Evolution and comparative genomics of the most common Trichoderma species by Christian P. Kubicek, Andrei S. Steindorff, Komal Chenthamara, Gelsomina Manganiello, Bernard Henrissat, Jian Zhang, Feng Cai, Alexey G. Kopchinskiy, Eva M. Kubicek, Alan Kuo, Riccardo Baroncelli, Sabrina Sarrocco, Eliane Ferreira Noronha, Giovanni Vannacci, Qirong Shen, Igor V. Grigoriev, Irina S. Druzhinina

“…Trichoderma evolved in the time of the Cretaceous-Palaeogene extinction event 66 (±15) mya, but the formation of extant sections (Longibrachiatum, Trichoderma) or clades (Harzianum/Virens) happened in Oligocene. …”
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Genome and pan-genome assembly of asparagus bean (Vigna unguiculata ssp. sesquipedialis) reveal the genetic basis of cold adaptation by Le Liang, Jianwei Zhang, Jiachang Xiao, Xiaomei Li, Xiaomei Li, Yongdong Xie, Huaqiang Tan, Xueping Song, Li Zhu, Xinru Xue, Linyu Xu, Peihan Zhou, Jianzhao Ran, Bo Sun, Zhi Huang, Yi Tang, Lijin Lin, Guochao Sun, Yunsun Lai, Huanxiu Li

“…The whole-genome duplication events of DB and NJ occurred at 64.55 and 64.81 Mya, respectively, while the divergence between soybean and Vigna occurred in the Paleogene period. …”
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Rapid evolutionary divergence of diploid and allotetraploid Gossypium mitochondrial genomes by Zhiwen Chen, Hushuai Nie, Yumei Wang, Haili Pei, Shuangshuang Li, Lida Zhang, Jinping Hua

“…We confirmed two near full length of the integration of the mitochondrial genome into chromosome 1 of G. raimondii and chromosome A03 of G. hirsutum, respectively, with insertion time less than 1.03 MYA. Conclusion Ten Gossypium mitochondrial sequences highlight the insights to the evolution of cotton mitogenomes.…”
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Chromosome-level genome assembly and annotation of rare and endangered tropical bivalve, Tridacna crocea by Jun Li, Haitao Ma, Yanpin Qin, Zhen Zhao, Yongchao Niu, Jianmin Lian, Jiang Li, Zohaib Noor, Shuming Guo, Ziniu Yu, Yuehuan Zhang

“…Phylogenetic analysis revealed that giant clams diverged from oyster about 505.7 Mya during the evolution of bivalves. The genome assembly presented here provides valuable genomic resources to enhance our understanding of the genetic diversity and population structure of giant clams.…”
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Mining and evolution analysis of lateral organ boundaries domain (LBD) genes in Chinese white pear (Pyrus bretschneideri) by Bobo Song, Zikai Tang, Xiaolong Li, Jiaming Li, Mingyue Zhang, Kejiao Zhao, Hainan Liu, Shaoling Zhang, Jun Wu

“…The mean Ks and 4DTv values showed that the PbrLBD gene family had undergone only one recent whole-genome duplication event occurring at 30–45 MYA. Purifying selection was a primary force during the PbrLBD gene family evolution process. …”
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Genome Assembly and Annotation of Soft-Shelled Adlay (Coix lacryma-jobi Variety ma-yuen), a Cereal and Medicinal Crop in the Poaceae Family by Sang-Ho Kang, Byeollee Kim, Beom-Soon Choi, Hyun Oh Lee, Nam-Hoon Kim, Seung Jae Lee, Hye Sik Kim, Myung Ju Shin, Hyo-Won Kim, Kyunghyun Nam, Kyoung Dae Kang, Soo-Jin Kwon, Tae-Jin Oh, Sang-Choon Lee, Chang-Kug Kim

“…We further predict that soft-shelled adlay diverged from a common ancestor with sorghum 9.0–11.2 MYA. Transcriptome profiling revealed 3,988 genes that are differentially expressed in seeds relative to other tissues, of which 1,470 genes were strongly up-regulated in seeds and the most enriched Gene Ontology terms were assigned to carbohydrate and protein metabolism. …”
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Genome-Wide Identification of <i>AP2/ERF</i> Superfamily Genes in <i>Juglans mandshurica</i> and Expression Analysis under Cold Stress by Minghui Zhao, Yan Li, Xinxin Zhang, Xiangling You, Haiyang Yu, Ruixue Guo, Xiyang Zhao

