A taxonomic summary and revision of Rozella (Cryptomycota) by Peter M. Letcher, Martha J. Powell

“…Determined in molecular phylogenies to be the earliest diverging lineage in kingdom Fungi, Rozella currently nests among an abundance of environmental sequences in phylum Cryptomycota, superphylum Opisthosporidia. …”
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treeducken: An R package for simulating cophylogenetic systems by Wade Dismukes, Tracy A. Heath

“…Abstract Cophylogenetic methods describe discordance between non‐independent phylogenies. Simulation is necessary for testing cophylogenetic methods, but few simulators exist that are capable of generating data under explicit and biologically meaningful models. …”
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Colletotrichum: species, ecology and interactions by U. Damm, R. Baroncelli, L. Cai, Y. Kubo, R. O'Connell, B. Weir, K. Yoshino, P.F. Cannon

“…The meeting revealed that currently major species complexes in the genus Colletotrichum are being revised and the identities of many pathogens clarified on the basis of molecular phylogenies, and that the genomes of four species are sequenced and decoded providing an enormous amount of data that are used to increase our understanding of the biology of Colletotrichum species.…”
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Simpson's tachytely or bradytely? The importance of quantifying rate uncertainty by Rosana Zenil‐Ferguson, Lee Hsiang Liow

“…We found the ‘Goldilocks of uncertainty’: Phylogenies that are young with insufficient tips or that are old increase the uncertainty of diversification estimates. …”
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Genomic characterization and radiation tolerance of Naganishia kalamii sp. nov. and Cystobasidium onofrii sp. nov. from Mars 2020 mission assembly facilities by Patrick Leo, Marcus de Melo Texeira, Atul M. Chander, Nitin K. Singh, Anna C. Simpson, Andrey Yurkov, Fathi Karouia, Jason E. Stajich, Christopher E. Mason, Kasthuri Venkateswaran

“…The phylogenetic analyses revealed that single gene phylogenies (ITS or LSU) were not conclusive, and MLSA and WGS-based phylogenies were more advantageous for species discrimination in the two genera. …”
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Complete mitochondrial genome and phylogenetic analysis of the Atrato slider, Trachemys medemi (Testudines, Emydidae) by Sebastián Cuadrado-Ríos, Mario Vargas-Ramírez, Christian Kehlmaier, Uwe Fritz

“…Phylogenetic analyses based on complete mitogenomes, which lack some Trachemys species, placed T. medemi as sister to T. venusta. Phylogenies from the same dataset, but including available shorter mtDNA information for most Trachemys species, recovered T. medemi as sister to T. dorbigni, and this clade was sister to T. venusta, T. yaquia, and T. ornata. …”
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Le mythe du microcèbe primitif by Fabien Génin, Judith C Masters

“…In this contribution, we criticise this almost mythical view, which is neither supported by the fossil record nor by the most recent phylogenies. We propose the alternative hypothesis of a reduction of body size, or dwarfism, a phenomenon known to occur frequently on islands, and in isolated regions subject to El Niño-related unpredictable droughts. …”
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Gene Structures, Classification, and Expression Models of the DREB Transcription Factor Subfamily in Populus trichocarpa by Yunlin Chen, Jingli Yang, Zhanchao Wang, Haizhen Zhang, Xuliang Mao, Chenghao Li

“…We analyzed gene structures, phylogenies, domain duplications, genome localizations, and expression profiles. …”
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Inferring Tripartite Associations of Vector-Borne Plant Pathogens Using a Next-Generation Sequencing Approach by Ava M. Gabrys, Christopher H. Dietrich, Valeria Trivellone

“…We observed incongruence between plant and insect phylogenies. Many leafhopper species, including presumed grass specialists, fed on distantly related plant lineages; 66% of sampled leafhoppers fed on plants from at least two different orders. …”
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Evolutionary history and phylogeographic relationships of shrews from Sorex araneus group. by Paweł Mackiewicz, Magdalena Moska, Heliodor Wierzbicki, Przemysław Gagat, Dorota Mackiewicz

