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TAGC 2020

Preprints recently presented at the virtual Allied Genetics Conference, April 22-26, 2020. #TAGC20

List by Maiko Kitaoka, Madhuja Samaddar, Miguel V. Almeida, Sejal Davla, Jennifer Ann Black, Gautam Dey

Preprints:

Polyploidy in the adult Drosophila brain

Shyama Nandakumar, Olga Grushko, Laura A. Buttitta

https://www.biorxiv.org/content/10.1101/852723v2

Dense encoding of developmental regulatory information may constrain evolvability

Timothy Fuqua, Jeff Jordan, Maria Elize van Breugel, Aliaksandr Halavatyi, Christian Tischer, Peter Polidoro, Namiko Abe, Albert Tsai, Richard S. Mann, David L. Stern, Justin Crocker

https://www.biorxiv.org/content/10.1101/2020.04.17.046052v1

Topology-driven analysis of protein-protein interaction networks detects functional genetic modules regulating reproductive capacity

Tarun Kumar, Leo Blondel, Cassandra G. Extavour

https://www.biorxiv.org/content/10.1101/852897v1

The transcription regulatory code of a maize leaf

Xiaoyu Tu, María Katherine Mejía-Guerra, Jose A. Valdes Franco, David Tzeng, Po-Yu Chu, Xiuru Dai, Pinghua Li, Edward S Buckler, Silin Zhong

https://www.biorxiv.org/content/10.1101/2020.01.07.898056v2

longfin causes cis-ectopic expression of the kcnh2a ether-a-go-go K+ channel to autonomously prolong fin outgrowth

Scott Stewart, Heather K. Le Bleu, Gabriel A. Yette, Astra L. Henner, Joshua A. Braunstein, Kryn Stankunas

https://www.biorxiv.org/content/10.1101/790329v1

Skeletal geometry and niche transitions restore organ size and shape during zebrafish fin regeneration

Scott Stewart, Gabriel A. Yette, Heather K. Le Bleu, Astra L. Henner, Joshua A. Braunstein, Jad W. Chehab, Michael J. Harms, Kryn Stankunas

https://www.biorxiv.org/content/10.1101/606970v3

Hmx3a does not require its homeodomain for its essential functions in spinal cord, ear and lateral line development

Samantha J. England, Gustavo A. Cerda, Angelica Kowalchuk, Taylor Sorice, Ginny Grieb, Katharine E. Lewis

https://www.biorxiv.org/content/10.1101/2020.01.23.917468v2.full

Visualizing the metazoan proliferation-differentiation decision in vivo

Abraham Q. Kohrman, Rebecca C. Adikes, Jayson J. Smith, Michael A. Q. Martinez, Taylor N. Medwig-Kinney, Nicholas J. Palmisano, Maria D. Sallee, Ononnah B. Ahmed, Nicholas Weeks, Nuri Kim, Simeiyun Liu, Wan Zhang, Ariel M. Pani, David Q. Matus

https://www.biorxiv.org/content/10.1101/2019.12.18.881888v1

Stem cell differentiation trajectories in Hydra resolved at single-cell resolution

Stefan Siebert, Jeffrey A. Farrell, Jack F. Cazet, Yashodara L. Abeykoon, Abby S. Primack, Christine E. Schnitzler, Celina E. Juliano

https://www.biorxiv.org/content/10.1101/460154v1

Emergence of neuronal diversity during vertebrate brain development

Bushra Raj, Jeffrey A. Farrell, Aaron McKenna, Jessica L. Leslie, Alexander F. Schier

https://www.biorxiv.org/content/10.1101/839860v1

The Vertebrate Codex Gene Breaking Protein Trap Library For Genomic Discovery and Disease Modeling Applications

Noriko Ichino, MaKayla Serres, Rhianna Urban, Mark Urban, Kyle Schaefbauer, Lauren Greif, Gaurav K. Varshney, Kimberly J. Skuster, Melissa McNulty, Camden Daby, Ying Wang, Hsin-kai Liao, Suzan El-Rass, Yonghe Ding, Weibin Liu, Lisa A. Schimmenti, Sridhar Sivasubbu, Darius Balciunas, Matthias Hammerschmidt, Steven A. Farber, Xiao-Yan Wen, Xiaolei Xu, Maura McGrail, Jeffrey J. Essner, Shawn Burgess, Karl J. Clark, Stephen C. Ekker

https://www.biorxiv.org/content/10.1101/630236v1

GCNA interacts with Spartan and Topoisomerase II to regulate genome stability

Gregory M. Davis, Gregoriy A. Dokshin, Ashley D. Sawle, Matthew D. Eldridge, Katherine A. Romer, Taylin E. Gourley, Luke W. Molesworth, Hannah R. Tatnell, Ahmet R. Ozturk, Dirk G. de Rooij, Gregory J. Hannon, David C. Page, Craig C. Mello, Michelle A. Carmell

https://www.biorxiv.org/content/10.1101/570200v1

mRNA localization is linked to translation regulation in the Caenorhabditis elegans germ lineage

