New Phytol.

The Arabidopsis splicing factor PORCUPINE/SmE1 orchestrates temperature-dependent root development via auxin homeostasis maintenance.

El Arbi N, Nardeli SM, Šimura J, Ljung K, Schmid M

New Phytol. 244 (4) 1408-1421 [2024-11-00; online 2024-09-27]

Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]

High rate of gene family evolution in proximity to the origin of ectomycorrhizal symbiosis in Inocybaceae.

Khan FK, Sánchez-García M, Johannesson H, Ryberg M

New Phytol. 244 (1) 219-234 [2024-10-00; online 2024-08-07]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

Hop stunt viroid infection induces heterochromatin reorganization.

Marquez-Molins J, Cheng J, Corell-Sierra J, ..., Gomez G, Martinez G

New Phytol. 243 (6) 2351-2367 [2024-09-00; online 2024-07-18]

Bioinformatics Support for Computational Resources [Service]

Systems genetic analysis of lignin biosynthesis in Populus tremula.

Luomaranta M, Grones C, Choudhary S, ..., Street NR, Tuominen H

New Phytol. 243 (6) 2157-2174 [2024-09-00; online 2024-07-28]

Bioinformatics Support for Computational Resources [Service]

Ectomycorrhizal fungi are more sensitive to high soil nitrogen levels in forests exposed to nitrogen deposition.

Jörgensen K, Clemmensen KE, Wallander H, Lindahl BD

New Phytol. 242 (4) 1725-1738 [2024-05-00; online 2024-01-11]

NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

In situ seasonal patterns of root auxin concentrations and meristem length in an arctic sedge.

Blume-Werry G, Semenchuk P, Ljung K, ..., Olofsson J, Brunoni F

New Phytol. 242 (3) 988-999 [2024-05-00; online 2024-02-20]

Year 2023

Flexure wood formation via growth reprogramming in hybrid aspen involves jasmonates and polyamines and transcriptional changes resembling tension wood development.

Urbancsok J, Donev EN, Sivan P, ..., Street NR, Mellerowicz EJ

New Phytol. 240 (6) 2312-2334 [2023-12-00; online 2023-10-19]

Ectomycorrhizal fungi integrate nitrogen mobilisation and mineral weathering in boreal forest soil.

Mahmood S, Fahad Z, Bolou-Bi EB, ..., Ekblad A, Finlay RD

New Phytol. - (-) - [2023-09-11; online 2023-09-11]

Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

A model of photosynthetic CO2 assimilation in C3 leaves accounting for respiration and energy recycling by the plastidial oxidative pentose phosphate pathway.

Wieloch T, Augusti A, Schleucher J

New Phytol. 239 (2) 518-532 [2023-07-00; online 2023-05-23]

Contrasting plant-soil-microbial feedbacks stabilize vegetation types and uncouple topsoil C and N stocks across a subarctic-alpine landscape.

Castaño C, Hallin S, Egelkraut D, ..., Olofsson J, Clemmensen KE

New Phytol. 238 (6) 2621-2633 [2023-06-00; online 2022-12-29]

Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

Xylan glucuronic acid side chains fix suberin-like aliphatic compounds to wood cell walls.

Derba-Maceluch M, Mitra M, Hedenström M, ..., Master ER, Mellerowicz EJ

New Phytol. 238 (1) 297-312 [2023-04-00; online 2023-01-31]

Year 2022

Cone-setting in spruce is regulated by conserved elements of the age-dependent flowering pathway.

Akhter S, Westrin KJ, Zivi N, ..., Emanuelsson O, Sundström JF

New Phytol. 236 (5) 1951-1963 [2022-12-00; online 2022-09-16]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

Do ectomycorrhizal exploration types reflect mycelial foraging strategies?

Jörgensen K, Clemmensen KE, Wallander H, Lindahl BD

New Phytol. - (-) - [2022-10-21; online 2022-10-21]

NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

Salinity induces discontinuous protoxylem via a DELLA-dependent mechanism promoting salt tolerance in Arabidopsis seedlings.

Augstein F, Carlsbecker A

New Phytol. 236 (1) 195-209 [2022-10-00; online 2022-07-12]

Bioinformatics Support for Computational Resources [Service]

Laccaria bicolor pectin methylesterases are involved in ectomycorrhiza development with Populus tremula × Populus tremuloides.

Chowdhury J, Kemppainen M, Delhomme N, ..., Pardo AG, Lundberg-Felten J

New Phytol. 236 (2) 639-655 [2022-10-00; online 2022-07-27]

Bioinformatics Support for Computational Resources [Service]

Elevation and plant species identity jointly shape a diverse arbuscular mycorrhizal fungal community in the High Arctic.

