Plant Pubs

All JGI Publications

2024

• Campos, Miguel et al. (2024) Repeated migration, interbreeding and bottlenecking shaped the phylogeography of the selfing grass Brachypodium stacei. Molecular Ecology 33(19), e17513. 10.1111/mec.17513
• Campos, Miguel et al. (2024) Repeated migration, interbreeding and bottlenecking shaped the phylogeography of the selfing grass Brachypodium stacei. Molecular Ecology 33(19), e17513. 10.1111/mec.17513
• Coomey, Joshua H. et al. (2024) Mechanically induced localisation of SECONDARY WALL INTERACTING bZIP is associated with thigmomorphogenic and secondary cell wall gene expression. Quantitative Plant Biology 5, e5. 10.1017/qpb.2024.5
• Coomey, Joshua H. et al. (2024) Mechanically induced localisation of SECONDARY WALL INTERACTING bZIP is associated with thigmomorphogenic and secondary cell wall gene expression. Quantitative Plant Biology 5, e5. 10.1017/qpb.2024.5
• Espina, Mary Jane C. et al. (2024) Assembly, comparative analysis, and utilization of a single haplotype reference genome for soybean. The Plant Journal . 10.1111/tpj.17026
• Espina, Mary Jane C. et al. (2024) Assembly, comparative analysis, and utilization of a single haplotype reference genome for soybean. The Plant Journal . 10.1111/tpj.17026
• Grones, Carolin et al. (2024) Best practices for the execution, analysis, and data storage of plant single-cell/nucleus transcriptomics. The Plant Cell 36(4), 812-828. 10.1093/plcell/koae003
• Healey, A. L. et al. (2024) The complex polyploid genome architecture of sugarcane. Nature , 1-7. 10.1038/s41586-024-07231-4
• Hiraoka, Yoko et al. (2024) Development and Assessment of SNP Genotyping Arrays for Citrus and Its Close Relatives. Plants 13(5), 691. 10.3390/plants13050691
• Jo, Seohyun et al. (2024) Unlocking saponin biosynthesis in soapwort. Nature Chemical Biology , 1-12. 10.1038/s41589-024-01681-7
• Jo, Seohyun et al. (2024) Unlocking saponin biosynthesis in soapwort. Nature Chemical Biology , 1-12. 10.1038/s41589-024-01681-7
• Kangi, Emel et al. (2024) A multi-omic survey of black cottonwood tissues highlights coordinated transcriptomic and metabolomic mechanisms for plant adaptation to phosphorus deficiency. Frontiers in Plant Science 15, 1324608. 10.3389/fpls.2024.1324608
• Kangi, Emel et al. (2024) A multi-omic survey of black cottonwood tissues highlights coordinated transcriptomic and metabolomic mechanisms for plant adaptation to phosphorus deficiency. Frontiers in Plant Science 15, 1324608. 10.3389/fpls.2024.1324608
• Li, Cheng et al. (2024) Extraordinary preservation of gene collinearity over three hundred million years revealed in homosporous lycophytes. Proceedings of the National Academy of Sciences of the United States of America 121(4), e2312607121. 10.1073/pnas.2312607121
• Lopez, Bryn N K et al. (2024) CO2 response screen in grass Brachypodium reveals the key role of a MAP kinase in CO2-triggered stomatal closure. Plant Physiology , kiae262. 10.1093/plphys/kiae262
• Lopez, Bryn N K et al. (2024) CO2 response screen in grass Brachypodium reveals the key role of a MAP kinase in CO2-triggered stomatal closure. Plant Physiology , kiae262. 10.1093/plphys/kiae262
• Ma, Xiao et al. (2024) Seagrass genomes reveal ancient polyploidy and adaptations to the marine environment. Nature Plants 10(2), 240-255. 10.1038/s41477-023-01608-5
• Machado, Rodrigo et al. (2024) BdRCN4, a Brachypodium distachyon TFL1 homologue, is involved in regulation of apical meristem fate. Plant Molecular Biology 114(4), 81. 10.1007/s11103-024-01467-4
• Machado, Rodrigo et al. (2024) BdRCN4, a Brachypodium distachyon TFL1 homologue, is involved in regulation of apical meristem fate. Plant Molecular Biology 114(4), 81. 10.1007/s11103-024-01467-4
• Mantel, Samuel J. et al. (2024) Postzygotic barriers persist despite ongoing introgression in hybridizing Mimulus species. Molecular Ecology 33(4), e17261. 10.1111/mec.17261
• Markel, Kasey et al. (2024) Expression of a mammalian RNA demethylase increases flower number and floral stem branching in Arabidopsis thaliana. Plant Direct 8(8). 10.1002/pld3.70000
• Markel, Kasey et al. (2024) Expression of a mammalian RNA demethylase increases flower number and floral stem branching in Arabidopsis thaliana. Plant Direct 8(8). 10.1002/pld3.70000
• Paterson, Andrew H et al. (2024) Genome organization and botanical diversity. The Plant Cell 36(5), 1186-1204. 10.1093/plcell/koae045
