Illumina complete long read assay yields contiguous bacterial genomes from human gut metagenomes by Dylan G. Maghini, Yuya Kiguchi, Aaron E. Darling, Leigh G. Monahan, Aaron L. Halpern, Catherine M. Burke, Erich Jaeger, Aaron Statham, Tiffany Truong, Kevin Ying, Stephen P. Bruinsma, Gary P. Schroth, Ami S. Bhatt

“…However, metagenome-assembled genomes are often incomplete and have low contiguity due to challenges in assembling repeated genomic elements. …”
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Culture-free genome-wide locus sequence typing (GLST) provides new perspectives on Trypanosoma cruzi dispersal and infection complexity. by Philipp Schwabl, Jalil Maiguashca Sánchez, Jaime A Costales, Sofía Ocaña-Mayorga, Maikell Segovia, Hernán J Carrasco, Carolina Hernández, Juan David Ramírez, Michael D Lewis, Mario J Grijalva, Martin S Llewellyn

“…This study proposes a simple, cost-effective 'genome-wide locus sequence typing' (GLST) tool based on massive parallel amplification of information hotspots throughout the target pathogen genome. …”
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A targeted next-generation sequencing panel for identification of clinically relevant mutation profiles in solid tumours by Kakoli Das, Mandy Li Ian Tay, Elena Yaqing Yong, Khoon Leong Chuah

“…Abstract Targeted next generation sequencing (NGS) using multigene panels has become an effective tool for comprehensive genomic analysis in cancer, overcoming limitations of single gene assays. …”
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Minisatellite Isolation and Minisatellite Molecular Marker Development in <i>Citrus limon</i> (L.) Osbeck by Oleg S. Alexandrov, Dmitry V. Romanov

“…Minisatellites are widespread tandem DNA repeats in the genome with a monomer length of 10 to 100 bp. …”
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Targeting a highly repetitive genomic sequence for sensitive and specific molecular detection of the filarial parasite Mansonella perstans from human blood and mosquitoes. by Nils Pilotte, Tamara Thomas, Michael F Zulch, Allison R Sirois, Corrado Minetti, Lisa J Reimer, Steven A Williams, Lori J Saunders

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Genomic characteristics and phylogenetic analyses of enteroaggregative Escherichia coli infection in diarrhea outpatients in Pudong New Area， Shanghai by CUI Qiqi, LU Yuchen, WU Suping, ZHANG Yinwen, ZHAO Bing, PAN Lifeng, ZHENG Yingjie, HAO Lipeng

“…The genome analyses based on raw sequencing data encompassed genome size, coding genes, dispersed repeat sequences, genomic islands, and protein coding regions, and pan-genome analyses were conducted simultaneously. …”
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The local-scale populations reveal cryptic processes occurring in the general population of Schizophyllum commune fungus by Sergiy Boiko

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Verification of Seed-Priming-Induced Stress Memory by Genome-Wide Transcriptomic Analysis in Wheat (<i>Triticum aestivum</i> L.) by Kincső Decsi, Mostafa Ahmed, Donia Abdul-Hamid, Roquia Rizk, Zoltán Tóth

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Implementation of NGS and SNP microarrays in routine forensic practice: opportunities and barriers by Sharlize Pedroza Matute, Sasitaran Iyavoo

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Non-coding repeat analyses in patients with Parkinson’s disease by Makito Hirano, Makoto Samukawa, Satoko Miyatake, Satoko Miyatake, Yuko Yamagishi, Chiharu Isono, Rino Yoshikawa, Kazumasa Saigoh, Atsushi Terayama, Yuji Higashimoto, Eriko Koshimizu, Takeshi Mizuguchi, Kanako Fujii, Yoshiyuki Mitsui, Naomichi Matsumoto, Naomichi Matsumoto, Naomichi Matsumoto, Yoshitaka Nagai

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Comparison of nanopore with illumina whole genome assemblies of the Epstein-Barr virus in Burkitt lymphoma by Isaac E. Kim, Abebe A. Fola, Enrique Puig, Titus Kipkemboi Maina, Sin Ting Hui, Hongyu Ma, Kaleb Zuckerman, Eddy O. Agwati, Alec Leonetti, Rebecca Crudale, Micah A. Luftig, Ann M. Moormann, Cliff Oduor, Jeffrey A. Bailey

