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Journal articles on the topic 'Herbarium data'

Author: Grafiati

Published: 3 June 2025

Last updated: 1 August 2025

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1

Novikov, Andriy. "Digitization of natural collections – the way to immortality." Biology: From a Molecule Up to the Biosphere 1 (November 27, 2019): 12–14. https://doi.org/10.5281/zenodo.3594474.

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It is even hard to estimate general circumscription of natural history collections. Comprehensive database GRSciColl lists 1,095 collections from 7,522 registered institutions across the world (Schindel et al. 2016). From 1.2 to 3 billions of specimens are suggested to be preserved in those collections (Ariño 2010,Vollmar et al. 2010). If follow another database, Index Herbariorum, 3,095 herbaria are registered for today in the world, and contain about 390 million specimens (Thiers 2019). However even this quite narrow fetch limited by plants is far away from real state of things. In 20

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2

Klazenga, Niels. "The Australasian Virtual Herbarium (AVH) and the Changing Role of Herbaria." Biodiversity Information Science and Standards 2 (June 15, 2018): e25866. https://doi.org/10.3897/biss.2.25866.

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Australia's Virtual Herbarium (AVH) was created in 2001 and developed between 2001 and 2006 with the databasing of the label data of specimens from the Australian Commonwealth, state and territory herbaria. The success of AVH ultimately led to funding for the Atlas of Living Australia (ALA) and in October 2012 AVH was re-launched as part of the ALA infrastructure (http://avh.chah.org.au). Since 2012, some university herbaria have also joined AVH and in June 2017 the New Zealand Virtual Herbarium (NZVH) was integrated, giving rise to the Australasian Virtual Herbarium. The AVH currently holds a

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3

Tavares, Vasques Diego, Atsushi Ebihara, Atsuko Takano, Hiroshi Ikeda, and Atsushi Kawakita. "History and Importance of the Fern Herbarium Collections in Japan, With Focus on the University of Tokyo Herbarium." Biodiversity Information Science and Standards 8 (October 3, 2024): e138439. https://doi.org/10.3897/biss.8.138439.

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HERBARIUM PLANT SPECIMENS AND THEIR HERBARIUM HOLDINGS Natural history collections around the globe represent a dormant source of taxonomic and biogeographic information, as it is estimated that one to three billion specimens are included in such collections (Soberon 1999; Ariño 2010). In the case of botanical collections, the worldwide distribution of specimens across herbaria is often uneven and biased by colonialism, with most specimens housed in the global North, and in many cases resulting in a reverse latitudinal relationship between plant diversity present in nature and the location of

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4

Ainsa, Alice, Sophie Pamerlon, Anne-Sophie Archambeau, Rémi Beauvieux, Raoufou Radji, and Hervé Chevillotte. "Regional Data Platform of West and Central African Herbaria." Biodiversity Information Science and Standards 7 (September 7, 2023): e112180. https://doi.org/10.3897/biss.7.112180.

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In April 2021, a Biodiversity Information for Development (BID) project was launched to deliver a regional data platform of West and Central African herbaria, which just concluded in April 2023. A dataset containing 168,545 herbarium specimens from 6 different countries: Togo, Gabon, Ivory Coast, Benin, Guinea Conakry and Cameroon, is now visible on the Global Biodiversity Information Facility (GBIF) website and will be regularly updated. A checklist datatset (Radji 2023a) and an occurrence dataset (Radji 2023b) obtained from herbarium parts are also available on GBIF.In addition, a Living Atl

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Couceiro, Douglas de Moraes, Elvira Maria Mar de Souza, Chirley Gonçalves Silva, et al. "Revision of Hymenochaetaceae Fungi (Agaricomycetes, Basidiomycota) deposited in Amazonian Herbaria." OBSERVATÓRIO DE LA ECONOMÍA LATINOAMERICANA 23, no. 5 (2025): e9786. https://doi.org/10.55905/oelv23n5-006.

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A total of 127 specimens of Hymenochaetaceae were identified in Amazonian Herbaria, with 104 from the Fungal Collection of the INPA Herbarium, 14 from the UFAC Herbarium, and nine from the UFOPA Herbarium. The reviewed exsiccates correspond to five genera and 12 species, with the first record of Coltricia perennis (L.) Murrill, C. velutina Baltazar & Gibertoni and Fomitiporia apiahyna (Speg.) Robledo, Decock & Rajchenb for the state of Amazonas, and Hymenochaete luteobadia (Fr.) Höhn. & Litsch. for the states of Acre, Amazonas and Roraima. Herbariums are a reservoir of species not

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6

Nazaire, Mare. "Integrating Data Quality Feedback: a Data Provider's Perspective." Biodiversity Information Science and Standards 2 (June 13, 2018): e26007. https://doi.org/10.3897/biss.2.26007.