“…Gene evolution analysis among Juglandaceae revealed that <i>J. mandshurica</i> is separated by 14.23 and 15 Mya from <i>Juglans regia</i> and <i>Carya cathayensis</i>, respectively. …”
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Evaluating the efficiency of popular species identification analytical methods, and integrative workflow using morphometry and barcoding bioinformatics for taxonomy and origin of t... by Siti N. Othman, Yucheol Shin, Hyun-Tae Kim, Ming-Feng Chuang, Yoonhyuk Bae, Jennifer Hoti, Yong Zhang, Yikweon Jang, Amaël Borzée

“…Our results also highlight the independent evolution of toe webbings in Rana for the last 12.0 Mya, a potential key trait for species identification of northeastern Asian Rana. …”
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Analyses of a chromosome-scale genome assembly reveal the origin and evolution of cultivated chrysanthemum by Aiping Song, Jiangshuo Su, Haibin Wang, Zhongren Zhang, Xingtan Zhang, Yves Van de Peer, Fei Chen, Weimin Fang, Zhiyong Guan, Fei Zhang, Zhenxing Wang, Likai Wang, Baoqing Ding, Shuang Zhao, Lian Ding, Ye Liu, Lijie Zhou, Jun He, Diwen Jia, Jiali Zhang, Chuwen Chen, Zhongyu Yu, Daojin Sun, Jiafu Jiang, Sumei Chen, Fadi Chen

“…Comparative and evolutionary analyses reveal a whole-genome triplication (WGT) event shared by Chrysanthemum species approximately 6 million years ago (Mya) and the possible lineage-specific polyploidization of C. morifolium approximately 3 Mya. …”
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Air Permeability, Shock Absorption Ability, and Flexural Strength of 3D-Printed Perforated ABS Polymer Sheets with 3D-Knitted Fabric Cushioning for Sports Face Guard Applications by Thet Khaing Aung, Hiroshi Churei, Gen Tanabe, Rio Kinjo, Kaito Togawa, Chenyuan Li, Yumi Tsuchida, Phyu Sin Tun, Shwe Hlaing, Hidekazu Takahashi, Toshiaki Ueno

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From Gondwana to the Yellow Sea, evolutionary diversifications of true toads Bufo sp. in the Eastern Palearctic and a revisit of species boundaries for Asian lineages by Siti N Othman, Spartak N Litvinchuk, Irina Maslova, Hollis Dahn, Kevin R Messenger, Desiree Andersen, Michael J Jowers, Yosuke Kojima, Dmitry V Skorinov, Kiyomi Yasumiba, Ming-Feng Chuang, Yi-Huey Chen, Yoonhyuk Bae, Jennifer Hoti, Yikweon Jang, Amael Borzee

“…We verified the near-simultaneous Miocene radiations within Western and Eastern Palearctic Bufo, c. 14.49–10.00 Mya, temporally matching with the maximum dust outflows in Central Asian deserts. …”
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New insights into the molecular phylogeny, biogeographical history, and diversification of Amblyomma ticks (Acari: Ixodidae) based on mitogenomes and nuclear sequences by Juan E. Uribe, Samuel Kelava, Santiago Nava, Andrea P. Cotes-Perdomo, Lyda R. Castro, Fredy A. Rivera-Paéz, Silvia Perea, Ben J. Mans, Alexander Gofton, Ernest J. M. Teo, Rafael Zardoya, Stephen C. Barker

“…Likewise, our best biogeographic scenario supports the origin of Amblyomma and its posterior diversification in the southern hemisphere at 47.8 and 36.8 Mya, respectively. This diversification could be associated with the end of the connection of Australasia and Neotropical ecoregions by the Antarctic land bridge. …”
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Benthic fauna of the southwestern Sea of Azov. Macrozoobenthos taxonomic composition and its biocoenotic structure in 2016–2017 by N. A. Boltachova, N. K. Revkov, A. A. Nadolny, I. N. Anninskaya

“…These were bivalves Anadara kagoshimensis and Mya arenaria and polychaetes Polydora cornuta, Streblospio gynobranchiata, and Marenzelleria neglecta. …”
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Temporospatial hierarchy and allele-specific expression of zygotic genome activation revealed by distant interspecific urochordate hybrids by Jiankai Wei, Wei Zhang, An Jiang, Hongzhe Peng, Quanyong Zhang, Yuting Li, Jianqing Bi, Linting Wang, Penghui Liu, Jing Wang, Yonghang Ge, Liya Zhang, Haiyan Yu, Lei Li, Shi Wang, Liang Leng, Kai Chen, Bo Dong

