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 2021-11-01 to 2025-11-01.)

Article	Citations
Use of electrolyte leakage to assess floral damage after freezing	95
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	30
A unified framework to investigate and interpret hybrid and allopolyploid biodiversity across biological scales	30
Making sense of complexity: Advances in bioinformatics for plant biology	30
Correction to Welcome to the big leaves: Best practices for improving genome annotation in non‐model plant genomes	25
mvh: An R tool to assemble and organize virtual herbaria from openly available specimen images	24
Astragalean819: An Astragalean clade‐specific bait set to resolve phylogenetic relationships in Astragalus	22
Optimizing efficient PCR‐amplifiable DNA extraction from herbarium specimens	22
Building capacity in the conservation of exceptional plant species	21
Charting the course for new discoveries in polyploid lineages	20
Correction to “A comparison of freezer‐stored DNA and herbarium tissue samples for chloroplast assembly and genome skimming”	18
A practical and easy‐to‐scale protocol for removing chlorophylls from leaf extracts	18
Conservation Action Tracker: A tool to identify and monitor conservation actions for tree species	18
The challenges of growing orchids from seeds for conservation: An assessment of asymbiotic techniques	15
Photographic analysis of field‐monitored fern gametophyte development and response to environmental stress	15
Supporting long‐term sustainability of ex situ collections using a pedigree‐based population management approach	14
	14
Data‐centric species distribution modeling: Impacts of modeler decisions in a case study of invasive European frog‐bit	14
Acknowledgment of Reviewers	13
Applying a modified metabarcoding approach for the sequencing of macrofungal specimens from fungarium collections	12
Enhancing plant morphological trait identification in herbarium collections through deep learning–based segmentation	11
Expression‐based machine learning models for predicting plant tissue identity	11
An automated pipeline for supervised classification of petal color from citizen science photographs	10
A machine learning algorithm for the automatic classification of Phytophthora infestans genotypes into clonal lineages	9

DNA release from plant tissue using focused ultrasound extraction (FUSE)	9
Protocol to control the invasive alga Avrainvillea lacerata in a shallow Hawaiian reef flat	9
The future of plant science: Applications at the intersection	9
Fully automatic extraction of morphological traits from the web: Utopia or reality?	9
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	9
Modified CTAB protocols for high‐molecular‐weight DNA extractions from ferns	8
A novel combination of in vitro propagation and hydroponic culture for hybrid cacao (Theobroma cacao) plants	8
A low‐cost protocol for the optical method of vulnerability curves to calculate P₅₀	8
Just add water: A simple floral bud injection method for stable Agrobacterium ‐mediated transformation in two ecotypes of Mimulus	8
Issue Information	8
Review of the cellulose acetate peel method and the physical and digital curation of coal balls	8
Accelerating gametophytic growth in the model hornwort Anthoceros agrestis	8
Advances in analyzing and engineering plant metabolic diversity	8
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	7
Issue Information	7
Using marsh organs to test seed recruitment in tidal freshwater marshes	7
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Providing the missing links in fern life history: Insights from a phenological survey of the gametophyte stage	7
Identifying cryptic fern gametophytes using DNA barcoding: A review	7
Infrared spectroscopy for ploidy estimation: An example in two species of Veronica using fresh and herbarium specimens	6
Analysis of plant metabolomics data using identification‐free approaches	6
Multiple Leaf Sample Extraction System (MuLES): A tool to improve automated morphometric leaf studies	6
Ethanol preservation and pretreatments facilitate quality DNA extractions in recalcitrant plant species	6
A protocol for the generation of Arachis hypogaea composite plants: A valuable tool for the functional study of mycorrhizal symbiosis	6
Hijacking a rapid and scalable metagenomic method reveals subgenome dynamics and evolution in polyploid plants	5
Issue Information	5
Applying interpretable machine learning to assess intraspecific trait divergence under landscape‐scale population differentiation	5
Optogenetic control of transgene expression in Marchantia polymorpha	5
Corrigendum	5
A dormant resource for genome size estimation in ferns: C‐value inference of the Ophioglossaceae using herbarium specimen spores	5
A new spin on chemotaxonomy: Using non‐proteogenic amino acids as a test case	5
Using large language models to extract plant functional traits from unstructured text	5
An open‐source LED lamp for use with the LI‐6800 photosynthesis system	5
Selection on the gametophyte: Modeling alternation of generations in plants	5
Chromosome‐scale reference genome of Pectocarya recurvata, the species with the smallest reported genome size in Boraginaceae	5
Embryo excision in Compositae, with implications for combating biodiversity loss	4
Step‐by‐step protocol for the isolation and transient transformation of hornwort protoplasts	4
Correction to GOgetter: A pipeline for summarizing and visualizing GO slim annotations for plant genetic data	4
	4
A comparison of freezer‐stored DNA and herbarium tissue samples for chloroplast assembly and genome skimming	4
expowo: An R package for mining global plant diversity and distribution data	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
Balancing read length and sequencing depth: Optimizing Nanopore long‐read sequencing for monocots with an emphasis on the Liliales	4
FieldPrism: A system for creating snapshot vouchers from field images using photogrammetric markers and QR codes	4
Using disposable food packaging materials as printing, embedding, and sectioning media in the plant anatomy lab	4
The Computer‐Assisted Sequence Annotation (CASA) workflow for enzyme discovery	4
	4

