Integrated transcriptome, small RNA, and degradome analysis reveals the complex network regulating starch biosynthesis in maize

The ‘how’ and ‘where’ of plant microRNAs

(2017) Yu Yu et al.   NEW PHYTOLOGIST

Identification of genes alternatively spliced in developing maize endosperm

(2017) S. Xie et al.   PLANT BIOLOGY

Over-expression of mutated ZmDA1 or ZmDAR1 gene improves maize kernel yield by enhancing starch synthesis

(2017) Guangning Xie et al.   PLANT BIOTECHNOLOGY JOURNAL

The Maize Imprinted GeneFloury3Encodes a PLATZ Protein Required for tRNA and 5S rRNA Transcription through Interaction with RNA Polymerase III

(2017) Qi Li et al.   PLANT CELL

Construction and Optimization of a Large Gene Coexpression Network in Maize Using RNA-Seq Data

(2017) Ji Huang et al.   PLANT PHYSIOLOGY

Switchgrass SBP-box transcription factors PvSPL1 and 2 function redundantly to initiate side tillers and affect biomass yield of energy crop

(2016) Zhenying Wu et al.   Biotechnology for Biofuels

Genome-wide identification of microRNAs in pomegranate (Punica granatum L.) by high-throughput sequencing

(2016) Thangasamy Saminathan et al.   BMC PLANT BIOLOGY

Identification and characterization of microRNAs in maize endosperm response to exogenous sucrose using small RNA sequencing

(2016) Huanhuan Huang et al.   GENOMICS

Evidence for maternal control of seed size in maize from phenotypic and transcriptional analysis

(2016) Xia Zhang et al.   JOURNAL OF EXPERIMENTAL BOTANY

Transcriptome analysis of near-isogenic lines provides molecular insights into starch biosynthesis in maize kernel

(2016) Yingni Xiao et al.   Journal of Integrative Plant Biology

Arabidopsis CLAVATA1 and CLAVATA2 receptors contribute to Ralstonia solanacearumpathogenicity through a miR169-dependent pathway

(2016) Mathieu Hanemian et al.   NEW PHYTOLOGIST

Genome-wide analysis of transcription factors involved in maize embryonic callus formation

(2016) Fei Ge et al.   PHYSIOLOGIA PLANTARUM

The OsmiR396c-OsGRF4-OsGIF1 regulatory module determines grain size and yield in rice

(2016) Shuangcheng Li et al.   PLANT BIOTECHNOLOGY JOURNAL

Maize endosperm-specific transcription factors O2 and PBF network the regulation of protein and starch synthesis

(2016) Zhiyong Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Influence of tryptophan and indole-3-acetic acid on starch accumulation in the synthetic mutualistic Chlorella sorokiniana – Azospirillum brasilense system under heterotrophic conditions

(2016) Oskar A. Palacios et al.   RESEARCH IN MICROBIOLOGY

Genome-Wide Identification and Characterization of microRNAs in Developing Grains of Zea mays L.

(2016) Dandan Li et al.   PLoS One

Sucrose and ABA regulate starch biosynthesis in maize through a novel transcription factor, ZmEREB156

(2016) Huanhuan Huang et al.   Scientific Reports

Potential functions of microRNAs in starch metabolism and development revealed by miRNA transcriptome profiling of cassava cultivars and their wild progenitor

(2015) Xin Chen et al.   BMC PLANT BIOLOGY

ZmbZIP91 regulates expression of starch synthesis-related genes by binding to ACTCAT elements in their promoters

(2015) Jiang Chen et al.   JOURNAL OF EXPERIMENTAL BOTANY

A Rare Allele of GS2 Enhances Grain Size and Grain Yield in Rice

(2015) Jiang Hu et al.   Molecular Plant

Growth-Regulating Factors (GRFs): A Small Transcription Factor Family with Important Functions in Plant Biology

(2015) Mohammad Amin Omidbakhshfard et al.   Molecular Plant

MicroRNA miR396 Regulates the Switch between Stem Cells and Transit-Amplifying Cells in Arabidopsis Roots

(2015) Ramiro E. Rodriguez et al.   PLANT CELL

Temporal small RNA transcriptome profiling unraveled partitioned miRNA expression in developing maize endosperms between reciprocal crosses

(2015) Mingming Xin et al.   Frontiers in Plant Science

Identification and Characterization of microRNAs during Maize Grain Filling

(2015) Xining Jin et al.   PLoS One

Functions of Multiple Genes Encoding ADP-Glucose Pyrophosphorylase Subunits in Maize Endosperm, Embryo, and Leaf

(2014) B. Huang et al.   PLANT PHYSIOLOGY

Temporal patterns of gene expression in developing maize endosperm identified through transcriptome sequencing

(2014) G. Li et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MaizeSBP-boxtranscription factorsunbranched2andunbranched3affect yield traits by regulating the rate of lateral primordia initiation

(2014) George S. Chuck et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification and characterization of microRNAs in the developing maize endosperm

