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 2022-01-01 to 2026-01-01.)

Article	Citations
	110
	43
A unified framework to investigate and interpret hybrid and allopolyploid biodiversity across biological scales	37
Astragalean819: An Astragalean clade‐specific bait set to resolve phylogenetic relationships in Astragalus	31
Correction to Welcome to the big leaves: Best practices for improving genome annotation in non‐model plant genomes	31
Making sense of complexity: Advances in bioinformatics for plant biology	28
Use of electrolyte leakage to assess floral damage after freezing	27
mvh: An R tool to assemble and organize virtual herbaria from openly available specimen images	27
A practical and easy‐to‐scale protocol for removing chlorophylls from leaf extracts	26
Optimizing efficient PCR‐amplifiable DNA extraction from herbarium specimens	26
Supporting long‐term sustainability of ex situ collections using a pedigree‐based population management approach	22
Building capacity in the conservation of exceptional plant species	21
Correction to “A comparison of freezer‐stored DNA and herbarium tissue samples for chloroplast assembly and genome skimming”	20
Charting the course for new discoveries in polyploid lineages	20
Conservation Action Tracker: A tool to identify and monitor conservation actions for tree species	17
Photographic analysis of field‐monitored fern gametophyte development and response to environmental stress	16
The challenges of growing orchids from seeds for conservation: An assessment of asymbiotic techniques	15
	15
Data‐centric species distribution modeling: Impacts of modeler decisions in a case study of invasive European frog‐bit	14
An automated pipeline for supervised classification of petal color from citizen science photographs	13
Expression‐based machine learning models for predicting plant tissue identity	13
Applying a modified metabarcoding approach for the sequencing of macrofungal specimens from fungarium collections	13
Acknowledgment of Reviewers	12
The future of plant science: Applications at the intersection	12
Enhancing plant morphological trait identification in herbarium collections through deep learning–based segmentation	12

Protocol to control the invasive alga Avrainvillea lacerata in a shallow Hawaiian reef flat	11
A machine learning algorithm for the automatic classification of Phytophthora infestans genotypes into clonal lineages	11
	11
Fully automatic extraction of morphological traits from the web: Utopia or reality?	10
Issue Information	10
Advances in analyzing and engineering plant metabolic diversity	10
Accelerating gametophytic growth in the model hornwort Anthoceros agrestis	9
Modified CTAB protocols for high‐molecular‐weight DNA extractions from ferns	9
	9
Review of the cellulose acetate peel method and the physical and digital curation of coal balls	9
A novel combination of in vitro propagation and hydroponic culture for hybrid cacao (Theobroma cacao) plants	9
Just add water: A simple floral bud injection method for stable Agrobacterium ‐mediated transformation in two ecotypes of Mimulus	9
A low‐cost protocol for the optical method of vulnerability curves to calculate P₅₀	9
DNA release from plant tissue using focused ultrasound extraction (FUSE)	9
	8
	8
Using marsh organs to test seed recruitment in tidal freshwater marshes	8
Providing the missing links in fern life history: Insights from a phenological survey of the gametophyte stage	8
Issue Information	8
	7
A protocol for the generation of Arachis hypogaea composite plants: A valuable tool for the functional study of mycorrhizal symbiosis	7
Identifying cryptic fern gametophytes using DNA barcoding: A review	7
Analysis of plant metabolomics data using identification‐free approaches	7
Multiple Leaf Sample Extraction System (MuLES): A tool to improve automated morphometric leaf studies	7
Infrared spectroscopy for ploidy estimation: An example in two species of Veronica using fresh and herbarium specimens	7
Using large language models to extract plant functional traits from unstructured text	6
Ethanol preservation and pretreatments facilitate quality DNA extractions in recalcitrant plant species	6
A comparison of freezer‐stored DNA and herbarium tissue samples for chloroplast assembly and genome skimming	6
Issue Information	6
Selection on the gametophyte: Modeling alternation of generations in plants	6
PlantSAM: An object detection‐driven segmentation pipeline for herbarium specimens	6
Chromosome‐scale reference genome of Pectocarya recurvata , the species with the smallest reported genome size in Boraginaceae	6
Hijacking a rapid and scalable metagenomic method reveals subgenome dynamics and evolution in polyploid plants	6
An open‐source LED lamp for use with the LI‐6800 photosynthesis system	6
A new spin on chemotaxonomy: Using non‐proteogenic amino acids as a test case	6
Applying interpretable machine learning to assess intraspecific trait divergence under landscape‐scale population differentiation	5
Using disposable food packaging materials as printing, embedding, and sectioning media in the plant anatomy lab	5
FieldPrism: A system for creating snapshot vouchers from field images using photogrammetric markers and QR codes	5
Optogenetic control of transgene expression in Marchantia polymorpha	5
expowo: An R package for mining global plant diversity and distribution data	5
	5
The Computer‐Assisted Sequence Annotation (CASA) workflow for enzyme discovery	5
InDelGT: An integrated pipeline for extracting indel genotypes for genetic mapping in a hybrid population using next‐generation sequencing data	5
Correction to GOgetter: A pipeline for summarizing and visualizing GO slim annotations for plant genetic data	5
Issue Information	5
What is the “modified” CTAB protocol? Characterizing modifications to the CTAB DNA extraction protocol	5
DNA assays for genetic discrimination of three Phragmites australis subspecies in the United States	5
	5
PhyloHerb: A high‐throughput phylogenomic pipeline for processing genome skimming data	4
Improving computer vision for plant pathology through advanced training techniques	4

