Genome-wide identification and characterization of long non-coding RNAs involved in flag leaf senescence of rice

The Rice SPOTTED LEAF4 (SPL4) Encodes a Plant Spastin That Inhibits ROS Accumulation in Leaf Development and Functions in Leaf Senescence

(2019) Giha Song et al.   Frontiers in Plant Science

Tomato lncRNA23468 functions as a competing endogenous RNA to modulate NBS-LRR genes by decoying miR482b in the tomato-Phytophthora infestans interaction

(2019) Ning Jiang et al.   Horticulture Research

Impaired Function of the Calcium-Dependent Protein Kinase, OsCPK12, Leads to Early Senescence in Rice (Oryza sativa L.)

(2019) Beifang Wang et al.   Frontiers in Plant Science

Overexpression of salt-induced protein (salT) delays leaf senescence in rice

(2019) Keming Zhu et al.   GENETICS AND MOLECULAR BIOLOGY

Genome-wide discovery and characterization of flower development related long non-coding RNAs in Prunus mume

(2019) Xinxin Wu et al.   BMC PLANT BIOLOGY

Data-driven multiple-level analysis of gut-microbiome-immune-joint interactions in rheumatoid arthritis

(2019) QuanQiu Wang et al.   BMC GENOMICS

Systematic identification and analysis of heat‐stress‐responsive lncRNAs, circRNAs and miRNAs with associated co‐expression and ceRNA networks in cucumber ( Cucumis sativus L.)

(2019) Xueying He et al.   PHYSIOLOGIA PLANTARUM

Qualitative analysis of N-linked glycoproteome in senescent flag leaf of rice

(2019) Xiaoping Huang et al.   PLANT GROWTH REGULATION

Rice NAC transcription factor ONAC066 functions as a positive regulator of drought and oxidative stress response

(2019) Xi Yuan et al.   BMC PLANT BIOLOGY

The long noncoding RNA T5120 regulates nitrate response and assimilation in Arabidopsis

(2019) Fei Liu et al.   NEW PHYTOLOGIST

Network analysis of noncoding RNAs in pepper provides insights into fruit ripening control

(2019) Jinhua Zuo et al.   Scientific Reports

Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

(2019) Yunyun Tian et al.   BMC PLANT BIOLOGY

Transcriptional landscape of pathogen‐responsive lnc RNA s in rice unveils the role of ALEX 1 in jasmonate pathway and disease resistance

(2019) Yang Yu et al.   PLANT BIOTECHNOLOGY JOURNAL

Ef-cd locus shortens rice maturity duration without yield penalty

(2019) Jun Fang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome‐wide analysis of coding and non‐coding RNA reveals a conserved miR164‐ NAC regulatory pathway for fruit ripening

(2019) Wen‐qiu Wang et al.   NEW PHYTOLOGIST

OsNCED5, a 9-cis-epoxycarotenoid dioxygenase gene, regulates salt and water stress tolerance and leaf senescence in rice

(2019) Yuan Huang et al.   PLANT SCIENCE

Genome-wide analysis of differentially expressed profiles of mRNAs, lncRNAs and circRNAs during Cryptosporidium baileyi infection

(2018) Guan-Jing Ren et al.   BMC GENOMICS

Identification of Gossypium hirsutum long non-coding RNAs (lncRNAs) under salt stress

(2018) Fenni Deng et al.   BMC PLANT BIOLOGY

A novel antisense long noncoding RNA,TWISTED LEAF , maintains leaf blade flattening by regulating its associated sense R2R3-MYB gene in rice

(2018) Xue Liu et al.   NEW PHYTOLOGIST

psRNATarget: a plant small RNA target analysis server (2017 release)

(2018) Xinbin Dai et al.   NUCLEIC ACIDS RESEARCH

9-cis-Epoxycarotenoid Dioxygenase 3 Regulates Plant Growth and Enhances Multi-Abiotic Stress Tolerance in Rice

(2018) Yuan Huang et al.   Frontiers in Plant Science

Rice Premature Leaf Senescence 2, Encoding a Glycosyltransferase (GT), Is Involved in Leaf Senescence