• Paterson, Andrew H et al. (2024) Genome organization and botanical diversity. The Plant Cell 36(5), 1186-1204. 10.1093/plcell/koae045
• Schadt, Christopher et al. (2024) An integrated metagenomic, metabolomic and transcriptomic survey of Populus across genotypes and environments. Scientific Data 11(1), 339. 10.1038/s41597-024-03069-7
• Schadt, Christopher et al. (2024) An integrated metagenomic, metabolomic and transcriptomic survey of Populus across genotypes and environments. Scientific Data 11(1), 339. 10.1038/s41597-024-03069-7
• Serrano, Karen et al. (2024) Spatial co-transcriptomics reveals discrete stages of the arbuscular mycorrhizal symbiosis. Nature Plants 10(4), 673-688. 10.1038/s41477-024-01666-3
• Serrano, Karen et al. (2024) Spatial co-transcriptomics reveals discrete stages of the arbuscular mycorrhizal symbiosis. Nature Plants 10(4), 673-688. 10.1038/s41477-024-01666-3
• Shu, Mengjun et al. (2024) Providing biological context for GWAS results using eQTL regulatory and co‐expression networks in Populus. New Phytologist 244(2), 603-617. 10.1111/nph.20026
• Shu, Mengjun et al. (2024) Providing biological context for GWAS results using eQTL regulatory and co‐expression networks in Populus. New Phytologist 244(2), 603-617. 10.1111/nph.20026
• Sreedasyam, Avinash et al. (2024) Genome resources for three modern cotton lines guide future breeding efforts. Nature Plants 10(6), 1039-1051. 10.1038/s41477-024-01713-z
• Sreedasyam, Avinash et al. (2024) Genome resources for three modern cotton lines guide future breeding efforts. Nature Plants 10(6), 1039-1051. 10.1038/s41477-024-01713-z
• Steindorff, Andrei S. et al. (2024) Comparative genomic analysis of thermophilic fungi reveals convergent evolutionary adaptations and gene losses. Communications Biology 7(1), 1124. 10.1038/s42003-024-06681-w
• Steindorff, Andrei S. et al. (2024) Comparative genomic analysis of thermophilic fungi reveals convergent evolutionary adaptations and gene losses. Communications Biology 7(1), 1124. 10.1038/s42003-024-06681-w
• Thieme, Michael et al. (2024) Transposition of HOPPLA in siRNA-deficient plants suggests a limited effect of the environment on retrotransposon mobility in Brachypodium distachyon. PLOS Genetics 20(3), e1011200. 10.1371/journal.pgen.1011200
• Thomas, Shawn K. et al. (2024) Halophytes and heavy metals: A multi‐omics approach to understand the role of gene and genome duplication in the abiotic stress tolerance of Cakile maritima. American Journal of Botany , e16310. 10.1002/ajb2.16310
• Thomas, Shawn K. et al. (2024) Halophytes and heavy metals: A multi‐omics approach to understand the role of gene and genome duplication in the abiotic stress tolerance of Cakile maritima. American Journal of Botany , e16310. 10.1002/ajb2.16310
• Turumtay, Emine Akyuz et al. (2024) Expression of dehydroshikimate dehydratase in poplar induces transcriptional and metabolic changes in the phenylpropanoid pathway. Journal of Experimental Botany , erae251. 10.1093/jxb/erae251
• Turumtay, Emine Akyuz et al. (2024) Expression of dehydroshikimate dehydratase in poplar induces transcriptional and metabolic changes in the phenylpropanoid pathway. Journal of Experimental Botany , erae251. 10.1093/jxb/erae251
• Veltsos, Paris et al. (2024) The quantitative genetics of gene expression in Mimulus guttatus. PLOS Genetics 20(4), e1011072. 10.1371/journal.pgen.1011072
• Veltsos, Paris et al. (2024) The quantitative genetics of gene expression in Mimulus guttatus. PLOS Genetics 20(4), e1011072. 10.1371/journal.pgen.1011072
• Whitener, Makenzie R et al. (2024) Patterns of genomic variation reveal a single evolutionary origin of the wild allotetraploid Mimulus sookensis. Evolution , qpae079. 10.1093/evolut/qpae079
• Whitener, Makenzie R et al. (2024) Patterns of genomic variation reveal a single evolutionary origin of the wild allotetraploid Mimulus sookensis. Evolution , qpae079. 10.1093/evolut/qpae079
• Zhang, Nan et al. (2024) XA21-mediated resistance to Xanthomonas oryzae pv. oryzae is dose dependent. PeerJ 12, e17323. 10.7717/peerj.17323
• Zhang, Nan et al. (2024) XA21-mediated resistance to Xanthomonas oryzae pv. oryzae is dose dependent. PeerJ 12, e17323. 10.7717/peerj.17323
• Zhang, Zhihai et al. (2024) Major impacts of widespread structural variation on sorghum.. Genome Research 34(2), 286-299. 10.1101/gr.278396.123

