| 1 | Taming the beast:a revised classification of Cortinariaceae based on genomic data显示文摘Family Cortinariaceae currently includes only one genus,Cortinarius,which is the largest Agaricales genus,with thousands of species worldwide.The species are important ectomycorrhizal fungi and form associations with many vascular plant gen-era from tropicals to arctic regions.Genus Cortinarius contains a lot of morphological variation,and its complexity has led many taxonomists to specialize in particular on infrageneric groups.The previous attempts to divide Cortinarius have been shown to be unnatural and the phylogenetic studies done to date have not been able to resolve the higher-level classification of the group above section level.Genomic approaches have revolutionized our view on fungal relationships and provide a way to tackle difficult groups.We used both targeted capture sequencing and shallow whole genome sequencing to produce data and to perform phylogenomic analyses of 75 single-copy genes from 19 species.In addition,a wider 5-locus analysis of 245 species,from the Northern and Southern Hemispheres,was also done.Based on our results,a classification of the family Cortinariaceae into ten genera-Cortinarius,Phlegmacium,Thaxterogaster,Calonarius,Aureonarius,Cystinarius,Volvanarius,Hygronarius,Mystinarius,and Austrocortinarius-is proposed.Seven genera,10 subgenera,and four sec-tions are described as new to science and five subgenera are introduced as new combinations in a new rank.In addition,41 section names and 514 species names are combined in new genera and four lecto-and epitypes designated.The position of Stephanopus in suborder Agaricineae remains to be studied.Targeted capture sequencing is used for the first time in fungal taxonomy in Basidiomycetes.It provides a cost-efficient way to produce-omics data in species-rich groups.The-omics data was produced from fungarium specimens up to 21 years old,demonstrating the value of museum specimens in the study of the fungal tree of life.This study is the first family revision in Agaricales based on genomics data and hopefully many others will soon follow. | Kare Liimatainen Jan T.Kim Lisa Pokorny Paul M.Kirk Bryn Dentinger Tuula Niskanen | 2022 | Fungal Diversity2022，，1： | 4 |
| 8 | Fast reconstruction of digital holograms for extended depths of field显示文摘Past research has demonstrated that a static, three-dimensional(3D) object scene can be directly recorded as a complex digital hologram. However, numerical reconstruction of the object scene, which may comprise multiple sections located at unknown distances from the hologram, is a complicated and computation-intensive process.To the best of our knowledge, we propose, for the first time, a low complexity method that is capable of reconstructing a complex hologram, such that sections at different depths in the 3D object scene can be automatically reconstructed at the correct focal distances and merged into a single image for an extended depth of field. We demonstrate an order of magnitude increase of the depth of field for binary objects. With the use of a graphical processing unit, the reconstruction of a 512 × 512 complex hologram can be accomplished in about 100 ms,equivalent to around 10 frames per second. | P.W.M.Tsang T.-C.Poon T.Kim Y.S.Kim | 2016 | Chinese Optics Letters2016，14，7： | 1 |
| 11 | Comparison and Improvement of the Computational Efficiencies of Two FFT-Based Iterative Solution Methods for the Scalar Multiple-Scattering Equation显示文摘We consider two existing FFT-based fast-convolution iterative solution techniques for the scalar T-matrix multiple-scattering equation[1].The use of the FFT operation requires field values be expressed on a regular Cartesian grid and the two techniques differ in how to go about achieving this.The first technique[6,7]uses the nondiagonal translation operator[1,9]of the spherical multipole field,while the second method[11]uses the diagonal translation operator of Rokhlin[10].Because of its use of the non-diagonal translator,the first technique has been thought to require a greater number of spatial convolutions than the second technique.We establish that the first method requires only half as many convolution operations as the second method for a comparable numerical accuracy and demonstrate,based on an actual CPU time comparison,that it can therefore perform iterations faster than the second method.We then consider the respective symmetry relations of the non-diagonal and diagonal translators and discuss a memory-reduction procedure for both FFT-based methods.In this procedure,we need to store only the minimum sets of near-field and far-field translation operators and generate missing elements on the fly using the symmetry relations.We show that the relative cost of generating the missing elements becomes smaller as the number of scatterers increases. | Kristopher T.Kim | 2009 | Communications in Computational Physics2009，5，1： | 0 |
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