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Items: 38

1.

Functional and evolutionary genomic inferences in Populus through genome and population sequencing of American and European aspen.

Lin YC, Wang J, Delhomme N, Schiffthaler B, Sundström G, Zuccolo A, Nystedt B, Hvidsten TR, de la Torre A, Cossu RM, Hoeppner MP, Lantz H, Scofield DG, Zamani N, Johansson A, Mannapperuma C, Robinson KM, Mähler N, Leitch IJ, Pellicer J, Park EJ, Van Montagu M, Van de Peer Y, Grabherr M, Jansson S, Ingvarsson PK, Street NR.

Proc Natl Acad Sci U S A. 2018 Nov 13;115(46):E10970-E10978. doi: 10.1073/pnas.1801437115. Epub 2018 Oct 29.

2.

A major locus controls local adaptation and adaptive life history variation in a perennial plant.

Wang J, Ding J, Tan B, Robinson KM, Michelson IH, Johansson A, Nystedt B, Scofield DG, Nilsson O, Jansson S, Street NR, Ingvarsson PK.

Genome Biol. 2018 Jun 4;19(1):72. doi: 10.1186/s13059-018-1444-y.

3.

Storage lipid accumulation is controlled by photoperiodic signal acting via regulators of growth cessation and dormancy in hybrid aspen.

Grimberg Å, Lager I, Street NR, Robinson KM, Marttila S, Mähler N, Ingvarsson PK, Bhalerao RP.

New Phytol. 2018 Jul;219(2):619-630. doi: 10.1111/nph.15197. Epub 2018 May 15.

PMID:
29761498
4.

Downregulating aspen xylan biosynthetic GT43 genes in developing wood stimulates growth via reprograming of the transcriptome.

Ratke C, Terebieniec BK, Winestrand S, Derba-Maceluch M, Grahn T, Schiffthaler B, Ulvcrona T, Özparpucu M, Rüggeberg M, Lundqvist SO, Street NR, Jönsson LJ, Mellerowicz EJ.

New Phytol. 2018 Jul;219(1):230-245. doi: 10.1111/nph.15160. Epub 2018 Apr 30.

PMID:
29708593
5.

Transcriptome analysis of embryonic domains in Norway spruce reveals potential regulators of suspensor cell death.

Reza SH, Delhomme N, Street NR, Ramachandran P, Dalman K, Nilsson O, Minina EA, Bozhkov PV.

PLoS One. 2018 Mar 2;13(3):e0192945. doi: 10.1371/journal.pone.0192945. eCollection 2018.

6.

Transcriptional Roadmap to Seasonal Variation in Wood Formation of Norway Spruce.

Jokipii-Lukkari S, Delhomme N, Schiffthaler B, Mannapperuma C, Prestele J, Nilsson O, Street NR, Tuominen H.

Plant Physiol. 2018 Apr;176(4):2851-2870. doi: 10.1104/pp.17.01590. Epub 2018 Feb 27.

PMID:
29487121
7.

BatchMap: A parallel implementation of the OneMap R package for fast computation of F1 linkage maps in outcrossing species.

Schiffthaler B, Bernhardsson C, Ingvarsson PK, Street NR.

PLoS One. 2017 Dec 20;12(12):e0189256. doi: 10.1371/journal.pone.0189256. eCollection 2017.

8.

AspWood: High-Spatial-Resolution Transcriptome Profiles Reveal Uncharacterized Modularity of Wood Formation in Populus tremula.

Sundell D, Street NR, Kumar M, Mellerowicz EJ, Kucukoglu M, Johnsson C, Kumar V, Mannapperuma C, Delhomme N, Nilsson O, Tuominen H, Pesquet E, Fischer U, Niittylä T, Sundberg B, Hvidsten TR.

Plant Cell. 2017 Jul;29(7):1585-1604. doi: 10.1105/tpc.17.00153. Epub 2017 Jun 27.

9.

A Key Role for Apoplastic H2O2 in Norway Spruce Phenolic Metabolism.

Laitinen T, Morreel K, Delhomme N, Gauthier A, Schiffthaler B, Nickolov K, Brader G, Lim KJ, Teeri TH, Street NR, Boerjan W, Kärkönen A.

Plant Physiol. 2017 Jul;174(3):1449-1475. doi: 10.1104/pp.17.00085. Epub 2017 May 18.

10.

Spatially resolved transcriptome profiling in model plant species.

Giacomello S, Salmén F, Terebieniec BK, Vickovic S, Navarro JF, Alexeyenko A, Reimegård J, McKee LS, Mannapperuma C, Bulone V, Ståhl PL, Sundström JF, Street NR, Lundeberg J.

Nat Plants. 2017 May 8;3:17061. doi: 10.1038/nplants.2017.61.

PMID:
28481330
11.

Gene co-expression network connectivity is an important determinant of selective constraint.