2023

• Baker, Christopher R. et al. (2023) Metabolomic, photoprotective, and photosynthetic acclimatory responses to post‐flowering drought in sorghum. Plant Direct 7(11), e545. 10.1002/pld3.545
• Baker, Christopher R. et al. (2023) Metabolomic, photoprotective, and photosynthetic acclimatory responses to post‐flowering drought in sorghum. Plant Direct 7(11), e545. 10.1002/pld3.545
• Baker, Christopher R. et al. (2023) Metabolomic, photoprotective, and photosynthetic acclimatory responses to post‐flowering drought in sorghum. Plant Direct 7(11), e545. 10.1002/pld3.545
• Bhaskara, Govinal Badiger et al. (2023) Evolutionary Analyses of Gene Expression Divergence in Panicum hallii: Exploring Constitutive and Plastic Responses Using Reciprocal Transplants. Molecular Biology and Evolution 40(10), msad210. 10.1093/molbev/msad210
• Brainard, Scott H. et al. (2023) The first two chromosome‐scale genome assemblies of American hazelnut enable comparative genomic analysis of the genus Corylus. Plant Biotechnology Journal . 10.1111/pbi.14199
• Brainard, Scott H. et al. (2023) The first two chromosome‐scale genome assemblies of American hazelnut enable comparative genomic analysis of the genus Corylus. Plant Biotechnology Journal . 10.1111/pbi.14199
• Brainard, Scott H. et al. (2023) The first two chromosome‐scale genome assemblies of American hazelnut enable comparative genomic analysis of the genus Corylus. Plant Biotechnology Journal . 10.1111/pbi.14199
• Chemelewski, Robert et al. (2023) Epicuticular wax accumulation and regulation of wax pathway gene expression during bioenergy Sorghum stem development. Frontiers in Plant Science 14, 1227859. 10.3389/fpls.2023.1227859
• Chemelewski, Robert et al. (2023) Epicuticular wax accumulation and regulation of wax pathway gene expression during bioenergy Sorghum stem development. Frontiers in Plant Science 14, 1227859. 10.3389/fpls.2023.1227859
• Chemelewski, Robert et al. (2023) Epicuticular wax accumulation and regulation of wax pathway gene expression during bioenergy Sorghum stem development. Frontiers in Plant Science 14, 1227859. 10.3389/fpls.2023.1227859
• Chen, Yen-Ho et al. (2023) Multiplex Editing of the Nucleoredoxin1 Tandem Array in Poplar: From Small Indels to Translocations and Complex Inversions. The CRISPR Journal . 10.1089/crispr.2022.0096
• Collier, Jackie L et al. (2023) The protist Aurantiochytrium has universal subtelomeric rDNAs and is a host for mirusviruses. Current Biology 33(23), 5199-5207.e4. 10.1016/j.cub.2023.10.009
• Collier, Jackie L et al. (2023) The protist Aurantiochytrium has universal subtelomeric rDNAs and is a host for mirusviruses. Current Biology 33(23), 5199-5207.e4. 10.1016/j.cub.2023.10.009
• Collier, Jackie L et al. (2023) The protist Aurantiochytrium has universal subtelomeric rDNAs and is a host for mirusviruses. Current Biology 33(23), 5199-5207.e4. 10.1016/j.cub.2023.10.009
• Davidson, Russell B et al. (2023) Predicted structural proteome of Sphagnum divinum and proteome-scale annotation. Bioinformatics 39(8), btad511. 10.1093/bioinformatics/btad511
• Devos, Katrien M. et al. (2023) Genome analyses reveal population structure and a purple stigma color gene candidate in finger millet. Nature Communications 14(1), 3694. 10.1038/s41467-023-38915-6
• Edwards, Joseph A et al. (2023) Genetic determinants of switchgrass-root-associated microbiota in field sites spanning its natural range. Current Biology 33(10), 1926-1938.e6. 10.1016/j.cub.2023.03.078