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The Herbarium of Rancho Santa Ana Botanic Garden [RSA-POM] is the third largest herbarium in California and consists of >1.2 million specimens, of which ~50% are digitized. As a data provider, RSA-POM publishes its data with several aggregators, including the Consortium of California Herbaria, JSTOR, Symbiota (which is subsequently pulled into iDigBio and GBIF), as well as its own local webportal. Each submission of data needs to be prepared and formatted according to the aggregator's specifications for publication. Feedback on data quality (DQ) ranges from an individual user (often only a

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Vaughan, Alison, and Niels Klazenga. "Using Collections in Specify to Manage Incoming Exchange Data." Biodiversity Information Science and Standards 8 (September 25, 2024): e137801. https://doi.org/10.3897/biss.8.137801.

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The Specify collection management system has been designed to accommodate data from multidisciplinary collecting institutions through a series of administrative units arranged in a hierarchical structure (Specify Collections Consortium 2024). Within the parent Institution, there can be multiple Divisions; within the parent Division there can be multiple Disciplines; and within the parent Discipline there can be multiple Collections (Fig. 1).While these administrative units were originally intended to house distinct collections within an institution, the model allows for flexibility and creativ

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Barbosa, Maria Regina de V., Ana Odete Vieira, Ariane Peixoto, et al. "Building Networks to Promote Knowledge of Brazil's Biodiversity: The experience of the INCT - Virtual Herbarium." Biodiversity Information Science and Standards 6 (August 23, 2022): e91462. https://doi.org/10.3897/biss.6.91462.

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The Botanical Society of Brazil (SBB) for many years discussed the need to improve the nation's herbarium collections, by providing training and educating botanists as specialists in plant and fungal taxonomy. It was in this context that an audacious project was developed, which envisaged personnel training for studies in plant and fungal diversity (particularly taxonomy and curation of collections) and the organization and online delivery of the label data of plant and fungal specimens from the herbaria of Brazil - the National Institute of Science and Technology (INCT) Virtual Herbarium.The

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Thiers, Barbara, Roslyn Rivas, and Elizabeth Kiernan. "Using Data From Index Herbariorum to Assess Threats to the World’s Herbaria." Biodiversity Information Science and Standards 2 (June 15, 2018): e26440. http://dx.doi.org/10.3897/biss.2.26440.

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During the past few years, natural disasters, political or social unrest and institutional actions have imperiled herbaria. The question has been raised multiple times whether or not the data gathered about herbaria in Index Herbariorum could be used to predict which herbaria are at the greatest risk. Armed with such knowledge curators and the greater collections community might be in a better position to safeguard those herbaria. To explore the feasibility of using Index Herbariorum data in this way, we have identified a set of specific threats and then scored herbaria according to their susc

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Thiers, Barbara, Roslyn Rivas, and Elizabeth Kiernan. "Using Data From Index Herbariorum to Assess Threats to the World's Herbaria." Biodiversity Information Science and Standards 2 (June 15, 2018): e26440. https://doi.org/10.3897/biss.2.26440.

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During the past few years, natural disasters, political or social unrest and institutional actions have imperiled herbaria. The question has been raised multiple times whether or not the data gathered about herbaria in <i>Index Herbariorum</i> could be used to predict which herbaria are at the greatest risk. Armed with such knowledge curators and the greater collections community might be in a better position to safeguard those herbaria. To explore the feasibility of using <i>Index Herbariorum</i> data in this way, we have identified a set of specific threats and then scored herbaria according

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Neylon, Cameron. "Case Study: Brazilian Virtual Herbarium." Research Ideas and Outcomes 3 (October 19, 2017): e21701. https://doi.org/10.3897/rio.3.e21701.

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The Brazilian Virtual Herbarium (BVH) is a project of the Brazillian Centro de Referência em Informação Ambiental (CRIA) that has been running since 2009. The Virtual Herbarium provides an infrastructure that gathers digital records of plant specimens from primary source, mainly in Brazil, and makes them available through a central web portal. The source herbaria have complete control over what data is made through the portal and the data collected by BVH is made fully available. BVH in common with many data infrastructures, faces challenges in retaining funding. Most funding sources are proje

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Neylon, Cameron. "Case Study: Brazilian Virtual Herbarium." Research Ideas and Outcomes 3 (October 26, 2017): e21852. https://doi.org/10.3897/rio.3.e21852.

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The Brazilian Virtual Herbarium (BVH) is one of Brazil's National Institutes of Science and Technology (a program of the National Council for Scientific and Technological Development, CNPq) that has been running since 2009. The Virtual Herbarium provides an infrastructure that gathers digital records of plant specimens from primary source, mainly in Brazil, and makes them available through a central web portal. The source herbaria have complete control over what data is made through the portal and the data collected by BVH is made fully available. BVH in common with many data infrastructures,

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Tupčiauskaitė, Jūratė, and Toma Žemgulytė. "Preliminary Data on Distribution and Identification of Diphasiastrum × Zeilleri (Rouy) Holub in Lithuania." Botanica Lithuanica 18, no. 2 (2012): 147–53. http://dx.doi.org/10.2478/v10279-012-0016-4.