“…The results were compared with phylogenies based on chromosomal rearrangement data and put into temporal and spatial context using molecular dating and historical biogeography methods. …”
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Exploring South Africa's hidden marine parasite diversity: two new marine Ergasilus species (Copepoda: Cyclopoida: Ergasilidae) from the Evileye blaasop, Amblyrhynchote honckenii (... by Linda van der Spuy, Rodrigo B. Narciso, Kerry A. Hadfield, Victor Wepener, Nico J. Smit

“…Although genetically distinct, the 2 newly described species clustered in the same subclade within the Ergasilidae based on 18S rDNA, 28S rDNA and COI mtDNA phylogenies. The newly described species differ morphologically from each other, and their respective congeners based on the size and armature of the antenna; body segmentation; and general ornamentation throughout the entire body. …”
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Complex bacterial diversity of Guaymas Basin hydrothermal sediments revealed by synthetic long-read sequencing (LoopSeq) by John E. Hinkle, John E. Hinkle, Jeffrey P. Chanton, Molly A. Moynihan, Molly A. Moynihan, S. Emil Ruff, S. Emil Ruff, Andreas Teske

“…Based on these sequences, high-quality alignments and phylogenetic analyses provided new insights into previously unrecognized taxonomic diversity of sulfur-cycling microorganisms and their distribution along a lateral hydrothermal gradient. Detailed phylogenies for free-living and syntrophic sulfur-cycling bacterial lineages identified well-supported monophyletic clusters that have implications for the taxonomic classification of these groups. …”
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The Complete Mitochondrial Genome of the American Palm Cixiid, Haplaxius crudus (Hemiptera: Cixiidae) by Lidia Komondy, Jose Huguet-Tapia, Marina S. Ascunce, Ericka E. Helmick, Erica M. Goss, Brian W. Bahder

“…As more full mitogenomes become available in the future for other planthopper species, more robust phylogenies can be constructed, giving more accurate perspectives on the evolutionary relationships within this fascinating and economically important group of insects.…”
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The genus Entomophthora: bringing the insect destroyers into the twenty-first century by Carolyn Elya, Henrik H. De Fine Licht

“…Evidence for strain-level specificity of hosts is summarized and directly compared to phylogenies of Entomophthora and the class Insecta. …”
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Spatiotemporal variability in the South American mammalian fossil record and its impact on macroevolutionary inference by Pedro D. de S. Ugarte, João C. S. Nascimento, Mathias M. Pires

“…Yet, we also find discrepancies with macroevolutionary patterns inferred from phylogenies, which suggest that some of the patterns we detect with fossils might reflect regional macroevolutionary trends or be driven by lineages with higher preservation. …”
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Comparison of Illumina and Oxford Nanopore sequencing data quality for Clostridioides difficile genome analysis and their application for epidemiological surveillance by Semeh Bejaoui, Sofie Holtsmark Nielsen, Astrid Rasmussen, John Eugenio Coia, Dorte Terp Andersen, Tobias Bruun Pedersen, Martin Vad Møller, Marc Trunjer Kusk Nielsen, Dorte Frees, Søren Persson

“…As a result, Nanopore-derived phylogenies were not as accurate as the Illumina reference, and therefore inadequate for precise investigation of transmission events. …”
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Genome skimming provides evidence to accept two new genera (Apiaceae) separated from the Peucedanum s.l. by Bo-Ni Song, Chang-Kun Liu, Chang-Kun Liu, Jiao-Jiao Deng, Wei-Yan Tan, Song-Dong Zhou, Xing-Jin He

“…Among these Peucedanum s.l. members, plastid-based phylogenies recognized two monophyletic clades, clade A (four species) and clade B (10 taxa). …”
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Neobacillus driksii sp. nov. isolated from a Mars 2020 spacecraft assembly facility and genomic potential for lasso peptide production in Neobacillus by Asif Hameed, Francesca McDonagh, Pratyay Sengupta, Georgios Miliotis, Shobhan Karthick Muthamilselvi Sivabalan, Lukasz Szydlowski, Anna Simpson, Nitin Kumar Singh, Punchappady Devasya Rekha, Karthik Raman, Kasthuri Venkateswaran

“…Detailed molecular analyses, including gyrB (90.2%), ANI (86.4%), average amino acid identity (87.8%) phylogenies, digital DNA–DNA hybridization (32.6%), and percentage of conserved proteins (77.7%) indicated significant divergence from N. niacini NBRC 15566T. …”
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