black cottonwood

Summary

Alias: western balsam poplar, Populus balsamifera subsp. trichocarpa, Populus trichocarpa, Populus balsamifera subsp. trichocarpa (Torr. & A.Gray) Brayshaw, Populus trichocarpa Torr. & A.Gray

Top Publications

  1. Nardmann J, Werr W. The shoot stem cell niche in angiosperms: expression patterns of WUS orthologues in rice and maize imply major modifications in the course of mono- and dicot evolution. Mol Biol Evol. 2006;23:2492-504 pubmed
  2. Zhong R, Lee C, Ye Z. Functional characterization of poplar wood-associated NAC domain transcription factors. Plant Physiol. 2010;152:1044-55 pubmed publisher
    ..NAC domain transcription factors, PtrWNDs, that are preferentially expressed in developing wood of poplar (Populus trichocarpa)...
  3. McCarthy R, Zhong R, Fowler S, Lyskowski D, Piyasena H, Carleton K, et al. The poplar MYB transcription factors, PtrMYB3 and PtrMYB20, are involved in the regulation of secondary wall biosynthesis. Plant Cell Physiol. 2010;51:1084-90 pubmed publisher
    ..We also show that PtrMYB3 and PtrMYB20 are functional orthologs of Arabidopsis MYB46 and MYB83, and their expression is directly activated by poplar PtrWND2, suggesting their involvement in the regulation of wood formation in poplar. ..
  4. Lee C, Teng Q, Zhong R, Ye Z. Molecular dissection of xylan biosynthesis during wood formation in poplar. Mol Plant. 2011;4:730-47 pubmed publisher
    ..There exist seven GT43 genes in the genome of poplar (Populus trichocarpa), five of which, namely PtrGT43A, PtrGT43B, PtrGT43C, PtrGT43D, and PtrGT43E, were shown to be highly ..
  5. Zhao Y, Song D, Sun J, Li L. Populus endo-beta-mannanase PtrMAN6 plays a role in coordinating cell wall remodeling with suppression of secondary wall thickening through generation of oligosaccharide signals. Plant J. 2013;74:473-85 pubmed publisher
  6. Irmisch S, McCormick A, Boeckler G, Schmidt A, Reichelt M, Schneider B, et al. Two herbivore-induced cytochrome P450 enzymes CYP79D6 and CYP79D7 catalyze the formation of volatile aldoximes involved in poplar defense. Plant Cell. 2013;25:4737-54 pubmed publisher
    ..two P450 enzymes, CYP79D6v3 and CYP79D7v2, which are involved in herbivore-induced aldoxime formation in western balsam poplar (Populus trichocarpa)...
  7. Sun C, Yang C, Tzen J. Molecular Identification and Characterization of Hydroxycinnamoyl Transferase in Tea Plants (Camellia sinensis L.). Int J Mol Sci. 2018;19: pubmed publisher
    ..Amino acid sequence was highly conserved with other HCTs from Arabidopsis thaliana, Populus trichocarpa, Hibiscus cannabinus, and Coffea canephora...
  8. Zou Z, Xie G, Yang L. Papain-like cysteine protease encoding genes in rubber (Hevea brasiliensis): comparative genomics, phylogenetic, and transcriptional profiling analysis. Planta. 2017;246:999-1018 pubmed publisher
    ..subfamilies form new groups as observed in other core eudicots such as Manihot esculenta, Ricinus communis, Populus trichocarpa, and Vitis vinifera...
  9. Cao H, Zhang L, Tan X, Long H, Shockey J. Identification, classification and differential expression of oleosin genes in tung tree (Vernicia fordii). PLoS ONE. 2014;9:e88409 pubmed publisher
    ..shared among 65 OLE from 19 tree species, including the sequenced genomes of Prunus persica (peach), Populus trichocarpa (poplar), Ricinus communis (castor bean), Theobroma cacao (cacao) and Vitis vinifera (grapevine)...

More Information

Publications169 found, 100 shown here

  1. Santos A, Penha H, Bellec A, Munhoz C, Pedrosa Harand A, Bergès H, et al. Begin at the beginning: A BAC-end view of the passion fruit (Passiflora) genome. BMC Genomics. 2014;15:816 pubmed publisher
    ..The vast majority of the top-hits made by our sequences were to Populus trichocarpa (24.8% of the total occurrences), Theobroma cacao (21.6%), Ricinus communis (14.3%), Vitis vinifera (6...
  2. Liu Z, Wu Z, Li X, Huang Y, Li H, Wang Y, et al. Identification, classification, and expression profiles of heat shock transcription factors in tea plant (Camellia sinensis) under temperature stress. Gene. 2016;576:52-9 pubmed publisher
    ..On the basis of the phylogenetic comparison of tea plant with Arabidopsis thaliana, Populus trichocarpa, Theobroma cacao, and Oryza sativa, the CsHsfs were classified into three classes, namely, A (56...
  3. Mandadi K, Scholthof K. Genome-wide analysis of alternative splicing landscapes modulated during plant-virus interactions in Brachypodium distachyon. Plant Cell. 2015;27:71-85 pubmed publisher
    ..Sorghum bicolor), Arabidopsis thaliana, potato (Solanum tuberosum), Medicago truncatula, and poplar (Populus trichocarpa) revealed conserved ratios of the AS types between monocots and dicots...
