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Category: Computational Models

photo of green pineapple fruit of a plant
Computational Models Growth & Development

How to account for clonal pup mass

Modeling differences in reproductive effort between iteroparous and semelparous reproductive strategies in Bromeliaceae

by Rachel ShekarJanuary 4, 2023January 3, 2023
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Cells, Genes & Molecules Computational Models Growth & Development

Why is active carbon storage being ignored by modelers?

Active carbon pools need to be included for accurate simulation of plant growth patterns under fluctuating environments.

by Rachel ShekarDecember 21, 2022December 21, 2022
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Cells, Genes & Molecules Computational Models in silico Plants

Jet lagged plants pave the way to first digital plant

by Eurekalert, Dale MayleaDecember 7, 2022December 7, 2022
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Computational Models Growth & Development in silico Plants

Improving crop modeling using machine learning

Integration of machine learning and crop modelling can optimize predictions of plant growth and yield.

by Rachel ShekarSeptember 30, 2022November 20, 2022
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Cells, Genes & Molecules Computational Models in silico Plants

Modelling pollen competition

Identification of traits affecting pollen performance

by Rachel ShekarSeptember 27, 2022November 20, 2022
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A flow diagram showing the three sequential steps of cageminer candidate gene prioritization. In the first step, all genes within a sliding window relative to each SNP are selected as putative candidates. In the second step, cageminer performs an enrichment analysis and find candidates from step 1 that co-occur in modules enriched in guide genes. The third step selects candidate genes from step 2 correlated with conditions of interest.
Cells, Genes & Molecules Computational Models in silico Plants

New open source software for identifying candidate genes

Introducing cageminer, an R/Bioconductor package to prioritize candidate genes by integrating GWAS and gene coexpression networks

by Rachel ShekarSeptember 20, 2022November 20, 2022
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Cells, Genes & Molecules Computational Models in silico Plants

Simulating red:far red ratio in your model

The best method depends on your goal, need for accuracy, and computing allowance

by Rachel ShekarSeptember 14, 2022November 20, 2022
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Computational Models Growth & Development Life

Autonomous construction of 3D leaves

An assessment of deep generative networks in creating realistic 3D data

by Rachel ShekarSeptember 8, 2022September 8, 2022
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Cells, Genes & Molecules Computational Models

Machine learning used to identify transcription factor-DNA interactions

Surveying machine learning methods to improve detection of binding sites.

by Rachel ShekarSeptember 5, 2022September 5, 2022
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Computational Models Ecosystems Growth & Development

Modelling perennial grass phenology

Predicting phenology can provide insight into better management.

by Rachel ShekarAugust 31, 2022August 31, 2022
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Cells, Genes & Molecules Computational Models Growth & Development

Increased soybean yields finally achieved

Bioengineering boosts photosynthesis and increases yields in food crops for the first time ever.

by Rachel ShekarAugust 18, 2022August 18, 2022
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Cells, Genes & Molecules Computational Models

Connecting rhythmic gene circuits to metabolism explains the slow growth rate of a slow-clock mutant

A model designed to study circadian effects on physiology becomes more broadly useful when the clock regulates metabolites.

by Rachel ShekarAugust 10, 2022August 10, 2022
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A flow diagram with three horizontal levels. The bottom level is causal genetic loci listing 4 genes for each intermediate trait. Arrows from these point up to the next level, which lists the intermediate traits that they control. These are: strigolactones, auxin, sucrose and cytokinins. One lateral arrow points from auxin to strigolactones. Another lateral arrow points from sucrose to cytokinins. Strigolactones and cytokinins are the signal integrators for bud outgrowth, the target trait under selection.
Cells, Genes & Molecules Computational Models

The benefits of a network view of selection response for complex traits

A new gene-to-phenotype network for shoot branching.

by Rachel ShekarJuly 28, 2022July 28, 2022
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A graphic of experimental field setup shows a fan blowing wind across four maize plants. Each plant has 5 target points highlighted at the same height along the route and stem. Two cameras capture their displacement and this information is fed to a digital management system represented by a computer.
Computational Models

Video-based measurements of maize stalk movement

Measuring the impact of brace roots on lodging resistance in maize.

by Rachel ShekarJuly 14, 2022July 14, 2022
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  1. Nigel Chaffey on The geek’s guide to weird and wonderful plantsJanuary 18, 2023

    Good afternoon, Patrick, Aha, one now begins to wonder if the spelling Catherine in the cited source should really have…

  2. Patrick Collins on The geek’s guide to weird and wonderful plantsJanuary 17, 2023

    The bisindole alkaloid catharine is said to have been published and the molecular structure can be found scattered about, though…

  3. Nigel Chaffey on The geek’s guide to weird and wonderful plantsJanuary 17, 2023

    Hello Patrick, Thank you for taking th etim eto comment on this item. The source for 'catherine' that's stated in…

  4. Patrick Collins on The geek’s guide to weird and wonderful plantsJanuary 15, 2023

    Catherine? I know there are many variants of the basic skeleton with related names but surely the most well-known is…

  5. Nigel Chaffey on Plants named for the great, the good, and the bad..?January 5, 2023

    ICYMI, Dr Sandra Knapp has been awarded an OBE in the UK's New Year's Honours list, for the important contributions…

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About Us

Botany One is a blog run by the Annals of Botany Company, a non-profit educational charity.

In addition to Botany One, the company currently publishes three journals, the Annals of Botany, AoB PLANTS, and in silico Plants.

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