Harald Letsch,Carola Greve,Anna K Hundsdoerfer,Iker Irisarri,Jenna M Moore,Marianne Espeland,Stefan Wanke,Umilaela Arifin,Mozes P K Blom,Carolina Corrales,Alexander Donath,Uwe Fritz,Gunther Köhler,Patrick Kück,Sarah Lemer,Ximo Mengual,Nancy Mercado Salas,Karen Meusemann,Anja Palandačić,Christian Printzen,Julia D Sigwart,Karina L Silva-Brandão,Marianna Simões,Madlen Stange,Alexander Suh,Nikolaus Szucsich,Ekin Tilic,Till Töpfer,Astrid Böhne,Axel Janke,Steffen Pauls
{"title":"Type genomics: a Framework for integrating Genomic Data into Biodiversity and Taxonomic research.","authors":"Harald Letsch,Carola Greve,Anna K Hundsdoerfer,Iker Irisarri,Jenna M Moore,Marianne Espeland,Stefan Wanke,Umilaela Arifin,Mozes P K Blom,Carolina Corrales,Alexander Donath,Uwe Fritz,Gunther Köhler,Patrick Kück,Sarah Lemer,Ximo Mengual,Nancy Mercado Salas,Karen Meusemann,Anja Palandačić,Christian Printzen,Julia D Sigwart,Karina L Silva-Brandão,Marianna Simões,Madlen Stange,Alexander Suh,Nikolaus Szucsich,Ekin Tilic,Till Töpfer,Astrid Böhne,Axel Janke,Steffen Pauls","doi":"10.1093/sysbio/syaf040","DOIUrl":null,"url":null,"abstract":"Name-bearing type specimens have a fundamental role in characterising biodiversity, as these objects represent the physical link between a scientific name and the biological organism. Type specimens are usually deposited in natural history collections, which provide key infrastructure for research on essential biological structures and processes, while preserving records of biodiversity for future generations. Modern systematics increasingly depends on genetic and genomic data to differentiate and characterise species. While the results of genome sequencing are often connected to a physical voucher specimen, they are rarely derived from the ultimate taxonomic reference for a species, i.e., the name-bearing type specimens. This is a known but under-appreciated problem for ensuring the replicability of findings, especially those that affect the interpretation of biodiversity distributions and phylogenetic relationships. Destructive sampling of museum specimens, particularly of type material, often carries a high risk of sequencing failure, and thus the cost of damage to the specimen may outweigh the resulting benefit. Both taxonomic work and genome sequencing require specialist skills and there are often communication gaps between the respective experts. A new, harmonised approach, maximising information extraction while minimising risk to type specimens, is a critical step forward toward linking disciplines across biodiversity research and promoting a better taxonomic and systematic understanding of eukaryotic diversity. The genetic make-up of a type specimen is a fundamental part of its biological information, which can and should be made freely and digitally available through type genomics. Here we describe guidelines for the use of nomenclatural types in genome sequencing approaches considering different kinds of types in different stages of preservation and different data types.","PeriodicalId":22120,"journal":{"name":"Systematic Biology","volume":"55 1","pages":""},"PeriodicalIF":6.1000,"publicationDate":"2025-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Systematic Biology","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1093/sysbio/syaf040","RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"EVOLUTIONARY BIOLOGY","Score":null,"Total":0}
引用次数: 0
Abstract
Name-bearing type specimens have a fundamental role in characterising biodiversity, as these objects represent the physical link between a scientific name and the biological organism. Type specimens are usually deposited in natural history collections, which provide key infrastructure for research on essential biological structures and processes, while preserving records of biodiversity for future generations. Modern systematics increasingly depends on genetic and genomic data to differentiate and characterise species. While the results of genome sequencing are often connected to a physical voucher specimen, they are rarely derived from the ultimate taxonomic reference for a species, i.e., the name-bearing type specimens. This is a known but under-appreciated problem for ensuring the replicability of findings, especially those that affect the interpretation of biodiversity distributions and phylogenetic relationships. Destructive sampling of museum specimens, particularly of type material, often carries a high risk of sequencing failure, and thus the cost of damage to the specimen may outweigh the resulting benefit. Both taxonomic work and genome sequencing require specialist skills and there are often communication gaps between the respective experts. A new, harmonised approach, maximising information extraction while minimising risk to type specimens, is a critical step forward toward linking disciplines across biodiversity research and promoting a better taxonomic and systematic understanding of eukaryotic diversity. The genetic make-up of a type specimen is a fundamental part of its biological information, which can and should be made freely and digitally available through type genomics. Here we describe guidelines for the use of nomenclatural types in genome sequencing approaches considering different kinds of types in different stages of preservation and different data types.
期刊介绍:
Systematic Biology is the bimonthly journal of the Society of Systematic Biologists. Papers for the journal are original contributions to the theory, principles, and methods of systematics as well as phylogeny, evolution, morphology, biogeography, paleontology, genetics, and the classification of all living things. A Points of View section offers a forum for discussion, while book reviews and announcements of general interest are also featured.