eLife

Latest preprint reviews

1. Linguistic processing of task-irrelevant speech at a cocktail party

   This article has 2 authors:

   1. Paz Har-shai Yahav
   2. Elana Zion Golumbic

   This article has been curated by 1 group:

   • Curated by eLife

     Summary:

     This study addresses a current and important question: how deeply are "ignored" speech stimuli processed? By imposing a regular rhythm on the to-be-ignored speech and analyzing MEG responses in the frequency domain, you were able to show an increase in power at the phrasal level (1 Hz) of irrelevant speech when It contained structured (linguistic) content, but not at the word level (2 Hz) or the sentence level (0.5 Hz). This finding supports the idea that cortical activity represents syntactic information about the unattended speech. Source analysis shows that the task-irrelevant speech is processed at the sentence level in the left fronto-temporal area and posterior parietal cortex, and in a manner very different from the acoustical encoding of syllables. Though the study is intriguing and well designed, there are some issues that must be addressed to back up the claims of the paper.

     Reviewer #1 and Reviewer #2 opted to reveal their name to the authors in the decision letter after review.

   Reviewed by eLife

2. CTP and parS coordinate ParB partition complex dynamics and ParA-ATPase activation for ParABS-mediated DNA partitioning

   This article has 5 authors:

   1. James A Taylor
   2. Yeonee Seol
   3. Jagat Budhathoki
   4. Keir C Neuman
   5. Kiyoshi Mizuuchi

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This manuscript reports carefully executed experiments on the dynamics of ParA-ParB and ParB-ParB interactions. Two main findings are presented: a change in stoichiometry of ParA-ParB interactions upon ligand binding and ligand dependent DNA condensation by ParB. The work is solid, the conclusions are generally well supported by the data, however, the relevance of some of the findings could be established more directly.

     (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

3. Insights from a Pan India Sero-Epidemiological survey (Phenome-India Cohort) for SARS-CoV2

   This article has 136 authors:

   1. Salwa Naushin
   2. Viren Sardana
   3. Rajat Ujjainiya
   4. Nitin Bhatheja
   5. Rintu Kutum
   6. Akash Kumar Bhaskar
   7. Shalini Pradhan
   8. Satyartha Prakash
   9. Raju Khan
   10. Birendra Singh Rawat
   11. Karthik Bharadwaj Tallapaka
   12. Mahesh Anumalla
   13. Giriraj Ratan Chandak
   14. Amit Lahiri
   15. Susanta Kar
   16. Shrikant Ramesh Mulay
   17. Madhav Nilakanth Mugale
   18. Mrigank Srivastava
   19. Shaziya Khan
   20. Anjali Srivastava
   21. Bhawana Tomar
   22. Murugan Veerapandian
   23. Ganesh Venkatachalam
   24. Selvamani Raja Vijayakumar
   25. Ajay Agarwal
   26. Dinesh Gupta
   27. Prakash M Halami
   28. Muthukumar Serva Peddha
   29. Gopinath M Sundaram
   30. Ravindra P Veeranna
   31. Anirban Pal
   32. Vinay Kumar Agarwal
   33. Anil Ku Maurya
   34. Ranvijay Kumar Singh
   35. Ashok Kumar Raman
   36. Suresh Kumar Anandasadagopan
   37. Parimala Karuppanan
   38. Subramanian Venkatesan
   39. Harish Kumar Sardana
   40. Anamika Kothari
   41. Rishabh Jain
   42. Anupama Thakur
   43. Devendra Singh Parihar
   44. Anas Saifi
   45. Jasleen Kaur
   46. Virendra Kumar
   47. Avinash Mishra
   48. Iranna Gogeri
   49. Geethavani Rayasam
   50. Praveen Singh
   51. Rahul Chakraborty
   52. Gaura Chaturvedi
   53. Pinreddy Karunakar
   54. Rohit Yadav
   55. Sunanda Singhmar
   56. Dayanidhi Singh
   57. Sharmistha Sarkar
   58. Purbasha Bhattacharya
   59. Sundaram Acharya
   60. Vandana Singh
   61. Shweta Verma
   62. Drishti Soni
   63. Surabhi Seth
   64. Sakshi Vashisht
   65. Sarita Thakran
   66. Firdaus Fatima
   67. Akash Pratap Singh
   68. Akanksha Sharma
   69. Babita Sharma
   70. Manikandan Subramanian
   71. Yogendra S Padwad
   72. Vipin Hallan
   73. Vikram Patial
   74. Damanpreet Singh
   75. Narendra Vijay Tripude
   76. Partha Chakrabarti
   77. Sujay Krishna Maity
   78. Dipyaman Ganguly
   79. Jit Sarkar
   80. Sistla Ramakrishna
   81. Balthu Narender Kumar
   82. Kiran A Kumar
   83. Sumit G Gandhi
   84. Piyush Singh Jamwal
   85. Rekha Chouhan
   86. Vijay Lakshmi Jamwal
   87. Nitika Kapoor
   88. Debashish Ghosh
   89. Ghanshyam Thakkar
   90. Umakanta Subudhi
   91. Pradip Sen
   92. Saumya Ray Chaudhury
   93. Rashmi Kumar
   94. Pawan Gupta
   95. Amit Tuli
   96. Deepak Sharma
   97. Rajesh P Ringe
   98. Amarnarayan D
   99. Mahesh Kulkarni
   100. Dhansekaran Shanmugam
   101. Mahesh S Dharne
   102. Sayed G Dastager
   103. Rakesh Joshi
   104. Amita P Patil
   105. Sachin N Mahajan
   106. Abujunaid Habib Khan
   107. Vasudev Wagh
   108. Rakesh Kumar Yadav
   109. Ajinkya Khilari
   110. Mayuri Bhadange
   111. Arvindkumar H Chaurasiya
   112. Shabda E Kulsange
   113. Krishna Khairnar
   114. Shilpa Paranjape
   115. Jatin Kalita
   116. Narahari G Sastry
   117. Tridip Phukan
   118. Prasenjit Manna
   119. Wahengbam Romi
   120. Pankaj Bharali
   121. Dibyajyoti Ozah
   122. Ravi Kumar Sahu
   123. Elapavalooru VSSK Babu
   124. Rajeev Sukumaran
   125. Aiswarya R Nair
   126. Prajeesh Kooloth Valappil
   127. Anoop Puthiyamadam
   128. Adarsh Velayudhanpillai
   129. Kalpana Chodankar
   130. Samir Damare
   131. Yennapu Madhavi
   132. Ved Varun Aggarwal
   133. Sumit Dahiya
   134. Anurag Agrawal
   135. Debasis Dash
   136. Shantanu Sengupta