• Francin-Allami, Mathilde et al. (2023) Mixed-Linkage Glucan Is the Main Carbohydrate Source and Starch Is an Alternative Source during Brachypodium Grain Germination. International Journal of Molecular Sciences 24(7), 6821. 10.3390/ijms24076821
• Healey, Adam L. et al. (2023) Newly identified sex chromosomes in the Sphagnum (peat moss) genome alter carbon sequestration and ecosystem dynamics. Nature Plants 9(2), 238-254. 10.1038/s41477-022-01333-5
• Hehenberger, Elisabeth et al. (2023) Phosphate Limitation Responses in Marine Green Algae Are Linked to Reprogramming of the tRNA Epitranscriptome and Codon Usage Bias. Molecular Biology and Evolution 40(12), msad251. 10.1093/molbev/msad251
• Hehenberger, Elisabeth et al. (2023) Phosphate Limitation Responses in Marine Green Algae Are Linked to Reprogramming of the tRNA Epitranscriptome and Codon Usage Bias. Molecular Biology and Evolution 40(12), msad251. 10.1093/molbev/msad251
• Hehenberger, Elisabeth et al. (2023) Phosphate Limitation Responses in Marine Green Algae Are Linked to Reprogramming of the tRNA Epitranscriptome and Codon Usage Bias. Molecular Biology and Evolution 40(12), msad251. 10.1093/molbev/msad251
• Jiao, Yinping et al. (2023) A large sequenced mutant library – valuable reverse genetic resource that covers 98% of sorghum genes. The Plant Journal . 10.1111/tpj.16582
• Jiao, Yinping et al. (2023) A large sequenced mutant library – valuable reverse genetic resource that covers 98% of sorghum genes. The Plant Journal . 10.1111/tpj.16582
• Jiao, Yinping et al. (2023) A large sequenced mutant library – valuable reverse genetic resource that covers 98% of sorghum genes. The Plant Journal . 10.1111/tpj.16582
• Khachaturyan, Marina et al. (2023) Worldwide Population Genomics Reveal Long-Term Stability of the Mitochondrial Genome Architecture in a Keystone Marine Plant. Genome Biology and Evolution 15(9), evad167. 10.1093/gbe/evad167
• Khachaturyan, Marina et al. (2023) Worldwide Population Genomics Reveal Long-Term Stability of the Mitochondrial Genome Architecture in a Keystone Marine Plant. Genome Biology and Evolution 15(9), evad167. 10.1093/gbe/evad167
• Khachaturyan, Marina et al. (2023) Worldwide Population Genomics Reveal Long-Term Stability of the Mitochondrial Genome Architecture in a Keystone Marine Plant. Genome Biology and Evolution 15(9), evad167. 10.1093/gbe/evad167
• Khasanova, Albina et al. (2023) Quantitative genetic-by-soil microbiome interactions in a perennial grass affect functional traits. Proceedings of the Royal Society B 290(1991), 20221350. 10.1098/rspb.2022.1350
• Lagergren, John et al. (2023) Few-Shot Learning Enables Population-Scale Analysis of Leaf Traits in Populus trichocarpa. Plant Phenomics 5, 0072. 10.34133/plantphenomics.0072
• Lei, Li et al. (2023) The reference genome and abiotic stress responses of the model perennial grass Brachypodium sylvaticum. G3: Genes, Genomes, Genetics 14(1), jkad245. 10.1093/g3journal/jkad245
• Lei, Li et al. (2023) The reference genome and abiotic stress responses of the model perennial grass Brachypodium sylvaticum. G3: Genes, Genomes, Genetics 14(1), jkad245. 10.1093/g3journal/jkad245
• Lei, Li et al. (2023) The reference genome and abiotic stress responses of the model perennial grass Brachypodium sylvaticum. G3: Genes, Genomes, Genetics 14(1), jkad245. 10.1093/g3journal/jkad245
• Liang, Qihua et al. (2023) A view of the pan‐genome of domesticated Cowpea (Vigna unguiculata [L.] Walp.). The Plant Genome , e20319. 10.1002/tpg2.20319