(2018) Min Wang et al.   Frontiers in Plant Science

Overexpressing lncRNA LAIR increases grain yield and regulates neighbouring gene cluster expression in rice

(2018) Ying Wang et al.   Nature Communications

Genetic Dissection of Leaf Senescence in Rice

(2017) Yujia Leng et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

The NAC Transcription Factor Gene OsY37 (ONAC011) Promotes Leaf Senescence and Accelerates Heading Time in Rice

(2017) Yousra El Mannai et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Overexpression of rice serotoninN-acetyltransferase 1 in transgenic rice plants confers resistance to cadmium and senescence and increases grain yield

(2017) Kyungjin Lee et al.   JOURNAL OF PINEAL RESEARCH

Comparative transcriptome analysis between resistant and susceptible tomato allows the identification of lncRNA16397 conferring resistance toPhytophthora infestansby co-expressing glutaredoxin

(2017) Jun Cui et al.   PLANT JOURNAL

A Rice NAC Transcription Factor Promotes Leaf Senescence via ABA Biosynthesis

(2017) Chanjuan Mao et al.   PLANT PHYSIOLOGY

Rice peroxisomal ascorbate peroxidase knockdown affects ROS signaling and triggers early leaf senescence

(2017) Carolina W. Ribeiro et al.   PLANT SCIENCE

Integration of lncRNA–miRNA–mRNA reveals novel insights into oviposition regulation in honey bees

(2017) Xiao Chen et al.   PeerJ

A long noncoding RNA involved in rice reproductive development by negatively regulating osa-miR160

(2017) Meng Wang et al.   Science Bulletin

Reliable Selection and Holistic Stability Evaluation of Reference Genes for Rice Under 22 Different Experimental Conditions

(2016) Zhaohai Wang et al.   APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY

A single cytosine deletion in theOsPLS1gene encoding vacuolar-type H+-ATPase subunit A1 leads to premature leaf senescence and seed dormancy in rice

(2016) Xi Yang et al.   JOURNAL OF EXPERIMENTAL BOTANY

Toward Systems Understanding of Leaf Senescence: An Integrated Multi-Omics Perspective on Leaf Senescence Research

(2016) Jeongsik Kim et al.   Molecular Plant

Control of Leaf Senescence by an MeOH-Jasmonates Cascade that Is Epigenetically Regulated by OsSRT1 in Rice

(2016) ChuanYing Fang et al.   Molecular Plant

Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown

(2016) Mihaela Pertea et al.   Nature Protocols

LobeFinder: a convex hull-based method for quantitative boundary analyses of lobed plant cells

(2016) Tzu-Ching Wu et al.   PLANT PHYSIOLOGY

A Conserved Role for the NAM/miR164 Developmental Module Reveals a Common Mechanism Underlying Carpel Margin Fusion in Monocarpous and Syncarpous Eurosids

(2016) Aurélie C. M. Vialette-Guiraud et al.   Frontiers in Plant Science

RNA sequencing and functional analysis implicate the regulatory role of long non-coding RNAs in tomato fruit ripening

(2015) Benzhong Zhu et al.   JOURNAL OF EXPERIMENTAL BOTANY

Melatonin delays leaf senescence and enhances salt stress tolerance in rice

(2015) Chengzhen Liang et al.   JOURNAL OF PINEAL RESEARCH

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

Discovery and annotation of long noncoding RNAs

(2015) John S Mattick et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Long noncoding RNA transcriptome of plants

(2015) Jun Liu et al.   PLANT BIOTECHNOLOGY JOURNAL

Discovery and annotation of long noncoding RNAs

(2015) John S Mattick et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Long Non-coding RNAs and Their Biological Roles in Plants

(2015) Xue Liu et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Functional inactivation of UDP-N-acetylglucosamine pyrophosphorylase 1 (UAP1) induces early leaf senescence and defence responses in rice

(2014) Zhaohai Wang et al.   JOURNAL OF EXPERIMENTAL BOTANY

Conserved miR164-targeted NAC genes negatively regulate drought resistance in rice