“…Abstract Endemic Burkitt lymphoma (eBL) is one of the most prevalent cancer in children in sub-Saharan Africa, and while prior studies have found that Epstein-Barr virus (EBV) type and variation may alter the tumor driver genes necessary for tumor survival, the precise relationship between EBV variation and EBV-associated tumorigenesis remains unclear due to lack of scalable, cost-effective, viral whole-genome sequencing from tumor samples. This study introduces a rapid and cost-effective method of enriching, sequencing, and assembling accurate EBV genomes in BL tumor cell lines through a combination of selective whole genome amplification (sWGA) and subsequent 2-tube multiplex polymerase chain reaction along with long-read sequencing with a portable sequencer. …”
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Structure of a Sulfated Capsular Polysaccharide from the Marine Bacterium <i>Cobetia marina</i> KMM 1449 and a Genomic Insight into Its Biosynthesis by Maxim S. Kokoulin, Yulia V. Savicheva, Alina P. Filshtein, Ludmila A. Romanenko, Marina P. Isaeva

“…To elucidate the genetic basis of the CPS biosynthesis, the whole genomic sequence of <i>C. marina</i> KMM 1449 was obtained. …”
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The Genome Sequences of Baculoviruses from the Tufted Apple Bud Moth, <i>Platynota idaeusalis</i>, Reveal Recombination Between an Alphabaculovirus and a Betabaculovirus from the S... by Robert L. Harrison, Michael A. Jansen, Austin N. Fife, Daniel L. Rowley

“…The viruses in these samples—Platynota idaeusalis nucleopolyhedrovirus isolate 2680 (PlidNPV-2680) and Platynota idaeusalis granulovirus isolate 2683 (PlidGV-2683)—were characterized by electron microscopy of their occlusion bodies (OBs) and determination and analysis of their genome sequences. …”
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Chloroplast genome‐based genetic resources via genome skimming for the subalpine forests of Japan and adjacent regions by James R. P. Worth, Satoshi Kikuchi, Seiichi Kanetani, Daiki Takahashi, Mineaki Aizawa, Elena A. Marchuk, Hyeok Jae Choi, Maria A. Polezhaeva, Viktor V. Sheiko, Saneyoshi Ueno

“…In addition, between 9 and 58 polymorphic simple sequence repeat regions were identified per species. …”
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De Novo Assembly of Human Herpes Virus Type 1 (HHV-1) Genome, Mining of Non-Canonical Structures and Detection of Novel Drug-Resistance Mutations Using Short- and Long-Read Next Ge... by Timokratis Karamitros, Ian Harrison, Renata Piorkowska, Aris Katzourakis, Gkikas Magiorkinis, Jean Lutamyo Mbisa

“…Hybrid genome assembly resulted in a decrease in the number of contigs in 6 out of 7 samples and an increase in N(G)50 and N(G)75 of all 7 samples sequenced by both technologies. …”
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Miniature-inverted-repeat transposable elements contribute to phenotypic variation regulation of rice induced by space environment by Lishan Chen, Qing Yang, Yan Zhang, Yeqing Sun

“…Herein, the contribution of MITEs in regulating space-mutagenic phenotypes was explored.MethodsThe space-mutagenic phenotype changes in the F3 to F5 generations of three space-mutagenic lines from the rice varieties Dongnong423 (DN423) and Dongnong (DN416) were meticulously traced. Rice leaves samples at the heading stage from three space-mutagenic lines were subjected to high coverage whole-genome bisulfite sequencing and whole-genome sequencing. …”
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Non-variable RNA deletion using the CRISPR-Cas9 technique demonstrated improved outcomes in human intestine single-cell RNA sequencing data, even at half sequencing depths by Dong Jun Kim, Christine Suh Yun Joh, So Young Jeong, Yong Jun Kim, Seong Joon Koh, Hyun Je Kim

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High Throughput Method for Analysis of Repeat Number for 28 Phase Variable Loci of Campylobacter jejuni Strain NCTC11168. by Lea Lango-Scholey, Jack Aidley, Alexandra Woodacre, Michael A Jones, Christopher D Bayliss

“…Mutations in simple sequence repeat tracts are a major mechanism of phase variation in several bacterial species including Campylobacter jejuni. …”
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Co-obligate symbioses have repeatedly evolved across aphids, but partner identity and nutritional contributions vary across lineages by Manzano-Marín, Alejandro, Coeur d’acier, Armelle, Clamens, Anne-Laure, Cruaud, Corinne, Barbe, Valérie, Jousselin, Emmanuelle

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Characterization of the complete plastid genome of Clivia mirabilis (Amaryllidaceae) by Ling Yue, Xiu-Li Feng, Dan Li, Hai-Hong Wu, Jing Meng, Xing-Hua Zhao

“…Clivia mirabilis Rourke 2002 is an evergreen herbaceous flower with high ornamental value. In this study, we sequenced the complete chloroplast (cp) genome of C. mirabilis and reported it for the first time. …”
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