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Abstract Tupčiauskaitė J., Žemgulytė T., 2012: Preliminary data on distribution and identification of Diphasiastrum × zeilleri (Rouy) Holub in Lithuania [Pirminiai duomenys apie Diphasiastrum × zeilleri (Rouy) Holub paplitimą ir identifikavimą Lietuvoje]. - Bot. Lith., 18(2): 147-153. The paper presents preliminary data on distribution of Diphasiastrum × zeilleri in Lithuania based on the collections of Vilnius University Herbarium (WI) and the data of Polish herbaria. According to these data, 25 localities of Diphasiastrum × zeilleri were revealed. The description of Diphasiastrum × zeilleri,

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Nazaire, Mare. "Integrating Data Quality Feedback: a Data Provider's Perspective." Biodiversity Information Science and Standards 2 (June 13, 2018): e26007. http://dx.doi.org/10.3897/biss.2.26007.

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The Herbarium of Rancho Santa Ana Botanic Garden [RSA-POM] is the third largest herbarium in California and consists of &gt;1.2 million specimens, of which ~50% are digitized. As a data provider, RSA-POM publishes its data with several aggregators, including the Consortium of California Herbaria, JSTOR, Symbiota (which is subsequently pulled into iDigBio and GBIF), as well as its own local webportal. Each submission of data needs to be prepared and formatted according to the aggregator’s specifications for publication. Feedback on data quality (DQ) ranges from an individual user (often onl

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Novikov, Andriy, Anastasiia Savytska, Oleksandr Kuzyarin, et al. "Data mobilisation in the LWS Herbarium: success and prospects." Biodiversity Data Journal 12 (January 11, 2024): e117292. https://doi.org/10.3897/BDJ.12.e117292.

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Digitisation of hosted specimens is a crucial task for all herbaria worldwide and is one of the main streams for today. By digitising their collections and publishing the datasets, the herbaria grant access to essential data to a wide research audience and, as a result, involve their collections in scientific work more actively. Digitisation also allows virtual preservation of the collections, which is especially important in conditions of hostilities, when the entire collection can be destroyed or damaged in one moment. This paper describes two datasets recently published in GBIF in the frame

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Thiers, Barbara M. "Strengthening Partnerships to Safeguard the Future of Herbaria." Diversity 16, no. 1 (2024): 36. http://dx.doi.org/10.3390/d16010036.

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Herbaria remain the primary means of documenting plant life on earth, and the number of herbaria worldwide and the number of specimens they hold continues to grow. Digitization of herbarium specimens, though far from complete, has increased the discoverability of herbarium holdings and has increased the range of studies from which data from herbarium specimens can be used. The rather large number of herbaria about which no current information is available is a source of concern, as is herbarium consolidation and removal of herbaria to offsite storage facilities. Partnerships are key to the fut

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Klazenga, Niels. "The Australasian Virtual Herbarium (AVH) and the Changing Role of Herbaria." Biodiversity Information Science and Standards 2 (June 15, 2018): e25866. http://dx.doi.org/10.3897/biss.2.25866.

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Australia’s Virtual Herbarium (AVH) was created in 2001 and developed between 2001 and 2006 with the databasing of the label data of specimens from the Australian Commonwealth, state and territory herbaria. The success of AVH ultimately led to funding for the Atlas of Living Australia (ALA) and in October 2012 AVH was re-launched as part of the ALA infrastructure (http://avh.chah.org.au). Since 2012, some university herbaria have also joined AVH and in June 2017 the New Zealand Virtual Herbarium (NZVH) was integrated, giving rise to the Australasian Virtual Herbarium. The AVH currently holds a

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18

Barkworth, M. E., and J. Mcgrew. "Combining herbarium data with spatial data: potential benefits, new needs." Czech Journal of Genetics and Plant Breeding 41, Special Issue (2012): 59–64. http://dx.doi.org/10.17221/6136-cjgpb.

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Rešetnik, Ivana, Iva Betević Dadić, and Marina Babić. "The genus Aurinia Desv. (Brassicaceae) in ZA and ZAHO herbaria." Glasnik Hrvatskog botaničkog društva 8, no. 1 (2020): 1–7. http://dx.doi.org/10.46232/glashbod.8.1.1.

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This paper presents the collection of the genus Aurinia Desv. species in ZA and ZAHO herbaria. The revision and the analyses of the material are presented. Herbarium specimens from these two herbaria were digitized and the data from the original herbarium labels were inserted in the Flora Croatica Database. A total of 203 herbarium sheets were digitized and nine taxa (A. corymbosa Griesb., A. leucadea (Guss.) K. Koch ssp. leucadea, A. leucadea (Guss.) K. Koch ssp. media (Host) Plazibat, A. petraea (Ard.) Schur, A. petraea (Ard.) Schur ssp. microcarpa (Vis.) Plazibat, A. saxatilis (L.) Desv., A

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Shao, Li. "eHerbarium: A Global Platform for Exploring and Sharing Herbarium and Live Plant Images to Enhance Biodiversity Preservation." Biodiversity Information Science and Standards 8 (August 26, 2024): e135474. https://doi.org/10.3897/biss.8.135474.