Dylan M. Parker, Lindsay P. Winkenbach, Samuel P. Boyson, Matthew N. Saxton, Camryn Daidone, Zainab A. Al-Mazaydeh, Marc T. Nishimura, Florian Mueller, Erin Osborne Nishimura

https://www.biorxiv.org/content/10.1101/2020.01.09.900498v1

A developmental gene regulatory network for invasive differentiation of the C. elegans anchor cell

Taylor N. Medwig-Kinney, Jayson J. Smith, Nicholas J. Palmisano, Sujata Tank, Wan Zhang, David Q. Matus

https://www.biorxiv.org/content/10.1101/691337v3

Dose-dependent functions of SWI/SNF BAF in permitting and inhibiting cell proliferation in vivo

Aniek van der Vaart, Molly Godfrey, Vincent Portegijs, Sander van den Heuvel

https://www.biorxiv.org/content/10.1101/636720v1

CeMbio - The C. elegans microbiome resource

Philipp Dirksen, Adrien Assié, Johannes Zimmermann, Fan Zhang, Adina-Malin Tietje, Sarah Arnaud Marsh, Marie-Anne Félix, Michael Shapira, Christoph Kaleta, Hinrich Schulenburg, Buck S. Samuel

https://www.biorxiv.org/content/10.1101/2020.04.22.055426v1

Regenerative capacity in Drosophila imaginal discs is controlled by damage-responsive, maturity-silenced enhancers

Robin E. Harris, Michael J. Stinchfield, Spencer L. Nystrom, Daniel J. McKay, Iswar K. Hariharan

https://www.biorxiv.org/content/10.1101/820605v2

Delineation of the SUMO-Modified Proteome Reveals Regulatory Functions Throughout Meiosis

Nikhil R Bhagwat, Shannon Owens, Masaru Ito, Jay Boinapalli, Philip Poa, Alexander Ditzel, Srujan Kopparapu, Meghan Mahalawat, Owen R Davies, Sean R Collins, Jeffrey Johnson, Nevan J Krogan, Neil Hunter

https://www.biorxiv.org/content/10.1101/828442v1

Shadow enhancers suppress input transcription factor noise through distinct regulatory logic

Rachel Waymack, Alvaro Fletcher, German Enciso, Zeba Wunderlich

https://www.biorxiv.org/content/10.1101/778092v1

Reorganization of 3D genome structure in the Drosophila melanogaster species group

Nicole S. Torosin, Aparna Anand, Tirupathi Rao Golla, Weihuan Cao, Christopher E. Ellison

https://www.biorxiv.org/content/10.1101/2020.04.09.033753v1

Neuropeptide VF neurons promote sleep via the serotonergic raphe

Daniel A. Lee, Grigorios Oikonomou, Tasha Cammidge, Young Hong, David A. Prober

https://www.biorxiv.org/content/10.1101/2019.12.27.889402v1

ER stress sensor Ire1 deploys a divergent transcriptional program in response to lipid bilayer stress

Nurulain Ho, Haoxi Wu, Jiaming Xu, Jhee Hong Koh, Wei Sheng Yap, Wilson Wen Bin Goh, Shu Chen Chong, Stefan Taubert, Guillaume Thibault

https://www.biorxiv.org/content/10.1101/774133v1

Translational control of methionine and serine metabolic pathways underpin the paralog-specific phenotypes of Rpl22 ribosomal protein mutants in cell division and replicative longevity

Nairita Maitra, Chong He, Heidi M. Blank, Mitsuhiro Tsuchiya, Birgit Schilling, Matt Kaeberlein, Rodolfo Aramayo, Brian K. Kennedy, Michael Polymenis

https://www.biorxiv.org/content/10.1101/2020.02.05.935726v1

Unexpected variability of allelic imbalance estimates from RNA sequencing

Asia Mendelevich, Svetlana Vinogradova, Saumya Gupta, Andrey A. Mironov, Shamil Sunyaev, Alexander A. Gimelbrant

https://www.biorxiv.org/content/10.1101/2020.02.18.948323v2

Mechanism of monoallelic expression and allelic rheostat role of DNA methylation

Saumya Gupta, Denis L. Lafontaine, Sebastien Vigneau, Svetlana Vinogradova, Asia Mendelevich, Kyomi J. Igarashi, Andrew Bortvin, Clara F. Alves-Pereira, Kendell Clement, Luca Pinello, Andreas Gnirke, Henry Long, Alexander Gusev, Anwesha Nag, Alexander A. Gimelbrant

https://www.biorxiv.org/content/10.1101/2020.02.20.954834v1

Natural hybridization reveals incompatible alleles that cause melanoma in swordtail fish