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     The paper presents results of a serological survey done on 10,000+ employees and workers associated with CSIR labs in India during August-September 2020. This is a one of the few surveys with a pan-India footprint, making it a valuable addition to understanding of Covid-19 pandemic evolution in the country. The reviewers felt that the writing could have been tighter and more targeted.

     (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 #2 and Reviewer #3 agreed to share their names with the authors.)

   Reviewed by eLife, ScreenIT

4. Single-cell transcriptomics defines heterogeneity of epicardial cells and fibroblasts within the infarcted murine heart

   This article has 15 authors:

   1. Julia Hesse
   2. Christoph Owenier
   3. Tobias Lautwein
   4. Ria Zalfen
   5. Jonas F Weber
   6. Zhaoping Ding
   7. Christina Alter
   8. Alexander Lang
   9. Maria Grandoch
   10. Norbert Gerdes
   11. Jens W Fischer
   12. Gunnar W Klau
   13. Christoph Dieterich
   14. Karl Köhrer
   15. Jürgen Schrader

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     The article by Hesse et al. defines heterogeneity of epicardial cells and fibroblasts in a murine model of cardiac injury to analyze the resulting populations through single cell RNA sequencing. Spatial confirmation of associated markers is performed using in-situ RNA hybridization. The work provides new insights into the heterogeneity of epicardial stromal and activated cardiac stromal cells post-injury.