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Historically, herbaria have been instrumental in preserving and studying plant biodiversity. The widespread use of smartphones has led to a surge in the digital documentation of plants. Over the last decade, herbarium digitizing projects are also underway. Many of the digitized herbarium images are available online through different portals. The examples of these portals include Kew Gardens and New York Botanic Garden Herbarium.Combining the latest mobile, cloud and AI technologies as well as plant taxonomy and herbarium artifacts, the mission of eHerbarium*1 is to provide an accessible digita

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Heberling, J. Mason, L. Alan Prather, and Stephen J. Tonsor. "The Changing Uses of Herbarium Data in an Era of Global Change: An Overview Using Automated Content Analysis." BioScience 69, no. 10 (2019): 812–22. http://dx.doi.org/10.1093/biosci/biz094.

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Abstract Widespread specimen digitization has greatly enhanced the use of herbarium data in scientific research. Publications using herbarium data have increased exponentially over the last century. Here, we review changing uses of herbaria through time with a computational text analysis of 13,702 articles from 1923 to 2017 that quantitatively complements traditional review approaches. Although maintaining its core contribution to taxonomic knowledge, herbarium use has diversified from a few dominant research topics a century ago (e.g., taxonomic notes, botanical history, local observations),

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Seregin, Alexey, and Nina Stepanova. "MHA Herbarium: Eastern European collections of vascular plants." Biodiversity Data Journal 8 (October 23, 2020): e57512. https://doi.org/10.3897/BDJ.8.e57512.

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World herbaria with 387.5M specimens (Thiers 2019) are being rapidly digitised. At least 79.9M plant specimens (20.6%) are already databased throughout the globe in the standard form of GBIF-mediated data. The contribution of smaller herbaria has been steadily growing over the last few years due to cost reduction, usage of platforms and solutions developed by the leaders. A web-resource the Moscow Digital Herbarium (Seregin 2020b) was launched by the Lomonosov Moscow State University in October, 2016 for publication of specimens imaged and databased in the Moscow University Herbarium (MW). As

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Burbano, Hernán A., and Rafal M. Gutaker. "Ancient DNA genomics and the renaissance of herbaria." Science 382, no. 6666 (2023): 59–63. http://dx.doi.org/10.1126/science.adi1180.

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Herbaria are undergoing a renaissance as valuable sources of genomic data for exploring plant evolution, ecology, and diversity. Ancient DNA retrieved from herbarium specimens can provide unprecedented glimpses into past plant communities, their interactions with biotic and abiotic factors, and the genetic changes that have occurred over time. Here, we highlight recent advances in the field of herbarium genomics and discuss the challenges and opportunities of combining data from modern and time-stamped historical specimens. We also describe how integrating herbarium genomics data with other da

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Kovtonyuk, Nataliya, Irina Han, and Evgeniya Gatilova. "Ferns at the digital herbarium of the Central Siberian Botanical Garden SB RAS." Biodiversity Data Journal 9 (September 17, 2021): e72950. https://doi.org/10.3897/BDJ.9.e72950.

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According to the data in Index Herbariorum as of 1 December 2020, there are 3426 active herbaria in the world, containing 396,204,891 specimens and 124 herbaria in Russia with more than 16,175,000 specimens. The Central Siberian Botanical Garden of the Siberian Branch of the Russian Academy of Sciences (CSBG SB RAS, Novosibirsk), founded in 1946, historically has two herbarium collections (NS and NSK). Currently these collections contain about 800,000 herbarium specimens comprising vascular plants, mosses, lichens and fungi gathered from all over the world. Digitisation of the NSK type specime

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Terlević, Ana, and Ivana Rešetnik. "Inventory of the historical Dianthus sylvestris herbarium materials from Herbarium Croaticum and Herbarium Ivo and Marija Horvat." Glasnik Hrvatskog botaničkog društva 8, no. 1 (2020): 8–14. http://dx.doi.org/10.46232/glashbod.8.1.2.

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In order to initiate a taxonomical revision of the Dianthus sylvestris group, an inventory of historical herbarium materials from ZA and ZAHO collections was conducted. Herbarium specimens of D. sylvestris group from these two herbaria were digitized and the data from the original herbarium labels were inserted in the Flora Croatica Database. A total of 344 herbarium sheets were digitized and six taxa (D. sylvestris Wulfen in Jacq. ssp. sylvestris, D. sylvestris ssp. tergestinus (Rchb.) Hayek, D. sylvestris ssp. longicaulis (Ten.) Greuter et Burdet, D. sylvestris ssp. nodosus (Tausch) Hayek, D

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Milchakova, N. A., and V. G. Ryabogina. "THE HERBARIUM OF MACROPHYTES OF THE A.O. KOVALEVSKY INSTITUTE OF BIOLOGY OF THE SOUTHERN SEAS OF RAS (SIBS), AND THE STAGES OF ITS FORMATION." Ботанический журнал 108, no. 8 (2023): 752–66. http://dx.doi.org/10.31857/s0006813623060066.

