Journal Club

A special kind of journal club with a focus on peer-reviewed papers to develop skills that include critical thinking and evaluation of published work. We update the interesting reads every week.


2020-09-18

Riglet L, Rozier F, Kodera C, et al. KATANIN-dependent mechanical properties of the stigmatic cell wall mediate the pollen tube path in Arabidopsis. Elife. 2020;9:e57282. Published 2020 Sep 1. doi:10.7554/eLife.57282


2020-09-18

Ewen-Campen B, Comyn T, Vogt E, Perrimon N. No Evidence that Wnt Ligands Are Required for Planar Cell Polarity in Drosophila. Cell Rep. 2020;32(10):108121. doi:10.1016/j.celrep.2020.108121


2020-09-18

Wang W, Hu CK, Zeng A, et al. Changes in regeneration-responsive enhancers shape regenerative capacities in vertebrates. Science. 2020;369(6508):eaaz3090. doi:10.1126/science.aaz3090


2020-09-11

Tweedy L, Thomason PA, Paschke PI, et al. Seeing around corners: Cells solve mazes and respond at a distance using attractant breakdown. Science. 2020;369(6507):eaay9792. doi:10.1126/science.aay9792


2020-08-08

Pan X, Fang L, Liu J, et al. Auxin-induced signaling protein nanoclustering contributes to cell polarity formation. Nat Commun. 2020;11(1):3914. Published 2020 Aug 6. doi:10.1038/s41467-020-17602-w


2020-08-08

Zhang J, Mazur E, Balla J, et al. Strigolactones inhibit auxin feedback on PIN-dependent auxin transport canalization. Nat Commun. 2020;11(1):3508. Published 2020 Jul 14. doi:10.1038/s41467-020-17252-y


2020-08-08

Notaguchi M, Kurotani KI, Sato Y, et al. Cell-cell adhesion in plant grafting is facilitated by β-1,4-glucanases. Science. 2020;369(6504):698-702. doi:10.1126/science.abc3710


2020-07-17

Telomere lengths in plants are correlated with flowering time variation
Jae Young Choi, Michael D. Purugganan


2020-07-17

Guignard L, Fiúza UM, Leggio B, et al. Contact area-dependent cell communication and the morphological invariance of ascidian embryogenesis. Science. 2020;369(6500):eaar5663. doi:10.1126/science.aar5663


2020-07-17

Optogenetic control of gene expression in plants in the presence of ambient white light

Ochoa-Fernandez, R., Abel, N.B., Wieland, F. et al. Optogenetic control of gene expression in plants in the presence of ambient white light. Nat Methods 17, 717–725 (2020). https://doi.org/10.1038/s41592-020-0868-y


2020-07-17

Light-powered CO2 fixation in a chloroplast mimic with natural and synthetic parts
Miller, T. E., Beneyton, T., Schwander, T., Diehl, C., Girault, M., McLean, R., ... & Erb, T. J. (2020). Light-powered CO2 fixation in a chloroplast mimic with natural and synthetic parts. Science, 368(6491), 649-654.

DOI: 10.1126/science.aaz6802


2020-07-10

Qin B, Fei C, Bridges AA, et al. Cell position fates and collective fountain flow in bacterial biofilms revealed by light-sheet microscopy. Science. 2020;369(6499):71-77. doi:10.1126/science.abb8501


2020-07-10

Two microRNAs are sufficient for embryogenesis in C. elegans

https://www.biorxiv.org/content/10.1101/2020.06.28.176024v1.full


2020-07-10

Leaf trichome distribution pattern in Arabidopsis reveals gene expression variation associated with environmental adaptation

https://www.biorxiv.org/content/10.1101/2020.07.01.180794v2.full


2020-07-10

Zhang F, Rossignol P, Huang T, et al. Reprogramming of Stem Cell Activity to Convert Thorns into Branches [published online ahead of print, 2020 Jun 9]. Curr Biol. 2020;S0960-9822(20)30755-7. doi:10.1016/j.cub.2020.05.068


