Plant Biology

Computational modeling and quantitative physiology reveal central parameters for brassinosteroid-regulated early cell physiological processes linked to elongation growth of the Arabidopsis root

1. Ruth Großeholz
2. Friederike Wanke
3. Leander Rohr
4. Nina Glöckner
5. Luiselotte Rausch
6. Stefan Scholl
7. Emanuele Scacchi
8. Amelie-Jette Spazierer
9. Lana Shabala
10. Sergey Shabala
11. Karin Schumacher
12. Ursula Kummer
13. Klaus Harter

• Curated by eLife

  Evaluation Summary:

  This study addresses the effect of brassinosteroid hormones on acidification of the apoplast. The authors characterize a novel ionic channel involved in this process as well as a gradient of H+-ATPase activity, providing evidence for a fast brassinosteroid response that has so far received little attention. A combination of computational modeling and quantitative cell physiology is used to explain the regulation of proton pumping into Arabidopsis root cell walls. The authors show that regulation of AHA proton pump activity by the activated brassinosteroid receptor complex could potentially explain the experimentally determined zonation of root cell wall pH and growth. The work will be of interest to plant biologists as well as cell biologists in general.

  (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #1 agreed to share their name with the authors.)

Reviewed by eLife

Endocytic trafficking promotes vacuolar enlargements for fast cell expansion rates in plants

1. Kai Dünser
2. Maria Schöller
3. Ann-Kathrin Rößling
4. Christian Löfke
5. Nannan Xiao
6. Barbora Pařízková
7. Stanislav Melnik
8. Marta Rodriguez-Franco
9. Eva Stöger
10. Ondřej Novák
11. Jürgen Kleine-Vehn

• Curated by eLife

  Evaluation Summary:

  Plant cells can grow to extraordinarily large volumes; Arabidopsis root cells, for example, can expand beyond 50um long. Vacuole expansion is correlated with cell elongation, presumably to "fill up" the volume of the cell without requiring a tremendous volume of cytoplasm. Here, the authors carefully characterize a new small molecule inhibitor of endocytic trafficking to the vacuole. This new tool will be valuable to researchers studying endocytic trafficking and vacuole biogenesis in plants.

  (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #3 agreed to share their name with the authors.)

Reviewed by eLife

Uncovering natural variation in root system architecture and growth dynamics using a robotics-assisted phenomics platform

1. Therese LaRue
2. Heike Lindner
3. Ankit Srinivas
4. Moises Exposito-Alonso
5. Guillaume Lobet
6. José R Dinneny

• Curated by eLife

  Evaluation Summary:

  The authors present an automated system for phenotyping root system architecture based on bioluminescent roots resulting from a constitutively expressed luciferase transgene (GLO-Root). They have developed a robotics-assisted phenotyping platform and an automated image analysis pipeline for high throughput analysis. An impressive array of 93 luciferase expressing Arabidopsis thaliana accessions provides a major resource for understanding the genetic basis for root system architecture variation in response to a range of environmental conditions. The work will be of interest to plant biologists and all those studying genetic variation in plants.

  (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #1 and Reviewer #3 agreed to share their names with the authors.)

Reviewed by eLife

The Arabidopsis Framework Model version 2 predicts the organism-level effects of circadian clock gene mis-regulation

1. Yin Hoon Chew
2. Daniel D. Seaton
3. Virginie Mengin
4. Anna Flis
5. Sam T. Mugford
6. Gavin M. George
7. Michael Moulin
8. Alastair Hume
9. Samuel C. Zeeman
10. Teresa B. Fitzpatrick
11. Alison M. Smith
12. Mark Stitt
13. Andrew J. Millar

Reviewed by ScreenIT

Locally adaptive temperature response of vegetative growth in Arabidopsis thaliana

1. Pieter Clauw
2. Envel Kerdaffrec
3. Joanna Gunis
4. Ilka Reichardt-Gomez
5. Viktoria Nizhynska
6. Stefanie Koemeda
7. Jakub Jez
8. Magnus Nordborg

• Curated by eLife

  Evaluation Summary:

  This work investigates natural variation in plant growth plasticity in Arabidopsis thaliana. Notably, the paper shows that plants from cold regions show less growth response to temperature than plants from warmer regions and this variation in response is consistent with local adaptation. These results have clear relevance for those specialized in working on A. thaliana life history.

  (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #1 agreed to share their name with the authors.)

Reviewed by eLife

The genome analysis of Tripterygium wilfordii reveals TwCYP712K1 and TwCYP712K2 responsible for oxidation of friedelin in celastrol biosynthesis pathway

1. Tianlin Pei
2. Mengxiao Yan
3. Yu Kong
4. Jie Liu
5. Mengying Cui
6. Yumin Fang
7. Binjie Ge
8. Jun Yang
9. Qing Zhao

Reviewed by GigaByte

LED light gradient as a screening tool for light quality responses in model plant species

1. P. Lejeune
2. A. Fratamico
3. F. Bouché
4. S. Huerga Fernández
5. P. Tocquin
6. C. Périlleux

Reviewed by GigaScience

Pseudo-chromosome–length genome assembly of a double haploid “Bartlett” pear ( Pyrus communis L.)

1. Gareth Linsmith
2. Stephane Rombauts
3. Sara Montanari
4. Cecilia H Deng
5. Jean-Marc Celton
6. Philippe Guérif
7. Chang Liu
8. Rolf Lohaus
9. Jason D Zurn
10. Alessandro Cestaro
11. Nahla V Bassil
12. Linda V Bakker
13. Elio Schijlen
14. Susan E Gardiner
15. Yves Lespinasse
16. Charles-Eric Durel
17. Riccardo Velasco
18. David B Neale
19. David Chagné
20. Yves Van de Peer
21. Michela Troggio
22. Luca Bianco

Reviewed by GigaScience

Combining semi-automated image analysis techniques with machine learning algorithms to accelerate large scale genetic studies

1. Jonathan A. Atkinson
2. Guillaume Lobet
3. Manuel Noll
4. Patrick E. Meyer
5. Marcus Griffiths
6. Darren M. Wells

Reviewed by GigaScience

Morphometric analysis of Passiflora leaves: the relationship between landmarks of the vasculature and elliptical Fourier descriptors of the blade

1. Daniel H. Chitwood
2. Wagner C. Otoni

Reviewed by GigaScience