Ribosome profiling reveals the translational landscape and allele-specific translational efficiency in rice

XT Zhu, R Zhou, J Che, YY Zheng, MT ul Qamar… - Plant …, 2023 - cell.com
Translational regulation is a critical step in the process of gene expression and governs the
synthesis of proteins from mRNAs. Many studies have revealed translational regulation in …

Analysis of ribosome-associated mRNAs in rice reveals the importance of transcript size and GC content in translation

D Zhao, JP Hamilton, M Hardigan, D Yin… - G3: Genes …, 2017 - academic.oup.com
Gene expression is controlled at transcriptional and post-transcriptional levels including
decoding of messenger RNA (mRNA) into polypeptides via ribosome-mediated translation …

Identifying RNA modifications by direct RNA sequencing reveals complexity of epitranscriptomic dynamics in rice

F Yu, H Qi, L Gao, S Luo… - Genomics …, 2023 - academic.oup.com
Transcriptome analysis based on high-throughput sequencing of a cDNA library has been
widely applied to functional genomic studies. However, the cDNA dependence of most RNA …

The tomato translational landscape revealed by transcriptome assembly and ribosome profiling

HYL Wu, G Song, JW Walley, PY Hsu - Plant Physiology, 2019 - academic.oup.com
Recent applications of translational control in Arabidopsis (Arabidopsis thaliana) highlight
the potential power of manipulating mRNA translation for crop improvement. However, to …

Comparative ribosome profiling reveals distinct translational landscapes of salt-sensitive and-tolerant rice

X Yang, B Song, J Cui, L Wang, S Wang, L Luo, L Gao… - BMC genomics, 2021 - Springer
Background Soil salinization represents a serious threat to global rice production. Although
significant research has been conducted to understand salt stress at the genomic …

Ribosome profiling in plants: what is not lost in translation?

U Kage, JJ Powell, DM Gardiner… - Journal of Experimental …, 2020 - academic.oup.com
Translation is a highly dynamic cellular process whereby genetic information residing in an
mRNA molecule is converted into a protein that in turn executes specific functions. However …

Full-length transcript-based proteogenomics of rice improves its genome and proteome annotation

MX Chen, FY Zhu, B Gao, KL Ma, Y Zhang… - Plant …, 2020 - academic.oup.com
Rice (Oryza sativa) molecular breeding has gained considerable attention in recent years,
but inaccurate genome annotation hampers its progress and functional studies of the rice …

What, where, and how: regulation of translation and the translational landscape in plants

HYL Wu, J Jen, PY Hsu - The Plant Cell, 2024 - academic.oup.com
Translation is a crucial step in gene expression and plays a vital role in regulating various
aspects of plant development and environmental responses. It is a dynamic and complex …

High resolution RNA‐seq profiling of genes encoding ribosomal proteins across different organs and developmental stages in Arabidopsis thaliana

W Xiong, J Zhang, T Lan, W Kong, X Wang, L Liu… - Plant …, 2021 - Wiley Online Library
In Arabidopsis thaliana, each ribosomal protein (RP) is encoded by a small gene family
consisting of two or more highly homologous paralogues, which results in ribosome …

Characterization of the transcriptional divergence between the subspecies of cultivated rice (Oryza sativa)

MT Campbell, Q Du, K Liu, S Sharma, C Zhang… - BMC genomics, 2020 - Springer
Background Cultivated rice consists of two subspecies, Indica and Japonica, that exhibit well-
characterized differences at the morphological and genetic levels. However, the differences …