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The paper presents the results of a retrospective analysis of the history of the formation of the macrophyte herbarium of Kovalevsky Institute of Biology of the Southern Seas of RAS (IBSS, Sevastopol, until 1963 – Sevastopol Biological Station, SBS). For the analysis, the electronic database of the herbarium, sources and archival materials published over a period of more than a hundred years, memoirs of the oldest employees of the SBS were used. Three stages of the herbarium fund formation were distinguished, its beginning dating back to 1878. The first herbarium specimens were collected and d

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Canhos, Dora Ann Lange. "Data Management Plan: Brazil's Virtual Herbarium." Research Ideas and Outcomes 3 (June 27, 2017): e14675. https://doi.org/10.3897/rio.3.e14675.

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The goal of the Brazil Virtual Herbarium is to facilitate the identification of taxonomic and geographic information gaps of plants and fungi of Brazil. The system displays the status of online data for all valid species in the List of Species of the Brazilian Flora, including those without any record. The system also compares the Brazilian states where specialists indicate that the species occurs with the states that have occurrence points in Brazil's Virtual Herbarium, highlighting the gaps. This data management plan was prepared as part of a pilot project run on behalf of the International

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Huda, Achmad Miftahul, and Mucharommah Sartika Ami. "PENGEMBANGAN HERBARIUM BERBASIS TUMBUHAN DALAM UPACARA ADAT BROKOHAN BAYI DI KABUPATEN JOMBANG." JoEMS (Journal of Education and Management Studies) 4, no. 5 (2021): 1–6. http://dx.doi.org/10.32764/joems.v4i5.540.

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learning media experts on plant-based herbariums in the Brokohan Baby traditional ceremony in Jombang Regency. The method used is development research with the R&D model as a reference. Researchers only use the first five steps in the R&D model, namely potential and problems, data collection, product design, design validation, and design revision. Interview guides were used to collect data on the types of plants used in the traditional ceremony of Brokohan Baby in Jombang Regency. The expert validation sheet was used to determine the feasibility of the herbarium developed based on the

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Mamchur, T. V. "ІСТОРИЧНА ГЕРБАРНА КОЛЕКЦІЯ В. М. ЧЕРНЯЄВА В ГЕРБАРІЇ УМАНСЬКОГО НАЦІОНАЛЬНОГО УНІВЕРСИТЕТУ САДІВНИЦТВА (UM)". Scientific Issue Ternopil Volodymyr Hnatiuk National Pedagogical University. Series: Biology 82, № 3 (2022): 7–13. http://dx.doi.org/10.25128/2078-2357.22.3.1.

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The article describes the contribution of the famous Ukrainian scientist Vasyl Matviyovych Chernyaev to the science of botany and the development of herbarium. Biographical data are given. Among the funds of Herbarium (UM) of the students of Uman School of Agriculture and Horticulture (the successor is Uman National University of Horticulture) is a valuable historical collection of exicates Herbarium Florae Rossicae (1897–1907). It was established that the collection of exicates includes 1920 herbarium specimens (h. s.), the students of the school were included in the serial issues and t

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Espinosa, Marta, and Josefa López. "Herbarium of Vascular Plants Collection of the University of Extremadura (Spain)." PhytoKeys 25 (June 19, 2013): 1–13. https://doi.org/10.3897/phytokeys.25.5341.

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The herbarium of University of Extremadura (UNEX Herbarium) is formed by 36451 specimens of vascular plants whose main origin is the autonomous region of Extremadura (Spain) and Portugal, although it also contains a smaller number of specimens from different places, including the rest of peninsular Spain, the Baleares Islands, the Macaronesian region (Canary Islands, Madeira and Azores), northwest of Africa (Morocco) and Brazil. 98% of the total records are georeferenced.It is an active collection in continuous growth. Its data can be accessed through the GBIF data portal at http://data.gbif.o

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Jobson, Peter, Joanne Birch, Gillian Brown, et al. "Managers of Australasian Herbarium Collections (MAHC): A MARK of Curation Excellence." Biodiversity Information Science and Standards 2 (June 13, 2018): e26283. http://dx.doi.org/10.3897/biss.2.26283.

