John H. Lagergren

Vision Transformers Enable Advanced Plant Phenotyping in Controlled Environments

This paper compares segmentation methods for plant phenotyping, finding that pretrained vision transformers outperform color thresholding and supervised U-Nets in generalization across species and conditions.

A natural temperature, elevation, and rainfall gradient over the Cascade Mountains drives changes in Populus trichocarpa stress response and microbial community structure

The study examines how climate gradients affect Populus trichocarpa stress responses and microbial communities across different soil niches.

Genome shuffling enables quantitative trait locus mapping in Bacillus subtilis

This study uses genome shuffling in Bacillus subtilis to map quantitative trait loci for complex phenotypes, identifying high-confidence QTLs of moderate size.

Looking beyond stereotyped neuron structures reveals links between beading and morphological rearrangements in aging phenotypes.

This study uses automated dendrite tracing and categorization to show that aging and cold shock cause distinct dendritic beading patterns driven by branching history and systemic effects, respectively.

Climate adaptation in P. trichocarpa: key adaptive loci identified for stomata and leaf traits

This study identifies key genetic loci associated with stomatal and leaf traits in Populus trichocarpa that contribute to climate adaptation, showing smaller stomata in genotypes from arid regions.

Natural variation in physical responses to waterlogging across climate-diverse pennycress accessions

This study identifies natural variation in waterlogging tolerance among pennycress accessions, finding some accessions survive prolonged waterlogging with minimal impact on seed yield.

Divide and conquer: Using RhizoVision Explorer to aggregate data from multiple root scans using image concatenation and statistical methods

The paper introduces two methods to standardize root measurement aggregation across multiple scans using image concatenation and statistical analysis, showing they produce consistent results except for median diameter.

Climatic clustering and longitudinal analysis with impacts on food, bioenergy, and pandemics

The paper identifies high-resolution environmental zones and predicts longitudinal climatic processes using vector comparison and network analysis methods.