  4. Luo M, You F, Li P, Wang J, Zhu T, Dandekar A, et al. Synteny analysis in Rosids with a walnut physical map reveals slow genome evolution in long-lived woody perennials. BMC Genomics. 2015;16:707 pubmed publisher
    ..with it synteny between the walnut genome and genomes of three long-lived woody perennials, Vitis vinifera, Populus trichocarpa, and Malus domestica, and three short-lived herbs, Cucumis sativus, Medicago truncatula, and Fragaria vesca...
  5. Liu X, Luo Y, Wu H, Xi W, Yu J, Zhang Q, et al. Systematic analysis of O-methyltransferase gene family and identification of potential members involved in the formation of O-methylated flavonoids in Citrus. Gene. 2016;575:458-472 pubmed publisher
    ..Phylogenetic analysis of 164 OMT proteins from C.sinensis, Arabidopsis thaliana, Populus trichocarpa, and Vitis vinifera showed that these proteins were categorized into group I (COMT subfamily) and group II (..
  6. Sengupta D, Naik D, Reddy A. Plant aldo-keto reductases (AKRs) as multi-tasking soldiers involved in diverse plant metabolic processes and stress defense: A structure-function update. J Plant Physiol. 2015;179:40-55 pubmed publisher
    ..broad substrate specificity, A9-like proteins found in Brassica rapa, Phaseolus vulgaris, Cucumis sativus, Populus trichocarpa and Solanum lycopersicum were predicted to have a similar range of substrate specificity...
  7. Ohtani M, Takebayashi A, Hiroyama R, Xu B, Kudo T, Sakakibara H, et al. Cell dedifferentiation and organogenesis in vitro require more snRNA than does seedling development in Arabidopsis thaliana. J Plant Res. 2015;128:371-80 pubmed publisher
    ..complementation analysis of srd2-1 using transgenic srd2-1 Arabidopsis plants harboring SRD2 homologs from Populus trichocarpa (poplar), Nicotiana tabacum (tobacco), Oryza sativa (rice), the moss Physcomitrella patens, and Homo ..
  8. Valledor L, Pascual J, Meijón M, Escandón M, Cañal M. Conserved Epigenetic Mechanisms Could Play a Key Role in Regulation of Photosynthesis and Development-Related Genes during Needle Development of Pinus radiata. PLoS ONE. 2015;10:e0126405 pubmed publisher
    ..The integration of these results with high-throughput analyses in Arabidopsis thaliana and Populus trichocarpa suggests that the specific epigenetic mechanisms that regulate photosynthetic genes are conserved between ..
  9. Wang S, Li Y, Li Z, Chang L, Li L. Identification of an SCAR marker related to female phenotype in Idesia polycarpa Maxim. Genet Mol Res. 2015;14:2015-22 pubmed publisher
    ..We analyzed this fragment using GenBank and found that the sequence similarity was 80% to the Populus trichocarpa clone POP006-H09 (sequence ID: gb|AC212923...
  10. Zinkgraf M, Gerttula S, Groover A. Transcript profiling of a novel plant meristem, the monocot cambium. J Integr Plant Biol. 2017;59:436-449 pubmed publisher
    ..profiles were compared to those of vascular cambia and secondary xylem tissues of two forest tree species, Populus trichocarpa and Eucalyptus grandis...
  11. Zhang Q, Yu R, Sun D, Bai Z, Li H, Xue L, et al. PrLPAAT4, a Putative Lysophosphatidic Acid Acyltransferase from Paeonia rockii, Plays an Important Role in Seed Fatty Acid Biosynthesis. Molecules. 2017;22: pubmed publisher
    ..PrLPAAT4 shared high sequence similarity with its homologs from Citrus clementina, Populus trichocarpa, Manihot esculenta, and Ricinus communis...
  12. Majumder R, Banik S, Khowala S. Purification and characterisation of κ-casein specific milk-clotting metalloprotease from Termitomyces clypeatus MTCC 5091. Food Chem. 2015;173:441-8 pubmed publisher
    ..The MALDI-TOF/MS followed by peptide mass fingerprinting revealed homology with a predicted protein of Populus trichocarpa. To our knowledge, this is the first report on a metalloprotease from T...
  13. Sánchez Parra B, Frerigmann H, Alonso M, Loba V, Jost R, Hentrich M, et al. Characterization of Four Bifunctional Plant IAM/PAM-Amidohydrolases Capable of Contributing to Auxin Biosynthesis. Plants (Basel). 2014;3:324-47 pubmed publisher
    ..four, thus far, uncharacterized plant amidases from Oryza sativa, Sorghum bicolor, Medicago truncatula, and Populus trichocarpa. Intriguingly, we were able to demonstrate that the examined amidases are also capable of converting phenyl-..
  14. Pandey R, Azad R. Deciphering evolutionary strata on plant sex chromosomes and fungal mating-type chromosomes through compositional segmentation. Plant Mol Biol. 2016;90:359-73 pubmed publisher
    ..latifolia X chromosome, was applied to the chromosome 19 of Populus trichocarpa, an incipient sex chromosome, deciphering two, yet unknown, evolutionary strata...
  15. Mohammadi K, Movahedi A, Maleki S, Sun W, Zhang J, Almasi Zadeh Yaghuti A, et al. Functional analysis of overexpressed PtDRS1 involved in abiotic stresses enhances growth in transgenic poplar. Plant Physiol Biochem. 2018;126:22-31 pubmed publisher
    ..In this study, we transformed the DRS1 gene from Populus trichocarpa into Populus deltoides?×?Populus euramericana 'Nanlin895' using Agrobacterium tumefaciens-mediated ..
