MacQueen, Alice;
- Palacio-Mejía, Juan Diego;
- Plott, Christopher;
- Shakirov, Eugene V.;
- Shu, Shengqiang;
- Yoshinaga, Yuko
Publication type:
Article
Pleiotropic Flowering Time QTL Exhibits Gene-by-Environment Interaction for Fitness in a Perennial Grass.
Published in:
Molecular Biology & Evolution, 2022, v. 39, n. 10, p. 1, doi. 10.1093/molbev/msac203
By:
- Weng, Xiaoyu;
- Haque, Taslima;
- Zhang, Li;
- Razzaque, Samsad;
- Lovell, John T;
- Palacio-Mejía, Juan Diego;
- Duberney, Perla;
- Lloyd-Reilley, John;
- Bonnette, Jason;
- Juenger, Thomas E
Publication type:
Article
Genetic Mapping Reveals an Anthocyanin Biosynthesis Pathway Gene Potentially Influencing Evolutionary Divergence between Two Subspecies of Scarlet Gilia (Ipomopsis aggregata).
Published in:
Molecular Biology & Evolution, 2018, v. 35, n. 4, p. 807, doi. 10.1093/molbev/msx318
By:
- Campitelli, Brandon E;
- Kenney, Amanda M;
- Hopkins, Robin;
- Soule, Jacob;
- Lovell, John T;
- Juenger, Thomas E
Publication type:
Article
Natural variation in plant telomere length is associated with flowering time.
Published in:
Plant Cell, 2021, v. 33, n. 4, p. 1118, doi. 10.1093/plcell/koab022
By:
- Choi, Jae Young;
- Abdulkina, Liliia R;
- Yin, Jun;
- Chastukhina, Inna B;
- Lovell, John T;
- Agabekian, Inna A;
- Young, Pierce G;
- Razzaque, Samsad;
- Shippen, Dorothy E;
- Juenger, Thomas E;
- Shakirov, Eugene V;
- Purugganan, Michael D
Publication type:
Article
Exploiting Differential Gene Expression and Epistasis to Discover Candidate Genes for Drought-Associated QTLs in Arabidopsis thaliana.
Published in:
Plant Cell, 2015, v. 27, n. 4, p. 969, doi. 10.1105/tpc.15.00122
By:
- Lovell, John T.;
- Mullen, Jack L.;
- Lowry, David B.;
- Awole, Kedija;
- Richards, James H.;
- Sen, Saunak;
- Verslues, Paul E.;
- Juenger, Thomas E.;
- McKay, John K.
Publication type:
Article
Seed size, endosperm and germination variation in sexual and apomictic Boechera.
Published in:
Frontiers in Plant Science, 2022, v. 13, p. 1, doi. 10.3389/fpls.2022.991531
By:
- Paczesniak, Dorota;
- Pellino, Marco;
- Goertzen, Richard;
- Guenter, Devan;
- Jahnke, Siegfried;
- Fischbach, Andreas;
- Lovell, John T.;
- Sharbel, Timothy F.
Publication type:
Article
The reference genome and abiotic stress responses of the model perennial grass Brachypodium sylvaticum.
Published in:
G3: Genes | Genomes | Genetics, 2024, v. 14, n. 1, p. 1, doi. 10.1093/g3journal/jkad245
By:
- Lei, Li;
- Gordon, Sean P;
- Liu, Lifeng;
- Sade, Nir;
- Lovell, John T;
- Wilhelmi, Maria Del Mar Rubio;
- Singan, Vasanth;
- Sreedasyam, Avinash;
- Hestrin, Rachel;
- Phillips, Jeremy;
- Hernandez, Bryan T;
- Barry, Kerrie;
- Shu, Shengqiang;
- Jenkins, Jerry;
- Schmutz, Jeremy;
- Goodstein, David M;
- Thilmony, Roger;
- Blumwald, Eduardo;
- Vogel, John P
Publication type:
Article
Environmentally responsive QTL controlling surface wax load in switchgrass.
Published in:
Theoretical & Applied Genetics, 2020, v. 133, n. 11, p. 3119, doi. 10.1007/s00122-020-03659-0
By:
- Bragg, Jennifer;
- Tomasi, Pernell;
- Zhang, Li;
- Williams, Tina;
- Wood, Delilah;
- Lovell, John T.;
- Healey, Adam;
- Schmutz, Jeremy;
- Bonnette, Jason E.;
- Cheng, Prisca;
- Chanbusarakum, Lisa;
- Juenger, Thomas;
- Tobias, Christian M.
