Non-coding RNAs and their roles in stress response in plants

J Wang, X Meng, OB Dobrovolskaya… - Genomics …, 2017 - academic.oup.com
Eukaryotic genomes encode thousands of non-coding RNAs (ncRNAs), which play crucial
roles in transcriptional and post-transcriptional regulation of gene expression. Accumulating …

Experimental strategies for microRNA target identification

DW Thomson, CP Bracken, GJ Goodall - Nucleic acids research, 2011 - academic.oup.com
MicroRNAs (miRNAs) are important regulators of eukaryotic gene expression in most
biological processes. They act by guiding the RNAi-induced silencing complex (RISC) to …

miRDeepFinder: a miRNA analysis tool for deep sequencing of plant small RNAs

F Xie, P Xiao, D Chen, L Xu, B Zhang - Plant molecular biology, 2012 - Springer
Abstract miRDeepFinder is a software package developed to identify and functionally
analyze plant microRNAs (miRNAs) and their targets from small RNA datasets obtained from …

MicroRNAs as master regulators of the plant NB-LRR defense gene family via the production of phased, trans-acting siRNAs

J Zhai, DH Jeong, E De Paoli, S Park… - Genes & …, 2011 - genesdev.cshlp.org
Legumes and many nonleguminous plants enter symbiotic interactions with microbes, and it
is poorly understood how host plants respond to promote beneficial, symbiotic microbial …

MicroRNA regulation of plant innate immune receptors

F Li, D Pignatta, C Bendix… - Proceedings of the …, 2012 - National Acad Sciences
Plant genomes contain large numbers of cell surface leucine-rich repeat (LRR) and
intracellular nucleotide binding (NB)-LRR immune receptors encoded by resistance (R) …

starBase: a database for exploring microRNA–mRNA interaction maps from Argonaute CLIP-Seq and Degradome-Seq data

JH Yang, JH Li, P Shao, H Zhou, YQ Chen… - Nucleic acids …, 2011 - academic.oup.com
MicroRNAs (miRNAs) represent an important class of small non-coding RNAs (sRNAs) that
regulate gene expression by targeting messenger RNAs. However, assigning miRNAs to …

PsRobot: a web-based plant small RNA meta-analysis toolbox

HJ Wu, YK Ma, T Chen, M Wang… - Nucleic acids …, 2012 - academic.oup.com
Small RNAs (smRNAs) in plants, mainly microRNAs and small interfering RNAs, play
important roles in both transcriptional and post-transcriptional gene regulation. The broad …

PmiREN: a comprehensive encyclopedia of plant miRNAs

Z Guo, Z Kuang, Y Wang, Y Zhao, Y Tao… - Nucleic acids …, 2020 - academic.oup.com
MicroRNAs (miRNAs) are small non-coding RNA molecules that function as diverse
endogenous gene regulators at the post-transcriptional level. In the past two decades, as …

Spatiotemporally dynamic, cell-type–dependent premeiotic and meiotic phasiRNAs in maize anthers

J Zhai, H Zhang, S Arikit, K Huang… - Proceedings of the …, 2015 - National Acad Sciences
Maize anthers, the male reproductive floral organs, express two classes of phased small-
interfering RNAs (phasiRNAs). PhasiRNA precursors are transcribed by RNA polymerase II …

The genome of the seagrass Zostera marina reveals angiosperm adaptation to the sea

JL Olsen, P Rouzé, B Verhelst, YC Lin, T Bayer… - Nature, 2016 - nature.com
Seagrasses colonized the sea on at least three independent occasions to form the basis of
one of the most productive and widespread coastal ecosystems on the planet. Here we …