  16. Watanabe B, Kirikae H, Koeduka T, Takeuchi Y, Asai T, Naito Y, et al. Synthesis and inhibitory activity of mechanism-based 4-coumaroyl-CoA ligase inhibitors. Bioorg Med Chem. 2018;26:2466-2474 pubmed publisher
    ..e., Arabidopsis thaliana, Glycine max (soybean), Populus trichocarpa (poplar), and Petunia hybrida (petunia), were used to evaluate the inhibitory activity, and the half-..
  17. Dong L, Wang Q, Manik S, Song Y, Shi S, Su Y, et al. Nicotiana sylvestris calcineurin B-like protein NsylCBL10 enhances salt tolerance in transgenic Arabidopsis. Plant Cell Rep. 2015;34:2053-63 pubmed publisher
    ..Although many studies have been made in Arabidopsis (Arabidopsis thaliana), rice (Oryza sativa) and poplar (Populus trichocarpa), the characterization and elucidation of the functions of CBLs in tobacco have not yet been reported...
  18. Ma Y, Xu T, Wan D, Ma T, Shi S, Liu J, et al. The salinity tolerant poplar database (STPD): a comprehensive database for studying tree salt-tolerant adaption and poplar genomics. BMC Genomics. 2015;16:205 pubmed publisher
    ..euphratica and Populus tomentosa, and whole-genome alignments between Populus trichocarpa, P. euphratica and Salix suchowensis...
  19. Yan F, Li H, Zhao P. Genome-Wide Identification and Transcriptional Expression of the PAL Gene Family in Common Walnut (Juglans Regia L.). Genes (Basel). 2019;10: pubmed publisher
    ..i>JrPAL7, and JrPAL2-2 were found to be closely associated with the woody plant Populus trichocarpa...
  20. Liu J, Yu Q, Elsheery N, Cheng Y. Enzymatic properties of Populus α- and β-NAD-ME recombinant proteins. Int J Mol Sci. 2013;14:12994-3004 pubmed publisher
    ..In this study, we analyzed four NAD-ME genes (PtNAD-ME1 through PtNAD-ME4) in the genome of Populus trichocarpa. PtNAD-ME1 and -2 encode putative α-subunits, while PtNAD-ME3 and -4 encode putative β-subunits...
  21. Li W, Lin Y, Li Q, Shi R, Lin C, Chen H, et al. A robust chromatin immunoprecipitation protocol for studying transcription factor-DNA interactions and histone modifications in wood-forming tissue. Nat Protoc. 2014;9:2180-93 pubmed publisher
    ..However, we recently successfully implemented ChIP in wood-forming tissue of the model woody plant Populus trichocarpa. Here we provide the detailed ChIP protocol optimized for wood-forming tissue that we used in those studies...
  22. Bagniewska Zadworna A, Barakat A, Łakomy P, Smoliński D, Zadworny M. Lignin and lignans in plant defence: insight from expression profiling of cinnamyl alcohol dehydrogenase genes during development and following fungal infection in Populus. Plant Sci. 2014;229:111-121 pubmed publisher
    ..sequenced genomes, and analysed the temporal and spatial expression profiles of CAD/CAD-like genes in Populus trichocarpa healthy and infected plants...
  23. Cabreira C, Cagliari A, Bücker Neto L, Margis Pinheiro M, De Freitas L, Bodanese Zanettini M. The phylogeny and evolutionary history of the Lesion Simulating Disease (LSD) gene family in Viridiplantae. Mol Genet Genomics. 2015;290:2107-19 pubmed publisher
    ..corroborated by synteny analysis among regions containing paralogous/orthologous genes in Glycine max and Populus trichocarpa. The Ka/Ks ratio between paralogous/orthologous genes revealed that a subfunctionalization process possibly ..
  24. Wang H, Wang M, Cheng Q. Capturing the Alternative Cleavage and Polyadenylation Sites of 14 NAC Genes in Populus Using a Combination of 3'-RACE and High-Throughput Sequencing. Molecules. 2018;23: pubmed publisher
    ..Fourteen NAC (NAM, ATAF1/2, CUC2) transcription factor genes of Populus trichocarpa were analyzed by 3'-RACE-seq...
  25. Han X, Yang Q, Liu Y, Yang Z, Wang X, Zeng Q, et al. Evolution and Function of the Populus SABATH Family Reveal That a Single Amino Acid Change Results in a Substrate Switch. Plant Cell Physiol. 2017;: pubmed publisher
    ..Zhao et al. identified 28 SABATH genes from the Populus trichocarpa genome...
  26. Klocko A, Ma C, Robertson S, Esfandiari E, Nilsson O, Strauss S. FT overexpression induces precocious flowering and normal reproductive development in Eucalyptus. Plant Biotechnol J. 2016;14:808-19 pubmed publisher
    ..observed with AtFT overexpression from a 409S ubiquitin promoter and under heat induction conditions with Populus trichocarpa FT1 (PtFT1) under control of a heat-shock promoter...
  27. Zeng R, Zhou J, Liu S, Gan Z, Zhang J, Hu C. Genome-Wide Identification and Characterization of SQUAMOSA-Promoter-Binding Protein (SBP) Genes Involved in the Flowering Development of Citrus Clementina. Biomolecules. 2019;9: pubmed publisher
    ..and motif prediction, similar to the SQUAMOSA promoter binding protein-like (SPL) gene family of Populus trichocarpa and Arabidopsis thaliana...