What is the “modified” CTAB protocol? Characterizing modifications to the CTAB DNA extraction protocol	4
BAD2matrix: Phylogenomic matrix concatenation, indel coding, and more	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
Issue Information	4
DNA assays for genetic discrimination of three Phragmites australis subspecies in the United States	4
InDelGT: An integrated pipeline for extracting indel genotypes for genetic mapping in a hybrid population using next‐generation sequencing data	4
PhyloHerb: A high‐throughput phylogenomic pipeline for processing genome skimming data	4
Expanded application to plant reproductive tissues of a branched DNA probe‐based in situ hybridization method	4
infinitylists: A Shiny application and R package for rapid generation of place‐based species checklists	3
Stable isotope mixing models demonstrate the role of an invasive plant in wetland songbird food webs	3
Calculation of the ovule number in the genus Salix: A method for taxa differentiation	3
Efficient homology‐based annotation of transposable elements using minimizers	3
Issue Information	3
Issue Information	3
Issue Information	3
Ancient DNA extraction methods for herbarium specimens: When is it worth the effort?	3
A simple and cost‐effective method for studying anoxia tolerance in plants	3
Compositae‐ParaLoss‐1272: A complementary sunflower‐specific probe set reduces paralogs in phylogenomic analyses of complex systems	3
Variant calling in polyploids for population and quantitative genetics	3
Using photogrammetry to create virtual permanent plots in rare and threatened plant communities	3
	3
Evaluation of floral volatile patterns in the genus Narcissus using gas chromatography–coupled ion mobility spectrometry	3
Optimizing the lysis step in CTAB DNA extractions of silica‐dried and herbarium leaf tissues	3
The sensitivity of reconstructed carbon dioxide concentrations to stomatal preparation methods using a leaf gas exchange model	3
From phylogenomics to breeding: Can universal target capture probes be used in the development of SNP markers for kinship analysis?	3
Orchid fruit and root movement analyzed using 2D photographs and a bioinformatics pipeline for processing sequential 3D scans	3
Novel method for the quantification of rosette area from images of Arabidopsis seedlings grown on agar plates	3
A comparison of methods for excluding light from stems to evaluate stem photosynthesis	3
Tailoring convolutional neural networks for custom botanical data	2
Looking to the past to inform the future: What eDNA from herbarium specimens can tell us about plant–animal interactions	2
Issue Information	2
An assessment of methods to combine evolutionary history and conservation: A case study in the Brazilian campo rupestre	2
Testing protocols to optimize DNA extraction from tough leaf tissue: A case study in Encephalartos	2
Geographic And Taxonomic Occurrence R‐based Scrubbing (gatoRs): An R package and workflow for processing biodiversity data	2
Truly the best of both worlds: Merging lineage‐specific and universal probe kits to maximize phylogenomic inference	2
nQuack: An R package for predicting ploidal level from sequence data using site‐based heterozygosity	2
A comprehensive illustrated protocol for clearing, mounting, and imaging leaf venation networks	2
hybpiper‐nf and paragone‐nf: Containerization and additional options for target capture assembly and paralog resolution	2
Issue Information	2
Acclimation and hardening of a slow‐growing woody species emblematic to western North America from in vitro plantlets	2
Ensemble automated approaches for producing high‐quality herbarium digital records	2
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Developing Asparagaceae1726: An Asparagaceae‐specific probe set targeting 1726 loci for Hyb‐Seq and phylogenomics in the family	2
A target enrichment probe set for resolving phylogenetic relationships in the coffee family, Rubiaceae	2
Raspberry Pi–powered temperature monitoring of growth chamber microclimates	2
Carbon balance: A technique to assess comparative photosynthetic physiology in poikilohydric plants	2
Calceolariaceae809: A bait set for targeted sequencing of nuclear loci	2
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Rapid character scoring and tabulation of large leaf‐image libraries using Adobe Bridge	2
Issue Information	2
The impact of extraction method and pollen concentration on community composition for pollen metabarcoding	2
RootBot: High‐throughput root stress phenotyping robot	2
A machine learning approach to study plant functional trait divergence	2
Issue Information	2