Genome wide identification and characterization of abiotic stress responsive lncRNAs in Capsicum annuum

Transcriptome profiling of abiotic responses to heat, cold, salt, and osmotic stress of Capsicum annuum L.

(2020) Won-Hee Kang et al.   Scientific Data

Identification of lncRNAs involved in rice ovule development and female gametophyte abortion by genome-wide screening and functional analysis

(2019) Helian Liu et al.   BMC GENOMICS

Long Non-Coding RNAs: Rising Regulators of Plant Reproductive Development

(2019) Tongtong Yu et al.   Agronomy-Basel

Tissue specific long non-coding RNAs are involved in aroma formation of black tea

(2019) Deepti Varshney et al.   INDUSTRIAL CROPS AND PRODUCTS

CNIT: a fast and accurate web tool for identifying protein-coding and long non-coding transcripts based on intrinsic sequence composition

(2019) Jin-Cheng Guo et al.   NUCLEIC ACIDS RESEARCH

Identification and functional prediction of cold-related long non-coding RNA (lncRNA) in grapevine

(2019) Pengfei Wang et al.   Scientific Reports

1α, 25-dihydroxy Vitamin D3 containing fractions of Catharanthus roseus leaf aqueous extract inhibit preadipocyte differentiation and induce lipolysis in 3T3-L1 cells

(2019) Anuj Kumar Borah et al.   BMC Complementary and Alternative Medicine

The Crosstalks Between Jasmonic Acid and Other Plant Hormone Signaling Highlight the Involvement of Jasmonic Acid as a Core Component in Plant Response to Biotic and Abiotic Stresses

(2019) Jing Yang et al.   Frontiers in Plant Science

Genome-wide investigation of regulatory roles of lncRNAs in response to heat and drought stress in Brassica juncea (Indian mustard)

(2019) Garima Bhatia et al.   ENVIRONMENTAL AND EXPERIMENTAL BOTANY

Analysis of the Coding and Non-Coding RNA Transcriptomes in Response to Bell Pepper Chilling

(2018) Jinhua Zuo et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Evaluation of Barley lncRNAs Expression Analysis in Salinity Stress

(2018) E. Karlik et al.   RUSSIAN JOURNAL OF GENETICS

Effect of ghost pepper on cell proliferation, apoptosis, senescence and global proteomic profile in human renal adenocarcinoma cells

(2018) Venu Perla et al.   PLoS One

Identification and characterization of novel microRNAs for fruit development and quality in hot pepper (Capsicum annuum L.)

(2017) Zhoubin Liu et al.   GENE

CPC2: a fast and accurate coding potential calculator based on sequence intrinsic features

(2017) Yu-Jian Kang et al.   NUCLEIC ACIDS RESEARCH

Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families

(2017) Ioanna Kalvari et al.   NUCLEIC ACIDS RESEARCH

Transposable elements (TEs) contribute to stress-related long intergenic noncoding RNAs in plants

(2017) Dong Wang et al.   PLANT JOURNAL

Long noncoding RNAs in the model species Brachypodium distachyon

(2017) Concetta De Quattro et al.   Scientific Reports

Survey of High Throughput RNA-Seq Data Reveals Potential Roles for lncRNAs during Development and Stress Response in Bread Wheat

(2017) Shumayla et al.   Frontiers in Plant Science

High Quality Unigenes and Microsatellite Markers from Tissue Specific Transcriptome and Development of a Database in Clusterbean (Cyamopsis tetragonoloba, L. Taub)

(2017) Hukam Rawal et al.   Genes

Genome-wide screening and characterization of long non-coding RNAs involved in flowering development of trifoliate orange (Poncirus trifoliata L. Raf.)