Rasmussen PU, Abrego N, Roslin T, ..., Hugerth LW, Tack AJM

New Phytol. 236 (2) 671-683 [2022-10-00; online 2022-07-15]

Bioinformatics Support for Computational Resources [Service]

How broad is the selfing syndrome? Insights from convergent evolution of gene expression across species and tissues in the Capsella genus.

Zhang Z, Kryvokhyzha D, Orsucci M, ..., Milesi P, Lascoux M

New Phytol. - (-) - [2022-09-12; online 2022-09-12]

Bioinformatics Support for Computational Resources [Service]

A polygenic architecture with habitat-dependent effects underlies ecological differentiation in Silene.

Gramlich S, Liu X, Favre A, Buerkle CA, Karrenberg S

New Phytol. 235 (4) 1641-1652 [2022-08-00; online 2022-06-23]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

Inactivation of the entire Arabidopsis group II GH3s confers tolerance to salinity and water deficit.

Casanova-Sáez R, Mateo-Bonmatí E, Šimura J, ..., Staswick P, Ljung K

New Phytol. 235 (1) 263-275 [2022-07-00; online 2022-04-16]

Impaired KIN10 function restores developmental defects in the Arabidopsis trehalose 6-phosphate synthase1 (tps1) mutant.

Zacharaki V, Ponnu J, Crepin N, ..., Rolland F, Schmid M

New Phytol. 235 (1) 220-233 [2022-07-00; online 2022-04-08]

Bioinformatics Support for Computational Resources [Service]

Timing is everything - obtaining accurate measures of plant uptake of amino acids.

Svennerstam H, Jämtgård S

New Phytol. 234 (1) 311-318 [2022-04-00; online 2022-02-02]

Metabolism is a major driver of hydrogen isotope fractionation recorded in tree-ring glucose of Pinus nigra.

Wieloch T, Grabner M, Augusti A, ..., Yu J, Schleucher J

New Phytol. 234 (2) 449-461 [2022-04-00; online 2022-02-26]

Anaplerotic flux into the Calvin-Benson cycle: hydrogen isotope evidence for in vivo occurrence in C3 metabolism.

Wieloch T, Augusti A, Schleucher J

New Phytol. - (-) - [2022-01-12; online 2022-01-12]

Phytophthora infestans Ago1-associated miRNA promotes potato late blight disease.

Hu X, Persson Hodén K, Liao Z, Åsman A, Dixelius C

New Phytol. 233 (1) 443-457 [2022-01-00; online 2021-10-27]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

Year 2021

DE-ETIOLATED1 has a role in the circadian clock of the liverwort Marchantia polymorpha.

Lagercrantz U, Billhardt A, Rousku SN, ..., Reza SH, Eklund DM

New Phytol. 232 (2) 595-609 [2021-10-00; online 2021-08-19]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

Broadening the roles of UDP-glycosyltransferases in auxin homeostasis and plant development.

Mateo-Bonmatí E, Casanova-Sáez R, Šimura J, Ljung K

New Phytol. 232 (2) 642-654 [2021-10-00; online 2021-08-10]

Climate warming dominates over plant genotype in shaping the seasonal trajectory of foliar fungal communities on oak.

Faticov M, Abdelfattah A, Roslin T, ..., Lindahl BD, Tack AJM

New Phytol. 231 (5) 1770-1783 [2021-09-00; online 2021-06-18]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

Modulation of Arabidopsis root growth by specialized triterpenes.

Bai Y, Fernández-Calvo P, Ritter A, ..., Goossens A, Pollier J

New Phytol. 230 (1) 228-243 [2021-04-00; online 2021-01-19]

Swedish Metabolomics Centre (SMC)

Integrating the evidence for a terrestrial carbon sink caused by increasing atmospheric CO2.

Walker AP, De Kauwe MG, Bastos A, ..., Whelan ME, Zuidema PA

New Phytol. 229 (5) 2413-2445 [2021-03-00; online 2020-10-21]

Root trait-microbial relationships across tundra plant species.

Spitzer CM, Lindahl B, Wardle DA, ..., Fanin N, Kardol P

New Phytol. 229 (3) 1508-1520 [2021-02-00; online 2020-10-30]

NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

Role of H1 and DNA methylation in selective regulation of transposable elements during heat stress.

Liu S, de Jonge J, Trejo-Arellano MS, ..., Köhler C, Hennig L

New Phytol. 229 (4) 2238-2250 [2021-02-00; online 2020-11-22]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

Sucrose synthase determines carbon allocation in developing wood and alters carbon flow at the whole tree level in aspen.

Dominguez PG, Donev E, Derba-Maceluch M, ..., Mellerowicz EJ, Niittylä T

New Phytol. 229 (1) 186-198 [2021-01-00; online 2020-07-03]

Swedish Metabolomics Centre (SMC) Swedish NMR Centre (SNC) [Collaborative]

Studies of moss reproductive development indicate that auxin biosynthesis in apical stem cells may constitute an ancestral function for focal growth control.

