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Evolution of Auxin Response Factors in plants characterized by phylogenomic synteny network analyses
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1007/s11033-011-0991-zopenalex-snapshot
Diversification, phylogeny and evolution of auxin response factor (ARF) family: insights gained from analyzing maize ARF genes
inferredcites →https://doi.org/10.1016/j.cell.2018.06.033openalex-snapshot
The Chara Genome: Secondary Complexity and Implications for Plant Terrestrialization
inferredcites →https://doi.org/10.1016/j.gene.2007.01.006openalex-snapshot
Genome-wide analysis of the auxin response factors (ARF) gene family in rice (Oryza sativa)
inferredcites →https://doi.org/10.1016/j.molp.2016.09.014openalex-snapshot
iTAK: A Program for Genome-wide Prediction and Classification of Plant Transcription Factors, Transcriptional Regulators, and Protein Kinases
inferredcites →https://doi.org/10.1016/j.pbi.2009.10.006openalex-snapshot
Defining auxin response contexts in plant development
inferredcites →https://doi.org/10.1016/j.pbi.2017.03.001openalex-snapshot
Network approaches for plant phylogenomic synteny analysis
inferredcites →https://doi.org/10.1016/j.ympev.2018.04.032openalex-snapshot
New insights into the phylogeny of the TMBIM superfamily across the tree of life: Comparative genomics and synteny networks reveal independent evolution of the BI and LFG families in plants
inferredcites →https://doi.org/10.1038/msb.2011.39openalex-snapshot
The auxin signalling network translates dynamic input into robust patterning at the shoot apex
inferredcites →https://doi.org/10.1038/nature09916openalex-snapshot
Ancestral polyploidy in seed plants and angiosperms
inferredcites →https://doi.org/10.1038/ncomms8852openalex-snapshot
Phytochrome diversity in green plants and the origin of canonical plant phytochromes
inferredcites →https://doi.org/10.1038/nmeth.3176openalex-snapshot
Fast and sensitive protein alignment using DIAMOND
inferredcites →https://doi.org/10.1038/nmeth.4285openalex-snapshot
ModelFinder: fast model selection for accurate phylogenetic estimates
inferredcites →https://doi.org/10.1038/nrg.2017.26openalex-snapshot
The evolutionary significance of polyploidy
inferredcites →https://doi.org/10.1038/s41477-018-0188-8openalex-snapshot
Fern genomes elucidate land plant evolution and cyanobacterial symbioses
inferredcites →https://doi.org/10.1038/s41586-019-1069-7openalex-snapshot
TMK1-mediated auxin signalling regulates differential growth of the apical hook
inferredcites →https://doi.org/10.1046/j.1365-313x.1999.00538.xopenalex-snapshot
Dimerization and DNA binding of auxin response factors
inferredcites →https://doi.org/10.1073/pnas.1323926111openalex-snapshot
Phylotranscriptomic analysis of the origin and early diversification of land plants
inferredcites →https://doi.org/10.1073/pnas.1719588115openalex-snapshot
The timescale of early land plant evolution
inferredcites →https://doi.org/10.1080/07352689.2011.615705openalex-snapshot
Phylogeny and Molecular Evolution of the Green Algae
inferredcites →https://doi.org/10.1093/bioinformatics/btl039openalex-snapshot
CFinder: locating cliques and overlapping modules in biological networks
inferredcites →https://doi.org/10.1093/bioinformatics/btm619openalex-snapshot
Phyutility: a phyloinformatics tool for trees, alignments and molecular data
inferredcites →https://doi.org/10.1093/bioinformatics/btu033openalex-snapshot
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
inferredcites →https://doi.org/10.1093/gbe/evx258openalex-snapshot
Comprehensive Genome-Wide Classification Reveals That Many Plant-Specific Transcription Factors Evolved in Streptophyte Algae
inferredcites →https://doi.org/10.1093/gigascience/gix120openalex-snapshot
SOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data
inferredcites →https://doi.org/10.1093/gigascience/giy013openalex-snapshot
10KP: A phylodiverse genome sequencing plan
inferredcites →https://doi.org/10.1093/jxb/erx255openalex-snapshot
Auxin-mediated developmental control in the moss Physcomitrella patens
inferredcites →https://doi.org/10.1093/molbev/mss220openalex-snapshot
Evolution of the ARF Gene Family in Land Plants: Old Domains, New Tricks
inferredcites →https://doi.org/10.1093/molbev/msu300openalex-snapshot
IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies
inferredcites →https://doi.org/10.1093/molbev/msx242openalex-snapshot
An Overlooked Paleotetraploidization in Cucurbitaceae
inferredcites →https://doi.org/10.1093/molbev/msx281openalex-snapshot
UFBoot2: Improving the Ultrafast Bootstrap Approximation
inferredcites →https://doi.org/10.1093/nar/gkp805openalex-snapshot
PlnTFDB: updated content and new features of the plant transcription factor database
inferredcites →https://doi.org/10.1093/nar/gkr1293openalex-snapshot
MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity
inferredcites →https://doi.org/10.1093/nar/gkw1129openalex-snapshot
CDD/SPARCLE: functional classification of proteins via subfamily domain architectures
inferredcites →https://doi.org/10.1093/nar/gkw290openalex-snapshot
Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees
inferredcites →https://doi.org/10.1093/nar/gkw982openalex-snapshot
PlantTFDB 4.0: toward a central hub for transcription factors and regulatory interactions in plants
inferredcites →https://doi.org/10.1101/gr.1239303openalex-snapshot
Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks
inferredcites →https://doi.org/10.1105/tpc.113.113480openalex-snapshot
The Tarenaya hassleriana Genome Provides Insight into Reproductive Trait and Genome Evolution of Crucifers
inferredcites →https://doi.org/10.1105/tpc.17.00312openalex-snapshot
Phylogenomic Synteny Network Analysis of MADS-Box Transcription Factor Genes Reveals Lineage-Specific Transpositions, Ancient Tandem Duplications, and Deep Positional Conservation
inferredcites →https://doi.org/10.1111/boj.12385openalex-snapshot
An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG IV
inferredcites →https://doi.org/10.1111/nph.13887openalex-snapshot
Analyses of transcriptome sequences reveal multiple ancient large‐scale duplication events in the ancestor of Sphagnopsida (Bryophyta)
inferredcites →https://doi.org/10.1111/nph.14812openalex-snapshot
Improved transcriptome sampling pinpoints 26 ancient and more recent polyploidy events in Caryophyllales, including two allopolyploidy events
inferredcites →https://doi.org/10.1111/nph.15090openalex-snapshot
Class C ARF s evolved before the origin of land plants and antagonize differentiation and developmental transitions in Marchantia polymorpha
inferredcites →https://doi.org/10.1111/tpj.13801openalex-snapshot
The Physcomitrella patens chromosome‐scale assembly reveals moss genome structure and evolution
inferredcites →https://doi.org/10.1126/science.1150646openalex-snapshot
The Physcomitrella Genome Reveals Evolutionary Insights into the Conquest of Land by Plants
inferredcites →https://doi.org/10.1126/science.1153917openalex-snapshot
Synteny and Collinearity in Plant Genomes
inferredcites →https://doi.org/10.1126/science.1163197openalex-snapshot
Rates of Molecular Evolution Are Linked to Life History in Flowering Plants
inferredcites →https://doi.org/10.1126/science.276.5320.1865openalex-snapshot
ARF1, a Transcription Factor That Binds to Auxin Response Elements
inferredcites →https://doi.org/10.1146/annurev-genet-102108-134148openalex-snapshot
Mechanism of Auxin-Regulated Gene Expression in Plants
inferredcites →https://doi.org/10.1186/1471-2229-7-59openalex-snapshot
Genome-wide analysis of Aux/IAA and ARF gene families in Populus trichocarpa
inferredcites →https://doi.org/10.1186/2047-217x-3-17openalex-snapshot
Data access for the 1,000 Plants (1KP) project
inferredcites →https://doi.org/10.1186/gb-2012-13-1-r3openalex-snapshot
A genome triplication associated with early diversification of the core eudicots
inferredcites →https://doi.org/10.1186/s12870-015-0439-zopenalex-snapshot
The Physcomitrella patens unique alpha-dioxygenase participates in both developmental processes and defense responses
inferredcites →https://doi.org/10.1186/s12870-018-1437-8openalex-snapshot
Evolution by duplication: paleopolyploidy events in plants reconstructed by deciphering the evolutionary history of VOZ transcription factors
inferredcites →https://doi.org/10.1371/journal.pcbi.1000069openalex-snapshot
A Probabilistic Model of Local Sequence Alignment That Simplifies Statistical Significance Estimation
inferredcites →https://doi.org/10.1371/journal.pcbi.1002195openalex-snapshot
Accelerated Profile HMM Searches
inferredcites →https://doi.org/10.1609/icwsm.v3i1.13937openalex-snapshot
Gephi: An Open Source Software for Exploring and Manipulating Networks
inferredcites →https://doi.org/10.7554/elife.33399openalex-snapshot
Origin and evolution of the nuclear auxin response system
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1007/s00239-021-10005-5openalex-snapshot
Molecular Evolution and Local Root Heterogeneous Expression of the Chenopodium quinoa ARF Genes Provide Insights into the Adaptive Domestication of Crops in Complex Environments
inferred← citeshttps://doi.org/10.1007/s00344-025-12019-5openalex-snapshot
Regulating Plant Growth and Defense: Multifaceted Roles of Auxin in Plants
inferred← citeshttps://doi.org/10.1007/s00438-022-01942-xopenalex-snapshot
Identification of loci controlling timing of stem elongation in red clover using genotyping by sequencing of pooled phenotypic extremes
inferred← citeshttps://doi.org/10.1111/plb.13303openalex-snapshot
Auxin and its role in plant development: structure, signalling, regulation and response mechanisms
inferred← citeshttps://doi.org/10.3390/agriculture11080780openalex-snapshot
Interspecies Evolution and Networks Investigation of the Auxin Response Protein (AUX/IAA) Family Reveals the Adaptation Mechanisms of Halophytes Crops in Nitrogen Starvation Agroecological Environments
inferred← citeshttps://doi.org/10.3390/ijms222313036openalex-snapshot
Phylogenomic and Microsynteny Analysis Provides Evidence of Genome Arrangements of High-Affinity Nitrate Transporter Gene Families of Plants
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