  28. Sui J, Xiao X, Qi J, Fang Y, Tang C. The SWEET gene family in Hevea brasiliensis - its evolution and expression compared with four other plant species. FEBS Open Bio. 2017;7:1943-1959 pubmed publisher
    ..Parallel studies of RNA-seq analyses extended to three other plant species (Manihot esculenta, Populus trichocarpa, and Arabidopsis thaliana) produced findings which implicated MeSWEET10a, 3a, and 15b
  29. Pinard D, Mizrachi E, Hefer C, Kersting A, Joubert F, Douglas C, et al. Comparative analysis of plant carbohydrate active enZymes and their role in xylogenesis. BMC Genomics. 2015;16:402 pubmed publisher
    ..in trees using mRNA-seq data from two distantly related angiosperm tree species Eucalyptus grandis and Populus trichocarpa, highlighting the major CAZyme classes involved in xylogenesis and lignocellulosic biomass production...
  30. Kurotani A, Yamada Y, Shinozaki K, Kuroda Y, Sakurai T. Plant-PrAS: a database of physicochemical and structural properties and novel functional regions in plant proteomes. Plant Cell Physiol. 2015;56:e11 pubmed publisher
    ..from the genomes of six representative plant species, Arabidopsis thaliana, Glycine max (soybean), Populus trichocarpa (poplar), Oryza sativa (rice), Physcomitrella patens (moss) and Cyanidioschyzon merolae (alga)...
  31. Hwang Y, Choi H, Cho H, Cho H. Tracheophytes Contain Conserved Orthologs of a Basic Helix-Loop-Helix Transcription Factor That Modulate ROOT HAIR SPECIFIC Genes. Plant Cell. 2017;29:39-53 pubmed publisher
    ..Orthologs of RSL4 from a eudicot (poplar [Populus trichocarpa]), a monocot (rice [Oryza sativa]), and a lycophyte (Selaginella moellendorffii) each ..
  32. Naidoo S, Külheim C, Zwart L, Mangwanda R, Oates C, Visser E, et al. Uncovering the defence responses of Eucalyptus to pests and pathogens in the genomics age. Tree Physiol. 2014;34:931-43 pubmed publisher
    ..PR-9, PR-10, PR-12, PR-14, PR-15 and PR-17 have been identified and compared with their orthologues in Populus trichocarpa Torr. & A. Gray ex Hook and Arabidopsis thaliana (L.) Heynh...
  33. Yoon S, Park E, Choi Y, Bae E, Kim J, Park S, et al. Response to drought and salt stress in leaves of poplar (Populus alba × Populus glandulosa): expression profiling by oligonucleotide microarray analysis. Plant Physiol Biochem. 2014;84:158-168 pubmed publisher
    ..gene expression at the mRNA level using oligonucleotide microarrays containing 44,718 genes from Populus trichocarpa. A total of 1604 and 1042 genes were up-regulated (≥2-fold; P value < 0...
  34. Xing H, Fu X, Yang C, Tang X, Guo L, Li C, et al. Genome-wide investigation of pentatricopeptide repeat gene family in poplar and their expression analysis in response to biotic and abiotic stresses. Sci Rep. 2018;8:2817 pubmed publisher
    ..Here, we identified and characterized a total of 626 PPR genes containing PPR motifs in the Populus trichocarpa genome...
  35. Fahrenkrog A, Neves L, Resende M, Dervinis C, Davenport R, Barbazuk W, et al. Population genomics of the eastern cottonwood (Populus deltoides). Ecol Evol. 2017;7:9426-9440 pubmed publisher
    ..many of these genes were also identified as adaptation candidates in another poplar species, Populus trichocarpa, indicating possible convergent evolution...
  36. Zhu S, Xu M, Wang H, Pan H, Wang G, Huang M. Study of spontaneous mutations in the transmission of poplar chloroplast genomes from mother to offspring. BMC Genomics. 2018;19:411 pubmed publisher
    ..Each of the three resulting chloroplast assemblies contained contigs covering > 99% of Populus trichocarpa chloroplast DNA as a reference...
  37. Zhang J, Liu B, Li J, Zhang L, Wang Y, Zheng H, et al. Hsf and Hsp gene families in Populus: genome-wide identification, organization and correlated expression during development and in stress responses. BMC Genomics. 2015;16:181 pubmed publisher
    ..Here, a comprehensive identification and analysis of Hsf and Hsp families in poplars is presented. In Populus trichocarpa, we identified 42 paralogous pairs, 66.7% resulting from a whole genome duplication...
  38. Xin H, Zhang T, Han Y, Wu Y, Shi J, Xi M, et al. Chromosome painting and comparative physical mapping of the sex chromosomes in Populus tomentosa and Populus deltoides. Chromosoma. 2018;127:313-321 pubmed publisher
    ..an oligonucleotide (oligo)-based chromosome painting probe based on the sequence of chromosome 19 from Populus trichocarpa. We performed chromosome painting in P. tomentosa and P. deltoides...
  39. La Porta N, Sablok G, Emilliani G, Hietala A, Giovannelli A, Fontana P, et al. Identification of low temperature stress regulated transcript sequences and gene families in Italian cypress. Mol Biotechnol. 2015;57:407-18 pubmed publisher
    ..analysis, with the corresponding protein sequences across the complete genomes of the model plants Populus trichocarpa, Vitis vinifera, Physcomitrella patens, and Arabidopsis thaliana...
  40. Gonzales Vigil E, Hefer C, von Loessl M, La Mantia J, Mansfield S. Exploiting Natural Variation to Uncover an Alkene Biosynthetic Enzyme in Poplar. Plant Cell. 2017;29:2000-2015 pubmed publisher
    ..Here, we report on a screen of natural accessions of poplar (Populus trichocarpa), revealing that the leaf cuticular waxes are predominantly composed of alkanes and alkenes...
