Taming wild genomes: perspectives on mechanisms governing differential introgression in exotic rice germplasm and their applications in breeding by Avinash Shrestha, Christian J. Stephens, Rosalyn B. Angeles-Shim

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Sequencing whole genomes of the West Javanese population in Indonesia reveals novel variants and improves imputation accuracy by Edwin Ardiansyah, Anca-Lelia Riza, Sofiati Dian, Sofiati Dian, Ahmad Rizal Ganiem, Ahmad Rizal Ganiem, Bachti Alisjahbana, Bachti Alisjahbana, Todia P. Setiabudiawan, Arjan van Laarhoven, Reinout van Crevel, Vinod Kumar, Vinod Kumar

Subjects: “…whole genome sequencing…”
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Deciphering mixed infections by plant RNA virus and reconstructing complete genomes simultaneously present within-host. by Martine Bangratz, Aurore Comte, Estelle Billard, Abdoul Kader Guigma, Guillaume Gandolfi, Abalo Itolou Kassankogno, Drissa Sérémé, Nils Poulicard, Charlotte Tollenaere

“…This method was validated by the successful reconstruction of two viral genomes that were less than a hundred nucleotides apart (out of a genome of 4450nt length, i.e. 2-3%), and present in artificial mixes at a ratio of up to a 99/1. …”
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Signatures of selection and candidate genes for adaptation to extreme environmental factors in the genomes of Turano-Mongolian cattle breeds by N. S. Yudin, A. A. Yurchenko, D. M. Larkin

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The first two mitochondrial genomes from Apiotrichum reveal mitochondrial evolution and different taxonomic assignment of Trichosporonales by Qiang Li, Wenqi Xiao, Peng Wu, Ting Zhang, Peng Xiang, Qian Wu, Liang Zou, Mingying Gui

“…This study served as the first report on mitogenomes from the genus Apiotrichum, which promotes the understanding of evolution, genomics, and phylogeny of Apiotrichum.…”
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Evolutionary constrained genes associated with autism spectrum disorder across 2,054 nonhuman primate genomes by Yukiko Kikuchi, Mohammed Uddin, Joris A. Veltman, Sara Wells, Christopher Morris, Marc Woodbury-Smith

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First two mitochondrial genomes for the order Filobasidiales reveal novel gene rearrangements and intron dynamics of Tremellomycetes by Qiang Li, Zhijie Bao, Ke Tang, Huiyu Feng, Wenying Tu, Lijiao Li, Yunlei Han, Mei Cao, Changsong Zhao

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The plastid and mitochondrial genomes of <i>Vavilovia Formosa</i> (Stev.) Fed. and the phylogeny of related legume genera by N. V. Shatskaya, V. S. Bogdanova, O. E. Kosterin, G. V. Vasiliev, A. K. Kimeklis, E. E. Andronov, N. A. Provorov

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Genome-Wide Expression of MicroRNAs Is Regulated by DNA Methylation in Hepatocarcinogenesis by Jing Shen, Shuang Wang, Abby B. Siegel, Helen Remotti, Qiao Wang, Iryna Sirosh, Regina M. Santella

“…Previous studies, including ours, have examined the regulation of microRNAs (miRNAs) by DNA methylation, but whether this regulation occurs at a genome-wide level in hepatocellular carcinoma (HCC) is unclear. …”
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Chromosome-level genome assembly of Cyperus iria, an aggressive weed of rice by Siyu Yang, Qingyi Cao, Zexin Wen, Aoxue Wang, Shiyao Shi, Zhuoying Liang, Shuying Li, Wenjun Gui, Jinwen Zhu

“…Until now, the reference genome of C. iria has not been published. Here, we completed the chromosome-level genome assembly of C. iria based on Illumina, PacBio and Hi-C reads. …”
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Genomic Alterations in Primary Gastric Adenocarcinomas Correlate with Clinicopathological Characteristics and Survival by Marjan M. Weiss, Ernst J. Kuipers, Cindy Postma, Antoine M. Snijders, Daniel Pinkel, Stefan G. M. Meuwissen, Donna Albertson, Gerrit A. Meijer

“…In order to investigate the patterns of chromosomal aberrations in gastric carcinomas, we performed genome‐wide microarray based comparative genomic hybridisation (microarray CGH). …”
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Nucleosome patterns in four plant pathogenic fungi with contrasted genome structures by Clairet, Colin, Lapalu, Nicolas, Simon, Adeline, Soyer, Jessica L., Viaud, Muriel, Zehraoui, Enric, Dalmais, Berengère, Fudal, Isabelle, Ponts, Nadia

“…Control of fungal diseases on crops necessitates a global understanding of fungal pathogenicity determinants and their expression during infection. Genomes of phytopathogenic fungi are often compartmentalized: the core genome contains housekeeping genes whereas the fast-evolving genome mainly contains transposable elements and species-specific genes. …”
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From the Cytoplasm into the Nucleus—Hepatitis B Virus Travel and Genome Repair by Johan Ringlander, Gustaf E. Rydell, Michael Kann

“…Understanding the intracellular transport and genome repair mechanisms of HBV is crucial for developing new drugs, which—in combination with immune modulators—may contribute to potential cures. …”
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Genome-Wide Expression Difference of MicroRNAs in Basal Cell Carcinoma by Hai-Peng Wei, Song Zhan, Qing-An Zhu, Zhen-Juan Chen, Xian Feng, Jun-Yuan Chen, Qi-Lin Zhang, Jingjie Zhao, Lingzhang Meng

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3C-BASED METHODS FOR 3D GENOME ORGANIZATION ANALYSIS by N. R. Battulin, V. S. Fishman, Yu. L. Orlov, A. G. Menzorov, D. A. Afonnikov, O. L. Serov

Subjects: “…3d genome organization…”
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The complete mitochondrial genome of Ophiocordyceps gracilis and its comparison with related species by Aifeire Abuduaini, Yuan-Bing Wang, Hui-Ying Zhou, Rui-Ping Kang, Ming-Liang Ding, Yu Jiang, Fei-Ya Suo, Luo-Dong Huang

Subjects: “…Mitochondrial genome…”
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A phenomenological model of non-genomic variability of luminescent bacterial cells by S. I. Bartsev

Subjects: “…non-genomic variability…”
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Development and Validation of a Bordetella pertussis Whole-Genome Screening Strategy by Ricardo da Silva Antunes, Lorenzo G. Quiambao, Aaron Sutherland, Ferran Soldevila, Sandeep Kumar Dhanda, Sandra K. Armstrong, Timothy J. Brickman, Tod Merkel, Bjoern Peters, Alessandro Sette

“…Here, we compare the T cell reactivity of original aP and wP priming for different antigens contained or not contained in the aP vaccine and define the basis of a full-scale genomic map of memory T cell reactivity to BP antigens in humans. …”
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Corrigendum: In-depth analysis of IS6110 genomic variability in the Mycobacterium tuberculosis complex by Jessica Comín, Jessica Comín, Isabel Otal, Isabel Otal, Isabel Otal, Sofía Samper, Sofía Samper, Sofía Samper

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Draft genome sequence of Kei apple, an underutilized African tree crop by Robert Kariba, Bernice Waweru, Isaac Njaci, Linly Banda, Jenniffer W. Mwangi, Antso Harimanantsoa R, Samuel Muthemba, Jonathan Featherstone, Prasad Hendre, Ramni Jamnadass, Allen Van Deynze, Jean-Baka Domelevo Entfellner, Oluwaseyi Shorinola

“…We also annotated the genome and identified 27,449 protein-coding genes. …”
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