OOIR: Observatory of International Research

Papers

(The median citation count of Applications in Plant Sciences is 2. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2022-06-01 to 2026-06-01.)

Article	Citations
	145
	55
A unified framework to investigate and interpret hybrid and allopolyploid biodiversity across biological scales	43
Astragalean819: An Astragalean clade‐specific bait set to resolve phylogenetic relationships in Astragalus	38
Use of electrolyte leakage to assess floral damage after freezing	36
Making sense of complexity: Advances in bioinformatics for plant biology	31
Correction to Welcome to the big leaves: Best practices for improving genome annotation in non‐model plant genomes	29
mvh: An R tool to assemble and organize virtual herbaria from openly available specimen images	26
The challenges of growing orchids from seeds for conservation: An assessment of asymbiotic techniques	25
Optimizing efficient PCR‐amplifiable DNA extraction from herbarium specimens	25
Charting the course for new discoveries in polyploid lineages	24
Conservation Action Tracker: A tool to identify and monitor conservation actions for tree species	19
Correction to “A comparison of freezer‐stored DNA and herbarium tissue samples for chloroplast assembly and genome skimming”	18
Supporting long‐term sustainability of ex situ collections using a pedigree‐based population management approach	17
Building capacity in the conservation of exceptional plant species	17
A practical and easy‐to‐scale protocol for removing chlorophylls from leaf extracts	16
SkelPy: A graphic user interface–based approach for skeletonizing fungal networks	15
	15
Acknowledgment of Reviewers	14
Data‐centric species distribution modeling: Impacts of modeler decisions in a case study of invasive European frog‐bit	13
Experimental methods for wind tunnel studies of seed dispersal by wind	13
Enhancing plant morphological trait identification in herbarium collections through deep learning–based segmentation	12
An automated pipeline for supervised classification of petal color from citizen science photographs	11
Expression‐based machine learning models for predicting plant tissue identity	11
Applying a modified metabarcoding approach for the sequencing of macrofungal specimens from fungarium collections	11

	10
A machine learning algorithm for the automatic classification of Phytophthora infestans genotypes into clonal lineages	10
Protocol to control the invasive alga Avrainvillea lacerata in a shallow Hawaiian reef flat	10
	9
Modified CTAB protocols for high‐molecular‐weight DNA extractions from ferns	9
Issue Information	9
Fully automatic extraction of morphological traits from the web: Utopia or reality?	9
Are they two seeds in a pod? Comparing seed rain recovery in grasslands using artificial grass carpets versus sticky traps	9
DNA release from plant tissue using focused ultrasound extraction (FUSE)	9
Advances in analyzing and engineering plant metabolic diversity	9
Semi‐automated assessment for NatureServe subnational conservation status ranks for state floras	9
Just add water: A simple floral bud injection method for stable Agrobacterium ‐mediated transformation in two ecotypes of Mimulus	9
A novel combination of in vitro propagation and hydroponic culture for hybrid cacao (Theobroma cacao) plants	9
	8
Review of the cellulose acetate peel method and the physical and digital curation of coal balls	8
A low‐cost protocol for the optical method of vulnerability curves to calculate P₅₀	8
Using marsh organs to test seed recruitment in tidal freshwater marshes	8
	8
Multiple Leaf Sample Extraction System (MuLES): A tool to improve automated morphometric leaf studies	8
Issue Information	7
Infrared spectroscopy for ploidy estimation: An example in two species of Veronica using fresh and herbarium specimens	7
Ethanol preservation and pretreatments facilitate quality DNA extractions in recalcitrant plant species	7
Animal‐mediated seed dispersal: A review of study methods	7
Analysis of plant metabolomics data using identification‐free approaches	7
An open‐source LED lamp for use with the LI‐6800 photosynthesis system	6
Chromosome‐scale reference genome of Pectocarya recurvata , the species with the smallest reported genome size in Boraginaceae	6
InDelGT: An integrated pipeline for extracting indel genotypes for genetic mapping in a hybrid population using next‐generation sequencing data	6
Applying interpretable machine learning to assess intraspecific trait divergence under landscape‐scale population differentiation	6
DNA assays for genetic discrimination of three Phragmites australis subspecies in the United States	6
Hijacking a rapid and scalable metagenomic method reveals subgenome dynamics and evolution in polyploid plants	6
	6
A simple and affordable protocol to assess censer seed dispersal: First confirmation of the mechanism in the genus Solanum	6
expowo: An R package for mining global plant diversity and distribution data	6
PlantSAM: An object detection‐driven segmentation pipeline for herbarium specimens	6
Using large language models to extract plant functional traits from unstructured text	6
Optogenetic control of transgene expression in Marchantia polymorpha	6
A new spin on chemotaxonomy: Using non‐proteogenic amino acids as a test case	6
Unlocking fruit dimensions: Quantification of functional traits driving plant–frugivore interactions	5
	5
Correction to GOgetter: A pipeline for summarizing and visualizing GO slim annotations for plant genetic data	5
FieldPrism: A system for creating snapshot vouchers from field images using photogrammetric markers and QR codes	5
Whole‐genomic DNA amplifications from individually isolated sweet sorghum microspores	5
A comparison of freezer‐stored DNA and herbarium tissue samples for chloroplast assembly and genome skimming	5
Issue Information	5
What is the “modified” CTAB protocol? Characterizing modifications to the CTAB DNA extraction protocol	5
BAD2matrix: Phylogenomic matrix concatenation, indel coding, and more	5
Improving computer vision for plant pathology through advanced training techniques	5
The Computer‐Assisted Sequence Annotation (CASA) workflow for enzyme discovery	5
Using disposable food packaging materials as printing, embedding, and sectioning media in the plant anatomy lab	5
A two‐photon fluorescence micro‐spectroscopy method for chemotaxonomic characterization of fossil resins	5

