OOIR: Observatory of International Research

Papers

(The median citation count of Applications in Plant Sciences is 1. 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 2021-04-01 to 2025-04-01.)

Article	Citations
	62
mvh: An R tool to assemble and organize virtual herbaria from openly available specimen images	45
Issue Information	45
Identifying cryptic fern gametophytes using DNA barcoding: A review	36
Analysis of plant metabolomics data using identification‐free approaches	30
	25
Issue Information	24
Looking to the past to inform the future: What eDNA from herbarium specimens can tell us about plant–animal interactions	23
Harnessing aquatic plant growth forms to apply European nutrient‐enrichment bioindicators to Canadian waters	21
Multiple Leaf Sample Extraction System (MuLES): A tool to improve automated morphometric leaf studies	21
Calceolariaceae809: A bait set for targeted sequencing of nuclear loci	19
Infrared spectroscopy for ploidy estimation: An example in two species of Veronica using fresh and herbarium specimens	19
A unified framework to investigate and interpret hybrid and allopolyploid biodiversity across biological scales	18
Ancient DNA extraction methods for herbarium specimens: When is it worth the effort?	17
Optimizing efficient PCR‐amplifiable DNA extraction from herbarium specimens	17
Truly the best of both worlds: Merging lineage‐specific and universal probe kits to maximize phylogenomic inference	17
A roadmap of phylogenomic methods for studying polyploid plant genera	16
From theory to practice: New innovations and their application in conservation biology	16
RootBot: High‐throughput root stress phenotyping robot	15
Use of electrolyte leakage to assess floral damage after freezing	15
A target enrichment probe set for resolving phylogenetic relationships in the coffee family, Rubiaceae	14
Data‐driven guidelines for phylogenomic analyses using SNP data	13
Ethanol preservation and pretreatments facilitate quality DNA extractions in recalcitrant plant species	12
hybpiper‐nf and paragone‐nf: Containerization and additional options for target capture assembly and paralog resolution	11
Simulating pollen flow and field sampling constraints helps revise seed sampling recommendations for conserving genetic diversity	11

Issue Information	11
Issue Information	11
Capturing and managing genetic diversity in ex situ collections of threatened tropical trees: A case study in Karomia gigas	11
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Issue Information	10
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Issue Information	9
Making sense of complexity: Advances in bioinformatics for plant biology	9
Seed dormancy and germination of the endangered exceptional Hawaiian lobelioid Brighamia rockii	8
Algae to angiosperms: Autofluorescence for rapid visualization of plant anatomy among diverse taxa	8
Correction to Welcome to the big leaves: Best practices for improving genome annotation in non‐model plant genomes	7
The best of both worlds: Combining lineage‐specific and universal bait sets in target‐enrichment hybridization reactions	7
	7
A protocol for the generation of Arachis hypogaea composite plants: A valuable tool for the functional study of mycorrhizal symbiosis	7
Single‐nucleotide polymorphisms that uniquely identify cultivars of avocado (Persea americana)	7
Step‐by‐step protocol for the isolation and transient transformation of hornwort protoplasts	7
Stable isotope mixing models demonstrate the role of an invasive plant in wetland songbird food webs	7
The ecology and physiology of fern gametophytes: A methodological synthesis	6
Calculation of the ovule number in the genus Salix: A method for taxa differentiation	6
Evaluation of floral volatile patterns in the genus Narcissus using gas chromatography–coupled ion mobility spectrometry	6
Advancing the science and practice of rare plant conservation with the Center for Plant Conservation Reintroduction Database	6
An optimized RNA extraction method for diverse leaves of Hawaiian Metrosideros, a hypervariable tree species complex	6
Conservation Action Tracker: A tool to identify and monitor conservation actions for tree species	5
Efficient imaging and computer vision detection of two cell shapes in young cotton fibers	5
A dormant resource for genome size estimation in ferns: C‐value inference of the Ophioglossaceae using herbarium specimen spores	5
An open‐source LED lamp for use with the LI‐6800 photosynthesis system	5
A simple and cost‐effective method for studying anoxia tolerance in plants	5
Polyploidy and the evolution of phenotypic integration: Network analysis reveals relationships among anatomy, morphology, and physiology	5
Bringing genomics to the field: An integrative approach to seed sourcing for forest restoration	5
Supporting long‐term sustainability of ex situ collections using a pedigree‐based population management approach	5
Does sorting by color using visible and high‐energy violet light improve classification of taxa in honey bee pollen pellets?	5
Charting the course for new discoveries in polyploid lineages	5
Photographic analysis of field‐monitored fern gametophyte development and response to environmental stress	5
	4
Orchid fruit and root movement analyzed using 2D photographs and a bioinformatics pipeline for processing sequential 3D scans	4
Tailoring convolutional neural networks for custom botanical data	4
	4
A comprehensive illustrated protocol for clearing, mounting, and imaging leaf venation networks	4
A metabarcoding protocol targeting two DNA regions to analyze root‐associated fungal communities in ferns and lycophytes	4
Hijacking a rapid and scalable metagenomic method reveals subgenome dynamics and evolution in polyploid plants	4
Exploring Angiosperms353: Developing and applying a universal toolkit for flowering plant phylogenomics	4
Building capacity in the conservation of exceptional plant species	4
Acknowledgment of Reviewers	4
Optimizing the lysis step in CTAB DNA extractions of silica‐dried and herbarium leaf tissues	4
Variant calling in polyploids for population and quantitative genetics	4
Issue Information	4
Issue Information	4
Area from image analyses accurately estimates dry‐weight biomass of juvenile tissue from the moss Ceratodon purpureus	3
Issue Information	3
Correction to “A comparison of freezer‐stored DNA and herbarium tissue samples for chloroplast assembly and genome skimming”	3