  41. Munhoz C, Costa Z, Cauz Santos L, Reátegui A, Rodde N, Cauet S, et al. A gene-rich fraction analysis of the Passiflora edulis genome reveals highly conserved microsyntenic regions with two related Malpighiales species. Sci Rep. 2018;8:13024 pubmed publisher
    ..The richness of repetitive elements was also evaluated. Microsyntenic regions of P. edulis common to Populus trichocarpa and Manihot esculenta, two related Malpighiales species with available fully sequenced genomes were ..
  42. Bryan A, Zhang J, Guo J, Ranjan P, Singan V, Barry K, et al. A Variable Polyglutamine Repeat Affects Subcellular Localization and Regulatory Activity of a Populus ANGUSTIFOLIA Protein. G3 (Bethesda). 2018;8:2631-2641 pubmed publisher
    ..Analysis of 917 resequenced Populus trichocarpa genotypes revealed three allelic variants at this locus encoding 11-, 13- and 15-glutamine residues...
  43. Karim A, Jiang Y, Guo L, Ling Z, Ye S, Duan Y, et al. Isolation and characterization of a subgroup IIa WRKY transcription factor PtrWRKY40 from Populus trichocarpa. Tree Physiol. 2015;35:1129-39 pubmed publisher
    ..In this study, a subgroup IIa WRKY gene PtrWRKY40 was isolated from Populus trichocarpa, which displayed amino acid sequence similar to Arabidopsis AtWRKY40, AtWRKY18 and AtWRKY60...
  44. Irmisch S, Clavijo McCormick A, Günther J, Schmidt A, Boeckler G, Gershenzon J, et al. Herbivore-induced poplar cytochrome P450 enzymes of the CYP71 family convert aldoximes to nitriles which repel a generalist caterpillar. Plant J. 2014;80:1095-107 pubmed publisher
    ..b>Populus trichocarpa has been shown to produce a complex blend of nitrogenous volatiles, including aldoximes and nitriles, after ..
  45. Sun L, Ma Y, Wang H, Huang W, Wang X, Han L, et al. Overexpression of PtABCC1 contributes to mercury tolerance and accumulation in Arabidopsis and poplar. Biochem Biophys Res Commun. 2018;497:997-1002 pubmed publisher
    ..In this study, we isolated an ATP-binding cassette (ABC) transporter gene PtABCC1 from Populus trichocarpa and overexpressed it in Arabidopsis and poplar...
  46. Cregger M, Veach A, Yang Z, Crouch M, Vilgalys R, Tuskan G, et al. The Populus holobiont: dissecting the effects of plant niches and genotype on the microbiome. Microbiome. 2018;6:31 pubmed publisher
    ..fungal microbiome across 30 different tissue-level niches within replicated Populus deltoides and hybrid Populus trichocarpa × deltoides individuals using 16S and ITS2 rRNA gene analyses...
  47. Al Akeel R, Mateen A, Syed R, Alqahtani M, Alqahtani A. Alanine rich peptide from Populus trichocarpa inhibit growth of Staphylococcus aureus via targetting its extracellular domain of Sensor Histidine Kinase YycGex protein. Microb Pathog. 2018;121:115-122 pubmed publisher
    ..The aim of this study was to evaluate antimicrobial effect of Populus trichocarpa extract, chemically identify the active peptide fraction and finds its target in Staphylococcus aureus...
  48. Musdal Y, Mannervik B. Substrate specificities of two tau class glutathione transferases inducible by 2,4,6-trinitrotoluene in poplar. Biochim Biophys Acta. 2015;1850:1877-83 pubmed publisher
    The genome of poplar (Populus trichocarpa) encodes 81 glutathione transferases (GSTs) annotated in eight distinct classes. The tau class is considered the most versatile in the biotransformation of xenobiotics and is composed of 58 GSTs...
  49. Danner H, Boeckler G, Irmisch S, Yuan J, Chen F, Gershenzon J, et al. Four terpene synthases produce major compounds of the gypsy moth feeding-induced volatile blend of Populus trichocarpa. Phytochemistry. 2011;72:897-908 pubmed publisher
    ..b>Populus trichocarpa is the first woody species with a fully sequenced genome, enabling rapid molecular approaches towards ..
  50. Li Q, Yeh T, Yang C, Song J, Chen Z, Sederoff R, et al. Populus trichocarpa. Methods Mol Biol. 2015;1224:357-63 pubmed publisher
    b>Populus trichocarpa Nisqually-1 is a clone of black cottonwood that is widely used as a model woody plant...
  51. Lallement P, Meux E, Gualberto J, Dumarcay S, Favier F, Didierjean C, et al. Glutathionyl-hydroquinone reductases from poplar are plastidial proteins that deglutathionylate both reduced and oxidized glutathionylated quinones. FEBS Lett. 2015;589:37-44 pubmed publisher
    ..The two GHR genes in the Populus trichocarpa genome, Pt-GHR1 and Pt-GHR2, are primarily expressed in reproductive organs...
  52. Ranganathan K, El Kayal W, Cooke J, Zwiazek J. Responses of hybrid aspen over-expressing a PIP2;5 aquaporin to low root temperature. J Plant Physiol. 2016;192:98-104 pubmed publisher
    Aquaporins mediate the movement of water across cell membranes. Plasma membrane intrinsic protein 2;5 from Populus trichocarpa×deltoides (PtdPIP2;5) was previously demonstrated to be a functionally important water conducting ..