2020-07-10

Fellner MC, Waldhauser GT, Axmacher N. Tracking Selective Rehearsal and Active Inhibition of Memory Traces in Directed Forgetting. Curr Biol. 2020;30(13):2638-2644.e4. doi:10.1016/j.cub.2020.04.091


2020-06-26

Ellwanger DC, Scheibinger M, Dumont RA, Barr-Gillespie PG, Heller S. Transcriptional Dynamics of Hair-Bundle Morphogenesis Revealed with CellTrails. Cell Rep. 2018;23(10):2901-2914.e13. doi:10.1016/j.celrep.2018.05.002
https://www.sciencedirect.com/science/article/pii/S2211124718307204


2020-06-26

Hsiao AS, Wang K, Ho TD. An Intrinsically Disordered Protein Interacts with the Cytoskeleton for Adaptive Root Growth under Stress. Plant Physiol. 2020;183(2):570-587. doi:10.1104/pp.19.01372


2020-06-26

Nolet FE, Vandervelde A, Vanderbeke A, Piñeros L, Chang JB, Gelens L. Nuclei determine the spatial origin of mitotic waves. Elife. 2020;9:e52868. Published 2020 May 26. doi:10.7554/eLife.52868

https://elifesciences.org/articles/52868


2020-06-26

Gonzalez Solis A, Han G, Gan L, et al. Unregulated Sphingolipid Biosynthesis in Gene-Edited Arabidopsis ORM Mutants Results in Nonviable Seeds with Strongly Reduced Oil Content [published online ahead of print, 2020 Jun 11]. Plant Cell. 2020;tpc.00015.2020. doi:10.1105/tpc.20.00015


2020-06-26

Michael AK, Grand RS, Isbel L, et al. Mechanisms of OCT4-SOX2 motif readout on nucleosomes. Science. 2020;368(6498):1460-1465. doi:10.1126/science.abb0074

https://science.sciencemag.org/content/368/6498/1460


2020-06-26

Le, N.T., Harukawa, Y., Miura, S. et al. Epigenetic regulation of spurious transcription initiation in ArabidopsisNat Commun 11, 3224 (2020). https://doi.org/10.1038/s41467-020-16951-w


2020-06-26

Yahalomi D, Atkinson SD, Neuhof M, et al. A cnidarian parasite of salmon (Myxozoa: Henneguya) lacks a mitochondrial genome. Proc Natl Acad Sci U S A. 2020;117(10):5358-5363. doi:10.1073/pnas.1909907117 https://www.pnas.org/content/117/10/5358

 


2020-06-25

Grones P, Majda M, Doyle SM, Van Damme D, Robert S. Fluctuating auxin response gradients determine pavement cell-shape acquisition [published online ahead of print, 2020 Jun 22]. Proc Natl Acad Sci U S A. 2020;202007400. doi:10.1073/pnas.2007400117


2020-06-22

Lin Z, Xie F, Trivino M, et al. Ectopic expression of a self-incompatibility module triggers growth arrest and cell death in vegetative cells [published online ahead of print, 2020 Jun 19]. Plant Physiol. 2020;pp.00292.2020. doi:10.1104/pp.20.00292


2020-06-20

Wang Z, Qi L, Yang Y, et al. High-throughput intracellular biopsy of microRNAs for dissecting the temporal dynamics of cellular heterogeneity. Sci Adv. 2020;6(24):eaba4971. Published 2020 Jun 10. doi:10.1126/sciadv.aba4971


2020-06-20

Li, Y., Song, Y., Xu, W., Li, Q., Wang, X., Li, K., Wang, J., Liu, Z., Velychko, S., Ye, R. and Xia, Q., 2020. R-loops coordinate with SOX2 in regulating reprogramming to pluripotency. Science Advances, 6(24), p.eaba0777.


2020-06-20

Harris, R.E., Stinchfield, M.J., Nystrom, S.L., McKay, D.J. and Hariharan, I.K., 2020. Damage-responsive, maturity-silenced enhancers regulate multiple genes that direct regeneration in Drosophila. Elife, 9, p.e58305.


