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 2021-08-01 to 2025-08-01.)

Article	Citations
	69
	31
Making sense of complexity: Advances in bioinformatics for plant biology	29
A unified framework to investigate and interpret hybrid and allopolyploid biodiversity across biological scales	24
Correction to Welcome to the big leaves: Best practices for improving genome annotation in non‐model plant genomes	24
Use of electrolyte leakage to assess floral damage after freezing	22
Optimizing efficient PCR‐amplifiable DNA extraction from herbarium specimens	22
mvh: An R tool to assemble and organize virtual herbaria from openly available specimen images	20
Conservation Action Tracker: A tool to identify and monitor conservation actions for tree species	20
Building capacity in the conservation of exceptional plant species	20
Photographic analysis of field‐monitored fern gametophyte development and response to environmental stress	17
Charting the course for new discoveries in polyploid lineages	17
Correction to “A comparison of freezer‐stored DNA and herbarium tissue samples for chloroplast assembly and genome skimming”	16
Supporting long‐term sustainability of ex situ collections using a pedigree‐based population management approach	15
	14
The challenges of growing orchids from seeds for conservation: An assessment of asymbiotic techniques	14
Data‐centric species distribution modeling: Impacts of modeler decisions in a case study of invasive European frog‐bit	13
Acknowledgment of Reviewers	12
An automated pipeline for supervised classification of petal color from citizen science photographs	12
Applying a modified metabarcoding approach for the sequencing of macrofungal specimens from fungarium collections	11
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
	10
The future of plant science: Applications at the intersection	9
Protocol to control the invasive alga Avrainvillea lacerata in a shallow Hawaiian reef flat	9

Fully automatic extraction of morphological traits from the web: Utopia or reality?	9
A machine learning algorithm for the automatic classification of Phytophthora infestans genotypes into clonal lineages	8
	8
Issue Information	8
Accelerating gametophytic growth in the model hornwort Anthoceros agrestis	8
	7
Modified CTAB protocols for high‐molecular‐weight DNA extractions from ferns	7
A low‐cost protocol for the optical method of vulnerability curves to calculate P₅₀	7
Providing the missing links in fern life history: Insights from a phenological survey of the gametophyte stage	7
Issue Information	7
DNA release from plant tissue using focused ultrasound extraction (FUSE)	7
A novel combination of in vitro propagation and hydroponic culture for hybrid cacao (Theobroma cacao) plants	7
Using marsh organs to test seed recruitment in tidal freshwater marshes	7
	7
Informed cover measurement: Guidelines and error for point‐intercept approaches	7
Advances in analyzing and engineering plant metabolic diversity	7
Review of the cellulose acetate peel method and the physical and digital curation of coal balls	7
Infrared spectroscopy for ploidy estimation: An example in two species of Veronica using fresh and herbarium specimens	7
A protocol for the generation of Arachis hypogaea composite plants: A valuable tool for the functional study of mycorrhizal symbiosis	6
Identifying cryptic fern gametophytes using DNA barcoding: A review	6
Ethanol preservation and pretreatments facilitate quality DNA extractions in recalcitrant plant species	6
A dormant resource for genome size estimation in ferns: C‐value inference of the Ophioglossaceae using herbarium specimen spores	6
Multiple Leaf Sample Extraction System (MuLES): A tool to improve automated morphometric leaf studies	6
Analysis of plant metabolomics data using identification‐free approaches	6
Chromosome‐scale reference genome of Pectocarya recurvata, the species with the smallest reported genome size in Boraginaceae	5
	5
Issue Information	5
An open‐source LED lamp for use with the LI‐6800 photosynthesis system	5
Choices on sampling, sequencing, and analyzing DNA influence the estimation of community composition of plant fungal symbionts	5
Hijacking a rapid and scalable metagenomic method reveals subgenome dynamics and evolution in polyploid plants	5
Selection on the gametophyte: Modeling alternation of generations in plants	5
Using large language models to extract plant functional traits from unstructured text	5
Corrigendum	5
DNA assays for genetic discrimination of threePhragmites australissubspecies in the United States	4
Applying interpretable machine learning to assess intraspecific trait divergence under landscape‐scale population differentiation	4
Correction to GOgetter: A pipeline for summarizing and visualizing GO slim annotations for plant genetic data	4
What is the “modified” CTAB protocol? Characterizing modifications to the CTAB DNA extraction protocol	4
FieldPrism: A system for creating snapshot vouchers from field images using photogrammetric markers and QR codes	4
Optogenetic control of transgene expression in Marchantia polymorpha	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
Using disposable food packaging materials as printing, embedding, and sectioning media in the plant anatomy lab	4
BAD2matrix: Phylogenomic matrix concatenation, indel coding, and more	4
The Computer‐Assisted Sequence Annotation (CASA) workflow for enzyme discovery	4
InDelGT: An integrated pipeline for extracting indel genotypes for genetic mapping in a hybrid population using next‐generation sequencing data	4
A new spin on chemotaxonomy: Using non‐proteogenic amino acids as a test case	4
	4
Issue Information	4
A field‐capable rapid plant DNA extraction protocol using microneedle patches for botanical surveying and monitoring	4
Balancing read length and sequencing depth: Optimizing Nanopore long‐read sequencing for monocots with an emphasis on the Liliales	3

