Temporal dynamics of teleost populations during the Pleistocene: a report from publicly available genome data by Jia Li, Chao Bian, Yunhai Yi, Hui Yu, Xinxin You, Qiong Shi

“…Results Using high-quality genome assemblies and corresponding sequencing data, we applied the Pairwise Sequentially Markovian Coalescent (PSMC) method to quantify N e changes of twelve representative teleost species from approximately 10 million years ago (mya) to 10 thousand years ago (kya). These results revealed multiple rounds of population contraction and expansion in most of the examined teleost species during the Neogene and the Quaternary periods. …”
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Evolutionary dynamics of plastomes in coscinodiscophycean diatoms revealed by comparative genomics by Feng Liu, Feng Liu, Feng Liu, Yichao Wang, Hailong Huang, Nansheng Chen, Nansheng Chen, Nansheng Chen

“…The divergence time between Paraliales and Stephanopyxales was estimated at 85 MYA in the middle Upper Cretaceous, indicating that Paraliales and Stephanopyxales appeared later than Coscinodiacales and Rhizosoleniales according to their phylogenetic relationships. …”
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Analysis of Amino Acid Mutations of the Foot-and-Mouth Disease Virus Serotype O Using both Heparan Sulfate and JMJD6 Receptors by Gyeongmin Lee, Ji-Hyeon Hwang, Aro Kim, Jong-Hyeon Park, Min Ja Lee, Byounghan Kim, Su-Mi Kim

“…We performed serial passages of FMDV O/SKR/Andong/2010, classified as the O/Mya-98 topotype/lineage and known as a highly virulent strain, to develop a vaccine seed virus. …”
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Genome Sequences of Two Strains of Prototheca wickerhamii Provide Insight Into the Protothecosis Evolution by Jian Guo, Jianbo Jian, Lili Wang, Lijuan Xiong, Huiping Lin, Ziyi Zhou, Eva C. Sonnenschein, Wenjuan Wu

“…According to the phylogenetic analysis, the genus of Prototheca was classified in the same clade with A. protothecoides and diverged from Chlorella ~500 million years ago (Mya). A total of 134 expanded genes were enriched in several pathways, mostly in metabolic pathways, followed by biosynthesis of secondary metabolites and RNA transport. …”
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The chloroplast genome of Amygdalus L. (Rosaceae) reveals the phylogenetic relationship and divergence time by Zhongyu Du, Ke Lu, Kai Zhang, Yiming He, Haitao Wang, Guaiqiang Chai, Jianguo Shi, Yizhong Duan

“…Amygdalus species diverged approximately 15.65 Mya. Conclusion Our results provide data on the genomic structure of subg. …”
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Whole-genome sequencing and evolutionary analysis of the wild edible mushroom, Morchella eohespera by Yixin Li, Ting Yang, Jinxia Qiao, Jian Liang, Zhonghu Li, Wei Sa, Qianhan Shang

“…Molecular dating showed that M. eohespera differentiated from its relative M. conica at ~19.03 Mya (million years ago) in Burdigalian. Evolutionary analysis showed that 657 gene families were contracted and 244 gene families expanded in M. eohespera versus the related morel species. …”
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Evolution of MicroRNA Biogenesis Genes in the Sterlet (<i>Acipenser ruthenus</i>) and Other Polyploid Vertebrates by Mikhail V. Fofanov, Dmitry Yu. Prokopov, Heiner Kuhl, Manfred Schartl, Vladimir A. Trifonov

“…Here we investigated several key microRNA-associated genes in the recently sequenced sterlet (<i>Acipenser ruthenus</i>) genome, whose lineage has undergone a whole genome duplication around 180 MYA. We show that two paralogs of <i>drosha</i>, <i>dgcr8</i>, <i>xpo1</i>, and <i>xpo5</i> as well as most <i>ago</i> genes have been retained after the acipenserid-specific whole genome duplication, while <i>ago1</i> and <i>ago3</i> genes have lost one paralog. …”
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Species Delimitation and Evolutionary History of Tree Frogs in the Hyla chinensis Group (Hylidae, Amphibian) by Peng Yan, Tao Pan, Guiyou Wu, Xing Kang, Izaz Ali, Wenliang Zhou, Jiatang Li, Xiaobing Wu, Baowei Zhang, Baowei Zhang