Landberg K, Šimura J, Ljung K, Sundberg E, Thelander M

New Phytol. 229 (2) 845-860 [2021-01-00; online 2020-10-04]

Year 2020

A metabolite roadmap of the wood-forming tissue in Populus tremula.

Abreu IN, Johansson AI, Sokołowska K, ..., Street NR, Moritz T

New Phytol. 228 (5) 1559-1572 [2020-12-00; online 2020-08-27]

Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Collaborative]

Optimized metabarcoding with Pacific biosciences enables semi-quantitative analysis of fungal communities.

Castaño C, Berlin A, Brandström Durling M, ..., Clemmensen KE, Olson Å

New Phytol. 228 (3) - [2020-11-00; online 2020-07-17]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

PIRIN2 suppresses S-type lignin accumulation in a noncell-autonomous manner in Arabidopsis xylem elements.

Zhang B, Sztojka B, Escamez S, ..., Boerjan W, Tuominen H

New Phytol. 225 (5) 1923-1935 [2020-03-00; online 2019-11-11]

Year 2019

An AP2/ERF transcription factor ERF139 coordinates xylem cell expansion and secondary cell wall deposition.

Wessels B, Seyfferth C, Escamez S, ..., Felten J, Tuominen H

New Phytol. 224 (4) 1585-1599 [2019-12-00; online 2019-07-02]

Integrated Microscopy Technologies Umeå [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Genetic basis and timing of a major mating system shift in Capsella.

Bachmann JA, Tedder A, Laenen B, ..., Castric V, Slotte T

New Phytol. 224 (1) 505-517 [2019-10-00; online 2019-08-01]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

A role for the auxin precursor anthranilic acid in root gravitropism via regulation of PIN-FORMED protein polarity and relocalisation in Arabidopsis.

Doyle SM, Rigal A, Grones P, ..., Novák O, Robert S

New Phytol. 223 (3) 1420-1432 [2019-08-00; online 2019-06-07]

Chemical Biology Consortium Sweden (CBCS) [Service] Swedish Metabolomics Centre (SMC) [Service]

Year 2018

Broad spectrum developmental role of Brachypodium AUX1.

van der Schuren A, Voiniciuc C, Bragg J, ..., Pauly M, Hardtke CS

New Phytol. 219 (4) 1216-1223 [2018-09-00; online 2018-06-27]

Ethylene signaling induces gelatinous layers with typical features of tension wood in hybrid aspen.

Felten J, Vahala J, Love J, ..., Mellerowicz EJ, Sundberg B

New Phytol. 218 (3) 999-1014 [2018-05-00; online 2018-03-12]

Cryo-EM [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Year 2017

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

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

New Phytol. 216 (2) 482-494 [2017-10-00; online 2017-02-10]

Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Downregulation of RWA genes in hybrid aspen affects xylan acetylation and wood saccharification.

Pawar PM, Ratke C, Balasubramanian VK, ..., Jönsson LJ, Mellerowicz EJ

New Phytol. 214 (4) 1491-1505 [2017-06-00; online 2017-03-03]

Rye B chromosomes encode a functional Argonaute-like protein with in vitro slicer activities similar to its A chromosome paralog.

Ma W, Gabriel TS, Martis MM, ..., Banaei-Moghaddam AM, Houben A

New Phytol. 213 (2) 916-928 [2017-01-00; online 2016-07-29]

Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]

Year 2016

Towards integration of population and comparative genomics in forest trees.

Ingvarsson PK, Hvidsten TR, Street NR

New Phytol. 212 (2) 338-344 [2016-10-00; online 2016-08-31]

NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Phytophthora infestans Argonaute 1 binds microRNA and small RNAs from effector genes and transposable elements.

Åsman AK, Fogelqvist J, Vetukuri RR, Dixelius C

New Phytol. 211 (3) 993-1007 [2016-08-00; online 2016-03-25]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

Whole genome duplication in coast redwood (Sequoia sempervirens) and its implications for explaining the rarity of polyploidy in conifers.

Scott AD, Stenz NW, Ingvarsson PK, Baum DA

New Phytol. 211 (1) 186-193 [2016-07-00; online 2016-03-22]

NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Ectomycorrhizal fungi decompose soil organic matter using oxidative mechanisms adapted from saprotrophic ancestors.

Shah F, Nicolás C, Bentzer J, ..., Persson P, Tunlid A

New Phytol. 209 (4) 1705-1719 [2016-03-00; online 2015-11-04]

Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training

Year 2015

The Plant Genome Integrative Explorer Resource: PlantGenIE.org.

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

New Phytol. 208 (4) 1149-1156 [2015-12-00; online 2015-07-21]

NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure

Year 2010