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Ancestry of the two subgenomes of maize
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1007/978-1-62703-646-7_8openalex-snapshot
MAFFT: Iterative Refinement and Additional Methods
inferredcites →https://doi.org/10.1007/978-90-481-3195-2_1openalex-snapshot
The Origin and Evolution of Gossypium
inferredcites →https://doi.org/10.1007/s10535-016-0656-9openalex-snapshot
Water use efficiency in the drought-stressed sorghum and maize in relation to expression of aquaporin genes
inferredcites →https://doi.org/10.1016/j.pbi.2012.01.015openalex-snapshot
Fractionation mutagenesis and similar consequences of mechanisms removing dispensable or less-expressed DNA in plants
inferredcites →https://doi.org/10.1016/j.pbi.2018.03.006openalex-snapshot
Subgenome assignment in allopolyploids: challenges and future directions
inferredcites →https://doi.org/10.1016/j.ympev.2016.02.022openalex-snapshot
Multilocus phylogeny and phylogenomics of Eriochrysis P. Beauv. (Poaceae–Andropogoneae): Taxonomic implications and evidence of interspecific hybridization
inferredcites →https://doi.org/10.1038/nature22971openalex-snapshot
Improved maize reference genome with single-molecule technologies
inferredcites →https://doi.org/10.1038/nbt.1883openalex-snapshot
Full-length transcriptome assembly from RNA-Seq data without a reference genome
inferredcites →https://doi.org/10.1038/nbt.2196openalex-snapshot
Reference genome sequence of the model plant Setaria
inferredcites →https://doi.org/10.1038/nmeth.1923openalex-snapshot
Fast gapped-read alignment with Bowtie 2
inferredcites →https://doi.org/10.1038/nmeth.2109openalex-snapshot
jModelTest 2: more models, new heuristics and parallel computing
inferredcites →https://doi.org/10.1071/bt9580116openalex-snapshot
Studies on the origin, evolution and distribution of the Gramineae. I. The tribe Andropogoneae
inferredcites →https://doi.org/10.1073/pnas.1101368108openalex-snapshot
Differentiation of the maize subgenomes by genome dominance and both ancient and ongoing gene loss
inferredcites →https://doi.org/10.1073/pnas.1404177111openalex-snapshot
Allopolyploidy, diversification, and the Miocene grassland expansion
inferredcites →https://doi.org/10.1073/pnas.90.17.7980openalex-snapshot
Comparative linkage maps of the rice and maize genomes.
inferredcites →https://doi.org/10.1073/pnas.94.13.6809openalex-snapshot
DNA sequence evidence for the segmental allotetraploid origin of maize
inferredcites →https://doi.org/10.1086/339155openalex-snapshot
Phylogeny of Andropogoneae Inferred from Phytochrome B, GBSSI, and ndhF
inferredcites →https://doi.org/10.1089/cmb.2012.0021openalex-snapshot
SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
inferredcites →https://doi.org/10.1089/cmb.2014.0156openalex-snapshot
PASTA: Ultra-Large Multiple Sequence Alignment for Nucleotide and Amino-Acid Sequences
inferredcites →https://doi.org/10.1093/bioinformatics/bth397openalex-snapshot
DAGchainer: a tool for mining segmental genome duplications and synteny
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/bioinformatics/btu170openalex-snapshot
Trimmomatic: a flexible trimmer for Illumina sequence data
inferredcites →https://doi.org/10.1093/bioinformatics/btw583openalex-snapshot
Verdant: automated annotation, alignment and phylogenetic analysis of whole chloroplast genomes
inferredcites →https://doi.org/10.1093/gbe/evs009openalex-snapshot
Genome-Wide Analysis of Syntenic Gene Deletion in the Grasses
inferredcites →https://doi.org/10.1093/gbe/evw060openalex-snapshot
A phylogenomic assessment of ancient polyploidy and genome evolution across the Poales
inferredcites →https://doi.org/10.1093/genetics/118.2.353openalex-snapshot
Identification of the genomic locations of duplicate nucleotide sequences in maize by analysis of restriction fragment length polymorphisms.