Publication type:
Article
Host genotype controls ecological change in the leaf fungal microbiome.
Published in:
PLoS Biology, 2022, v. 20, n. 8, p. 1, doi. 10.1371/journal.pbio.3001681
By:
- VanWallendael, Acer;
- Benucci, Gian Maria Niccolo;
- da Costa, Pedro Beschoren;
- Fraser, Linnea;
- Sreedasyam, Avinash;
- Fritschi, Felix;
- Juenger, Thomas E.;
- Lovell, John T.;
- Bonito, Gregory;
- Lowry, David B.
Publication type:
Article
Multiple origins, one evolutionary trajectory: gradual evolution characterizes distinct lineages of allotetraploid Brachypodium.
Published in:
Genetics, 2023, v. 223, n. 2, p. 1, doi. 10.1093/genetics/iyac146
By:
- Scarlett, Virginia T.;
- Lovell, John T.;
- Mingqin Shao;
- Phillips, Jeremy;
- Shengqiang Shu;
- Lusinska, Joanna;
- Goodstein, David M.;
- Jenkins, Jerry;
- Grimwood, Jane;
- Barry, Kerrie;
- Chalhoub, Boulos;
- Schmutz, Jeremy;
- Hasterok, Robert;
- Catalán, Pilar;
- Vogel, John P.
Publication type:
Article
JGI Plant Gene Atlas: an updateable transcriptome resource to improve functional gene descriptions across the plant kingdom.
Published in:
Nucleic Acids Research, 2023, v. 51, n. 16, p. 8383, doi. 10.1093/nar/gkad616
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
Publication type:
Article
Promises and Challenges of Eco-Physiological Genomics in the Field: Tests of Drought Responses in Switchgrass.
Published in:
Plant Physiology, 2016, v. 172, n. 2, p. 734, doi. 10.1104/pp.16.00545
By:
- Lovell, John T.;
- Shakirov, Eugene V.;
- Schwartz, Scott;
- Lowry, David B.;
- Aspinwall, Michael J.;
- Taylor, Samuel H.;
- Bonnette, Jason;
- Palacio-Mejia, Juan Diego;
- Hawkes, Christine V.;
- Fay, Philip A.;
- Juenger, Thomas E.
Publication type:
Article
Correction to: Ancient polymorphisms contribute to genome-wide variation by long-term balancing selection and divergent sorting in Boechera stricta.
Published in:
2019
By:
- Wang, Baosheng;
- Mojica, Julius P.;
- Perera, Nadeesha;
- Lee, Cheng-Ruei;
- Lovell, John T.;
- Sharma, Aditi;
- Adam, Catherine;
- Lipzen, Anna;
- Barry, Kerrie;
- Rokhsar, Daniel S.;
- Schmutz, Jeremy;
- Mitchell-Olds, Thomas
Publication type:
Correction Notice
Ancient polymorphisms contribute to genome-wide variation by long-term balancing selection and divergent sorting in Boechera stricta.
Published in:
Genome Biology, 2019, v. 20, n. 1, p. N.PAG, doi. 10.1186/s13059-019-1729-9
By:
- Wang, Baosheng;
- Mojica, Julius P.;
- Perera, Nadeesha;
- Lee, Cheng-Ruei;
- Lovell, John T.;
- Sharma, Aditi;
- Adam, Catherine;
- Lipzen, Anna;
- Barry, Kerrie;
- Rokhsar, Daniel S.;
- Schmutz, Jeremy;
- Mitchell-Olds, Thomas
Publication type:
Article
Ecological genetics of range size variation in Boechera spp. (Brassicaceae).
Published in:
Ecology & Evolution (20457758), 2015, v. 5, n. 21, p. 4962, doi. 10.1002/ece3.1746
By:
- Lovell, John T.;
- McKay, John K.
Publication type:
Article
Mutation accumulation in an asexual relative of Arabidopsis.
Published in:
PLoS Genetics, 2017, v. 13, n. 1, p. 1, doi. 10.1371/journal.pgen.1006550
By:
- Lovell, John T.;
- Williamson, Robert J.;
- Wright, Stephen I.;
- McKay, John K.;
- Sharbel, Timothy F.
Publication type:
Article

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