Author
X. Shi
Primary ORCID profile (0009-0007-0716-7494 · 1 paper)Unclaimed ORCID profile · follow to get notified of new preprints
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Biology Disciplines
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2017-2023 · peak 17/yrCo-Author Collaboration Network
10 top collaborators · 23 mutual co-author links76 papers
Recent·Most cited
- BiochemistrybioRxivPreprintDOI 10.1101/2021.11.09.467989
- Plant BiologybioRxivPreprint
SCARECROW maintains the stem cell niche in Arabidopsis root by ensuring telomere integrity
B. Wang, X. Shi, J. Gao…·H. Cui
This study identifies SCARECROW's role in maintaining telomere integrity and genome stability in Arabidopsis root stem cells through regulation of TEN1 and related factors.
DOI 10.1101/2021.10.25.465752 - Cell BiologybioRxivPreprint
Combinatorial G x G x E CRISPR screening and functional analysis highlights SLC25A39 in mitochondrial GSH transport
X. Shi, B. Reinstadler, H. Shah…·H. Shen
The paper uses CRISPR screening to identify gene-by-gene and gene-by-environment interactions among mitochondrial transporters, revealing SLC25A39's role in mitochondrial glutathione transport.
DOI 10.1101/2021.09.22.461361 - BiochemistrybioRxiv
A broad-specificity O-glycoprotease that enables improved analysis of glycoproteins and glycopeptides containing intact complex O-glycans
S. Vainauskas, H. Guntz, E. McLeod…·C. H. Taron
This paper introduces IMPa, a broad-specificity O-glycoprotease that efficiently cleaves glycoproteins with sialylated and asialylated O-glycans, enabling improved O-glycoproteomics analysis.
DOI 10.1021/acs.analchem.1c04055 - MicrobiologybioRxiv
Comparative genomic and pan-genomic characteristion of Staphylococcus epidermidis from different sources unveils the molecular basis and potential biomarkers of pathogenic strains
S. Lin, B. Sun, X. Shi…·M. Zheng
This study sequenced and analyzed 11 ocular trauma-sourced S. epidermidis genomes, identifying 10 potential biomarkers and revealing pathogenic strains may be independent of biofilm formation.
DOI 10.3389/fmicb.2021.770191 - Cell BiologybioRxiv
Oxidative phosphorylation safeguards pluripotency via UDP-N-acetylglucosamine
J. Cao, M. Li, K. Liu…·T. Zhao
This paper shows that oxidative phosphorylation (OXPHOS) generates most ATP in mouse ESCs and is essential for pluripotency by coupling with the hexosamine biosynthesis pathway to produce UDP-GlcNAc.
DOI 10.1093/procel/pwac009 - BioengineeringJournal of Cell BiologyPeer-reviewed
Label-retention expansion microscopy
X. Shi, Q. Li, Z. Dai…·B. Huang
This paper introduces label-retention expansion microscopy (LR-ExM) to prevent fluorescence signal loss and enable high-efficiency labeling, achieving molecular resolution in visualizing clathrin-coated pits.
DOI 10.1083/jcb.202105067 - BiophysicsbioRxivPreprint
Cell Surface Multimeric Assemblies Regulate Canonical and Noncanonical EphA2 Receptor Tyrosine Kinase Signaling
X. Shi, R. Lingerak, C. Herting…·B. Wang
This study identifies molecular interfaces that mediate EphA2 receptor assembly and distinguishes between canonical and noncanonical signaling pathways.
DOI 10.1101/2021.04.11.439330 - ImmunologybioRxivPreprint
SARS-CoV-2 variants resist antibody neutralization and broaden host ACE2 usage
R. Wang, Q. Zhang, J. Ge…·L. Zhang
This study evaluates antibody resistance and ACE2 usage in SARS-CoV-2 variants, finding SA501Y.V2 shows the highest resistance and expanded host range.
DOI 10.1101/2021.03.09.434497 - Cell BiologybioRxiv
A ciliopathy complex builds distal appendages to initiate ciliogenesis
D. Kumar, A. Rains, V. Herranz-Perez…·J. Reiter
The paper identifies the DISCO complex, essential for ciliogenesis, and shows its role in distal appendage formation and centriole length regulation, linking defects to human ciliopathies.
- BiochemistrybioRxiv
Reconstitution of cargo-induced LC3 lipidation in mammalian selective autophagy
C. Chang, X. Shi, L. Jensen…·J. H. Hurley
This study investigates how different cargo receptors stimulate LC3 lipidation in selective autophagy using GUVs and shows varying requirements for autophagy core complexes.
DOI 10.1126/sciadv.abg4922 - MicrobiologybioRxivPreprint
Potent SARS-CoV-2 neutralizing antibodies selected from a human antibody library constructed decades ago
M. Qiang, P. Ma, Y. Li…·R. A. Lerner
The paper identifies potent SARS-CoV-2 neutralizing antibodies from a pre-pandemic human antibody library, showing high somatic hypermutation and specific binding to the spike protein.
DOI 10.1101/2020.11.06.370676 - BiophysicsbioRxiv
Synergy and allostery in ligand binding by HIV-1 Nef
A. Aldehaiman, A. A. Momin, A. Restouin…·S. T. Arold
This study investigates how HIV-1 Nef's flexible regions interact with its core domain to influence SH3 domain selectivity and identifies few human proteins with similar binding properties.