A field‐capable rapid plant DNA extraction protocol using microneedle patches for botanical surveying and monitoring	5
Stable isotope mixing models demonstrate the role of an invasive plant in wetland songbird food webs	4
Procrustean pseudo‐landmark methods in Python to measure massive quantities of leaf shape data	4
Orchid fruit and root movement analyzed using 2D photographs and a bioinformatics pipeline for processing sequential 3D scans	4
florabr: An R package to explore and spatialize species distribution using Flora e Funga do Brasil	4
Novel method for the quantification of rosette area from images of Arabidopsis seedlings grown on agar plates	4
A simple and cost‐effective method for studying anoxia tolerance in plants	4
Evaluation of floral volatile patterns in the genus Narcissus using gas chromatography–coupled ion mobility spectrometry	4
Issue Information	4
From phylogenomics to breeding: Can universal target capture probes be used in the development of SNP markers for kinship analysis?	4
Variant calling in polyploids for population and quantitative genetics	4
Expanded application to plant reproductive tissues of a branched DNA probe‐based in situ hybridization method	4
Issue Information	4
Embryo excision in Compositae, with implications for combating biodiversity loss	4
	4
infinitylists: A Shiny application and R package for rapid generation of place‐based species checklists	4
Optimizing the lysis step in CTAB DNA extractions of silica‐dried and herbarium leaf tissues	4
Balancing read length and sequencing depth: Optimizing Nanopore long‐read sequencing for monocots with an emphasis on the Liliales	4
Issue Information	4
	3
Developing Asparagaceae1726: An Asparagaceae‐specific probe set targeting 1726 loci for Hyb‐Seq and phylogenomics in the family	3
Acclimation and hardening of a slow‐growing woody species emblematic to western North America from in vitro plantlets	3
Computer vision species identification of lichens and bryophytes from biocrusts in Australian drylands	3
HybSuite: An integrated pipeline for hybrid capture phylogenomics from reads to trees	3
The impact of extraction method and pollen concentration on community composition for pollen metabarcoding	3
Issue Information	3
Rapid character scoring and tabulation of large leaf‐image libraries using Adobe Bridge	3
	3
A comparison of methods for excluding light from stems to evaluate stem photosynthesis	3
Correction to “Conservation applications of niche modeling: Native and naturalized ferns may compete for limited Hawaiian dryland habitat”	3
Compositae‐ParaLoss‐1272: A complementary sunflower‐specific probe set reduces paralogs in phylogenomic analyses of complex systems	3
Testing protocols to optimize DNA extraction from tough leaf tissue: A case study in Encephalartos	3
Issue Information	3
Geographic And Taxonomic Occurrence R‐based Scrubbing (gatoRs): An R package and workflow for processing biodiversity data	3
The sensitivity of reconstructed carbon dioxide concentrations to stomatal preparation methods using a leaf gas exchange model	3
Using photogrammetry to create virtual permanent plots in rare and threatened plant communities	3
Efficient homology‐based annotation of transposable elements using minimizers	3
Calceolariaceae809: A bait set for targeted sequencing of nuclear loci	2
An assessment of methods to combine evolutionary history and conservation: A case study in the Brazilian campo rupestre	2
A target enrichment probe set for resolving phylogenetic relationships in the coffee family, Rubiaceae	2
An artificial neural network–based deep learning model to predict combined stress impact and interaction in plants	2
Advancing plant metabolic research by using large language models to expand databases and extract labeled data	2
FlowerMate: Multidimensional reciprocity and inaccuracy indices for style‐polymorphic plant populations	2
Tailoring convolutional neural networks for custom botanical data	2
	2
Looking to the past to inform the future: What eDNA from herbarium specimens can tell us about plant–animal interactions	2
tanggle: An R package for the visualization of phylogenetic networks	2
RootBot: High‐throughput root stress phenotyping robot	2
Issue Information	2
Carbon balance: A technique to assess comparative photosynthetic physiology in poikilohydric plants	2
A comprehensive illustrated protocol for clearing, mounting, and imaging leaf venation networks	2
Creation of a Pseudotsuga menziesii nucellus cell suspension culture system to produce proteins involved in reproduction	2
hybpiper‐nf and paragone‐nf: Containerization and additional options for target capture assembly and paralog resolution	2
Truly the best of both worlds: Merging lineage‐specific and universal probe kits to maximize phylogenomic inference	2
Ensemble automated approaches for producing high‐quality herbarium digital records	2
Raspberry Pi–powered temperature monitoring of growth chamber microclimates	2
	2
nQuack: An R package for predicting ploidal level from sequence data using site‐based heterozygosity	2
Issue Information	2