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Allele specific expression of Dof genes responding to hormones and abiotic stresses in sugarcane

https://doi.org/10.1371/journal.pone.0227716

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1 of the 58 references listed on this page is in the Retraction Watch database as retracted (export 2026-10-28): 10.1371/journal.pone.0076809 (notice 2016-11-17).

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Using MODELTEST and PAUP * to Select a Model of Nucleotide Substitution

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Sugarcane Genetics and Genomics

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Genetics and Genomics of Rice

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Genome-wide analysis of the auxin response factor (ARF) gene family in maize (Zea mays)

inferredcites →https://doi.org/10.1007/s11033-010-0650-9openalex-snapshot

Genome wide identification of Dof transcription factor gene family in sorghum and its comparative phylogenetic analysis with rice and Arabidopsis

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Cloning and Molecular Characterization of a SERK Gene Transcriptionally Induced During Somatic Embryogenesis in Ananas comosus cv. Shenwan

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Genome-Wide Analysis of Nitrate Transporter (NRT/NPF) Family in Sugarcane Saccharum spontaneum L.

inferredcites →https://doi.org/10.1007/s12042-019-09225-3openalex-snapshot

Evolution and Expression Analysis of Starch Synthase Gene Families in Saccharum spontaneum

inferredcites →https://doi.org/10.1007/s12042-019-09226-2openalex-snapshot

Cytochrome P450s in the sugarcane Saccharum spontaneum

inferredcites →https://doi.org/10.1007/s12042-019-09230-6openalex-snapshot

Comparative Analysis of SUS Gene Family between Saccharum officinarum and Saccharum spontaneum

inferredcites →https://doi.org/10.1007/s12042-019-09238-yopenalex-snapshot

Identification and Expression Analysis of TCP Genes in Saccharum spontaneum L

inferredcites →https://doi.org/10.1007/s12042-019-09239-xopenalex-snapshot

Genomic and Allelic Analyses of Laccase Genes in Sugarcane (Saccharum spontaneum L.)

inferredcites →https://doi.org/10.1016/j.cub.2013.02.001openalex-snapshot

A Dof Transcription Factor, SCAP1, Is Essential for the Development of Functional Stomata in Arabidopsis

inferredcites →https://doi.org/10.1016/j.gde.2007.09.007openalex-snapshot

Consequences of genome duplication

inferredcites →https://doi.org/10.1016/j.pbi.2004.12.001openalex-snapshot

The evolutionary dynamics of plant duplicate genes

inferredcites →https://doi.org/10.1016/j.plantsci.2011.05.003openalex-snapshot

A putative flowering-time-related Dof transcription factor gene, JcDof3, is controlled by the circadian clock in Jatropha curcas

inferredcites →https://doi.org/10.1016/j.plaphy.2007.05.001openalex-snapshot

Sequential activation of two Dof transcription factor gene promoters during vascular development in Arabidopsis thaliana

inferredcites →https://doi.org/10.1016/j.plaphy.2015.05.010openalex-snapshot

Genome-wide analysis and expression profiling of DNA-binding with one zinc finger (Dof) transcription factor family in potato

inferredcites →https://doi.org/10.1016/s0167-4781(01)00251-2openalex-snapshot

Identification of Dof proteins with implication in the gibberellin-regulated expression of a peptidase gene following the germination of rice grains

inferredcites →https://doi.org/10.1016/s1360-1385(02)02362-2openalex-snapshot

The Dof family of plant transcription factors

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KaKs_Calculator 2.0: A Toolkit Incorporating Gamma-Series Methods and Sliding Window Strategies

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The arms race is ancient history in Arabidopsis, the wildflower

inferredcites →https://doi.org/10.1038/nature11912openalex-snapshot

Naturally occurring allele diversity allows potato cultivation in northern latitudes

inferredcites →https://doi.org/10.1038/s41588-018-0237-2openalex-snapshot

Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L.

inferredcites →https://doi.org/10.1038/srep23072openalex-snapshot

Identification and characterisation of Dof transcription factors in the cucumber genome

inferredcites →https://doi.org/10.1046/j.1365-313x.1996.10060955.xopenalex-snapshot

The promoter of a H2O2‐inducible, Arabidopsis glutathione S‐transferase gene contains closely linked OBF‐ and OBP1‐binding sites

inferredcites →https://doi.org/10.1046/j.1365-313x.1999.00363.xopenalex-snapshot

Diversity and similarity among recognition sequences of Dof transcription factors

inferredcites →https://doi.org/10.1046/j.1365-313x.2000.00685.xopenalex-snapshot

Dof1 and Dof2 transcription factors are associated with expression of multiple genes involved in carbon metabolism in maize

inferredcites →https://doi.org/10.1093/jxb/ert451openalex-snapshot

Characterization of tomato Cycling Dof Factors reveals conserved and new functions in the control of flowering time and abiotic stress responses