(2014) Yujie Fang et al.   JOURNAL OF EXPERIMENTAL BOTANY

Mutation ofOryza sativa CORONATINE INSENSITIVE 1b(OsCOI1b) delays leaf senescence

(2014) Sang-Hwa Lee et al.   Journal of Integrative Plant Biology

The evolution of lncRNA repertoires and expression patterns in tetrapods

(2014) Anamaria Necsulea et al.   NATURE

The Stay-Green Rice like (SGRL) gene regulates chlorophyll degradation in rice

(2013) Hong Rong et al.   JOURNAL OF PLANT PHYSIOLOGY

CPAT: Coding-Potential Assessment Tool using an alignment-free logistic regression model

(2013) Liguo Wang et al.   NUCLEIC ACIDS RESEARCH

Utilizing sequence intrinsic composition to classify protein-coding and long non-coding transcripts

(2013) Liang Sun et al.   NUCLEIC ACIDS RESEARCH

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

A Rice cis-Natural Antisense RNA Acts as a Translational Enhancer for Its Cognate mRNA and Contributes to Phosphate Homeostasis and Plant Fitness

(2013) M. Jabnoune et al.   PLANT CELL

Knockdown ofGDCHgene reveals reactive oxygen species-induced leaf senescence in rice

(2013) QIYING ZHOU et al.   PLANT CELL AND ENVIRONMENT

NYC4, the rice ortholog of ArabidopsisTHF1, is involved in the degradation of chlorophyll - protein complexes during leaf senescence

(2013) Hiroshi Yamatani et al.   PLANT JOURNAL

The F-Box Protein OsFBK12 Targets OsSAMS1 for Degradation and Affects Pleiotropic Phenotypes, Including Leaf Senescence, in Rice

(2013) Y. Chen et al.   PLANT PHYSIOLOGY

Modulation of ethylene responses by OsRTH1 overexpression reveals the biological significance of ethylene in rice seedling growth and development

(2012) Wei Zhang et al.   JOURNAL OF EXPERIMENTAL BOTANY

Cytokinin Activity of cis-Zeatin and Phenotypic Alterations Induced by Overexpression of Putative cis-Zeatin-O-glucosyltransferase in Rice

(2012) T. Kudo et al.   PLANT PHYSIOLOGY

Molecular Functions of Long Non-Coding RNAs in Plants

(2012) Qian-Hao Zhu et al.   Genes

A Long Noncoding RNA Controls Muscle Differentiation by Functioning as a Competing Endogenous RNA

(2011) Marcella Cesana et al.   CELL

A ceRNA Hypothesis: The Rosetta Stone of a Hidden RNA Language?

(2011) Leonardo Salmena et al.   CELL

Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses

(2011) M. N. Cabili et al.   GENES & DEVELOPMENT

Knockdown of OsPAO and OsRCCR1 cause different plant death phenotypes in rice

(2011) Yongyan Tang et al.   JOURNAL OF PLANT PHYSIOLOGY

Alkaline α-galactosidase degrades thylakoid membranes in the chloroplast during leaf senescence in rice

(2009) Ruey-Hua Lee et al.   NEW PHYTOLOGIST

SPL28 encodes a clathrin-associated adaptor protein complex 1, medium subunit μ1 (AP1M1) and is responsible for spotted leaf and early senescence in rice (Oryza sativa)

(2009) Yongli Qiao et al.   NEW PHYTOLOGIST

Defect in non-yellow coloring 3, an α/β hydrolase-fold family protein, causes a stay-green phenotype during leaf senescence in rice

(2009) Ryouhei Morita et al.   PLANT JOURNAL

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

Two short-chain dehydrogenase/reductases, NON-YELLOW COLORING 1 and NYC1-LIKE, are required for chlorophyll band light-harvesting complex II degradation during senescence in rice

(2008) Yutaka Sato et al.   PLANT JOURNAL

Polycomb Proteins Targeted by a Short Repeat RNA to the Mouse X Chromosome

(2008) J. Zhao et al.   SCIENCE