Daniel L. Powell, Mateo Garcia, Mackenzie Keegan, Patrick Reilly, Kang Du, Alejandra P. Díaz-Loyo, Shreya Banerjee, Danielle Blakkan, David Reich, Peter Andolfatto, Gil Rosenthal, Manfred Schartl, Molly Schumer

https://www.biorxiv.org/content/10.1101/2019.12.12.874586v1

Learning the properties of adaptive regions with functional data analysis

Mehreen R. Mughal, Hillary Koch, Jinguo Huang, Francesca Chiaromonte, Michael DeGiorgio

https://www.biorxiv.org/content/10.1101/834010v1

Assembly of a young vertebrate Y chromosome reveals convergent signatures of sex chromosome evolution

Catherine L. Peichel, Shaugnessy R. McCann, Joseph A. Ross, Alice F. S. Naftaly, James R. Urton, Jennifer N. Cech, Jane Grimwood, Jeremy Schmutz, Richard M. Myers, David M. Kingsley, Michael A. White

https://www.biorxiv.org/content/10.1101/2019.12.12.874701v2

Model-based assessments of differential introgression and linked natural selection during divergence and speciation

Arun Sethuraman, Vitor Sousa, Jody Hey

https://www.biorxiv.org/content/10.1101/786038v1

Functional partitioning of a liquid-like organelle during assembly of axonemal dyneins

Chanjae Lee, Rachael M. Cox, Ophelia Papoulas, Amjad Horani, Kevin Drew, Caitlin C. Devitt, Steven L. Brody, Edward M. Marcotte, John B. Wallingford

https://www.biorxiv.org/content/10.1101/2020.04.21.052837v1

A systematic, label-free method for identifying RNA-associated proteins in vivo provides insights into vertebrate ciliary beating

Kevin Drew, Chanjae Lee, Rachael M. Cox, Vy Dang, Caitlin C. Devitt, Ophelia Papoulas, Ryan L. Huizar, Edward M. Marcotte, John B. Wallingford

https://www.biorxiv.org/content/10.1101/2020.02.26.966754v2

The interaction of crossover formation and the dynamic architecture of the synaptonemal complex during meiosis

Simone Köhler, Michal Wojcik, Ke Xu, Abby F. Dernburg

https://www.biorxiv.org/content/10.1101/2020.02.16.947804v1

Patched regulates lipid homeostasis by controlling cellular cholesterol levels

Carla E. Cadena del Castillo, J. Thomas Hannich, Andres Kaech, Hirohisa Chiyoda, Masamitsu Fukuyama, Nils J. Færgeman, Howard Riezman, Anne Spang

https://www.biorxiv.org/content/10.1101/816256v1

Most cancers carry a substantial deleterious load due to Hill-Robertson interference

Susanne Tilk, Christina Curtis, Dmitri A Petrov, Christopher D McFarland

https://www.biorxiv.org/content/10.1101/764340v2

Learning the properties of adaptive regions with functional data analysis

Mehreen R. Mughal, Hillary Koch, Jinguo Huang, Francesca Chiaromonte, Michael DeGiorgio

https://www.biorxiv.org/content/10.1101/834010v1

Population genetics of the coral Acropora millepora: Towards a genomic predictor of bleaching

Zachary L. Fuller, Veronique J.L. Mocellin, Luke Morris, Neal Cantin, Jihanne Shepherd, Luke Sarre, Julie Peng, Yi Liao, Joseph Pickrell, Peter Andolfatto, Mikhail Matz, Line K. Bay, Molly Przeworski

https://www.biorxiv.org/content/10.1101/867754v1

Recombination, variance in genetic relatedness, and selection against introgressed DNA

Carl Veller, Nathaniel B. Edelman, Pavitra Muralidhar, Martin A. Nowak

https://www.biorxiv.org/content/10.1101/846147v1

Extent and context dependence of pleiotropy revealed by high-throughput single-cell phenotyping

Kerry A Geiler-Samerotte, Shuang Li, Charalampos Lazaris, Austin Taylor, Naomi Ziv, Chelsea Ramjeawan, Annalise B Paaby, Mark L Siegal

https://www.biorxiv.org/content/10.1101/700716v1.full

Categories: cell biology , developmental biology , evolutionary biology , genetics , genomics , physiology

Tags: c. elegans , drosophila , flies , frogs , genetics , model organisms , worms , xenopus , yeast , zebrafish

Posted on: 1st May 2020 , updated on: 4th May 2020

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