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作者：Chen, Baoyu; Burstein, Ezra; Billadeau, Daniel D.
作者单位：University of Texas System; University of Texas Southwestern Medical Center; University of Texas System; University of Texas Southwestern Medical Center; University of Texas System; University of Texas Southwestern Medical Center; Mayo Clinic
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作者：Scherer, Justin; Hinczewski, Michael; Nelms, Brad
作者单位：University System of Georgia; University of Georgia; University System of Georgia; University of Georgia; University System of Ohio; Case Western Reserve University; University System of Georgia; University of Georgia
摘要：Cells accumulate mutations throughout development, contributing to cancer, aging, and evolution. Quantitative data on the abundance of de novo mutations within plants or animals are limited, as new mutations are often rare within a tissue and fall below the limits of current sequencing depths and error rates. Here, we show that mutations induced by the maize Mutator (Mu) transposon can be reliably quantified down to a detection limit of 1 part in 16,000. We measured the abundance of millions o...
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作者：Bawa, Kamaljit S.; Tiwari, Namratha; Shivaprakash, K. Nagaraju
作者单位：University of Massachusetts System; University of Massachusetts Boston; Nature Conservancy
摘要：Different types of genomic conflicts are possible in plants with multiovulate ovaries that produce multiseeded fruits: between the maternal plant and its offspring, among developing seeds, between paternal and maternal genomes over seed development, and among paternal parents if different parents sire seeds within an ovary.We tested the hypothesis that such conflicts in multiseeded fruits can be reduced if seeds are sired by a single pollen parent. We conducted a meta-analysis of paternity in ...
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作者：Amdeberhan, Tewodros; Griffin, Michael J.; Ono, Ken
作者单位：Tulane University; Vanderbilt University; University of Virginia
摘要：We revisit and elucidate the A-genus, Hirzebruch's L-genus, and Witten's W-genus, cobordism invariants of special classes of manifolds. After slight modification, involving Hecke's trick, we find that the A-genus and L-genus arise directly from Jacobi's theta function. For every k >= 0, we obtain exact formulas for the quasimodular expressions of A(k) and L-k as traces of partition Eisenstein series A(K)(tau ) = Tr-k(Phi(A):tau) and L-k(tau) = Tr-k (Phi(L):tau) which are easily converted to th...
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作者：Barr, Keaton; He, Kevin L.; Krumbein, Andreas J.; Chanfreau, Guillaume F.
作者单位：University of California System; University of California Los Angeles; University of California System; University of California Los Angeles
摘要：Splicing of terminal introns is coupled to 3 '-end processing by cleavage and polyadenylation (CPA) in mammalian genes. Whether this functional coupling is universally conserved across eukaryotes is unclear. Here, we show using long read RNA sequencing in Saccharomyces cerevisiae that splicing inactivation does not result in widespread CPA impairment, and that inactivation of CPA has limited impact on splicing efficiency. The negative impact of CPA inactivation on splicing is mainly due to tra...
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作者：Lyu, Leke; Gill, Mandev; Stott, Guppy; Subedi, Sachin; Dailey, Cody; Veytsel, Gabriella; Alabady, Magdy; Fujimoto, Kayo; Penn, Ryker; Brown, Pamela; Sealy, Roger; Bahl, Justin
作者单位：University System of Georgia; University of Georgia; University System of Georgia; University of Georgia; University System of Georgia; University of Georgia; University System of Georgia; University of Georgia; University System of Georgia; University of Georgia; University System of Georgia; University of Georgia; University of Texas System; University of Texas Health Science Center Houston
摘要：A quantitative understanding of local transmission dynamics is essential for designing effective prevention strategies. In this study, we developed a computational workflow to identify viral introductions and trace locally circulating clusters. We analyzed over 26,000 SARS-CoV-2 genomes and their associated metadata, collected between January and October 2021, to explore introduction and local dispersal patterns in Greater Houston, a major metropolitan area known for its demographic diversity....
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作者：Mahmoodifar, Saeedeh; Stuckey, Kristina; Newton, Paul K.
作者单位：University of Southern California; University of Southern California; University of Southern California; University of Southern California; University of Southern California
摘要：We introduce a mathematical model of the cancer-immunity cycle and use it to test several hypotheses regarding the combination, timing, and optimization associated with chemotherapy and immunotherapy dosing schedules in the context of competition and time-dependent selection pressure. A key idea is the value of synchronizing the dosing schedules with the fundamental period of the cancer-immunity cycle. The competitors in the population dynamics evolutionary game are the cancer cells, healthy (...
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作者：Pai, Victor J.; Shan, Huanqi; Donaldson, Cynthia J.; Vaughan, Joan M.; De Souza, Eduardo V.; O'Connor, Carolyn; Liem, Michelle; Pinto, Antonio F. M.; Diedrich, Jolene; Saghatelian, Alan
作者单位：Salk Institute; Salk Institute; Scripps Research Institute
摘要：Small open reading frames (smORFs) encode microproteins that play crucial roles in various biological processes, yet their functions in adipocyte biology remain largely unexplored. In a previous study, we identified thousands of smORFs in white and brown adipocytes derived from the stromal vascular fraction of mice using ribosome profiling. Here, we expand on this work by identifying additional smORFs related to adipocytes using the in vitro 3T3-L1 preadipocyte model. To systematically investi...
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作者：Riolo, Riccardo; Tomadin, Andrea; Mazza, Giacomo; Asgari, Reza; Macdonald, Allan H.; Polini, Marco
作者单位：University of Pisa; Zhejiang Normal University; Institute for Research in Fundamental Sciences IPM; University of Texas System; University of Texas Austin; Barcelona Institute of Science & Technology; Universitat Politecnica de Catalunya; Institut de Ciencies Fotoniques (ICFO)
摘要：The question of whether or not passive subwavelength cavities can alter the properties of quantum materials is currently attracting a great deal of attention. In this article, we show that the Fermi liquid parameters of a two-dimensional metal are modified by cavity polariton modes, and that these changes can be monitored by measuring a paradigmatic magneto-transport phenomenon, Shubnikov-de Haas oscillations in a weak perpendicular magnetic field. This effect is intrinsic, and totally unrelat...
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作者：Dahal, Pawan; Wang, Yan; Hu, Jianhong; Sharma, Kedar; Park, Jeongmoo; Forker, Karly; Zhang, Zhong -Lin; Borgnia, Mario J.; Sun, Tai-ping; Zhou, Pei
作者单位：Duke University; Duke University; National Institutes of Health (NIH) - USA; NIH National Institute of Environmental Health Sciences (NIEHS); Syngenta
摘要：The perception of the phytohormone gibberellin (GA) by its nuclear receptor GIBBERELLIN INSENSITIVE DWARF1 (GID1) triggers polyubiquitination and proteasomal degradation of master growth regulators-DELLA proteins-mediated by the SCFSLY1/GID2 E3 ubiquitin ligase complex. DELLA-encoding genes are known as 'Green Revolution' genes, as their dominant mutations lead to semidwarf cereal varieties with significantly higher yields due to reduced GA response. DELLAs function as central signaling hubs, ...