• Liu, Xiuping et al. (2023) Comparative Genomic Analyses of Cellulolytic Machinery Reveal Two Nutritional Strategies of Marine Labyrinthulomycetes Protists. Microbiology Spectrum 11(2), e04247-22. 10.1128/spectrum.04247-22
• Nunes, Tiago D G et al. (2023) Regulation of hair cell and stomatal size by a hair cell-specific peroxidase in the grass Brachypodium distachyo n. Current Biology 33(9), 1844-1854.e6. 10.1016/j.cub.2023.03.089
• O’Banion, Bridget S et al. (2023) Plant myo-inositol transport influences bacterial colonization phenotypes. Current Biology 33(15), 3111-3124.e5. 10.1016/j.cub.2023.06.057
• Otte, Antonia et al. (2023) The diatom Fragilariopsis cylindrus: A model alga to understand cold‐adapted life. Journal of Phycology 59(2), 301-306. 10.1111/jpy.13325
• Piatkowski, Bryan et al. (2023) Divergent selection and climate adaptation fuel genomic differentiation between sister species of Sphagnum (peat moss).. Annals of Botany . 10.1093/aob/mcad104
• Saint-Vincent, Patricia M. B. et al. (2023) Validation of a metabolite–GWAS network for Populus trichocarpa family 1 UDP-glycosyltransferases. Frontiers in Plant Science 14, 1210146. 10.3389/fpls.2023.1210146
• Serrano, Karen et al. (2023) Genome to gut: crop engineering for human microbiomes. Nature Reviews Microbiology 21(3), 132-132. 10.1038/s41579-022-00850-6
• Session, Adam M. et al. (2023) Transposon signatures of allopolyploid genome evolution. Nature Communications 14(1), 3180. 10.1038/s41467-023-38560-z
• Sreedasyam, Avinash et al. (2023) JGI Plant Gene Atlas: an updateable transcriptome resource to improve functional gene descriptions across the plant kingdom. Nucleic Acids Research 51(16), 8383-8401. 10.1093/nar/gkad616
• Tilhou, Neal W et al. (2023) Genomic prediction of switchgrass winter survivorship across diverse lowland populations. G3: Genes, Genomes, Genetics 13(3), jkad014. 10.1093/g3journal/jkad014
• Weng, Xiaoyu et al. (2023) Transcriptome and DNA methylome divergence of inflorescence development between 2 ecotypes in Panicum hallii. Plant Physiology 192(3), 2374-2393. 10.1093/plphys/kiad209
• Woods, Daniel P. et al. (2023) PHYTOCHROME C regulation of photoperiodic flowering via PHOTOPERIOD1 is mediated by EARLY FLOWERING 3 in Brachypodium distachyon. PLOS Genetics 19(5), e1010706. 10.1371/journal.pgen.1010706
• Yao, Tao et al. (2023) Expression quantitative trait loci mapping identified PtrXB38 as a key hub gene in adventitious root development in Populus. New Phytologist 239(6), 2248-2264. 10.1111/nph.19126
• Yu, Lei et al. (2023) Ocean current patterns drive the worldwide colonization of eelgrass (Zostera marina). Nature Plants 9(8), 1207-1220. 10.1038/s41477-023-01464-3
• Zhang, Jin et al. (2023) Overexpression of REDUCED WALL ACETYLATION C increases xylan acetylation and biomass recalcitrance in Populus.. Plant Physiology . 10.1093/plphys/kiad377
• Zhao, Yao et al. (2023) Secreted Effector Proteins of the Poplar Leaf Spot and Stem Canker Pathogen Sphaerulina musiva Manipulate Plant Immunity and Contribute to Virulence in Diverse Ways.. Molecular Plant-Microbe Interactions . 10.1094/mpmi-07-23-0091-r
• Zhou, Ran et al. (2023) Haplotype‐resolved genome assembly of Populus tremula × P. alba reveals aspen‐specific megabase satellite DNA. The Plant Journal . 10.1111/tpj.16454
• Zhu, Jie et al. (2023) Single-cell profiling of Arabidopsis leaves to Pseudomonas syringae infection. Cell Reports 42(7), 112676. 10.1016/j.celrep.2023.112676