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Managers of Australasian Herbarium Collections (MAHC) is a sub-committee of the Council of Heads of Australasian Herbaria (CHAH) and provides advice and recommendations pertaining to the management of herbarium collections. It was formed in 2009 based initially on Australian herbaria, and later incorporated New Zealand herbaria. MAHC currently has 18 member institutions representing both government funded, and university based herbaria, and includes both the largest (National Herbarium of Victoria - MEL) and smallest collections (Macquarie University - MQU) in the region. The group meets in pe

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Jobson, Peter, Joanne Birch, Gillian Brown, et al. "Managers of Australasian Herbarium Collections (MAHC): A MARK of Curation Excellence." Biodiversity Information Science and Standards 2 (June 13, 2018): e26283. https://doi.org/10.3897/biss.2.26283.

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Managers of Australasian Herbarium Collections (MAHC) is a sub-committee of the Council of Heads of Australasian Herbaria (CHAH) and provides advice and recommendations pertaining to the management of herbarium collections. It was formed in 2009 based initially on Australian herbaria, and later incorporated New Zealand herbaria. MAHC currently has 18 member institutions representing both government funded, and university based herbaria, and includes both the largest (National Herbarium of Victoria - MEL) and smallest collections (Macquarie University - MQU) in the region. The group meets in pe

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Dillen, Mathias, Quentin Groom, Simon Chagnoux, et al. "A benchmark dataset of herbarium specimen images with label data." Biodiversity Data Journal 7 (February 8, 2019): e31817. https://doi.org/10.3897/BDJ.7.e31817.

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More and more herbaria are digitising their collections. Images of specimens are made available online to facilitate access to them and allow extraction of information from them. Transcription of the data written on specimens is critical for general discoverability and enables incorporation into large aggregated research datasets. Different methods, such as crowdsourcing and artificial intelligence, are being developed to optimise transcription, but herbarium specimens pose difficulties in data extraction for many reasons. To provide developers of transcription methods with a means of optimisa

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Vissers, Jorick, den Bosch Frederik Van, Ann Bogaerts, et al. "Scientific user requirements for a herbarium data portal." PhytoKeys 78 (March 24, 2017): 37–57. https://doi.org/10.3897/phytokeys.78.10936.

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The digitization of herbaria and their online access will greatly facilitate access to plant collections around the world. This will improve the efficiency of taxonomy and help reduce inequalities between scientists. The Botanic Garden Meise, Belgium, is currently digitizing 1.2 million specimens including label data. In this paper we describe the user requirements analysis conducted for a new herbarium web portal. The aim was to identify the required functionality, but also to assist in the prioritization of software development and data acquisition. The Garden conducted the analysis in coope

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Versieux, Leonardo, Nállarett Dávila, Geadelande Delgado, et al. "Integrative research identifies 71 new plant species records in the state of Rio Grande do Norte (Brazil) and enhances a small herbarium collection during a funding shortage." PhytoKeys 86 (September 18, 2017): 43–74. https://doi.org/10.3897/phytokeys.86.13775.

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A National Forest Inventory (NFI) encompassing the entire territory of Brazil is in progress. It is coordinated and promoted by the Brazilian Forest Service of the Ministry of Environment. In each state, the NFI collaborates with local herbaria by receiving collected plant material and performing species identification. Consultants are hired by the NFI and work at the local herbaria under the supervision of a curator. In exchange for curatorial assistance, the NFI provides equipment and consumables for the herbarium. Other public projects collaborating with NFI are Reflora and the Brazilian Bi

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Roma-Marzio, Francesco, Simonetta Maccioni, David Dolci, et al. "Digitization of the historical Herbarium of Michele Guadagno at Pisa (PI-GUAD)." PhytoKeys 234 (October 12, 2023): 107–25. http://dx.doi.org/10.3897/phytokeys.234.109464.

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The herbarium digitization process is an essential first step in transforming the vast amount of data associated with a physical specimen into flexible digital data formats. In this framework, the Herbarium of the University of Pisa (international code PI), at the end of 2018 started a process of digitization focusing on one of its most relevant collections: the Herbarium of Michele Guadagno (1878–1930). This scholar studied flora and vegetation of different areas of southern Italy, building a large herbarium including specimens collected by himself, plus many specimens obtained through exchan

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Roma-Marzio, Francesco, Simonetta Maccioni, David Dolci, et al. "Digitization of the historical Herbarium of Michele Guadagno at Pisa (PI-GUAD)." PhytoKeys 234 (October 12, 2023): 107–25. https://doi.org/10.3897/phytokeys.234.109464.

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The herbarium digitization process is an essential first step in transforming the vast amount of data associated with a physical specimen into flexible digital data formats. In this framework, the Herbarium of the University of Pisa (international code PI), at the end of 2018 started a process of digitization focusing on one of its most relevant collections: the Herbarium of Michele Guadagno (1878–1930). This scholar studied flora and vegetation of different areas of southern Italy, building a large herbarium including specimens collected by himself, plus many specimens obtained through exchan

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Patxi, Heras, and Infante Marta. "Nuevos datos sobre el desarrollo temprano de la briología en España: briófitos recolectados por Lorenzo de Prestamero y Xavier de Arízaga en La Rioja y País Vasco en el siglo XVIII." Boletín de la Sociedad Española de Briología, no. 48-49(37) (June 15, 2017): 27–36. http://dx.doi.org/10.58469/bseb.2017.41.79.003.