  53. Zhu R, Shevchenko O, Ma C, Maury S, Freitag M, Strauss S. Poplars with a PtDDM1-RNAi transgene have reduced DNA methylation and show aberrant post-dormancy morphology. Planta. 2013;237:1483-93 pubmed publisher
    ..We used RNA interference (RNAi) to suppress transcripts of two orthologous DDM1 paralogs in Populus trichocarpa and examined effects on whole plant phenotypes during perennial growth and seasonal dormancy...
  54. Lin Y, Li W, Chen H, Li Q, Sun Y, Shi R, et al. A simple improved-throughput xylem protoplast system for studying wood formation. Nat Protoc. 2014;9:2194-205 pubmed publisher
    ..of protoplasts from wood-forming tissue, the stem-differentiating xylem (SDX), in the model woody plant Populus trichocarpa. The method involves tissue preparation, digestion of SDX cell walls, protoplast isolation and DNA ..
  55. Loziuk P, Parker J, Li W, Lin C, Wang J, Li Q, et al. Elucidation of Xylem-Specific Transcription Factors and Absolute Quantification of Enzymes Regulating Cellulose Biosynthesis in Populus trichocarpa. J Proteome Res. 2015;14:4158-68 pubmed publisher
    ..herein sought to identify the proteins directly involved in cellulose biosynthesis during wood formation in Populus trichocarpa along with known xylem-specific transcription factors involved in regulating these key proteins...
  56. Ma X, Zhang C, Zhang B, Yang C, Li S. Identification of genes regulated by histone acetylation during root development in Populus trichocarpa. BMC Genomics. 2016;17:96 pubmed publisher
    ..DGE data provides the gene profiles in roots probably regulated by histone acetylation during root growth and development, which will lead to a better understanding of the mechanism controlling root development. ..
  57. Wei M, Xu X, Li C. Identification and expression of CAMTA genes in Populus trichocarpa under biotic and abiotic stress. Sci Rep. 2017;7:17910 pubmed publisher
    ..In this study, we identified seven CAMTA genes across the whole genome of Populus trichocarpa and analyzed the expression patterns of PtCAMTAs in the root and leaf tissues...
  58. Lin C, Wang J, Li Q, Chen H, Liu J, Loziuk P, et al. 4-Coumaroyl and Caffeoyl Shikimic Acids Inhibit 4-Coumaric Acid: Coenzyme A Ligases and Modulate Metabolic Flux for 3-Hydroxylation in Monolignol Biosynthesis of Populus trichocarpa. Mol Plant. 2014;: pubmed
    ..In lignin precursor (monolignol) biosynthesis during stem wood formation in Populus trichocarpa, two enzymes Ptr4CL3 and Ptr4CL5 catalyze the CoA ligation of 4-coumaric acid to 4-coumaroyl-CoA and ..
  59. Ma H, Feng L, Chen Z, Chen X, Zhao H, Xiang Y. Genome-wide identification and expression analysis of the IQD gene family in Populus trichocarpa. Plant Sci. 2014;229:96-110 pubmed publisher
    ..The availability of the Populus trichocarpa genome sequence allowed us to conduct phylogenetic, gene structure, chromosomal location, and microarray ..
  60. Liu Y, Yang S, Song Y, Men S, Wang J. Gain-of-function analysis of poplar CLE genes in Arabidopsis by exogenous application and over-expression assays. J Exp Bot. 2016;67:2309-24 pubmed publisher
    Among 50 CLE gene family members in the Populus trichocarpa genome, three and six PtCLE genes encode a CLE motif sequence highly homologous to Arabidopsis CLV3 and TDIF peptides, respectively, which potentially make them functional ..
  61. Nowak J, Douglas C, Cronk Q. Abaxial Greening Phenotype in Hybrid Aspen. Plants (Basel). 2013;2:279-301 pubmed publisher
    ..in setting the dorsiventral axis of leaves, were investigated in two Populus species: black cottonwood (Populus trichocarpa) and hybrid aspen (P...
  62. Schaeffer S, Harper A, Raja R, Jaiswal P, Dhingra A. Comparative analysis of predicted plastid-targeted proteomes of sequenced higher plant genomes. PLoS ONE. 2014;9:e112870 pubmed publisher
    ..an inter-specific comparison of Arabidopsis, Prunus persica (Peach), Malus × domestica (Apple), Populus trichocarpa (Black cottonwood), Fragaria vesca (Woodland Strawberry), Solanum lycopersicum (Tomato) and Vitis vinifera (..
  63. Quinkenstein A, Jochheim H. Assessing the carbon sequestration potential of poplar and black locust short rotation coppices on mine reclamation sites in Eastern Germany - Model development and application. J Environ Manage. 2016;168:53-66 pubmed publisher
    ..x Populus trichocarpa Torr. et Gray cv. Androscoggin) and a black locust (Robinia pseudoacacia L.) SRC...
  64. Movahedi A, Zhang J, Sun W, Mohammadi K, Almasi Zadeh Yaghuti A, Wei H, et al. Functional analyses of PtRDM1 gene overexpression in poplars and evaluation of its effect on DNA methylation and response to salt stress. Plant Physiol Biochem. 2018;127:64-73 pubmed publisher
    ..We overexpressed PtRDM1 gene from Populus trichocarpa to amplify transcripts of orthologous RDM1 in 'Nanlin895' (P. deltoides?×?P. euramericana 'Nanlin895')...
  65. Trajano H, Pattathil S, Tomkins B, Tschaplinski T, Hahn M, Van Berkel G, et al. Xylan hydrolysis in Populus trichocarpa × P. deltoides and model substrates during hydrothermal pretreatment. Bioresour Technol. 2015;179:202-10 pubmed publisher
    ..To understand how such bonds affect hydrolysis, Populus trichocarpa × Populus deltoides, holocellulose isolated from P. trichocarpa × P...