Mähler N, Wang J, Terebieniec BK, Ingvarsson PK, Street NR, Hvidsten TR.

PLoS Genet. 2017 Apr 13;13(4):e1006402. doi: 10.1371/journal.pgen.1006402. eCollection 2017 Apr.

12.

Interspecific Plastome Recombination Reflects Ancient Reticulate Evolution in Picea (Pinaceae).

Sullivan AR, Schiffthaler B, Thompson SL, Street NR, Wang XR.

Mol Biol Evol. 2017 Jul 1;34(7):1689-1701. doi: 10.1093/molbev/msx111.

13.

NorWood: a gene expression resource for evo-devo studies of conifer wood development.

Jokipii-Lukkari S, Sundell D, Nilsson O, Hvidsten TR, Street NR, Tuominen H.

New Phytol. 2017 Oct;216(2):482-494. doi: 10.1111/nph.14458. Epub 2017 Feb 10.

14.

DNA methylome of the 20-gigabase Norway spruce genome.

Ausin I, Feng S, Yu C, Liu W, Kuo HY, Jacobsen EL, Zhai J, Gallego-Bartolome J, Wang L, Egertsdotter U, Street NR, Jacobsen SE, Wang H.

Proc Natl Acad Sci U S A. 2016 Dec 13;113(50):E8106-E8113. Epub 2016 Nov 28.

15.

Towards integration of population and comparative genomics in forest trees.

Ingvarsson PK, Hvidsten TR, Street NR.

New Phytol. 2016 Oct;212(2):338-44. doi: 10.1111/nph.14153. Epub 2016 Aug 30. Review.

16.

Variation in Linked Selection and Recombination Drive Genomic Divergence during Allopatric Speciation of European and American Aspens.

Wang J, Street NR, Scofield DG, Ingvarsson PK.

Mol Biol Evol. 2016 Jul;33(7):1754-67. doi: 10.1093/molbev/msw051. Epub 2016 Mar 15.

17.

Natural Selection and Recombination Rate Variation Shape Nucleotide Polymorphism Across the Genomes of Three Related Populus Species.

Wang J, Street NR, Scofield DG, Ingvarsson PK.

Genetics. 2016 Mar;202(3):1185-200. doi: 10.1534/genetics.115.183152. Epub 2015 Dec 31.

18.

Serendipitous Meta-Transcriptomics: The Fungal Community of Norway Spruce (Picea abies).

Delhomme N, Sundström G, Zamani N, Lantz H, Lin YC, Hvidsten TR, Höppner MP, Jern P, Van de Peer Y, Lundeberg J, Grabherr MG, Street NR.

PLoS One. 2015 Sep 28;10(9):e0139080. doi: 10.1371/journal.pone.0139080. eCollection 2015.

19.

Comparative physiology of allopatric Populus species: geographic clines in photosynthesis, height growth, and carbon isotope discrimination in common gardens.

Soolanayakanahally RY, Guy RD, Street NR, Robinson KM, Silim SN, Albrectsen BR, Jansson S.

Front Plant Sci. 2015 Jul 14;6:528. doi: 10.3389/fpls.2015.00528. eCollection 2015.

20.

The Plant Genome Integrative Explorer Resource: PlantGenIE.org.

Sundell D, Mannapperuma C, Netotea S, Delhomme N, Lin YC, Sjödin A, Van de Peer Y, Jansson S, Hvidsten TR, Street NR.

New Phytol. 2015 Dec;208(4):1149-56. doi: 10.1111/nph.13557. Epub 2015 Jul 20.

21.

A resource for characterizing genome-wide binding and putative target genes of transcription factors expressed during secondary growth and wood formation in Populus.

Liu L, Ramsay T, Zinkgraf M, Sundell D, Street NR, Filkov V, Groover A.

Plant J. 2015 Jun;82(5):887-98. doi: 10.1111/tpj.12850.

22.

Populus tremula (European aspen) shows no evidence of sexual dimorphism.

Robinson KM, Delhomme N, Mähler N, Schiffthaler B, Onskog J, Albrectsen BR, Ingvarsson PK, Hvidsten TR, Jansson S, Street NR.

BMC Plant Biol. 2014 Oct 16;14:276. doi: 10.1186/s12870-014-0276-5.

23.

ComPlEx: conservation and divergence of co-expression networks in A. thaliana, Populus and O. sativa.

Netotea S, Sundell D, Street NR, Hvidsten TR.

BMC Genomics. 2014 Feb 6;15:106. doi: 10.1186/1471-2164-15-106.

24.

De novo SNP discovery in the Scandinavian brown bear (Ursus arctos).

Norman AJ, Street NR, Spong G.

PLoS One. 2013 Nov 18;8(11):e81012. doi: 10.1371/journal.pone.0081012. eCollection 2013.

25.

The Norway spruce genome sequence and conifer genome evolution.