2022

• Abeyratne, Chanaka Roshan et al. (2022) High-resolution mapping reveals hotspots and sex-biased recombination in Populus trichocarpa. G3: Genes, Genomes, Genetics 13(1), jkac269. 10.1093/g3journal/jkac269
• Appiah-Madson, Hannah J. et al. (2022) Do Genetic Drift and Gene Flow Affect the Geographic Distribution of Female Plants in Gynodioecious Lobelia siphilitica?. Plants 11(6), 825. 10.3390/plants11060825
• Bewg, William P et al. (2022) Multiplex knockout of trichome-regulating MYB duplicates in hybrid poplar using a single gRNA. Plant Physiology 189(2), 516-526. 10.1093/plphys/kiac128
• Birol, Inanc et al. (2022) The western redcedar genome reveals low genetic diversity in a self-compatible conifer. Genome Research 32(10), gr.276358.121. 10.1101/gr.276358.121
• Bouché, Frédéric et al. (2022) EARLY FLOWERING 3 and Photoperiod Sensing in Brachypodium distachyon. Frontiers in Plant Science 12, 769194. 10.3389/fpls.2021.769194
• Bredeson, Jessen V. et al. (2022) Chromosome evolution and the genetic basis of agronomically important traits in greater yam. Nature Communications 13(1), 2001. 10.1038/s41467-022-29114-w
• Carey, Sarah B. et al. (2022) Representing sex chromosomes in genome assemblies. Cell Genomics 2(5), 100132. 10.1016/j.xgen.2022.100132
• Carrell, Alyssa A. et al. (2022) Habitat‐adapted microbial communities mediate Sphagnum peatmoss resilience to warming. New Phytologist 234(6), 2111-2125. 10.1111/nph.18072
• Craig, Rory J et al. (2022) The Chlamydomonas Genome Project, version 6: Reference assemblies for mating-type plus and minus strains reveal extensive structural mutation in the laboratory. The Plant Cell 35(2), 644-672. 10.1093/plcell/koac347
• Díaz-Almeyda, Erika M. et al. (2022) Thermal Stress Has Minimal Effects on Bacterial Communities of Thermotolerant Symbiodinium Cultures. Frontiers in Ecology and Evolution 10, 764086. 10.3389/fevo.2022.764086
• Dorrell, Richard G et al. (2022) Convergent evolution and horizontal gene transfer in Arctic Ocean microalgae. Life Science Alliance 6(3), e202201833. 10.26508/lsa.202201833
• Fahlgren, Noah et al. (2022) Toward a data infrastructure for the Plant Cell Atlas.. Plant Physiology 191(1), 35-46. 10.1093/plphys/kiac468
• Fremin, Brayon J. et al. (2022) Thousands of small, novel genes predicted in global phage genomes. Cell Reports 39(12), 110984. 10.1016/j.celrep.2022.110984
• Gao, Cheng et al. (2022) Successional adaptive strategies revealed by correlating arbuscular mycorrhizal fungal abundance with host plant gene expression. Molecular Ecology 32(10), 2674-2687. 10.1111/mec.16343
• Gao, Cheng et al. (2022) Co-occurrence networks reveal more complexity than community composition in resistance and resilience of microbial communities. Nature Communications 13(1), 3867. 10.1038/s41467-022-31343-y
• Hasterok, Robert et al. (2022) Brachypodium: 20 years as a grass biology model system; the way forward?. Trends in Plant Science 27(10), 1002-1016. 10.1016/j.tplants.2022.04.008
• Hu, Rongbin et al. (2022) Comparative genomics analysis of drought response between obligate CAM and C3 photosynthesis plants. Journal of Plant Physiology 277, 153791. 10.1016/j.jplph.2022.153791
• Knox, Eric B et al. (2022) DNA Sequence Analysis of an Inversion Hot Spot in Lobeliaceae Plastomes. Plants 11(21), 2863. 10.3390/plants11212863
