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Covaris LLC

14 Gill St, Unit H

Woburn, Massachusetts 01801-1721

United States

Phone: +1 781-932-3959
Fax: +1 781-932-8705

Email: info@covarisinc.com

Company Profile

Website: www.covaris.com

(1) Uncovering the true features of dystrophin gene rearrangement and improving the molecular diagnosis of Duchenne and Becker muscular dystrophiesiScienceDecember 15, 2023Chao Ling, Yi Dai, Chang Geng, Shirang Pan, Weipeng Quan, Qingyun Ding, Xunzhe Yang, Dongchao Shen, Qing Tao, Jingjing Li, et al.constructed as follows: 3 μg of genomic DNA per sample was sheared to 1–6 kb fragments by g-Tube (Cat. No. 520079, Covaris, Woburn, MA) centrifugation (1,5000 × g, 2 min, twice). DNA was purified after fragment size

(2) Unraveling the genome of Bacillus velezensis MEP218, a strain producing fengycin homologs with broad antibacterial activity: comprehensive comparative genome analysisSci RepDecember 13, 2023Daniela Medeot, Analía Sannazzaro, María Julia Estrella, Gonzalo Torres Tejerizo, Bruno Contreras-Moreira, Mariano Pistorio, Edgardo Jofré(Thermofisher PN: Q32854) for accurate concentration. Samples were sheared using Covaris G-tube (PN:520079) to 20 kb following their recommended protocol. DNA samples were visualized using a Bioanalyzer 12,000

(3) Neotelomeres and Telomere-Spanning Chromosomal Arm Fusions in Cancer Genomes Revealed by Long-Read SequencingbioRxivDecember 1, 2023Kar-Tong Tan, Michael K. Slevin, Mitchell L. Leibowitz, Max Garrity-Janger, Heng Li, Matthew Meyersoncat no. SQK-LSK109). Briefly, HMW U2OS DNA was fragmented to ~20 Kb using a Covaris® g-TUBE (cat no. 520079) followed by SPRI-cleanup (Agencourt® AMPure XP, Beckman Coulter, cat no. A63881). Fragmented material

(4) Long read sequencing characterises a novel structural variant, revealing underactive AKR1C1 with overactive AKR1C2 as a possible cause of severe chronic fatigueJournal of Translational MedicineNovember 17, 2023Julia Oakley, Martin Hill, Adam Giess, Mélanie Tanguy, Greg Elgar3 (Diagenode, E07010001 and E07010003) and 10 μg were fragmented to 20-25kb with a gTUBE (Covaris, 520079). All samples were depleted of short DNA fragments (less than 10kb long) with the SRE kit (Circulomics,

(5) Synthetic yeast chromosome XI design provides a testbed for the study of extrachromosomal circular DNA dynamicsCell GenomicsNovember 8, 2023Benjamin A. Blount, Xinyu Lu, Maureen R.M. Driessen, Dejana Jovicevic, Mateo I. Sanchez, Klaudia Ciurkot, Yu Zhao, Stephanie Lauer, Robert M. McKiernan, Glen-Oliver F. Gowers, et al.Kit,Qiagen,Cat#10243 NEBNext Ultra II FS DNA Library Prep Kit (NEB,New England Biolabs,Cat#E7805 g-TUBE (Covaris),Covaris,Cat#520079 Ligation Sequencing Kit 1D R9.4,Oxford Nanopore Technologies,Cat#SQK-LSK109 NucleoSpin RNA Plus Kit,Macherey-Nagel,Cat#740984 RNA

(6) Ultra-fast deep-learned CNS tumour classification during surgeryNatureOctober 26, 2023C. Vermeulen, M. Pagès-Gallego, L. Kester, M. E. G. Kranendonk, P. Wesseling, N. Verburg, P. de Witt Hamer, E. J. Kooi, L. Dankmeijer, J. van der Lugt, et al.centred around 5 kb) 3,500 ng of input material in 50 μl is first sheared using a G-Tube (Covaris SKU: 520079), centrifuging at 7,200 RPM (6,000g) in a fixed rotor tabletop centrifuge. Subsequently 7.5 μl of the

(7) Transcriptome and methylome of the supraoptic nucleus provides insights into the age-dependent loss of neuronal plasticityFrontiers in Aging NeuroscienceAugust 30, 2023Derick Thompson, Abiodun E. Odufuwa, Catherine A. Brissette, John A. WattDNA-integrity number between 9.5 and 9.7. DNA was then fragmented using a Covaris g-TUBE (Covaris; Cat. #520079). Libraries were prepared using the Oxford Nanopore Ligation Sequencing Kit (Oxford; Cat. #SQK-LSK109).

