Literature DB >> 34941412

Cell-by-cell dissection of phloem development links a maturation gradient to cell specialization.

Pawel Roszak1, Jung-Ok Heo1,2, Bernhard Blob1, Koichi Toyokura1,3,4,5, Yuki Sugiyama1,6, Maria Angels de Luis Balaguer7, Winnie W Y Lau8, Fiona Hamey8, Jacopo Cirrone9, Ewelina Madej10, Alida M Bouatta11, Xin Wang2, Marjorie Guichard12,13, Robertas Ursache1, Hugo Tavares1,14, Kevin Verstaen15,16, Jos Wendrich17,18, Charles W Melnyk19, Yoshihisa Oda6,20, Dennis Shasha9, Sebastian E Ahnert1,21,22, Yvan Saeys15,16, Bert De Rybel17,18, Renze Heidstra23, Ben Scheres23,24, Guido Grossmann12,13, Ari Pekka Mähönen2, Philipp Denninger11, Berthold Göttgens8, Rosangela Sozzani7, Kenneth D Birnbaum25, Yrjö Helariutta1,2.   

Abstract

In the plant meristem, tissue-wide maturation gradients are coordinated with specialized cell networks to establish various developmental phases required for indeterminate growth. Here, we used single-cell transcriptomics to reconstruct the protophloem developmental trajectory from the birth of cell progenitors to terminal differentiation in the Arabidopsis thaliana root. PHLOEM EARLY DNA-BINDING-WITH-ONE-FINGER (PEAR) transcription factors mediate lineage bifurcation by activating guanosine triphosphatase signaling and prime a transcriptional differentiation program. This program is initially repressed by a meristem-wide gradient of PLETHORA transcription factors. Only the dissipation of PLETHORA gradient permits activation of the differentiation program that involves mutual inhibition of early versus late meristem regulators. Thus, for phloem development, broad maturation gradients interface with cell-type-specific transcriptional regulators to stage cellular differentiation.

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Year:  2021        PMID: 34941412      PMCID: PMC8730638          DOI: 10.1126/science.aba5531

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  51 in total

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Authors:  Jin-Long Qiu; Ross Jilk; M David Marks; Daniel B Szymanski
Journal:  Plant Cell       Date:  2002-01       Impact factor: 11.277

2.  Genetic structure and evolution of RAC-GTPases in Arabidopsis thaliana.

Authors:  P Winge; T Brembu; R Kristensen; A M Bones
Journal:  Genetics       Date:  2000-12       Impact factor: 4.562

3.  HISAT: a fast spliced aligner with low memory requirements.

Authors:  Daehwan Kim; Ben Langmead; Steven L Salzberg
Journal:  Nat Methods       Date:  2015-03-09       Impact factor: 28.547

4.  ROP GTPases act with the receptor-like protein PAN1 to polarize asymmetric cell division in maize.

Authors:  John A Humphries; Zuzana Vejlupkova; Anding Luo; Robert B Meeley; Anne W Sylvester; John E Fowler; Laurie G Smith
Journal:  Plant Cell       Date:  2011-06-07       Impact factor: 11.277

5.  Transcriptional and functional classification of the GOLVEN/ROOT GROWTH FACTOR/CLE-like signaling peptides reveals their role in lateral root and hair formation.

Authors:  Ana Fernandez; Andrzej Drozdzecki; Kurt Hoogewijs; Anh Nguyen; Tom Beeckman; Annemieke Madder; Pierre Hilson
Journal:  Plant Physiol       Date:  2012-12-14       Impact factor: 8.340

6.  APL regulates vascular tissue identity in Arabidopsis.

Authors:  Martin Bonke; Siripong Thitamadee; Ari Pekka Mähönen; Marie-Theres Hauser; Ykä Helariutta
Journal:  Nature       Date:  2003-11-13       Impact factor: 49.962

7.  An inducible genome editing system for plants.

Authors:  Lingling Ye; Munan Lyu; Robertas Ursache; Xin Wang; Ari Löytynoja; Ari Pekka Mähönen
Journal:  Nat Plants       Date:  2020-06-29       Impact factor: 15.793

8.  Week-long imaging of cell divisions in the Arabidopsis root meristem.

Authors:  Ramin Rahni; Kenneth D Birnbaum
Journal:  Plant Methods       Date:  2019-03-25       Impact factor: 4.993

9.  High-Throughput Single-Cell Transcriptome Profiling of Plant Cell Types.

Authors:  Christine N Shulse; Benjamin J Cole; Doina Ciobanu; Junyan Lin; Yuko Yoshinaga; Mona Gouran; Gina M Turco; Yiwen Zhu; Ronan C O'Malley; Siobhan M Brady; Diane E Dickel
Journal:  Cell Rep       Date:  2019-05-14       Impact factor: 9.423

10.  Reversed graph embedding resolves complex single-cell trajectories.

Authors:  Xiaojie Qiu; Qi Mao; Ying Tang; Li Wang; Raghav Chawla; Hannah A Pliner; Cole Trapnell
Journal:  Nat Methods       Date:  2017-08-21       Impact factor: 47.990

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  7 in total

1.  Single-cell genomics revolutionizes plant development studies across scales.

Authors:  Mingyuan Zhu; Isaiah W Taylor; Philip N Benfey
Journal:  Development       Date:  2022-03-14       Impact factor: 6.868

2.  A Dof-CLE circuit controls phloem organization.

Authors:  Pingping Qian; Wen Song; Miki Zaizen-Iida; Sawa Kume; Guodong Wang; Ye Zhang; Kaori Kinoshita-Tsujimura; Jijie Chai; Tatsuo Kakimoto
Journal:  Nat Plants       Date:  2022-07-11       Impact factor: 17.352

Review 3.  The biology of time: dynamic responses of cell types to developmental, circadian and environmental cues.

Authors:  Joseph Swift; Kathleen Greenham; Joseph R Ecker; Gloria M Coruzzi; C Robertson McClung
Journal:  Plant J       Date:  2021-12-06       Impact factor: 7.091

Review 4.  Single-Cell RNA Sequencing for Plant Research: Insights and Possible Benefits.

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Journal:  Int J Mol Sci       Date:  2022-04-19       Impact factor: 6.208

5.  Single-cell genomics in plants: current state, future directions, and hurdles to overcome.

Authors:  Josh T Cuperus
Journal:  Plant Physiol       Date:  2022-02-04       Impact factor: 8.340

Review 6.  Cell Fate Decisions Within the Vascular Cambium-Initiating Wood and Bast Formation.

Authors:  Aylin S Haas; Dongbo Shi; Thomas Greb
Journal:  Front Plant Sci       Date:  2022-04-25       Impact factor: 6.627

7.  Identification of new marker genes from plant single-cell RNA-seq data using interpretable machine learning methods.

Authors:  Haidong Yan; Jiyoung Lee; Qi Song; Qi Li; John Schiefelbein; Bingyu Zhao; Song Li
Journal:  New Phytol       Date:  2022-03-26       Impact factor: 10.323

  7 in total

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