“…The divergence time of the H. chinensis group was estimated to date back to 18.84 million years ago (Mya) in the early Miocene. Combining the results of ancestral area reconstruction, the H. chinensis group might have originated from Guangxi-Hainan, then spread eastwardly and reached Nanling Mountains, Wuyi Mountains, Huangshan Mountain, and Taiwan. …”
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NEW PALEOGEOGRAPHY DATA OF THE EASTERN COAST OF GREEN FJORD (WEST SPITSBERGEN ISLAND) BASED ON RESEARCH OF THE HOLOCENE DEPOSITS ON FINNESET CAPE WITH USE OF ISOTOPE-GEOCHEMICAL ME... by Vidas V. Kriauciunas, Stanislav A. Iglovsky, Artem A. Lyubas, Irina A. Kuznetsova, Ekaterina I. Kotova, Evgeniya V. Shakhova, Kirill A. Mironenko

“…The authors have identified the detected macrofauna complexes represented by bivalve mollusks (Hiatella arctica, Mytilus edulis, Tridonta borealis, Mya truncata) and the age of fossil shells of marine mollusks for Finniset cape, which are from 7970 to 8050 years old. …”
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Complete Chloroplast Genome Sequence of <i>Triosteum sinuatum</i>, Insights into Comparative Chloroplast Genomics, Divergence Time Estimation and Phylogenetic Relationships among D... by HaiRui Liu, WenHui Liu, Israr Ahmad, QingMeng Xiao, XuMin Li, DeJun Zhang, Jie Fang, GuoFan Zhang, Bin Xu, QingBo Gao, ShiLong Chen

“…The divergence between <i>T</i><i>. sinuatum</i> and two other species in <i>Triosteum</i> was dated to 13.4 mya.…”
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A new species of Trachymyrmex (Hymenoptera, Formicidae) fungus-growing ant from the Sierra Madre Oriental of northeastern Mexico by Sergio R. Sánchez-Peña, Manuela Citlali Chacón-Cardosa, Ricardo Canales-del-Castillo, Lauren Ward, Diana Resendez-Pérez

“…Bayesian coalescent analyses indicate a divergence time of about 8.00 million years before present (95% confidence interval: 4.8–11.5 mya) between T. pakawa and T. smithi. The divergence of the lineages of T. pakawa and T. smithi could have been driven by the Pliocene-Holocene desertification of southwestern North America. …”
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The rabbit as an animal model to study innate immunity genes: Is it better than mice? by João Soares, João Soares, Ana Pinheiro, Ana Pinheiro, Pedro José Esteves, Pedro José Esteves, Pedro José Esteves, Pedro José Esteves

“…The rabbit and mouse share a recent common ancestor and are classified in the superorder Glires which arose at approximately 82 million years ago (mya). These species diverged from the Primates’ ancestor at around 92 million years ago and, as such, one expects the rabbit-human and mouse-human genetic distances to be very similar. …”
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Demographic history and divergence of sibling grouse species inferred from whole genome sequencing reveal past effects of climate change by Kai Song, Bin Gao, Peter Halvarsson, Yun Fang, Siegfried Klaus, Ying-Xin Jiang, Jon E. Swenson, Yue-Hua Sun, Jacob Höglund

“…Results We estimated the divergence time of Chinese Grouse and Hazel Grouse to 1.76 (0.46–3.37) MYA. The demographic history of different populations in these two sibling species was reconstructed, and showed that peaks and bottlenecks of effective population size occurred at different times for the two species. …”
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Biofinder detects biological remains in Green River fish fossils from Eocene epoch at video speed by Anupam K. Misra, Sonia J. Rowley, Jie Zhou, Tayro E. Acosta-Maeda, Luis Dasilveira, Gregory Ravizza, Kenta Ohtaki, Tina M. Weatherby, A. Zachary Trimble, Patrick Boll, John N. Porter, Christopher P. McKay

