Papers November 2024

• Origins and impact of extrachromosomal DNA.
  • Bailey C, Pich O, Thol K, Watkins TBK, Luebeck J, Rowan A, Stavrou G, Weiser NE, Dameracharla B, Bentham R, Lu W-T, Kittel J, Yang SYC, Howitt BE, Sharma N, Litovchenko M, Salgado R, Hung KL, Cornish AJ, Moore DA, Houlston RS, Bafna V, Chang HY, Nik-Zainal S, Kanu N, McGranahan N, Genomics England Consortium, Flanagan AM, Mischel PS, Jamal-Hanjani M, Swanton C
  • Nature
  • doi: 10.1038/s41586-024-08107-3
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• A cyclic peptide toolkit reveals mechanistic principles of peptidylarginine deiminase IV regulation.
  • Bertran MT, Walmsley R, Cummings T, Valle Aramburu I, Benton DJ, Mora Molina R, Assalaarachchi J, Chasampalioti M, Swanton T, Joshi D, Federico S, Okkenhaug H, Yu L, Oxley D, Walker S, Papayannopoulos V, Suga H, Christophorou MA, Walport LJ
  • Nature Communications
  • doi: 10.1038/s41467-024-53554-1
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• Force-transducing molecular ensembles at growing microtubule tips control mitotic spindle size.
  • Chu L-Y, Stedman D, Gannon J, Cox S, Pobegalov G, Molodtsov MI
  • Nature Communications
  • doi: 10.1038/s41467-024-54123-2
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• Human VCP mutant ALS/FTD microglia display immune and lysosomal phenotypes independently of GPNMB.
  • Clarke BE, Ziff OJ, Tyzack G, Petrić Howe M, Wang Y, Klein P, Smith CA, Hall CA, Helmy A, Howell M, Kelly G, Patani R
  • Molecular Neurodegeneration
  • doi: 10.1186/s13024-024-00773-1
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• Spatial multiplex analysis of lung cancer reveals that regulatory T cells attenuate KRAS-G12C inhibitor-induced immune responses.
  • Cole M, Anastasiou P, Lee C, Yu X, De Castro A, Roelink J, Moore C, Mugarza E, Jones M, Valand K, Rana S, Colliver E, Angelova M, Enfield KSS, Magness A, Mullokandov A, Kelly G, de Gruijl TD, Molina-Arcas M, Swanton C, Downward J, van Maldegem F
  • Science Advances
  • doi: 10.1126/sciadv.adl6464
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• Deep proteomic analysis of microglia reveals fundamental biological differences between model systems.
  • Lloyd AF, Martinez-Muriana A, Davis E, Daniels MJD, Hou P, Mancuso R, Brenes AJ, Sinclair LV, Geric I, Snellinx A, Craessaerts K, Theys T, Fiers M, De Strooper B, Howden AJM
  • Cell Reports
  • doi: 10.1016/j.celrep.2024.114908
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• The evolution of complex multicellularity in land plants.
  • Madhani H, Nejad Kourki A
  • Genes
  • doi: 10.3390/genes15111472
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• Implanted cortical neuroprosthetics for speech and movement restoration.
  • Muirhead WR, Layard Horsfall H, Aicardi C, Carolan J, Akram H, Vanhoestenberghe A, Schaefer AT, Marcus HJ
  • Journal of Neurology
  • doi: 10.1007/s00415-024-12604-w
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• An integrative characterization of proline cis and trans conformers in a disordered peptide
  • Pettitt AJ, Shukla VK, Figueiredo AM, Newton LS, McCarthy S, Tabor AB, Heller GT, Lorenz CD, Hansen DF
  • Biophysical Journal
  • doi: 10.1016/j.bpj.2024.09.028
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• How do mammals convert dynamic odor information into neural maps for landscape navigation?
  • Sunil A, Pedroncini O, Schaefer AT, Ackels T
  • PLoS Biology
  • doi: 10.1371/journal.pbio.3002908
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Preprints November 2024