inferredcites →https://doi.org/10.1093/molbev/msx121openalex-snapshot
Gene Fractionation and Function in the Ancient Subgenomes of Maize
inferredcites →https://doi.org/10.1093/nar/gkl315openalex-snapshot
PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments
inferredcites →https://doi.org/10.1093/oso/9780198529187.001.0001openalex-snapshot
Grasses and Grassland Ecology
inferredcites →https://doi.org/10.1093/sysbio/sys029openalex-snapshot
MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space
inferredcites →https://doi.org/10.1101/gr.160601openalex-snapshot
Patterns of Chromosomal Duplication in Maize and Their Implications for Comparative Maps of the Grasses
inferredcites →https://doi.org/10.1101/gr.172684.114openalex-snapshot
The impact of widespread regulatory neofunctionalization on homeolog gene evolution following whole-genome duplication in maize
inferredcites →https://doi.org/10.1101/gr.2332504openalex-snapshot
Close Split of Sorghum and Maize Genome Progenitors
inferredcites →https://doi.org/10.1104/pp.108.124867openalex-snapshot
Finding and Comparing Syntenic Regions among Arabidopsis and the Outgroups Papaya, Poplar, and Grape: CoGe with Rosids
inferredcites →https://doi.org/10.1105/tpc.17.00354openalex-snapshot
Differentially Regulated Orthologs in Sorghum and the Subgenomes of Maize
inferredcites →https://doi.org/10.1105/tpc.17.00595openalex-snapshot
Patterns and Consequences of Subgenome Differentiation Provide Insights into the Nature of Paleopolyploidy in Plants
inferredcites →https://doi.org/10.1111/j.1365-313x.2007.03326.xopenalex-snapshot
How to usefully compare homologous plant genes and chromosomes as DNA sequences
inferredcites →https://doi.org/10.1111/jac.12039openalex-snapshot
Comparison of Drought Tolerance of Maize, Sweet Sorghum and Sorghum‐Sudangrass Hybrids
inferredcites →https://doi.org/10.1126/science.1178534openalex-snapshot
The B73 Maize Genome: Complexity, Diversity, and Dynamics
inferredcites →https://doi.org/10.1146/annurev-genet-112414-055135openalex-snapshot
Brachypodium distachyonas a Genetic Model System
inferredcites →https://doi.org/10.1186/1471-2105-12-102openalex-snapshot
Screening synteny blocks in pairwise genome comparisons through integer programming
inferredcites →https://doi.org/10.1186/1471-2105-12-323openalex-snapshot
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
inferredcites →https://doi.org/10.1186/s12870-016-0823-3openalex-snapshot
Evolutionary relationships in Panicoid grasses based on plastome phylogenomics (Panicoideae; Poaceae)
inferredcites →https://doi.org/10.1186/s13059-015-0721-2openalex-snapshot
OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy
inferredcites →https://doi.org/10.1186/s13059-016-1080-3openalex-snapshot
The draft genome of the C3 panicoid grass species Dichanthelium oligosanthes
inferredcites →https://doi.org/10.1371/journal.pbio.1000409openalex-snapshot
Following Tetraploidy in Maize, a Short Deletion Mechanism Removed Genes Preferentially from One of the Two Homeologs
inferredcites →https://doi.org/10.1371/journal.pgen.0030123openalex-snapshot
Physical and Genetic Structure of the Maize Genome Reflects Its Complex Evolutionary History
inferredcites →https://doi.org/10.1600/036364417x696023openalex-snapshot
Phylogenomics of Andropogoneae (Panicoideae: Poaceae) of Mainland Southeast Asia
inferredcites →https://doi.org/10.2307/2419552openalex-snapshot
Andropogoneae Evolution and Generic Limits in Sorghum (Poaceae) Using ndhF Sequences
inferredcites →https://doi.org/10.2307/4117063openalex-snapshot
The Awnless Genera of Andropogoneae Studies in the Gramineae: XXXIII
inferredcites →https://doi.org/10.2307/4119796openalex-snapshot
Phytochemical Ecology, Phytochemical Society Symposia Series no. 8
inferredcites →https://doi.org/10.3389/fpls.2012.00094openalex-snapshot
Escape from Preferential Retention Following Repeated Whole Genome Duplications in Plants
inferredcites →https://doi.org/10.5281/zenodo.16441047openalex-snapshot
Additional evidence for five as the basic chromosome number of the Andropogoneae
inferredcites →https://doi.org/10.5281/zenodo.597709openalex-snapshot
mrmckain/Fast-Plast: Fast-Plast v.1.2.1
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1002/ppp3.10267openalex-snapshot
Parental origins of the cultivated tetraploid sour cherry ( Prunus cerasus L.)
inferred← citeshttps://doi.org/10.1038/s41586-023-06053-0openalex-snapshot
A pan-grass transcriptome reveals patterns of cellular divergence in crops
inferred← citeshttps://doi.org/10.1073/pnas.2113075119openalex-snapshot
AnchorWave: Sensitive alignment of genomes with high sequence diversity, extensive structural polymorphism, and whole-genome duplication
inferred← citeshttps://doi.org/10.1093/botlinnean/boab008openalex-snapshot
Complex evolutionary history of two ecologically significant grass genera,ThemedaandHeteropogon(Poaceae: Panicoideae: Andropogoneae)
inferred← citeshttps://doi.org/10.1093/sysbio/syab032openalex-snapshot
Analysis of Paralogs in Target Enrichment Data Pinpoints Multiple Ancient Polyploidy Events in Alchemilla s.l. (Rosaceae)
inferred← citeshttps://doi.org/10.1098/rstb.2017.0403openalex-snapshot
Specimen-based analysis of morphology and the environment in ecologically dominant grasses: the power of the herbarium
inferred← citeshttps://doi.org/10.1101/2024.11.06.622220openalex-snapshot
Genomes of Poaceae sisters reveal key metabolic innovations preceding the evolution of grasses
inferred← citeshttps://doi.org/10.1101/2024.12.24.630189openalex-snapshot
Maize and wild relatives show distinct patterns of genome downsizing following polyploidy
inferred← citeshttps://doi.org/10.1101/2025.01.22.633974openalex-snapshot
Extensive genome evolution distinguishes maize within a stable tribe of grasses
inferred← citeshttps://doi.org/10.1111/tpj.14376openalex-snapshot
Parallels between natural selection in the cold‐adapted crop‐wild relative Tripsacum dactyloides and artificial selection in temperate adapted maize
inferred← citeshttps://doi.org/10.1186/s12864-021-07447-yopenalex-snapshot
Detection of subgenome bias using an anchored syntenic approach in Eleusine coracana (finger millet)
inferred← citeshttps://doi.org/10.1186/s12870-019-2218-8openalex-snapshot
Tissue-specific gene expression and protein abundance patterns are associated with fractionation bias in maize
inferred← citeshttps://doi.org/10.1534/g3.120.401596openalex-snapshot
Evolutionary Dynamics of Transposable Elements Following a Shared Polyploidization Event in the Tribe Andropogoneae
inferred← citeshttps://doi.org/10.31274/td-20240617-70openalex-snapshot
The consequences of hybridization in the short- and long-term among the Tripsacinae subtribe of grasses
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