Whole‐genomic DNA amplifications from individually isolated sweet sorghum microspores	3
Evaluation of floral volatile patterns in the genus Narcissus using gas chromatography–coupled ion mobility spectrometry	3
Ancient DNA extraction methods for herbarium specimens: When is it worth the effort?	3
Stable isotope mixing models demonstrate the role of an invasive plant in wetland songbird food webs	3
Issue Information	3
Embryo excision in Compositae, with implications for combating biodiversity loss	3
infinitylists: A Shiny application and R package for rapid generation of place‐based species checklists	3
Step‐by‐step protocol for the isolation and transient transformation of hornwort protoplasts	3
	3
PhyloHerb: A high‐throughput phylogenomic pipeline for processing genome skimming data	3
florabr: An R package to explore and spatialize species distribution using Flora e Funga do Brasil	3
Improving computer vision for plant pathology through advanced training techniques	3
Issue Information	3
Optimizing the lysis step in CTAB DNA extractions of silica‐dried and herbarium leaf tissues	3
Digital morphometrics: Application of MorphoLeaf in shape visualization and species delimitation, using Cucurbitaceae leaves as a model	3
Efficient homology‐based annotation of transposable elements using minimizers	2
Novel method for the quantification of rosette area from images of Arabidopsis seedlings grown on agar plates	2
Orchid fruit and root movement analyzed using 2D photographs and a bioinformatics pipeline for processing sequential 3D scans	2
A simple and cost‐effective method for studying anoxia tolerance in plants	2
Developing Asparagaceae1726: An Asparagaceae‐specific probe set targeting 1726 loci for Hyb‐Seq and phylogenomics in the family	2
Testing protocols to optimize DNA extraction from tough leaf tissue: A case study in Encephalartos	2
hybpiper‐nf and paragone‐nf: Containerization and additional options for target capture assembly and paralog resolution	2
An assessment of methods to combine evolutionary history and conservation: A case study in the Brazilian campo rupestre	2
Issue Information	2
	2
	2
The sensitivity of reconstructed carbon dioxide concentrations to stomatal preparation methods using a leaf gas exchange model	2
From phylogenomics to breeding: Can universal target capture probes be used in the development of SNP markers for kinship analysis?	2
Calculation of the ovule number in the genus Salix: A method for taxa differentiation	2
Elucidating biofilm diversity on water lily leaves through 16S rRNA amplicon analysis: Comparison of four DNA extraction kits	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
A target enrichment probe set for resolving phylogenetic relationships in the coffee family, Rubiaceae	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
Rapid character scoring and tabulation of large leaf‐image libraries using Adobe Bridge	2
The impact of extraction method and pollen concentration on community composition for pollen metabarcoding	2
Compositae‐ParaLoss‐1272: A complementary sunflower‐specific probe set reduces paralogs in phylogenomic analyses of complex systems	2
Using photogrammetry to create virtual permanent plots in rare and threatened plant communities	2
Variant calling in polyploids for population and quantitative genetics	2
A comparison of methods for excluding light from stems to evaluate stem photosynthesis	2
Issue Information	2
Calceolariaceae809: A bait set for targeted sequencing of nuclear loci	2
	2
Geographic And Taxonomic Occurrence R‐based Scrubbing (gatoRs): An R package and workflow for processing biodiversity data	2
Ensemble automated approaches for producing high‐quality herbarium digital records	2
Issue Information	2