Nystedt B, Street NR, Wetterbom A, Zuccolo A, Lin YC, Scofield DG, Vezzi F, Delhomme N, Giacomello S, Alexeyenko A, Vicedomini R, Sahlin K, Sherwood E, Elfstrand M, Gramzow L, Holmberg K, Hällman J, Keech O, Klasson L, Koriabine M, Kucukoglu M, Käller M, Luthman J, Lysholm F, Niittylä T, Olson A, Rilakovic N, Ritland C, Rosselló JA, Sena J, Svensson T, Talavera-López C, Theißen G, Tuominen H, Vanneste K, Wu ZQ, Zhang B, Zerbe P, Arvestad L, Bhalerao R, Bohlmann J, Bousquet J, Garcia Gil R, Hvidsten TR, de Jong P, MacKay J, Morgante M, Ritland K, Sundberg B, Thompson SL, Van de Peer Y, Andersson B, Nilsson O, Ingvarsson PK, Lundeberg J, Jansson S.

Nature. 2013 May 30;497(7451):579-84. doi: 10.1038/nature12211. Epub 2013 May 22.

PMID:
23698360
26.

A systems biology model of the regulatory network in Populus leaves reveals interacting regulators and conserved regulation.

Street NR, Jansson S, Hvidsten TR.

BMC Plant Biol. 2011 Jan 13;11:13. doi: 10.1186/1471-2229-11-13.

27.

Association genetics of complex traits in plants.

Ingvarsson PK, Street NR.

New Phytol. 2011 Mar;189(4):909-22. doi: 10.1111/j.1469-8137.2010.03593.x. Epub 2010 Dec 23. Review.

28.

The physiological, transcriptional and genetic responses of an ozone-sensitive and an ozone tolerant poplar and selected extremes of their F2 progeny.

Street NR, James TM, James T, Mikael B, Jaakko K, Mark B, Taylor G.

Environ Pollut. 2011 Jan;159(1):45-54. doi: 10.1016/j.envpol.2010.09.027. Epub 2010 Oct 25.

PMID:
20980086
29.

The transcriptome of Populus in elevated CO reveals increased anthocyanin biosynthesis during delayed autumnal senescence.

Tallis MJ, Lin Y, Rogers A, Zhang J, Street NR, Miglietta F, Karnosky DF, De Angelis P, Calfapietra C, Taylor G.

New Phytol. 2010 Apr;186(2):415-28. doi: 10.1111/j.1469-8137.2010.03184.x. Epub 2010 Feb 23.

30.

Genome-wide profiling of populus small RNAs.

Klevebring D, Street NR, Fahlgren N, Kasschau KD, Carrington JC, Lundeberg J, Jansson S.

BMC Genomics. 2009 Dec 20;10:620. doi: 10.1186/1471-2164-10-620.

31.

The Populus Genome Integrative Explorer (PopGenIE): a new resource for exploring the Populus genome.

Sjödin A, Street NR, Sandberg G, Gustafsson P, Jansson S.

New Phytol. 2009 Jun;182(4):1013-25. doi: 10.1111/j.1469-8137.2009.02807.x.

32.

Five QTL hotspots for yield in short rotation coppice bioenergy poplar: the Poplar Biomass Loci.

Rae AM, Street NR, Robinson KM, Harris N, Taylor G.

BMC Plant Biol. 2009 Feb 26;9:23. doi: 10.1186/1471-2229-9-23.

33.

A cross-species transcriptomics approach to identify genes involved in leaf development.

Street NR, Sjödin A, Bylesjö M, Gustafsson P, Trygg J, Jansson S.

BMC Genomics. 2008 Dec 5;9:589. doi: 10.1186/1471-2164-9-589.

34.

LAMINA: a tool for rapid quantification of leaf size and shape parameters.

Bylesjö M, Segura V, Soolanayakanahally RY, Rae AM, Trygg J, Gustafsson P, Jansson S, Street NR.

BMC Plant Biol. 2008 Jul 22;8:82. doi: 10.1186/1471-2229-8-82.

35.

Yield and spatial supply of bioenergy poplar and willow short-rotation coppice in the UK.

Aylott MJ, Casella E, Tubby I, Street NR, Smith P, Taylor G.

New Phytol. 2008;178(2):358-70. doi: 10.1111/j.1469-8137.2008.02396.x. Epub 2008 Mar 5. Erratum in: New Phytol. 2008;178(4):897.

36.

The genetics and genomics of the drought response in Populus.

Street NR, Skogström O, Sjödin A, Tucker J, Rodríguez-Acosta M, Nilsson P, Jansson S, Taylor G.

Plant J. 2006 Nov;48(3):321-41. Epub 2006 Sep 27.

37.

The transcriptome of Populus in elevated CO2.

Taylor G, Street NR, Tricker PJ, Sjödin A, Graham L, Skogström O, Calfapietra C, Scarascia-Mugnozza G, Jansson S.

New Phytol. 2005 Jul;167(1):143-54.

38.

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