inferredcites →https://doi.org/10.1093/nar/29.9.e45openalex-snapshot

A new mathematical model for relative quantification in real-time RT-PCR

inferredcites →https://doi.org/10.1093/nar/30.1.325openalex-snapshot

PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences

inferredcites →https://doi.org/10.1093/nar/gkp335openalex-snapshot

MEME SUITE: tools for motif discovery and searching

inferredcites →https://doi.org/10.1093/nar/gky1081openalex-snapshot

PlantPAN3.0: a new and updated resource for reconstructing transcriptional regulatory networks from ChIP-seq experiments in plants

inferredcites →https://doi.org/10.1101/gad.14.1.28openalex-snapshot

Identification and disruption of an Arabidopsis zinc finger gene controlling seed germination

inferredcites →https://doi.org/10.1101/gr.10.4.394openalex-snapshot

Gene-Finding Approaches for Eukaryotes

inferredcites →https://doi.org/10.1104/pp.103.027334openalex-snapshot

Functional Dissections between GAMYB and Dof Transcription Factors Suggest a Role for Protein-Protein Associations in the Gibberellin-Mediated Expression of the RAmy1A Gene in the Rice Aleurone

inferredcites →https://doi.org/10.1105/tpc.11.3.323openalex-snapshot

The DNA Binding Site of the Dof Protein NtBBF1 Is Essential for Tissue-Specific and Auxin-Regulated Expression of the rolB Oncogene in Plants

inferredcites →https://doi.org/10.1111/j.1365-3040.2009.01954.xopenalex-snapshot

Circadian clock‐ and phytochrome‐regulated Dof‐like gene, Rdd1, is associated with grain size in rice

inferredcites →https://doi.org/10.1111/j.1365-313x.2006.02767.xopenalex-snapshot

DOF transcription factor AtDof1.1 (OBP2) is part of a regulatory network controlling glucosinolate biosynthesis in Arabidopsis

inferredcites →https://doi.org/10.1111/j.1365-313x.2007.03146.xopenalex-snapshot

The HvDOF19 transcription factor mediates the abscisic acid‐dependent repression of hydrolase genes in germinating barley aleurone

inferredcites →https://doi.org/10.1111/jipb.12043openalex-snapshot

Genome‐wide Analysis of Plant‐specific Dof Transcription Factor Family in Tomato

inferredcites →https://doi.org/10.1126/science.290.5494.1151openalex-snapshot

The Evolutionary Fate and Consequences of Duplicate Genes

inferredcites →https://doi.org/10.1146/annurev.genet.38.072902.092831openalex-snapshot

Duplication and Divergence: The Evolution of New Genes and Old Ideas

inferredcites →https://doi.org/10.1186/1471-2148-3-17openalex-snapshot

Genome-wide comparative phylogenetic analysis of the rice and Arabidopsis Dof gene families

inferredcites →https://doi.org/10.1186/1471-2229-4-10openalex-snapshot

The roles of segmental and tandem gene duplication in the evolution of large gene families in Arabidopsis thaliana

inferredcites →https://doi.org/10.1186/s12864-015-1242-9openalex-snapshot

Genome-wide analysis of Dof family transcription factors and their responses to abiotic stresses in Chinese cabbage

inferredcites →https://doi.org/10.1186/s12864-016-2419-6openalex-snapshot

Structure, phylogeny, allelic haplotypes and expression of sucrose transporter gene families in Saccharum

inferredcites →https://doi.org/10.1186/s12864-017-3535-7openalex-snapshot

Evolution and expression of the fructokinase gene family in Saccharum

inferredcites →https://doi.org/10.1186/s12870-018-1495-yopenalex-snapshot

New insights into the evolution and functional divergence of the SWEET family in Saccharum based on comparative genomics

inferredcites →https://doi.org/10.1186/s12870-020-02599-7openalex-snapshot

Comparative analysis of sucrose phosphate synthase (SPS) gene family between Saccharum officinarum and Saccharum spontaneum

inferredcites →https://doi.org/10.1360/yc-007-1023openalex-snapshot

GSDS: a gene structure display server

inferredcites →https://doi.org/10.1371/journal.pgen.0030011openalex-snapshot

The Regulatory Code for Transcriptional Response Diversity and Its Relation to Genome Structural Properties in A. thaliana

inferredcites →https://doi.org/10.1371/journal.pone.0042411openalex-snapshot

Identification and Expression Analysis of Cytokinin Metabolic Genes in Soybean under Normal and Drought Conditions in Relation to Cytokinin Levels

inferredcites →https://doi.org/10.1371/journal.pone.0076809openalex-snapshot

Genome-Wide Analysis of the Dof Transcription Factor Gene Family Reveals Soybean-Specific Duplicable and Functional Characteristics

inferredcites →https://doi.org/10.1371/journal.pone.0097469openalex-snapshot

Comprehensive Selection of Reference Genes for Gene Expression Normalization in Sugarcane by Real Time Quantitative RT-PCR

inferredcites →https://doi.org/10.1371/journal.pone.0167019openalex-snapshot

Retraction: Genome-Wide Analysis of the Dof Transcription Factor Gene Family Reveals Soybean-Specific Duplicable and Functional Characteristics

inferredcites →https://doi.org/10.1387/ijdb.093006jgopenalex-snapshot

Expression of DOF genes identifies early stages of vascular development in Arabidopsis leaves

inferredcites →https://doi.org/10.3389/fpls.2016.00574openalex-snapshot

Genome-Wide Identification and Expression Profile of Dof Transcription Factor Gene Family in Pepper (Capsicum annuum L.)