• Kuang, Weiqi et al. (2022) N-dependent dynamics of root growth and nitrate and ammonium uptake are altered by the bacterium Herbaspirillum seropedicae in the cereal model Brachypodium distachyon. Journal of Experimental Botany 73(15), 5306-5321. 10.1093/jxb/erac184
• Liu, Degao et al. (2022) Agave REVEILLE1 regulates the onset and release of seasonal dormancy in Populus. Plant Physiology 191(3), 1492-1504. 10.1093/plphys/kiac588
• Liu, Furong et al. (2022) Silencing of Dicer‐like protein 2a restores the resistance phenotype in the rice mutant, sxi4 (suppressor of Xa21‐mediated immunity 4). The Plant Journal 110(3), 646-657. 10.1111/tpj.15692
• Lovell, John T et al. (2022) GENESPACE tracks regions of interest and gene copy number variation across multiple genomes. eLife 11, e78526. 10.7554/elife.78526
• Lovell, John T. et al. (2022) The first complete human genome. Nature 606(7914), 468-469. 10.1038/d41586-022-01368-w
• Marchant, D. Blaine et al. (2022) Dynamic genome evolution in a model fern. Nature Plants 8(9), 1038-1051. 10.1038/s41477-022-01226-7
• Marian, Ioana M. et al. (2022) The Transcription Factor Roc1 Is a Key Regulator of Cellulose Degradation in the Wood-Decaying Mushroom Schizophyllum commune. mBio 13(3), e00628-22. 10.1128/mbio.00628-22
• Mattoon, Erin M. et al. (2022) High‐throughput identification of novel heat tolerance genes via genome‐wide pooled mutant screens in the model green alga Chlamydomonas reinhardtii. Plant Cell & Environment 46(3), 865-888. 10.1111/pce.14507
• Meng, Yongjie et al. (2022) KARRIKIN INSENSITIVE2 regulates leaf development, root system architecture and arbuscular‐mycorrhizal symbiosis in Brachypodium distachyon. The Plant Journal 109(6), 1559-1574. 10.1111/tpj.15651
• Metcalfe, Cushla J. et al. (2022) Isolation and sequencing of a single copy of an introgressed chromosome from a complex genome for gene and SNP identification. Theoretical and Applied Genetics 135(4), 1279-1292. 10.1007/s00122-022-04030-1
• Meyer, Fernando et al. (2022) Critical Assessment of Metagenome Interpretation: the second round of challenges. Nature Methods 19(4), 429-440. 10.1038/s41592-022-01431-4
• Michel, Kathryn J et al. (2022) Genetic mapping and prediction of flowering time and plant height in a maize Stiff Stalk MAGIC population. Genetics 221(2), iyac063-. 10.1093/genetics/iyac063
• Muleta, Kebede T. et al. (2022) The recent evolutionary rescue of a staple crop depended on over half a century of global germplasm exchange. Science Advances 8(6), eabj4633. 10.1126/sciadv.abj4633
• Napier, Joseph D. et al. (2022) A generalist–specialist trade-off between switchgrass cytotypes impacts climate adaptation and geographic range. Proceedings of the National Academy of Sciences of the United States of America 119(15), e2118879119. 10.1073/pnas.2118879119
• Petlewski, Alaina R. et al. (2022) Re-evaluating the Systematics of Dendrolycopodium Using Restriction-Site Associated DNA-Sequencing. Frontiers in Plant Science 13, 912080. 10.3389/fpls.2022.912080
• Poosapati, Sowmya et al. (2022) A sorghum genome-wide association study (GWAS) identifies a WRKY transcription factor as a candidate gene underlying sugarcane aphid (Melanaphis sacchari) resistance. Planta 255(2), 37. 10.1007/s00425-021-03814-x
• Sancho, Rubén et al. (2022) Tracking the ancestry of known and ‘ghost’ homeologous subgenomes in model grass Brachypodium polyploids. The Plant Journal 109(6), 1535-1558. 10.1111/tpj.15650
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2021

