Explanipedia

Validating the utility of <span>APEX2</span> for protein localization at nanometre resolution in plant cells Open

Jilei Huang, Wanxian He, Peng Xu, Man Zhang, Zhaodi Fu , et al. · 2025

Protocol for the purification of the plastid-encoded RNA polymerase from transplastomic tobacco plants Open

Xiaoxian Wu, Li Fan, Chuxia Zhu, Sun Shu-yi, Wenhui Mu , et al. · 2025

The plastid-encoded RNA polymerase (PEP) plays an essential role in the transcription of the chloroplast genome. Here, we present a strategy to purify the transcriptionally active protein complex from transplastomic tobacco (Nicotiana taba…

Transcription elongation of the plant RNA polymerase IV is prone to backtracking Open

Chengli Fang, Kun Huang, Xiaoxian Wu, Hongwei Zhang, Zhanxi Gu , et al. · 2024

RNA polymerase IV (Pol IV) forms a complex with RNA-directed RNA polymerase 2 (RDR2) to produce double-stranded RNA (dsRNA) precursors essential for plant gene silencing. In the “backtracking-triggered RNA channeling” model, Pol IV backtra…

Rhabdovirus encoded glycoprotein induces and harnesses host antiviral autophagy for maintaining its compatible infection Open

Xiuqin Huang, Junkai Wang, Siping Chen, Siying Liu, Zhanbiao Li , et al. · 2023

Macroautophagy/autophagy has been recognized as a central antiviral defense mechanism in plant, which involves complex interactions between viral proteins and host factors. Rhabdoviruses are single-stranded RNA viruses, and the infection c…

A Noncoding A-to-U Kozak Site Change Related to the High Transmissibility of Alpha, Delta, and Omicron VOCs Open

Jianing Yang, Y.X. Cui, Dalang Yu, Guoqing Zhang, Ruifang Cao , et al. · 2023

Three prevalent SARS-CoV-2 variants of concern (VOCs) emerged and caused epidemic waves. It is essential to uncover advantageous mutations that cause the high transmissibility of VOCs. However, viral mutations are tightly linked, so tradit…

A cryo-EM structure of KTF1-bound polymerase V transcription elongation complex Open

Hongwei Zhang, Kun Huang, Zhanxi Gu, Xiaoxian Wu, Jiawei Wang , et al. · 2023

De novo DNA methylation in plants relies on transcription of RNA polymerase V (Pol V) along with KTF1, which produce long non-coding RNAs for recruitment and assembly of the DNA methylation machinery. Here, we report a cryo-EM structure of…

A cryo-EM structure of KTF1-bound polymerase V transcription elongation complex Open

Hongwei Zhang, Kun Huang, Zhanxi Gu, Xiaoxian Wu, Jiawei Wang , et al. · 2023

De novo DNA methylation in plants relies on transcription elongation of RNA polymerase V (Pol V) along with KTF1 and SPT4, which produces long non-coding RNAs for recruitment and assembly of DNA methylation machinery. Here, we report a cry…

An SI3-σ arch stabilizes cyanobacteria transcription initiation complex Open

Liqiang Shen, Giorgio Lai, Linlin You, Jing Shi, Xiaoxian Wu , et al. · 2023

Multisubunit RNA polymerases (RNAPs) associate with initiation factors (σ in bacteria) to start transcription. The σ factors are responsible for recognizing and unwinding promoter DNA in all bacterial RNAPs. Here, we report two cryo-EM str…

The structural mechanism for transcription activation by<i>Caulobacter crescentus</i>GcrA Open

Xiaoxian Wu, Chengzhi Yu, Wenhui Mu, Zhanxi Gu, Yu Feng , et al. · 2023

Canonical bacterial transcription activators bind to their cognate cis elements at the upstream of transcription start site (TSS) in a form of dimer. Caulobacter crescentus GcrA, a non-canonical transcription activator, can activate transc…

Structural basis for intrinsic transcription termination Open

Linlin You, Expery O. Omollo, Chengzhi Yu, Rachel A. Mooney, Jing Shi , et al. · 2023

A SI3-σ arch stabilizes cyanobacteria transcription initiation complex Open

Liqiang Shen, Giorgio Lai, Linlin You, Jing Shi, Xiaoxian Wu , et al. · 2022

SUMMARY Multi-subunit RNA polymerases (RNAPs) associate with initiation factors (σ in bacteria) to start transcription. The σ factors are responsible for recognizing and unwinding promoter DNA in all bacterial RNAPs. Here, we report two cr…

Structural basis for intrinsic transcription termination Open

Linlin You, Expery O. Omollo, Chengzhi Yu, Rachel A. Mooney, Jing Shi , et al. · 2022

Efficient and accurate termination is required for gene transcription in all living organisms. Cellular RNA polymerases (RNAP) in both bacteria and eukaryotes can terminate their transcription through a factor-independent termination pathw…

Pseudomonas aeruginosa SutA wedges RNAP lobe domain open to facilitate promoter DNA unwinding Open

Dingwei He, Linlin You, Xiaoxian Wu, Jing Shi, Aijia Wen , et al. · 2022

Comparative Proteomic Analysis of Two Divergent Lingzhi Strains Provides Insights into Thermotolerance Mechanisms Open

Manjun Cai, Xiaoxian Wu, Xiaowei Liang, Huiping Hu, Yuanchao Liu , et al. · 2022

A non-coding A-to-T Kozak site change related to the transmissibility of Alpha, Delta and Omicron VOCs Open

Jianing Yang, Guoqing Zhang, Dalang Yu, Ruifang Cao, Xiaoxian Wu , et al. · 2021

Three prevalent SARS-CoV-2 Variants of Concern (VOCs) were emerged and caused epidemic waves. It is essential to uncover the key genetic changes that cause the high transmissibility of VOCs. However, different viral mutations are generally…

The bacterial multidrug resistance regulator BmrR distorts promoter DNA to activate transcription Open

Chengli Fang, Linyu Li, Yihan Zhao, Xiaoxian Wu, Steven J. Philips , et al. · 2020

CueR activates transcription through a DNA distortion mechanism Open

Chengli Fang, Steven J. Philips, Xiaoxian Wu, Kui Chen, Jing Shi , et al. · 2020

Crystal structures and biochemical analyses of the bacterial arginine dihydrolase ArgZ suggests a “bond rotation” catalytic mechanism Open

Ningning Zhuang, Hao Zhang, Lingting Li, Xiaoxian Wu, Chen Yang , et al. · 2019

Structural insights into the unique mechanism of transcription activation by Caulobacter crescentus GcrA Open

Xiaoxian Wu, Diane L. Haakonsen, Allen G. Sanderlin, Yue J. Liu, Liqiang Shen , et al. · 2018

Canonical bacterial transcription activators bind to non-transcribed promoter elements to increase transcription of their target genes. Here we report crystal structures of binary complexes comprising domains of Caulobacter crescentus GcrA…

Directional Selection from Host Plants Is a Major Force Driving Host Specificity in Magnaporthe Species Open

Zhenhui Zhong, Justice Norvienyeku, Meilian Chen, Jiandong Bao, Lian‐Yu Lin , et al. · 2016

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