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- Zamora, Juan Carlos, et al.
(författare)
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Considerations and consequences of allowing DNA sequence data as types of fungal taxa
- 2018
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Ingår i: IMA Fungus. - : INT MYCOLOGICAL ASSOC. - 2210-6340 .- 2210-6359. ; 9:1, s. 167-185
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Tidskriftsartikel (refereegranskat)abstract
- Nomenclatural type definitions are one of the most important concepts in biological nomenclature. Being physical objects that can be re-studied by other researchers, types permanently link taxonomy (an artificial agreement to classify biological diversity) with nomenclature (an artificial agreement to name biological diversity). Two proposals to amend the International Code of Nomenclature for algae, fungi, and plants (ICN), allowing DNA sequences alone (of any region and extent) to serve as types of taxon names for voucherless fungi (mainly putative taxa from environmental DNA sequences), have been submitted to be voted on at the 11th International Mycological Congress (Puerto Rico, July 2018). We consider various genetic processes affecting the distribution of alleles among taxa and find that alleles may not consistently and uniquely represent the species within which they are contained. Should the proposals be accepted, the meaning of nomenclatural types would change in a fundamental way from physical objects as sources of data to the data themselves. Such changes are conducive to irreproducible science, the potential typification on artefactual data, and massive creation of names with low information content, ultimately causing nomenclatural instability and unnecessary work for future researchers that would stall future explorations of fungal diversity. We conclude that the acceptance of DNA sequences alone as types of names of taxa, under the terms used in the current proposals, is unnecessary and would not solve the problem of naming putative taxa known only from DNA sequences in a scientifically defensible way. As an alternative, we highlight the use of formulas for naming putative taxa (candidate taxa) that do not require any modification of the ICN.
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| 3. |
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Communication Technologies for Vehicles : Third International Workshop, Nets4Cars/Nets4Trains 2011, Oberpfaffenhofen, Germany, March 23-24, 2011. Proceedings
- 2011
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Proceedings (redaktörskap) (refereegranskat)abstract
- The proceedings contain 20 papers. The topics discussed include: VANET architectures and protocol stacks: a survey; behavior specification of a red-light violation warning application - an approach for specifying reactive vehicle-2-X communication applications; wireless protocol design for a cooperative pedestrian protection system; a vehicular mobility model based on real traffic counting data; driver-centric VANET simulation; simulative evaluation of the potential of Car2X-communication in terms of efficiency; performance study of an in-car switched Ethernet network without prioritization; degradation of communication range in VANETs caused by interference 2.0 - real-world experiment; real-world measurements of non-line-of-sight reception quality for 5.9GHz IEEE 802.11p at intersections; and interoperability testing suite for C2X communication components. © Springer-Verlag Berlin Heidelberg 2011
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| 4. |
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Communications Technologies for Vehicles : 4th International Workshop, Nets4Cars/Nets4Trains 2012, Vilnius, Lithuania, April 25-27, 2012, Proceedings
- 2012
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Proceedings (redaktörskap) (refereegranskat)abstract
- The proceedings contain 15 papers. The topics discussed include: Cellular Networking Technologies in ITS Solutions: Opportunities and Challenges; effective and efficient security policy engines for automotive on-board networks; ICDMS: an intelligent cloud based disaster management system for vehicular networks; wireless driver and vehicle surveillance system based on IEEE 802.11 networks; architecture of car measurement system for driver monitoring; toward revocation data handling efficiency in VANETs; cluster based data aggregation in vehicular adhoc network; simulations of VANET scenarios with OPNET and sumo; human participatory sensing in fixed route bus information system; scheduling ofvehicles in transportation networks; design and prototype of a train-to-wayside communication architecture; and conceptual architectural design of Indian railway intelligent transportation systems. © Springer-Verlag Berlin Heidelberg 2012
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| 5. |
- Kapun, Martin, et al.
(författare)
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Drosophila Evolution over Space and Time (DEST) : A New Population Genomics Resource
- 2021
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Ingår i: Molecular biology and evolution. - : Oxford University Press (OUP). - 0737-4038 .- 1537-1719. ; 38:12, s. 5782-5805
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Tidskriftsartikel (refereegranskat)abstract
- Drosophila melanogaster is a leading model in population genetics and genomics, and a growing number of whole-genome data sets from natural populations of this species have been published over the last years. A major challenge is the integration of disparate data sets, often generated using different sequencing technologies and bioinformatic pipelines, which hampers our ability to address questions about the evolution of this species. Here we address these issues by developing a bioinformatics pipeline that maps pooled sequencing (Pool-Seq) reads from D. melanogaster to a hologenome consisting of fly and symbiont genomes and estimates allele frequencies using either a heuristic (PoolSNP) or a probabilistic variant caller (SNAPE-pooled). We use this pipeline to generate the largest data repository of genomic data available for D. melanogaster to date, encompassing 271 previously published and unpublished population samples from over 100 locations in >20 countries on four continents. Several of these locations have been sampled at different seasons across multiple years. This data set, which we call Drosophila Evolution over Space and Time (DEST), is coupled with sampling and environmental metadata. A web-based genome browser and web portal provide easy access to the SNP data set. We further provide guidelines on how to use Pool-Seq data for model-based demographic inference. Our aim is to provide this scalable platform as a community resource which can be easily extended via future efforts for an even more extensive cosmopolitan data set. Our resource will enable population geneticists to analyze spatiotemporal genetic patterns and evolutionary dynamics of D. melanogaster populations in unprecedented detail.
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