(2017) Chen-Yang Wang et al.   Scientific Reports

Genome-wide identification and functional prediction of cold and/or drought-responsive lncRNAs in cassava

(2017) Shuxia Li et al.   Scientific Reports

High-Resolution Expression Map of the Arabidopsis Root Reveals Alternative Splicing and lincRNA Regulation

(2016) Song Li et al.   DEVELOPMENTAL CELL

Genome-wide identification and characterization of novel lncRNAs in Populus under nitrogen deficiency

(2016) Min Chen et al.   MOLECULAR GENETICS AND GENOMICS

miRNAFold: a web server for fast miRNA precursor prediction in genomes

(2016) Christophe Tav et al.   NUCLEIC ACIDS RESEARCH

Transcriptome analysis reveals long noncoding RNAs involved in fiber development in cotton (Gossypium arboreum)

(2016) Changsong Zou et al.   Science China-Life Sciences

Construction and analysis of cardiac hypertrophy-associated lncRNA-mRNA network based on competitive endogenous RNA reveal functional lncRNAs in cardiac hypertrophy

(2016) Chao Song et al.   Oncotarget

Physiological and Metabolic Changes of Purslane (Portulaca oleracea L.) in Response to Drought, Heat, and Combined Stresses

(2016) Rui Jin et al.   Frontiers in Plant Science

Plant phosphoinositides—complex networks controlling growth and adaptation

(2015) Mareike Heilmann et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR AND CELL BIOLOGY OF LIPIDS

Genome-wide identification and functional analysis of lincRNAs acting as miRNA targets or decoys in maize

(2015) Chunyan Fan et al.   BMC GENOMICS

Global identification and analysis of long non-coding RNAs in diploid strawberry Fragaria vesca during flower and fruit development

(2015) Chunying Kang et al.   BMC GENOMICS

A novel system for evaluating drought–cold tolerance of grapevines using chlorophyll fluorescence

(2015) Lingye Su et al.   BMC PLANT BIOLOGY

Long non-coding RNAs and their functions in plants

(2015) Julia A Chekanova   CURRENT OPINION IN PLANT BIOLOGY

GREENC: a Wiki-based database of plant lncRNAs

(2015) Andreu Paytuví Gallart et al.   NUCLEIC ACIDS RESEARCH

CANTATAdb: A Collection of Plant Long Non-Coding RNAs

(2015) Michał W. Szcześniak et al.   PLANT AND CELL PHYSIOLOGY

Environmental perception and epigenetic memory: mechanistic insight throughFLC

(2015) Scott Berry et al.   PLANT JOURNAL

Responding to rising sea levels in the Mekong Delta

(2015) A. Smajgl et al.   Nature Climate Change

Shared and unique responses of plants to multiple individual stresses and stress combinations: physiological and molecular mechanisms

(2015) Prachi Pandey et al.   Frontiers in Plant Science

Identification of MicroRNAs and Target Genes in the Fruit and Shoot Tip of Lycium chinense: A Traditional Chinese Medicinal Plant

(2015) A. B. M. Khaldun et al.   PLoS One

PLEK: a tool for predicting long non-coding RNAs and messenger RNAs based on an improved k-mer scheme

(2014) Aimin Li et al.   BMC BIOINFORMATICS

Long Noncoding RNA Modulates Alternative Splicing Regulators in Arabidopsis

(2014) Florian Bardou et al.   DEVELOPMENTAL CELL

The many faces of long noncoding RNAs

(2014) Alessandro Gardini et al.   FEBS Journal

Genome-wide identification and functional prediction of novel and drought-responsive lincRNAs in Populus trichocarpa

(2014) Peng Shuai et al.   JOURNAL OF EXPERIMENTAL BOTANY

Genome sequence of the hot pepper provides insights into the evolution of pungency in Capsicum species

(2014) Seungill Kim et al.   NATURE GENETICS

RNA-directed DNA methylation: an epigenetic pathway of increasing complexity

(2014) Marjori A. Matzke et al.   NATURE REVIEWS GENETICS

Widespread anti-sense transcription in apple is correlated with siRNA production and indicates a large potential for transcriptional and/or post-transcriptional control

(2014) Jean-Marc Celton et al.   NEW PHYTOLOGIST

PNRD: a plant non-coding RNA database

(2014) Xin Yi et al.   NUCLEIC ACIDS RESEARCH

A novel wheat bZIP transcription factor, TabZIP60, confers multiple abiotic stress tolerances in transgenicArabidopsis

