Pervasive Upstream Non-Coding Transcription Underpinning Adaptation

Project Information

PUNCTUATION

Grant agreement ID: 757411

DOI 10.3030/757411

Project closed

EC signature date 18 September 2017

Start date 1 February 2018

End date 31 July 2023

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost € 1 499 952,00

EU contribution € 1 499 952,00

Coordinated by

KOBENHAVNS UNIVERSITET
Denmark

Publications

Non-peer reviewed articles (2)

TrancriptomeReconstructoR: data-driven annotation of complex transcriptomes

Author(s): Ivanov, M., Sandelin, A. and Marquardt, S
Published in: BMC Bioinformatics, Issue 22/290, 2021, ISSN 1471-2105
Publisher: BioMed Central
DOI: 10.1186/s12859-021-04208-2

DNA Processing in the Context of Noncoding Transcription

Author(s): Uthra Gowthaman, Desiré García-Pichardo, Yu Jin, Isabel Schwarz, Sebastian Marquardt
Published in: Trends in Biochemical Sciences, 2020, ISSN 0968-0004
Publisher: Elsevier BV
DOI: 10.1016/j.tibs.2020.07.009

Peer reviewed articles (9)

R-loops at microRNA encoding loci promote co-transcriptional processing of pri-miRNAs in plants

Author(s): Lucia Gonzalo, Ileana Tossolini, Tomasz Gulanicz, Damian A. Cambiagno, Anna Kasprowicz-Maluski, Dariusz Jan Smolinski, María Florencia Mammarella, Federico D. Ariel, Sebastian Marquardt, Zofia Szweykowska-Kulinska, Artur Jarmolowski and Pablo A. Manavella
Published in: Nature Plants, Issue 8, 2022, Page(s) 402–418, ISSN 2055-0278
Publisher: Springer Nature
DOI: 10.1038/s41477-022-01125-x

The Hda1 histone deacetylase limits divergent non-coding transcription and restricts transcription initiation frequency

Author(s): Uthra Gowthaman, Maxim Ivanov, Isabel Schwarz, Heta P Patel, Niels A Müller, Desiré García-Pichardo, Tineke L Lenstra, Sebastian Marquardt
Published in: The EMBO Journal, Issue 40, 2021, Page(s) e108903, ISSN 0261-4189
Publisher: Nature Publishing Group
DOI: 10.15252/embj.2021108903

<scp>LncRNA FLAIL</scp> affects alternative splicing and represses flowering in <i>Arabidopsis</i>

Author(s): Yu Jin; Maxim Ivanov; Anna Nelson Dittrich; Andrew DL Nelson; Sebastian Marquardt
Published in: The EMBO Journal, Issue 42, 2023, Page(s) e110921, ISSN 0261-4189
Publisher: Nature Publishing Group
DOI: 10.15252/embj.2022110921

Transcriptional read-through of the long non-coding RNA SVALKA governs plant cold acclimation

Author(s): Peter Kindgren, Ryan Ard, Maxim Ivanov, Sebastian Marquardt
Published in: Nature Communications, Issue 9/1, 2018, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-018-07010-6

Transcription-driven chromatin repression of Intragenic transcription start sites

Author(s): Mathias Nielsen, Ryan Ard, Xueyuan Leng, Maxim Ivanov, Peter Kindgren, Vicent Pelechano, Sebastian Marquardt
Published in: PLOS Genetics, Issue 15/2, 2019, Page(s) e1007969, ISSN 1553-7404
Publisher: PLOS
DOI: 10.1371/journal.pgen.1007969

Transcript isoform sequencing reveals widespread promoter-proximal transcriptional termination in Arabidopsis

Author(s): Quentin Angelo Thomas, Ryan Ard, Jinghan Liu, Bingnan Li, Jingwen Wang, Vicent Pelechano, Sebastian Marquardt
Published in: Nature Communications, Issue 11/1, 2020, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-020-16390-7

Organismal benefits of transcription speed control at gene boundaries

Author(s): Xueyuan Leng, Maxim Ivanov, Peter Kindgren, Indranil Malik, Axel Thieffry, Peter Brodersen, Albin Sandelin, Craig D Kaplan, Sebastian Marquardt
Published in: EMBO reports, Issue 21/4, 2020, ISSN 1469-221X
Publisher: Nature Publishing Group
DOI: 10.15252/embr.201949315

Native elongation transcript sequencing reveals temperature dependent dynamics of nascent RNAPII transcription in Arabidopsis

Author(s): Peter Kindgren, Maxim Ivanov, Sebastian Marquardt
Published in: Nucleic Acids Research, Issue 48/5, 2019, Page(s) 2332-2347, ISSN 0305-1048
Publisher: Oxford University Press
DOI: 10.1093/nar/gkz1189

A G(enomic)P(ositioning)S(ystem) for Plant RNAPII Transcription

Author(s): Xueyuan Leng, Quentin Thomas, Simon Horskjær Rasmussen, Sebastian Marquardt
Published in: Trends in Plant Science, Issue 25/8, 2020, Page(s) 744-764, ISSN 1360-1385
Publisher: Elsevier BV
DOI: 10.1016/j.tplants.2020.03.005