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Lorenzo de Prestamero (1733-1817) y Xavier de Arízaga (1748-1830) fueron dos pioneros de la Botánica en La Rioja y País Vasco. Aunque trabajaron principalmente con plantas vasculares, también aportaron datos sobre briófitos, de los primeros que tenemos constancia en España. Hemos podido estudiar las recolecciones de Prestamero porque en la actualidad se conserva gran parte de su herbario. Por el contrario, de Arízaga tenemos los manuscritos enviados al Real Jardín Botánico (Madrid), mientras que la inmensa mayoría de su herbario parece haberse extraviado. Se comentan los siete briófitos recogi

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Thirukokaranam, Chandrasekar Krishna Kumar, Kenzo Milleville, and Steven Verstockt. "Species Detection and Segmentation of Multi-specimen Historical Herbaria." Biodiversity Information Science and Standards 5 (September 7, 2021): e74060. https://doi.org/10.3897/biss.5.74060.

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Historically, herbarium specimens have provided users with documented occurrences of plants in specific locations over time. Herbarium collections have therefore been the basis of systematic botany for centuries (Younis et al. 2020). According to the latest summary report based on the data from Index Herbariorum, there are around 3400 active herbaria in the world containing 397 million specimens that are spread across 182 countries (Thiers 2021). Exponential growth in high quality image capturing devices induced by the enormous amount of uncovered collections has further led to rising interest

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Kozlov, Mikhail V., Irina V. Sokolova, Vitali Zverev, and Elena L. Zvereva. "Changes in plant collection practices from the 16th to 21st centuries: implications for the use of herbarium specimens in global change research." Annals of Botany 127, no. 7 (2021): 865–73. http://dx.doi.org/10.1093/aob/mcab016.

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Abstract Background and Aims Herbaria were recently advertised as reliable sources of information regarding historical changes in plant traits and biotic interactions. To justify the use of herbaria in global change research, we asked whether the characteristics of herbarium specimens have changed during the past centuries and whether these changes were due to shifts in plant collection practices. Methods We measured nine characteristics from 515 herbarium specimens of common European trees and large shrubs collected from 1558 to 2016. We asked botanists to rank these specimens by their scient

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Ko, Chihjen, and Lex Wang. "Applying Design Thinking in Revising Data Curation of Taiwanese Herbaria." Biodiversity Information Science and Standards 2 (May 22, 2018): e25828. https://doi.org/10.3897/biss.2.25828.

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Herbaria in Taiwan face critical data challenges: Different taxonomic views prevent data exchange; There is a lack of development practices to keep up with standard and technological advances; Data is disconnected from researchers' perspective, thus it is difficult to demonstrate the value of taxonomists' activities, even though a few herbaria have their specimen catalogue partially exposed in Darwin Core. In consultation with the Herbarium of the Taiwan Forestry Research Institute (TAIF), the Herbarium of the National Taiwan University (TAI) and the Herbarium of the Biodiversity Research Cent

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Domracheva, L. I., А. L. Kovina, A. I. Korotkikh, S. G. Skugoreva, and T. Ya Ashikhmina. "Herbariums as custodians of biodiversity and their use (review)." Theoretical and Applied Ecology, no. 3 (September 25, 2023): 6–20. http://dx.doi.org/10.25750/1995-4301-2023-3-006-020.

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The review presents data on the history of herbariums and fungariums, their diversity and use. It is shown that in addition to the traditional value of these objects for studying the systematics, morphology, distribution of plants and fungi, new scientific directions have emerged due to the achievements of modern science such as molecular genetic approach, genotyping, next generation sequencing. This allows identifying the molecular basis of phenotypic variability, resistance to stress, create DNA banks integrated with herbarium collections. The surviving microbial pool of herbarium samples ma

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Radji, Raoufou, Kossi Adjonou, Quashie Marie-Luce Akossiwoa, Komlan Edjèdu Sodjinou, Francisco Pando, and Kouami Kokou. "Togo National Herbarium database." PhytoKeys 109 (September 13, 2018): 1–16. http://dx.doi.org/10.3897/phytokeys.109.25385.

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This article describes the herbarium database of the University of Lomé. The database provides a good representation of the current knowledge of the flora of Togo. The herbarium of University of Lomé, known also as Herbarium togoense is the national herbarium and is registered in Index Herbariorum with the abbreviation TOGO. It contains 15,000 specimens of vascular plants coming mostly from all Togo's ecofloristic regions. Less than one percent of the specimens are from neighbouring countries such as Ghana, Benin and Burkina Faso. Collecting site details are specified in more that 97% of the s

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Radji, Raoufou, Kossi Adjonou, Marie-Luce Akossiwoa Quashie, Komlan Edjèdu Sodjinou, Francisco Pando, and Kouami Kokou. "Togo National Herbarium database." PhytoKeys 109 (September 13, 2018): 1–16. https://doi.org/10.3897/phytokeys.109.25385.