(2014) Lina Zhang et al.   PHYSIOLOGIA PLANTARUM

The ERF transcription factor TaERF3 promotes tolerance to salt and drought stresses in wheat

(2014) Wei Rong et al.   PLANT BIOTECHNOLOGY JOURNAL

Characterization of stress-responsive lncRNAs inArabidopsis thalianaby integrating expression, epigenetic and structural features

(2014) Chao Di et al.   PLANT JOURNAL

Arabidopsis noncoding RNA mediates control of photomorphogenesis by red light

(2014) Y. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Infernal 1.1: 100-fold faster RNA homology searches

(2013) E. P. Nawrocki et al.   BIOINFORMATICS

Ribosome Profiling Provides Evidence that Large Noncoding RNAs Do Not Encode Proteins

(2013) Mitchell Guttman et al.   CELL

An Arabidopsis R2R3-MYB transcription factor, AtMYB20, negatively regulates type 2C serine/threonine protein phosphatases to enhance salt tolerance

(2013) Mei Hua Cui et al.   FEBS LETTERS

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

RNA in unexpected places: long non-coding RNA functions in diverse cellular contexts

(2013) Sarah Geisler et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Pfam: the protein families database

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

The purine metabolite allantoin enhances abiotic stress tolerance through synergistic activation of abscisic acid metabolism

(2013) SHUNSUKE WATANABE et al.   PLANT CELL AND ENVIRONMENT

Widespread Long Noncoding RNAs as Endogenous Target Mimics for MicroRNAs in Plants

(2013) H.-J. Wu et al.   PLANT PHYSIOLOGY

The Hot Pepper (Capsicum annuum) MicroRNA Transcriptome Reveals Novel and Conserved Targets: A Foundation for Understanding MicroRNA Functional Roles in Hot Pepper

(2013) Dong-Gyu Hwang et al.   PLoS One

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

(2012) T. Derrien et al.   GENOME RESEARCH

Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in Arabidopsis

(2012) J. Liu et al.   PLANT CELL

CaWRKY40, a WRKY protein of pepper, plays an important role in the regulation of tolerance to heat stress and resistance toRalstonia solanacearuminfection

(2012) FENG-FENG DANG et al.   PLANT CELL AND ENVIRONMENT

Computational Identification and Functional Predictions of Long Noncoding RNA in Zea mays

(2012) Susan Boerner et al.   PLoS One

The role of Mediator in small and long noncoding RNA production inArabidopsis thaliana

(2011) Yun Ju Kim et al.   EMBO JOURNAL

Molecular Mechanisms of Long Noncoding RNAs

(2011) Kevin C. Wang et al.   MOLECULAR CELL

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Cold stress tolerance mechanisms in plants. A review

(2009) Sudesh Kumar Yadav   Agronomy for Sustainable Development

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Pervasive transcription constitutes a new level of eukaryotic genome regulation

(2009) Julia Berretta et al.   EMBO REPORTS

Long noncoding RNAs: functional surprises from the RNA world

(2009) J. E. Wilusz et al.   GENES & DEVELOPMENT

Differentially Expressed miRNAs Potentially Involved in the Regulation of Defense Mechanism to Drought Stress in Maize Seedlings

(2009) Liya Wei et al.   INTERNATIONAL JOURNAL OF PLANT SCIENCES

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals

(2009) Mitchell Guttman et al.   NATURE

Mechanisms of Salinity Tolerance

(2008) Rana Munns et al.   Annual Review of Plant Biology

Long-term drought modifies the fundamental relationships between light exposure, leaf nitrogen content and photosynthetic capacity in leaves of the lychee tree (Litchi chinensis)

(2008) Gaëlle Damour et al.   JOURNAL OF PLANT PHYSIOLOGY

Microarray-based analysis of stress-regulated microRNAs in Arabidopsis thaliana

(2008) H.-H. Liu et al.   RNA