Issue Information	3
Lineage‐specific vs. universal: A comparison of the Compositae1061 and Angiosperms353 enrichment panels in the sunflower family	3
	3
Issue Information	3
The challenges of growing orchids from seeds for conservation: An assessment of asymbiotic techniques	3
From phylogenomics to breeding: Can universal target capture probes be used in the development of SNP markers for kinship analysis?	3
Microbial methods matter: Identifying discrepancies between microbiome denoising pipelines using a leaf biofilm taphonomic dataset	3
Selection on the gametophyte: Modeling alternation of generations in plants	3
Issue Information	3
Corrigendum	3
nQuack: An R package for predicting ploidal level from sequence data using site‐based heterozygosity	3
Issue Information	2
Enhancing plant morphological trait identification in herbarium collections through deep learning–based segmentation	2
Thallus hydrophobicity: A low‐cost method for understanding lichen ecophysiological responses to environmental changes	2
High‐speed video and plant ultrastructure define mechanisms of gametophyte dispersal	2
Issue Information	2
	2
Carbon balance: A technique to assess comparative photosynthetic physiology in poikilohydric plants	2
Spatially resolved detection of small molecules from press‐dried plant tissue using MALDI imaging	2
Toward genomic selection inPinus taeda: Integrating resources to support array design in a complex conifer genome	2
Issue Information	2
Welcome to the big leaves: Best practices for improving genome annotation in non‐model plant genomes	2
Acknowledgment of Reviewers	2
InDelGT: An integrated pipeline for extracting indel genotypes for genetic mapping in a hybrid population using next‐generation sequencing data	2
	2
Choices on sampling, sequencing, and analyzing DNA influence the estimation of community composition of plant fungal symbionts	2
Methodologies for soil extraction and conservation analysis of ferns and lycophytes with belowground gametophytes	2
Data‐centric species distribution modeling: Impacts of modeler decisions in a case study of invasive European frog‐bit	2
Applying a modified metabarcoding approach for the sequencing of macrofungal specimens from fungarium collections	2
Methodologies in gametophyte biology	2
Acknowledgment of reviewers	2
Performant barcode decoding for herbarium specimen images using vector‐assisted region proposals (VARP)	2
A sick plot–based protocol for dry root rot disease assessment in field‐grown chickpea plants	2
expowo: An R package for mining global plant diversity and distribution data	2
Estimating herbarium specimen digitization rates: Accounting for human experience	2
Relative performance of customized and universal probe sets in target enrichment: A case study in subtribe Malinae	2
	2
An efficient and effective RNA extraction protocol for ferns	2
Polishing entire stems and roots using sandpaper under water: An alternative method for macroscopic analyses	2
A comparison of methods for excluding light from stems to evaluate stem photosynthesis	1
A machine learning approach to study plant functional trait divergence	1
Novel method for the quantification of rosette area from images of Arabidopsis seedlings grown on agar plates	1
Optogenetic control of transgene expression in Marchantia polymorpha	1
LoCoLotive: In silico mining for low‐copy nuclear loci based on target capture probe sets and arbitrary reference genomes	1
Protocol to control the invasive alga Avrainvillea lacerata in a shallow Hawaiian reef flat	1
A maceration technique for soft plant tissue without hazardous chemicals	1
	1
A low‐cost high‐throughput phenotyping system for automatically quantifying foliar area and greenness	1
Expression‐based machine learning models for predicting plant tissue identity	1
A standardized and efficient technique to estimate seed traits in plants with numerous small propagules	1
Measuring volatile emissions from moss gametophytes: A review of methodologies and new applications	1
An experimental assessment of competitive interactions between sexual and apomictic fern gametophytes using Easy Leaf Area	1
Advances in plant imaging across scales	1
	1
Issue Information	1
GOgetter: A pipeline for summarizing and visualizing GO slim annotations for plant genetic data	1
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On the potential of Angiosperms353 for population genomic studies	1
FlowerMate: Multidimensional reciprocity and inaccuracy indices for style‐polymorphic plant populations	1
An automated pipeline for supervised classification of petal color from citizen science photographs	1
Using photogrammetry to create virtual permanent plots in rare and threatened plant communities	1
Issue Information	1
DNA assays for genetic discrimination of threePhragmites australissubspecies in the United States	1
Conservation applications of niche modeling: Native and naturalized ferns may compete for limited Hawaiian dryland habitat	1
The impact of extraction method and pollen concentration on community composition for pollen metabarcoding	1
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Research inequity in the plant sciences	1
A comparison of freezer‐stored DNA and herbarium tissue samples for chloroplast assembly and genome skimming	1