• The ALS- and FTD-associated proteins Annexin A11 and CHMP2B act sequentially in membrane repair
  • Heffner CM, Starling GP, Isaacs AM, Carlton JG
  • doi: 10.1101/2024.11.19.624330

• The mechanism of checkpoint-dependent DNA replication fork stabilization in human cells
  • Bertolin AP, Canal B, Yekezare M, Zeng J, Instrell R, Howell M, Diffley JFX
  • doi: 10.1101/2024.11.01.621514

• DNA replication fork stabilization and restart mechanisms revealed by biochemical reconstitution
  • Canal B, Bertolin AP, Lee GC, Minamino M, Diffley JFX
  • doi: 10.1101/2024.11.01.621508

• Replisome passage through the cohesin ring
  • Glaser S, Molodtsov MI, Diffley JFX, Uhlmann F
  • doi: 10.1101/2024.10.30.621121

• Deep learning assisted proton pure shift NMR spectroscopy
  • Kakita VMR, Hansen DF
  • doi: 10.26434/chemrxiv-2024-ln3pk-v2

• Progressive chromosome shape changes during cell divisions, recapitulated by loop capture simulations
  • Kakui Y, Kusano Y, Clarence T, Lopez M, Hirota T, Khatri BS, Uhlmann F
  • doi: 10.1101/2024.11.19.623756

• Integration of hunger and hormonal state gates infant-directed aggression
  • Cao M, Ammari R, Chen MX, Wai P, Sahni A, Liang S, Legrave N, MacRae J, Strom M, Kohl J
  • doi: 10.1101/2024.11.25.625278

• Metabolic and neuroactivity imbalances in plasma from aniridia patients with PAX6 haploinsufficiency
  • Cunha DL, Kit V, Skinner J, Welch AA, Moosajee M
  • doi: 10.1101/2024.11.07.622475

• RNA editing is a molecular clock in unmodified human cells
  • Ghareeb AE, Bayne J, Wagen AZ, Abdelhafid AM, Miller D, Cubitt L, Meran L, Hill C, Cribbs AP, Ryten M, Gandhi S, Gaffney E, Coles M, Young G, Rodriques SG
  • doi: 10.1101/2024.11.18.624170

• Targeted CRISPR screens reveal genes essential for Cryptosporidium survival in the host intestine
  • Watson LC, Sala KA, Bernitz N, Baumgärtel L, Pallett MA, Marzook NB, Straker LC, Peng D, Collinson L, Sateriale A
  • doi: 10.1101/2024.11.22.624643

• Generation of morphologically distinct astrocyte subtypes from human iPSCs reveals a link between glial shape, function and reactivity
  • O'Toole K, Guetta L, Urbanaviciute P, Suklai P, Wright C, Fisher T, Liddelow S, Luisier R, Marzi SJ, Serio A
  • doi: 10.1101/2024.11.11.622998

• PDZ-directed substrate recruitment is the primary determinant of specific 4E-BP1 dephosphorylation by PP1-Neurabin
  • Fedoryshchak RO, El-Bouri K, Joshi D, Mouilleron S, Treisman R
  • doi: 10.7554/elife.103403

• Sex chromosomes shape the transcriptional landscape of the preimplantation mouse embryo
  • Snell DM, Varsally W, Courtois A, Menchero S, Munusamy P, Rietdijk R, Ojarikre OA, Strohbuecker S, Kaya H, Sangrithi MN, Turner JMA
  • doi: 10.1101/2024.11.26.625424

• From naïve pluripotency to human neural organoids through a three-dimensional morphogenetic continuum
  • Laterza C, Cesare E, Stuart HT, D’Ercole M, Gesualdo A, La Barbera MG, Brignani S, Ribecco C, Polli R, Frison R, Angiolillo S, Maset A, Gagliano O, Cacchiarelli D, Briscoe J, Tanaka EM, Murgia A, Elvassore N
  • doi: 10.1101/2024.11.14.623407