(2013) Yong Gu et al.   GENOMICS

Network analysis for gene discovery in plant-specialized metabolism

(2013) YASUHIRO HIGASHI et al.   PLANT CELL AND ENVIRONMENT

miR396 affects mycorrhization and root meristem activity in the legumeMedicago truncatula

(2013) Jérémie Bazin et al.   PLANT JOURNAL

Novel role of ZmaNAC36 in co-expression of starch synthetic genes in maize endosperm

(2013) Junjie Zhang et al.   PLANT MOLECULAR BIOLOGY

GmNFYA3, a target gene of miR169, is a positive regulator of plant tolerance to drought stress

(2013) Zhiyong Ni et al.   PLANT MOLECULAR BIOLOGY

Characterization and Expression Patterns of microRNAs Involved in Rice Grain Filling

(2013) Ting Peng et al.   PLoS One

Reconstruction of protein networks from an atlas of maize seed proteotypes

(2013) J. W. Walley et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Binding of ABI4 to a CACCG motif mediates the ABA-induced expression of the ZmSSI gene in maize (Zea mays L.) endosperm

(2012) Yu-Feng Hu et al.   JOURNAL OF EXPERIMENTAL BOTANY

The BnGRF2 gene (GRF2-like gene from Brassica napus) enhances seed oil production through regulating cell number and plant photosynthesis

(2012) Jing Liu et al.   JOURNAL OF EXPERIMENTAL BOTANY

Arabidopsis Transcription Factor Genes NF-YA1, 5, 6, and 9 Play Redundant Roles in Male Gametogenesis, Embryogenesis, and Seed Development

(2012) Jinye Mu et al.   Molecular Plant

Distinctive expression patterns and roles of the miRNA393/TIR1 homolog module in regulating flag leaf inclination and primary and crown root growth in rice (Oryza sativa)

(2012) Hongwu Bian et al.   NEW PHYTOLOGIST

Starches-from current models to genetic engineering

(2012) Uwe Sonnewald et al.   PLANT BIOTECHNOLOGY JOURNAL

The Arabidopsis MicroRNA396-GRF1/GRF3 Regulatory Module Acts as a Developmental Regulator in the Reprogramming of Root Cells during Cyst Nematode Infection

(2012) T. Hewezi et al.   PLANT PHYSIOLOGY

OsTIR1 and OsAFB2 Downregulation via OsmiR393 Overexpression Leads to More Tillers, Early Flowering and Less Tolerance to Salt and Drought in Rice

(2012) Kuaifei Xia et al.   PLoS One

Upregulation of Cyclin B1 by miRNA and its implications in cancer

(2011) Vera Huang et al.   NUCLEIC ACIDS RESEARCH

Combining Enhanced Root and Shoot Growth Reveals Cross Talk between Pathways That Control Plant Organ Size in Arabidopsis

(2011) L. Vercruyssen et al.   PLANT PHYSIOLOGY

Overexpression of the maize Corngrass1 microRNA prevents flowering, improves digestibility, and increases starch content of switchgrass

(2011) G. S. Chuck et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Starch: Its Metabolism, Evolution, and Biotechnological Modification in Plants

(2010) Samuel C. Zeeman et al.   Annual Review of Plant Biology

MicroRNA-205-directed transcriptional activation of tumor suppressor genes in prostate cancer

(2010) Shahana Majid et al.   CANCER

The GATA-type transcription factors GNC and GNL/CGA1 repress gibberellin signaling downstream from DELLA proteins and PHYTOCHROME-INTERACTING FACTORS

(2010) R. Richter et al.   GENES & DEVELOPMENT

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

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Coexpression Analysis Identifies Rice Starch Regulator1, a Rice AP2/EREBP Family Transcription Factor, as a Novel Rice Starch Biosynthesis Regulator

(2010) F.-F. Fu et al.   PLANT PHYSIOLOGY

Starch biosynthesis in cereal endosperm

(2010) Jong-Seong Jeon et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY

Starch biosynthesis in developing seeds

(2010) Ian J. Tetlow   SEED SCIENCE RESEARCH

Biochemistry and Genetics of Starch Synthesis

(2010) Peter L. Keeling et al.   Annual Review of Food Science and Technology

SOAP2: an improved ultrafast tool for short read alignment

(2009) R. Li et al.   BIOINFORMATICS

Members of miR-169 family are induced by high salinity and transiently inhibit the NF-YA transcription factor

(2009) Botao Zhao et al.   BMC MOLECULAR BIOLOGY

Characterization and expression profiles of miRNAs in rice seeds

(2008) Liang-Jiao Xue et al.   NUCLEIC ACIDS RESEARCH

Mutation of the Plastidial  -Glucan Phosphorylase Gene in Rice Affects the Synthesis and Structure of Starch in the Endosperm

(2008) H. Satoh et al.   PLANT CELL

Brassinosteroids Regulate Grain Filling in Rice

(2008) C.-y. Wu et al.   PLANT CELL

MicroRNA-373 induces expression of genes with complementary promoter sequences

(2008) R. F. Place et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Decoding genes with coexpression networks and metabolomics – ‘majority report by precogs’

(2007) Kazuki Saito et al.   TRENDS IN PLANT SCIENCE