“…Here, we develop hybrids from two deeply diverged (120 Mya) ascidian species to symmetrically document the dynamics of ZGA. …”
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Chromosome-level genome assembly of Cylas formicarius provides insights into its adaptation and invasion mechanisms by Jin-feng HUA, Lei ZHANG, Yong-hua HAN, Xiao-wan GOU, Tian-yuan CHEN, Yong-mei HUANG, Yan-qing LI, Dai-fu MA, Zong-yun LI

“…Comparative genomic analysis showed that C. formicarius was sister to Dendroctonus ponderosae, and C. formicarius diverged from D. ponderosae approximately 138.89 million years ago (Mya). Many important gene families expanded in the C. formicarius genome were involved in the detoxification of pesticides, tolerance to cold stress and chemosensory system. …”
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The occurrence of spring forms in tetraploid Timopheevi wheat is associated with variation in the first intron of the VRN-A1 gene by Andrey Borisovich Shcherban, Aleksandra Aleksandrovna Schichkina, Elena Artemovna Salina

“…The phylogram constructed on the basis of the VRN-1 promoter sequences confirmed the early divergence (~3.5 MYA) of the ancestor(s) of the B/G genomes from Ae. speltoides.…”
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Evaluation of Rapid, Early Warning Approaches to Track Shellfish Toxins Associated with Dinophysis and Alexandrium Blooms by Theresa K. Hattenrath-Lehmann, Mark W. Lusty, Ryan B. Wallace, Bennie Haynes, Zhihong Wang, Maggie Broadwater, Jonathan R. Deeds, Steve L. Morton, William Hastback, Leonora Porter, Karen Chytalo, Christopher J. Gobler

“…Blue mussels (Mytilus edulis) and ribbed mussels (Geukensia demissa) were found to accumulate DSP toxins above federal and international standards (160 ng g−1) during Dinophysis blooms while Eastern oysters (Crassostrea virginica) and soft shell clams (Mya arenaria) did not. This study demonstrated that SPATT samplers using HP20 resin coupled with PP2A technology could be used to provide early warning of DSP, but not PSP, events for shellfish management.…”
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Nutritional Component Analyses in Different Varieties of <i>Actinidia eriantha</i> Kiwifruit by Transcriptomic and Metabolomic Approaches by Huimin Jia, Junjie Tao, Wenqi Zhong, Xudong Jiao, Shuangshuang Chen, Mengting Wu, Zhongshan Gao, Chunhui Huang

“…The starch biosynthesis-related genes (<i>AeglgC</i>, <i>AeglgA</i> and <i>AeGEB1</i>) were expressed at lower levels compared with metabolism-related genes (<i>Ae</i>a<i>myA</i> and <i>AeamyB</i>) in three mature fruits of three varieties, indicating that starch was converted to soluble sugar during fruit maturation, and the expression level of <i>SUS</i> (<i>DTZ79_23g00730</i>) and <i>TPS</i> (<i>DTZ79_18g05470</i>) was correlated with trehalose 6-phosphate. …”
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The Complete Chloroplast Genome Sequence of <i>Laportea bulbifera</i> (Sieb. et Zucc.) Wedd. and Comparative Analysis with Its Congeneric Species by Huihui Zhang, Yujing Miao, Xinke Zhang, Guoshuai Zhang, Xiao Sun, Min Zhang, Zhan Feng, Linfang Huang

“…According to the phylogenetic analysis, <i>L. bulbifera</i> was most closely related to <i>Laportea canadensis</i> (<i>L. canadensis</i>), and the molecular clock analysis speculated that the species originated from 1.8216 Mya. Overall, this study provides a more comprehensive analysis of the evolution of <i>L. bulbifera</i> from the perspective of phylogenetic and intrageneric molecular variation in the genus <i>Laportea</i>, which is useful for providing a scientific basis for further identification, taxonomic, and evolutionary studies of the genus.…”
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Macroevolution of NLR genes in family Fabaceae provides evidence of clade specific expansion and contraction of NLRome in Vicioid clade by Fatima Qureshi, Amna Mehmood, Shahid Ali Khan, Muhammad Bilal, Fatima Urooj, Mehreen Alyas, Jaweria Ijaz, Muhammad Zain, Fatima Noreen, Shamiza Rani, Shahid Fareed, Fozia Saleem, Wasba Sarfraz, Sidra Shakoor, Romana Iftikhar, Amna Areej, Saad Serfraz

“…Comprehensive evolutionary analysis suggests that NLRome expansion have occurred in during recent 1-6 Mya probably due to their higher substitutions per site per year in Trifolieae. …”
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