“…Fluorescence images taken by the Biofinder instrument show that all Knightia spp. fish fossils analysed from the Green River formation (Eocene, 56.0–33.9 Mya) still contain considerable amounts of biological residues. …”
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Phytophthora: an ancient, historic, biologically and structurally cohesive and evolutionarily successful generic concept in need of preservation by Clive Brasier, Bruno Scanu, David Cooke, Thomas Jung

“…We propose the clades arose from the migration and worldwide radiation ~ 140 Mya (million years ago) of an ancestral Gondwanan Phytophthora population, resulting in geographic isolation and clade divergence through drift on the diverging continents combined with adaptation to local hosts, climatic zones and habitats. …”
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Unique genes in plants: specificities and conserved features throughout evolution by Aubourg Sébastien, Lecharny Alain, Armisén David

“…</p> <p>Conclusion</p> <p>Many of the <it>A. thaliana </it>and <it>O. sativa </it>unique genes are conserved in plants for which the ancestor diverged at least 725 million years ago (MYA). Half of these genes are also present in other eukaryotic and/or prokaryotic species. …”
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Insights into chloroplast genome structure and phylogenetic relationships within the Sesamum species complex (Pedaliaceae) by Yedomon Ange Bovys Zoclanclounon, Yedomon Ange Bovys Zoclanclounon, Senthil Kumar Thamilarasan, Youngjun Mo, Byoung-Ohg Ahn, Jeong-Gu Kim, Keunpyo Lee

“…The phylogenetic inference and time divergence dating indicate that S. radiatum (2n = 64) occurred concomitantly with the sister species C. sesamoides (2n = 32) approximately 0.05 million years ago (Mya). In addition, S. alatum was clearly discriminated by forming a single clade, showing its long genetic distance and potential early speciation event in regards to the others.Conclusion: Altogether, we propose to rename C. sesamoides and C. triloba as S. sesamoides and S. trilobum, respectively, as suggested previously based on the morphological description. …”
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Chromosome‐level genome assembly for the horned‐gall aphid provides insights into interactions between gall‐making insect and its host plant by Hong‐Yuan Wei, Yu‐Xuan Ye, Hai‐Jian Huang, Ming‐Shun Chen, Zi‐Xiang Yang, Xiao‐Ming Chen, Chuan‐Xi Zhang

“…Phylogenetic analysis revealed that S. chinensis diverged from the common ancestor of Eriosoma lanigerum approximately 57 million years ago (MYA). In addition, 35 genes encoding salivary gland proteins showed differentially when S. chinensis forms a gall, suggesting they have potential roles in gall formation and plant defense suppression. …”
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In vitro evaluation of antifungal activity of monolaurin against Candida albicans biofilms by Dalia Seleem, Emily Chen, Bruna Benso, Vanessa Pardi, Ramiro M. Murata

“…In this study, we examine the antifungal activity of monolaurin against Candida albicans biofilms (strain ATCC:SC5314/MYA2876) in vitro and investigate whether monolaurin can alter gene expression of host inflammatory cytokines, IL-1α and IL-1β. …”
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Emergence of an ancient and pathogenic mammarenavirus by Xue-Lian Luo, Shan Lu, Chuan Qin, Mang Shi, Xiao-Bo Lu, Lu Wang, Sang Ga, Dong Jin, Xin-Li Ma, Jing Yang, Yan Dai, Lin-Lin Bao, Yan-Peng Cheng, Ya-Jun Ge, Yi-Bo Bai, Wen-Tao Zhu, Ji Pu, Hui Sun, Yu-Yuan Huang, Ming-Chao Xu, Wen-Jing Lei, Kui Dong, Cai-Xin Yang, Yi-Fan Jiao, Qi Lv, Feng-Di Li, Jianguo Xu

“…Under the co-speciation framework, the estimated divergence time of PPV was 77–88 million years ago (MYA), earlier than that of OW and NW mammarenaviruses (26-34 MYA).…”
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