     (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

5. Adult stem cell-derived complete lung organoid models emulate lung disease in COVID-19

   This article has 21 authors:

   1. Courtney Tindle
   2. MacKenzie Fuller
   3. Ayden Fonseca
   4. Sahar Taheri
   5. Stella-Rita Ibeawuchi
   6. Nathan Beutler
   7. Gajanan Dattatray Katkar
   8. Amanraj Claire
   9. Vanessa Castillo
   10. Moises Hernandez
   11. Hana Russo
   12. Jason Duran
   13. Laura E Crotty Alexander
   14. Ann Tipps
   15. Grace Lin
   16. Patricia A Thistlethwaite
   17. Ranajoy Chattopadhyay
   18. Thomas F Rogers
   19. Debashis Sahoo
   20. Pradipta Ghosh
   21. Soumita Das

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     The manuscript by Tindle et al describes generation of adult lung organoids (ALO) from human lung biopsies and their use to study the changes in gene expression as a result of SARS-CoV-2 infection. In this particular case the authors report the presence of AT1, AT2 cells, Basal cells, Goblet cells, Ciliated cells and Club cells. The authors were able to cultivate the cells at the air-liquid interface and to establish cultures of predominately proximal and predominately distal airway cells. The main finding is that proximal cells are more prone to viral infection, while distal cells are governing the exuberant inflammatory response, with both cells required for the exuberant response to occur. Useful information provided by the paper is the analysis gene signatures of various cellular models, in comparison to the infected human lung.

     (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 #2 agreed to share their names with the authors.)

   Reviewed by eLife, ScreenIT

6. Quantifying absolute gene expression profiles reveals distinct regulation of central carbon metabolism genes in yeast

   This article has 4 authors:

   1. Rosemary Yu
   2. Egor Vorontsov
   3. Carina Sihlbom
   4. Jens Nielsen

   Reviewed by eLife

7. T cell self-reactivity during thymic development dictates the timing of positive selection

   This article has 10 authors:

   1. Lydia K Lutes
   2. Zoë Steier
   3. Laura L McIntyre
   4. Shraddha Pandey
   5. James Kaminski
   6. Ashley R Hoover
   7. Silvia Ariotti
   8. Aaron Streets
   9. Nir Yosef
   10. Ellen A Robey

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This study is of interest to immunologists as it fills a key knowledge gap in understanding factors involved in determining the duration of intrathymic positive selection of T cells. The findings come from a series of both in vitro and in vivo experiments implicating the self-reactivity of thymocytes in the time to completion of positive selection. An RNA-sequencing analysis suggests that gene expression differences from the pre-selection to the single-positive thymocyte stage is self-reactivity dependent, correlating in particular the level of ion channel expression with positive selection completion rates.

     (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

8. tTARGIT AAVs: A sensitive and flexible method to manipulate intersectional neuronal populations

   This article has 8 authors:

   1. Paul V. Sabatini
   2. Jine Wang
   3. Alan C. Rupp
   4. Alison H. Affinati
   5. Jonathan N. Flak
   6. Chien Li
   7. David P. Olson
   8. Martin G. Myers

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     The combination of Cre and Flp recombinase dependent system is powerful in manipulating specific intersectional neurons and has been successfully used in many systems. However, the system cannot express target genes sufficiently in some neurons, e.g., the LepRb VMH neurons. This paper solved this problem. It is therefore an important technical advance.

     (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 #2 agreed to share their names with the authors.)

   Reviewed by eLife

9. In vivo fluorescence lifetime imaging of macrophage intracellular metabolism during wound responses in zebrafish

   This article has 12 authors:

   1. Veronika Miskolci
   2. Kelsey E Tweed
   3. Michael R Lasarev
   4. Emily C Britt
   5. Alex J Walsh
   6. Landon J Zimmerman
   7. Courtney E McDougal
   8. Mark R Cronan
   9. Jing Fan
   10. John-Demian Sauer
   11. Melissa C Skala
   12. Anna Huttenlocher

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     Immunometabolism is an emerging field, and to understand immune cell metabolism during inflammation and infection is of great interest. In this report, cutting edge (label free) microscopy techniques and innovative zebrafish models are used to characterize the metabolism of macrophages in situ. In the future, fluorescence microscopy approaches pioneered using zebrafish may illuminate strategies to therapeutically manipulate metabolism in human immune cells.

     (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

10. Brainrender : a python-based software for visualizing anatomically registered data

    This article has 6 authors:

    1. F. Claudi
    2. A. L. Tyson
    3. L. Petrucco
    4. T.W. Margrie
    5. R. Portugues
    6. T. Branco

    This article has been curated by 1 group:

    • Curated by eLife

      Evaluation Summary:

      This paper by Claudi et al. will be of interest to any scientist working in neuroanatomy and related fields. Dissemination of scientific results is one of the key products of science, and the software presented here will help scientists achieve that task more easily than ever before.

      (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 #2 agreed to share their name with the authors.)

    Reviewed by eLife