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Genome-Wide Identification and Expression Analysis of Dof Gene Family Reveal Their Involvement in Hormone Response and Abiotic Stresses in Sunflower (Helianthus Annuus L.)

inferred← citeshttps://doi.org/10.1007/978-3-030-80352-0_2openalex-snapshot

Modern Approaches for Transcriptome Analyses in Plants

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Transcription factor ZmDof22 enhances drought tolerance by regulating stomatal movement and antioxidant enzymes activities in maize (Zea mays L.)

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Ex vitro Morpho-Physiological Screening of Drought Tolerant Sugarcane Epimutants Generated Via 5-Azacytidine and Imidacloprid Treatments

inferred← citeshttps://doi.org/10.1007/s12355-022-01174-8openalex-snapshot

Biotechnological Intervention for Sugarcane Improvement Under Salinity

inferred← citeshttps://doi.org/10.1016/j.gene.2024.148336openalex-snapshot

Genome-wide identification and expression analysis of the Dof gene family reveals their involvement in hormone response and abiotic stresses in sunflower (Helianthus annuus L.)

inferred← citeshttps://doi.org/10.1016/j.sajb.2025.10.052openalex-snapshot

Intricate relationship of physiological, biochemical and molecular mechanisms in deciphering abiotic stress tolerance in sugarcane

inferred← citeshttps://doi.org/10.1038/s41598-021-93383-6openalex-snapshot

Expression profiling of the Dof gene family under abiotic stresses in spinach

inferred← citeshttps://doi.org/10.1038/s41598-022-12725-0openalex-snapshot

Allele expression biases in mixed-ploid sugarcane accessions

inferred← citeshttps://doi.org/10.1038/s41598-025-88308-6openalex-snapshot

Genome wide identification of Dof transcription factors in Carmine radish reveals RsDof33 role in cadmium stress and anthocyanin biosynthesis

inferred← citeshttps://doi.org/10.1093/plphys/kiae452openalex-snapshot

Allele-specific expression of AP2-like ABA repressor 1 regulates iron uptake by modulating rhizosphere pH in apple

inferred← citeshttps://doi.org/10.1101/gr.275904.121openalex-snapshot

Limited allele-specific gene expression in highly polyploid sugarcane

inferred← citeshttps://doi.org/10.11606/d.11.2022.tde-11082022-161902openalex-snapshot

Expressão alelo-específica em genótipos, órgãos, tempos e condições de estresse hídrico em cana-de-açúcar

inferred← citeshttps://doi.org/10.11606/t.11.2021.tde-28052021-143128openalex-snapshot

Assessing differential expression profiles and modeling allele-specific expression in leaves of >i /i< accessions contrasting in biomass production

inferred← citeshttps://doi.org/10.1186/s12864-023-09139-1openalex-snapshot

Haplotype variations of sucrose phosphate synthase B gene among sugarcane accessions with different sucrose content

inferred← citeshttps://doi.org/10.1186/s12870-022-03509-9openalex-snapshot

Comparative transcriptomics of wild and commercial Citrus during early ripening reveals how domestication shaped fruit gene expression

inferred← citeshttps://doi.org/10.3389/fpls.2022.844201openalex-snapshot

Emerging Roles of Plant DNA-Binding With One Finger Transcription Factors in Various Hormone and Stress Signaling Pathways

inferred← citeshttps://doi.org/10.3389/fpls.2026.1755625openalex-snapshot

Integrated multi-omics analysis reveals hormonal and nutrient networks regulating sugarcane tillering

inferred← citeshttps://doi.org/10.3390/data8010001openalex-snapshot

Gene Expression Datasets for Two Versions of the Saccharum spontaneum AP85-441 Genome

inferred← citeshttps://doi.org/10.3390/ijms23042276openalex-snapshot

Expanding Gene-Editing Potential in Crop Improvement with Pangenomes

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Master Regulatory Transcription Factors in β-Aminobutyric Acid-Induced Resistance (BABA-IR): A Perspective on Phytohormone Biosynthesis and Signaling in Arabidopsis thaliana and Hordeum vulgare

inferred← citeshttps://doi.org/10.3390/plants11152057openalex-snapshot

Genome-Wide Identification and Expression Analysis of Dof Transcription Factors in Lotus (Nelumbo nucifera Gaertn.)

inferred← citeshttps://doi.org/10.48130/opr-0024-0030openalex-snapshot

Genome-wide identification and characterization of Dof gene family in Salvia miltiorrhiza

inferred← citeshttps://doi.org/10.4995/thesis/10251/176003openalex-snapshot

A genomic approach to the evolution, diversification and domestication of the genus Citrus

inferred← citeshttps://doi.org/10.53560/ppasb(60-3)905openalex-snapshot

Role of Dof Transcription Factors under Abiotic Stresses

inferred← citeshttps://doi.org/10.5772/intechopen.97500openalex-snapshot

Recent Applications of RNA Sequencing in Food and Agriculture

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