2020-06-18

 


2020-06-11

Li Y, Shan Y, Kilaru GK, et al. Epigenetic inheritance of circadian period in clonal cells. Elife. 2020;9:e54186. Published 2020 May 27. doi:10.7554/eLife.54186


Recent Publications

● Radhakrishnan D, Shanmukhan AP, Kareem A, Aiyaz M, Varapparambathu V, Toms A, Kerstens M, Valsakumar D, Landge AN, Shaji A, Mathew MK, Sawchuk MG, Scarpella E, Krizek BA, Efroni I, Mähönen AP, Willemsen V, Scheres B, Prasad K*. (2020) A coherent feed-forward loop drives vascular regeneration in damaged aerial organs of plants growing in a normal developmental context. Development. 147(6):dev185710. doi:10.1242/dev.185710 (Selected for highlights of the issue and Featured on Cover)
https://dev.biologists.org/content/147/6/dev185710

● Shanmukhan AP, Mathew MM, Radhakrishnan D, Aiyaz M, Prasad K*. (2020) Regrowing the damaged or lost body parts. Current Opinion in Plant Biology. 53:117‐127. doi:10.1016/j.pbi.2019.12.007
https://www.sciencedirect.com/science/article/pii/S1369526619301220

● Durgaprasad K, Roy MV, Venugopal MA, Kareem A, Raj K, Willemsen V, Mähönen AP, Scheres B, Prasad K*. Gradient Expression of Transcription Factor Imposes a Boundary on Organ Regeneration Potential in Plants.
Cell Reports. 2019;29(2):453‐463.e3. doi:10.1016/j.celrep.2019.08.099 (Recommended by F1000 and Featured on Cover)
https://www.sciencedirect.com/science/article/pii/S2211124719311611

● Radhakrishnan D, Kareem A, Durgaprasad K, Sreeraj E, Sugimoto K, Prasad K*. (2018) Shoot regeneration: a journey from acquisition of competence to completion. Current Opinion Plant Biology. 41:23‐31. doi:10.1016/j.pbi.2017.08.001
https://www.sciencedirect.com/science/article/pii/S136952661730095X

● Kareem A, Durgaprasad K, Sugimoto K, Du Y, Pulianmackal AJ, Trivedi ZB, Abhayadev PV, Pinon V, Meyerowitz EM, Scheres B, Prasad K*. (2015) PLETHORA Genes Control Regeneration by a Two-Step Mechanism. Current Biology. 25(8):1017‐1030. doi:10.1016/j.cub.2015.02.022 (Featured on Cover)
https://www.cell.com/current-biology/references/S0960-9822(15)00161-X

● Santuari L, Sanchez-Perez GF, Luijten M, Rutjens B, Terpstra I, Berke L, Gorte M, Prasad K, Bao D, Timmermans-Hereijgers JLPM, Maeo K, Nakamura K, Shimotohno A, Pencik A, Novak O, Ljung K, Heesch SV, de Bruijn E, Cuppen E, Willemsen V, Mähönen AP, Lukowitz W, Snel B, de Ridder D, Scheres B, Heidstra R (2016) The PLETHORA Gene Regulatory Network Guides Growth and Cell Differentiation in Arabidopsis Roots. Plant Cell. 28(12):2937‐2951. doi:10.1105/tpc.16.00656 (Featured on Cover)
http://www.plantcell.org/content/28/12/2937

● Mähönen AP, Ten Tusscher K, Siligato R, Smetana O, Díaz-Triviño S, Salojärvi J, Wachsman G, Prasad K, Heidstra R, Scheres B. (2014) PLETHORA gradient formation mechanism separates auxin responses. Nature. 515(7525):125‐129. doi:10.1038/nature13663
https://www.nature.com/articles/nature13663

Vacancies

Inquiries from prospective students, graduate trainees, postdocs and visitors are welcome.
Please email on kalika.prasad@iiserpune.ac.in with your detailed cv and an outline of your interests.