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This article describes the herbarium database of the University of Lomé. The database provides a good representation of the current knowledge of the flora of Togo. The herbarium of University of Lomé, known also as Herbarium togoense is the national herbarium and is registered in Index Herbariorum with the abbreviation TOGO. It contains 15,000 specimens of vascular plants coming mostly from all Togo's ecofloristic regions. Less than one percent of the specimens are from neighbouring countries such as Ghana, Benin and Burkina Faso. Collecting site details are specified in more that 97% of the s

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Seregin, A. P., V. N. Pashkina, and I. N. Pospelov. "GEODATA OF THE MOSCOW UNIVERSITY HERBARIUM: DATA STRUCTURE AND GEOREFERENCING METHODICS." Ботанический журнал 108, no. 5 (2023): 491–505. http://dx.doi.org/10.31857/s0006813623050083.

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Digitisation of the Moscow University Herbarium (MW) was started in the spring of 2015. Since October 2016, we have been publishing the images of specimens on the portal of the Moscow Digital Herbarium (https://plant.depo.msu.ru/) in open access mode. Gradually, we started to publish extended metadata on our portal, like full transcriptions of labels and georeferences, i.e. the coordinates of collection sites for each specimen. As of January, 14, 2023, two thirds of the specimens of the Moscow University Herbarium (693168 specimens, or 66%) are georeferenced, while 359593 specimens are still i

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Ko, Chihjen, and Lex Wang. "Applying Design Thinking in Revising Data Curation of Taiwanese Herbaria." Biodiversity Information Science and Standards 2 (May 22, 2018): e25828. http://dx.doi.org/10.3897/biss.2.25828.

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Herbaria in Taiwan face critical data challenges: Different taxonomic views prevent data exchange; There is a lack of development practices to keep up with standard and technological advances; Data is disconnected from researchers’ perspective, thus it is difficult to demonstrate the value of taxonomists’ activities, even though a few herbaria have their specimen catalogue partially exposed in Darwin Core. Different taxonomic views prevent data exchange; There is a lack of development practices to keep up with standard and technological advances; Data is disconnected from researchers’ perspect

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Canhos, Dora Ann Lange. "Data Management Plan: Brazil's Virtual Herbarium." Research Ideas and Outcomes 3 (June 27, 2017): e14675. http://dx.doi.org/10.3897/rio.3.e14675.

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Adu-Gyamfi, Anthony, and Nick Hodgetts. "Bryophytes of Ghana." Biodiversity Information Science and Standards 2 (June 15, 2018): e25879. http://dx.doi.org/10.3897/biss.2.25879.

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There is currently limited information on plant biodiversity from Ghana. Most of the information openly available has been published by the Ghana Herbarium at the Department of Plant and Environmental Biology, University of Ghana. The Ghana Herbarium has over 100,000 specimens from Ghana and other West African countries. Of these approximately 85% of the specimen labels have been digitized. The database contains information including species names, taxonomic family, barcode number, name of collector(s), locality data, date of collection, description of species and uses of the plants. Data were

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Adu-Gyamfi, Anthony, and Nick Hodgetts. "Bryophytes of Ghana." Biodiversity Information Science and Standards 2 (June 15, 2018): e25879. https://doi.org/10.3897/biss.2.25879.

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There is currently limited information on plant biodiversity from Ghana. Most of the information openly available has been published by the Ghana Herbarium at the Department of Plant and Environmental Biology, University of Ghana. The Ghana Herbarium has over 100,000 specimens from Ghana and other West African countries. Of these approximately 85% of the specimen labels have been digitized. The database contains information including species names, taxonomic family, barcode number, name of collector(s), locality data, date of collection, description of species and uses of the plants. Data were

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Kovtonyuk, Nataliya, Irina Han, and Evgeniya Gatilova. "Vascular plants from European Russia in the CSBG SB RAS Digital Herbarium." Biodiversity Data Journal 8 (October 8, 2020): e56504. https://doi.org/10.3897/BDJ.8.e56504.

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The Central Siberian Botanical Garden of the Siberian Branch of the Russian Academy of Sciences (CSBG SB RAS) is the largest botanical institution in the Asian part of Russia. Founded in 1946, CSBG SB RAS is historically a consortium of two herbarium collections with their own acronyms (NS and NSK) and registration in the Index Herbariorum (Thiers 2020).At present the NS+NSK collections contain about 800,000 herbarium specimens comprising vascular plants (680,000), mosses (25,000), lichens (80,000) and fungi (15,000) gathered, not only in Siberia, but also in the European part of Russia and ot

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