DOI 10.1042/bcj20201002 - MicrobiologyScience AdvancesPeer-reviewed
A quasi-paired cohort strategy reveals the impaired detoxifying function of microbes in the gut of autistic children
M. Zhang, Y. Chu, Q. Meng…·J. Wang
This study identifies impaired microbial detoxification in autistic children using a quasi-paired cohort strategy, linking it to mitochondrial damage and potential therapeutic strategies.
DOI 10.1126/sciadv.aba3760 - MicrobiologybioRxiv
Cerebrospinal fluids from healthy pregnant women does not harbor a detectable microbial community
Y. Kang, X. Ji, L. Guo…·G. Zhao
This study analyzes cerebrospinal fluid from healthy pregnant women and finds no evidence of a detectable microbial community after accounting for contamination.
DOI 10.1128/spectrum.00769-21 - MicrobiologybioRxivPreprint
Soluble corn fiber reduces ovalbumin-induced sinonasal inflammation via the gut microbiota-airway axis
S. A. Jaramillo, E. M. Borsom, G. M. Orsini…·E. K. Cope
This study shows soluble corn fiber reduces ovalbumin-induced sinonasal inflammation in mice, but this effect is lost in mice on a western diet due to microbiota changes.
DOI 10.1101/2020.07.23.216754 - PhysiologybioRxiv
NAD+ Redox Imbalance in the Heart Exacerbates Diabetic Cardiomyopathy
Y. A. Chiao, A. Chakraborty, C. Light…·C. F. Lee
This study shows that NAD+ redox imbalance worsens diabetic cardiomyopathy by impairing cardiomyocyte function and suggests NAMPT as a therapeutic target.
DOI 10.1161/circheartfailure.120.008170 - BiophysicsbioRxiv
In situ structure of the AcrAB-TolC efflux pump at subnanometer resolution
M. Chen, X. Shi, Z. Yu…·Z. Wang
The paper uses cryo-ET to determine the 7 Å structure of the AcrAB-TolC efflux pump in Escherichia coli, revealing its activation mechanism through interprotein interactions.
DOI 10.1016/j.str.2021.08.008 - BiochemistrybioRxiv
The autophagy adaptor NDP52 and the FIP200 coiled-coil allosterically activate ULK1 complex membrane recruitment
X. Shi, C. Chang, A. L. Yokom, J. H. Hurley
This study shows NDP52 allosterically activates ULK1 complex membrane recruitment via FIP200 coiled-coil conformational changes, essential for xenophagy and mitophagy.
DOI 10.7554/elife.59099 - Cancer BiologybioRxiv
Kinase-mediated RAS signaling via membraneless cytoplasmic protein granules
A. Tulpule, J. Guan, D. S. Neel…·T. G. Bivona
This study identifies membraneless protein granules formed by RTK oncoproteins that activate RAS/MAPK signaling independently of lipid membranes in cancer.
DOI 10.1016/j.cell.2021.03.031 - ImmunologybioRxiv
Potent human neutralizing antibodies elicited by SARS-CoV-2 infection
B. Ju, Q. Zhang, X. Ge…·L. Zhang
This study isolates and characterizes 206 RBD-specific monoclonal antibodies from SARS-CoV-2 infected individuals, finding diverse neutralizing activity and species-specific antibody responses.
DOI 10.1038/s41586-020-2380-z - BiochemistrybioRxiv
ULK complex organization in autophagy by a C-shaped FIP200 N-terminal domain dimer
X. Shi, A. L. Yokom, C. Wang…·J. H. Hurley
The paper identifies the C-shaped dimeric structure of FIP200's N-terminal domain and its role in organizing the ULK complex by directly binding ATG13.
DOI 10.1083/jcb.201911047 - BiophysicsbioRxiv
Crystal structure of the 2019-nCoV spike receptor-binding domain bound with the ACE2 receptor
The paper determines the crystal structure of the 2019-nCoV spike RBD bound to ACE2, revealing structural similarities to SARS-CoV and insights into antibody epitopes.
DOI 10.1038/s41586-020-2180-5 - ImmunologybioRxiv
Seneca Valley virus intercellular transmission mediated by exosomes
K. Zhang, G. Xu, S. Xu…·H. Zheng
This study shows that exosomes from SVV-infected cells can carry and transmit SVV between susceptible and non-susceptible cells, and this transmission is resistant to neutralizing antibodies.
DOI 10.1186/s13567-020-00827-4 - Cancer BiologybioRxiv
EWS-FLI1 regulates and cooperates with core regulatory circuitry in Ewing sarcoma
X. Shi, Y. Zheng, L. Jiang…·H. P. Koeffler
This study identifies and validates a core regulatory circuitry trio in Ewing sarcoma, showing how EWS-FLI1 and CRC factors regulate transcription and epigenome, with implications for therapy.
- Cancer BiologybioRxivPreprint
Genetic characterization of stem cell-like cancer cell in the peri-tumoral regions and proliferative lymphocyte in the peripheral blood of patients with glioblastoma
R. Yang, G. Huang, J. Guo…·Y. Liu
This study identifies stem cell-like GBM cells outside the contrast-enhancing region and proliferative lymphocytes in GBM patients' blood, linking them to recurrence and immunotherapy.
- BiophysicsbioRxiv
Two forms of Opa1 cooperate to complete fusion of the mitochondrial inner-membrane
Y. Ge, X. Shi, S. Boopathy…·L. H. Chao
The paper shows that two forms of Opa1 work together to regulate mitochondrial inner-membrane fusion, with l-Opa1 enabling docking and s-Opa1 facilitating efficient pore opening.
DOI 10.7554/elife.50973