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2020

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2019

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2018

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2017

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2016

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• Stevenson, S. R. et al. (2016) Genetic analysis of Physcomitrella patens identifies ABSCISIC ACID NON-RESPONSIVE (ANR), a regulator of ABA responses unique to basal land plants and required for desiccation tolerance. Plant Cell . 10.1105/tpc.16.00091
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2015

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2014

• Bartholome, J. et al. (2014) High-resolution genetic maps of Eucalyptus improve Eucalyptus grandis genome assembly. New Phytol . 10.1111/nph.13150
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2013

• Barling, A. et al. (2013) A detailed gene expression study of the Miscanthus genus reveals changes in the transcriptome associated with the rejuvenation of spring rhizomes. BMC Genomics 14, 864. 10.1186/1471-2164-14-864
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2012

• Abraham, P. et al. (2012) Defining the Boundaries and Characterizing the Landscape of Functional Genome Expression in Vascular Tissues of Populus using Shotgun Proteomics. Journal of Proteome Research 11(1), 449-460. Doi 10.1021/Pr200851y
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2011

• Bresson, A. et al. (2011) Qualitative and quantitative resistances to leaf rust finely mapped within two nucleotide-binding site leucine-rich repeat (NBS-LRR)-rich genomic regions of chromosome 19 in poplar. New Phytologist 192(1), 151-163. DOI 10.1111/j.1469-8137.2011.03786.x
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2010

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2009

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2008

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2007

• Grossman, A. R. et al. (2007) Novel metabolism in Chlamydomonas through the lens of genomics. Current Opinion in Plant Biology 10(2), 190-198. Doi 10.1016/J.Pbi.2007.01.012
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2006

• Tuskan, G. A. et al. (2006) The genome of black cottonwood, Populus trichocarpa (Torr. & Gray). Science 313(5793), 1596-1604. Doi 10.1126/Science.1128691

2004

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