  66. Zhang H, Yang J, Wang W, Li D, Hu X, Wang H, et al. Genome-wide identification and expression profiling of the copper transporter gene family in Populus trichocarpa. Plant Physiol Biochem. 2015;97:451-60 pubmed publisher
    ..and animals are presented, with an emphasis and bioinformatic analysis of the copper transporter family in Populus trichocarpa (PtCOPT)...
  67. Assad M, Parelle J, Cazaux D, Gimbert F, Chalot M, Tatin Froux F. Mercury uptake into poplar leaves. Chemosphere. 2016;146:1-7 pubmed publisher
    ..of this work is to evaluate the relative contributions of root and atmospheric pathways by growing poplar (Populus trichocarpa X Populus maximowiczii/var Skado) cuttings on either control or polluted substrates and under either ..
  68. Hoang V, Innes D, Shaw P, Monteith G, Gidley M, Dietzgen R. Sequence diversity and differential expression of major phenylpropanoid-flavonoid biosynthetic genes among three mango varieties. BMC Genomics. 2015;16:561 pubmed publisher
    ..relationship between mango genes and those from the woody species poplar of the Salicaceae family (Populus trichocarpa) and grape of the Vitaceae family (Vitis vinifera), was revealed through phylogenetic analysis of PF ..
  69. Ribeiro C, Silva C, Drost D, Novaes E, Novaes C, Dervinis C, et al. Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus. BMC Plant Biol. 2016;16:66 pubmed publisher
    ..traits and root biomass in cuttings from a pseudo-backcross population of Populus deltoides and Populus trichocarpa. Quantitative trait loci (QTL) mapping and whole-transcriptome analysis of individuals with alternative QTL ..
  70. Karve A, Jawdy S, Gunter L, Allen S, Yang X, Tuskan G, et al. Initial characterization of shade avoidance response suggests functional diversity between Populus phytochrome B genes. New Phytol. 2012;196:726-37 pubmed publisher
  71. Zhao J, Pan J, Guan Y, Zhang W, Bie B, Wang Y, et al. Micro-trichome as a class I homeodomain-leucine zipper gene regulates multicellular trichome development in Cucumis sativus. J Integr Plant Biol. 2015;57:925-35 pubmed publisher
    ..Phylogenic analysis charted the relationships among putative homologs in angiosperms. Our paper represents initial steps toward understanding the development of multicellular trichomes. ..
  72. Liu J, Hai G, Wang C, Cao S, Xu W, Jia Z, et al. Comparative proteomic analysis of Populus trichocarpa early stem from primary to secondary growth. J Proteomics. 2015;126:94-108 pubmed publisher
    ..It is a comprehensive proteomic investigation on tree early stem development that, for the first time, reveals the overall molecular networks that occur during Populus early stem lignifications. ..
  73. Han H, Zhang G, Wu M, Wang G. Identification and characterization of the Populus trichocarpa CLE family. BMC Genomics. 2016;17:174 pubmed publisher
    ..Fifty PtCLE genes were identified from the Populus trichocarpa genome and were classified into four major groups based on sequence similarity...
  74. Woodward J, Abeydeera N, Paul D, Phillips K, Rapala Kozik M, Freeling M, et al. A maize thiamine auxotroph is defective in shoot meristem maintenance. Plant Cell. 2010;22:3305-17 pubmed publisher
    ..These results provide insight into the role of metabolic cofactors, such as thiamine, during the proliferation of stem and initial cell populations. ..
  75. Chedgy R, Köllner T, Constabel C. Functional characterization of two acyltransferases from Populus trichocarpa capable of synthesizing benzyl benzoate and salicyl benzoate, potential intermediates in salicinoid phenolic glycoside biosynthesis. Phytochemistry. 2015;113:149-59 pubmed publisher
    ..Although the activities demonstrated are consistent with roles in salicinoid biosynthesis, direct tests of this hypothesis using transgenic poplar must still be performed. ..
  76. Ford K, Chin T, Srivastava V, Zeng W, Doblin M, Bulone V, et al. Comparative "Golgi" Proteome Study of Lolium multiflorum and Populus trichocarpa. Proteomes. 2016;4: pubmed publisher
    ..grass species, Italian ryegrass (Lolium multiflorum) and a dicot species, black cottonwood (Populus trichocarpa) are compared...
  77. Wang J, Matthews M, Williams C, Shi R, Yang C, Tunlaya Anukit S, et al. Improving wood properties for wood utilization through multi-omics integration in lignin biosynthesis. Nat Commun. 2018;9:1579 pubmed publisher
    ..The pathway in wood formation of Populus trichocarpa has at least 21 genes, encoding enzymes that mediate 37 reactions on 24 metabolites, leading to lignin and ..
  78. Peng J, Yu J, Wang H, Guo Y, Li G, Bai G, et al. Regulation of compound leaf development in Medicago truncatula by fused compound leaf1, a class M KNOX gene. Plant Cell. 2011;23:3929-43 pubmed publisher
    ..The identification of FCL1 supports the role of a truncated KNOX protein in compound leaf development in M. truncatula. ..
  79. Tang R, Yang Y, Yang L, Liu H, Wang C, Yu M, et al. Poplar calcineurin B-like proteins PtCBL10A and PtCBL10B regulate shoot salt tolerance through interaction with PtSOS2 in the vacuolar membrane. Plant Cell Environ. 2014;37:573-88 pubmed publisher
    ..We have identified two CBL10 homologs, PtCBL10A and PtCBL10B, from the poplar (Populus trichocarpa) genome...