florabr: An R package to explore and spatialize species distribution using Flora e Funga do Brasil	4
Step‐by‐step protocol for the isolation and transient transformation of hornwort protoplasts	4
Stable isotope mixing models demonstrate the role of an invasive plant in wetland songbird food webs	4
	4
BAD2matrix: Phylogenomic matrix concatenation, indel coding, and more	4
Expanded application to plant reproductive tissues of a branched DNA probe‐based in situ hybridization method	4
Balancing read length and sequencing depth: Optimizing Nanopore long‐read sequencing for monocots with an emphasis on the Liliales	4
infinitylists: A Shiny application and R package for rapid generation of place‐based species checklists	4
Ancient DNA extraction methods for herbarium specimens: When is it worth the effort?	4
Issue Information	4
A field‐capable rapid plant DNA extraction protocol using microneedle patches for botanical surveying and monitoring	4
Whole‐genomic DNA amplifications from individually isolated sweet sorghum microspores	4
Embryo excision in Compositae, with implications for combating biodiversity loss	4
Evaluation of floral volatile patterns in the genus Narcissus using gas chromatography–coupled ion mobility spectrometry	4
Issue Information	4
A simple and cost‐effective method for studying anoxia tolerance in plants	4
Compositae‐ParaLoss‐1272: A complementary sunflower‐specific probe set reduces paralogs in phylogenomic analyses of complex systems	3
Optimizing the lysis step in CTAB DNA extractions of silica‐dried and herbarium leaf tissues	3
Issue Information	3
Efficient homology‐based annotation of transposable elements using minimizers	3
The sensitivity of reconstructed carbon dioxide concentrations to stomatal preparation methods using a leaf gas exchange model	3
Issue Information	3
Testing protocols to optimize DNA extraction from tough leaf tissue: A case study in Encephalartos	3
Orchid fruit and root movement analyzed using 2D photographs and a bioinformatics pipeline for processing sequential 3D scans	3
Variant calling in polyploids for population and quantitative genetics	3
Issue Information	3
Novel method for the quantification of rosette area from images of Arabidopsis seedlings grown on agar plates	3
Geographic And Taxonomic Occurrence R‐based Scrubbing (gatoRs): An R package and workflow for processing biodiversity data	3
Rapid character scoring and tabulation of large leaf‐image libraries using Adobe Bridge	3
Developing Asparagaceae1726: An Asparagaceae‐specific probe set targeting 1726 loci for Hyb‐Seq and phylogenomics in the family	3
From phylogenomics to breeding: Can universal target capture probes be used in the development of SNP markers for kinship analysis?	3
Using photogrammetry to create virtual permanent plots in rare and threatened plant communities	3
Computer vision species identification of lichens and bryophytes from biocrusts in Australian drylands	3
The impact of extraction method and pollen concentration on community composition for pollen metabarcoding	3
	3
A comparison of methods for excluding light from stems to evaluate stem photosynthesis	3
Issue Information	3
Spatially resolved detection of small molecules from press‐dried plant tissue using MALDI imaging	2
FlowerMate: Multidimensional reciprocity and inaccuracy indices for style‐polymorphic plant populations	2
Raspberry Pi–powered temperature monitoring of growth chamber microclimates	2
RootBot: High‐throughput root stress phenotyping robot	2
Truly the best of both worlds: Merging lineage‐specific and universal probe kits to maximize phylogenomic inference	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
A comprehensive illustrated protocol for clearing, mounting, and imaging leaf venation networks	2
A machine learning approach to study plant functional trait divergence	2
	2
nQuack: An R package for predicting ploidal level from sequence data using site‐based heterozygosity	2
hybpiper‐nf and paragone‐nf: Containerization and additional options for target capture assembly and paralog resolution	2
Looking to the past to inform the future: What eDNA from herbarium specimens can tell us about plant–animal interactions	2
Acclimation and hardening of a slow‐growing woody species emblematic to western North America from in vitro plantlets	2
Issue Information	2
Welcome to the big leaves: Best practices for improving genome annotation in non‐model plant genomes	2
Measuring volatile emissions from moss gametophytes: A review of methodologies and new applications	2
Carbon balance: A technique to assess comparative photosynthetic physiology in poikilohydric plants	2
Advancing plant metabolic research by using large language models to expand databases and extract labeled data	2
Calceolariaceae809: A bait set for targeted sequencing of nuclear loci	2
Ensemble automated approaches for producing high‐quality herbarium digital records	2
Tailoring convolutional neural networks for custom botanical data	2
Issue Information	2