  80. Drost D, Puranik S, Novaes E, Novaes C, Dervinis C, Gailing O, et al. Genetical genomics of Populus leaf shape variation. BMC Plant Biol. 2015;15:166 pubmed publisher
    ..The approach combined QTL discovery in a genetic linkage map anchored to the Populus trichocarpa reference genome sequence and transcriptome analysis...
  81. Cheng T, Chen J, Ef A, Wang P, Wang G, Hu X, et al. Quantitative proteomics analysis reveals that S-nitrosoglutathione reductase (GSNOR) and nitric oxide signaling enhance poplar defense against chilling stress. Planta. 2015;242:1361-90 pubmed publisher
    ..Poplar (Populus trichocarpa) are fast growing woody plants with both ecological and economic value; however, the mechanisms by which ..
  82. Miguel A, Milhinhos A, Novák O, Jones B, Miguel C. The SHORT-ROOT-like gene PtSHR2B is involved in Populus phellogen activity. J Exp Bot. 2016;67:1545-55 pubmed publisher
    ..Three SHR-like genes have been identified in Populus trichocarpa (Pt). PtSHR1 shares high similarity with AtSHR over the entire length of the coding sequence...
  83. Jin Y, Tang R, Wang H, Jiang C, Bao Y, Yang Y, et al. Overexpression of Populus trichocarpa CYP85A3 promotes growth and biomass production in transgenic trees. Plant Biotechnol J. 2017;15:1309-1321 pubmed publisher
    ..we report the functional characterizations of PtCYP85A3, one of the three AtCYP85A2 homologous genes from Populus trichocarpa. PtCYP85A3 shares the highest similarity with AtCYP85A2 and can rescue the retarded-growth phenotype of the ..
  84. Fang Q, Jiang T, Xu L, Liu H, Mao H, Wang X, et al. A salt-stress-regulator from the Poplar R2R3 MYB family integrates the regulation of lateral root emergence and ABA signaling to mediate salt stress tolerance in Arabidopsis. Plant Physiol Biochem. 2017;114:100-110 pubmed publisher
    ..Here, we demonstrate that PtrSSR1, a salt-stress-regulator in the Populus trichocarpa R2R3 MYB gene family, mediates the tolerance of transgenic Arabidopsis plants to salt stress...
  85. Zhang M, Zhou L, Bawa R, Suren H, Holliday J. Recombination Rate Variation, Hitchhiking, and Demographic History Shape Deleterious Load in Poplar. Mol Biol Evol. 2016;33:2899-2910 pubmed
    ..distribution of deleterious alleles across natural populations of the model tree black cottonwood (Populus trichocarpa)...
  86. Irmisch S, Müller A, Schmidt L, Günther J, Gershenzon J, Köllner T. One amino acid makes the difference: the formation of ent-kaurene and 16α-hydroxy-ent-kaurane by diterpene synthases in poplar. BMC Plant Biol. 2015;15:262 pubmed publisher
    ..The recently sequenced genome of Populus trichocarpa possesses two putative copalyl diphosphate synthase genes (CPS, class II) and two putative kaurene synthase ..
  87. Meng K, Wu Y. Footprints of divergent evolution in two Na+/H+ type antiporter gene families (NHX and SOS1) in the genus Populus. Tree Physiol. 2018;38:813-824 pubmed publisher
  88. Zhao N, Yao J, Chaiprasongsuk M, Li G, Guan J, Tschaplinski T, et al. Molecular and biochemical characterization of the jasmonic acid methyltransferase gene from black cottonwood (Populus trichocarpa). Phytochemistry. 2013;94:74-81 pubmed publisher
    ..Herein is reported the isolation and biochemical characterization of a JMT gene from black cottonwood (Populus trichocarpa). The genome of P. trichocarpa contains 28 SABATH genes (PtSABATH1 to PtSABATH28)...
  89. Wang L, Su H, Han L, Wang C, Sun Y, Liu F. Differential expression profiles of poplar MAP kinase kinases in response to abiotic stresses and plant hormones, and overexpression of PtMKK4 improves the drought tolerance of poplar. Gene. 2014;545:141-8 pubmed publisher
    ..Furthermore, Populus trichocarpa MAPKK4 (PtMKK4) was chosen for functional characterization...
  90. Yuan Y, Teng Q, Zhong R, Ye Z. Identification and biochemical characterization of four wood-associated glucuronoxylan methyltransferases in Populus. PLoS ONE. 2014;9:e87370 pubmed publisher
    ..All the GlcA side chains of xylan in wood of Populus trichocarpa are methylated, which is different from Arabidopsis xylan in which about 60% of GlcA side chains are ..
  91. Yuan H, Wang Y, Wei Z, Xu Q, Zeng X, Tang Y, et al. NJ cluster analysis of the SnRK2, PYR/PYL/RCAR, and ABF genes in Tibetan hulless barley. Genet Mol Res. 2016;15: pubmed publisher
    ..NCBI data from five other model plant species (Arabidopsis thaliana, Brachypodium distachyon, Oryza sativa, Populus trichocarpa, and Sorghum bicolor)...
  92. Shi R, Wang J, Lin Y, Li Q, Sun Y, Chen H, et al. Tissue and cell-type co-expression networks of transcription factors and wood component genes in Populus trichocarpa. Planta. 2017;245:927-938 pubmed publisher
    Co-expression networks based on transcriptomes of Populus trichocarpa major tissues and specific cell types suggest redundant control of cell wall component biosynthetic genes by transcription factors in wood formation...