(8) Fibertools: fast and accurate DNA-m6A calling using single-molecule long-read sequencingbioRxivJuly 12, 2023Anupama Jha, Stephanie C. Bohaczuk, Yizi Mao, Jane Ranchalis, Benjamin J. Mallory, Alan T. Min, Morgan O. Hamm, Elliott Swanson, Connor Finkbeiner, Tony Li, et al.described (Stergachis et al. 2020). Library preparation Samples were sheared in g-TUBEs (Covaris, cat# 520079) for four passes at 3200 RPM for 2-4 minutes in an Eppendorf 5424R centrifuge. Post-shear samples were

(9) Long-read genome assembly and gene model annotations for the rodent malaria parasite Plasmodium yoelii 17XNLJournal of Biological ChemistryJuly 1, 2023Mitchell J. Godin, Aswathy Sebastian, Istvan Albert, Scott E. Lindnerof 2 μg gDNA that was sheared with the Covaris g-TUBE to an average fragment length of 10 kb (Cat # 520079). The library was sequenced on a PacBio Sequel using a SMRT Cell 1M v3 LR at a 10 pM library loading

(10) HPV integration generates a cellular super-enhancer which functions as ecDNA to regulate genome-wide transcriptionNucleic Acids ResearchMay 22, 2023Rui Tian, Zheying Huang, Lifang Li, Jingping Yuan, Qinghua Zhang, Lirong Meng, Bin Lang, Yongfeng Hong, Chaoyue Zhong, Xun Tian, et al.data. Nanopore whole-genome sequencing HeLa genomic DNA (5 μg) was fragmented to 10 kb by g-TUBE (Covaris, 520079) according to the manufacturer's protocol. The sequencing library was prepared using the SQK-LSK108

(11) The complete chloroplast genome of Hibiscus syriacus using long-read sequencing: Comparative analysis to examine the evolution of the tribe HibisceaeFrontiers in Plant ScienceFebruary 2, 2023Hyunjin Koo, Ah-Young Shin, Seongmin Hong, Yong-Min Kimbrief, gDNA was mechanically sheared to an average size of 20 kb using a Covaris g-TUBE device (Part No. 520079). In total, 5 μg of sheared gDNA was damage-repaired and end-repaired using polishing enzymes. Blunt-end

(12) ESPRESSO: Robust discovery and quantification of transcript isoforms from error-prone long-read RNA-seq dataScience AdvancesJanuary 20, 2023Yuan Gao, Feng Wang, Robert Wang, Eric Kutschera, Yang Xu, Stephan Xie, Yuanyuan Wang, Kathryn E. Kadash-Edmondson, Lan Lin, Yi Xingand ligation reaction at 50°C for 60 min. The dsDNA sequences were then sheared by g-TUBE (Covaris, #520079) to the desired size (around 8 to 10 kb) by following the vendor’s instructions. 7) Library construction

(13) Long-Read Genome Assembly and Gene Model Annotations for the Rodent Malaria Parasite Plasmodium yoelii 17XNLbioRxivJanuary 11, 2023Mitchell J. Godin, Aswathy Sebastian, Istvan Albert, Scott E. Lindnerof 2 µg gDNA that was sheared with the Covaris g-TUBE to an average fragment length of 10kb (Cat # 520079). The library was sequenced on a PacBio Sequel using a SMRT Cell 1M v3 LR at a 10 pM library loading

(14) Two-speed genome evolution drives pathogenicity in fungal pathogens of animalsProceedings of the National Academy of SciencesJanuary 10, 2023Theresa Wacker, Nicolas Helmstetter, Duncan Wilson, Matthew C. Fisher, David J. Studholme, Rhys A. Farrerlibraries were constructed, one with long unfragmented DNA, one with DNA fragmented to 12 kb with a gTube (520079, Covaris). The two libraries were loaded onto a single PromethION (FLO-PRO002, type R9.4.1) flowcell

(15) Simultaneous profiling of histone modifications and DNA methylation via nanopore sequencingNature CommunicationsDecember 24, 2022Xue Yue, Zhiyuan Xie, Moran Li, Kai Wang, Xiaojing Li, Xiaoqing Zhang, Jian Yan, Yimeng YinNB-900-001-01). Purified genomic DNA was sheared to a fragment of ~10 kb using Covaris g-TUBE (Covaris, 520079), and the fragmented DNA was end-repaired and dA-tailed by combining ~1 μg DNA with NEBNext FFPE DNA Repair Mix

(16) Pushing the limits of HiFi assemblies reveals centromere diversity between two Arabidopsis thaliana genomesNucleic Acids ResearchDecember 1, 2022Fernando A Rabanal, Maike Gräff, Christa Lanz, Katrin Fritschi, Victor Llaca, Michelle Lang, Pablo Carbonell-Bejerano, Ian Henderson, Detlef WeigelHiFi library of Col-0, HMW-DNA (120 ng/μl) was sheared twice (back and forth) with a gTUBE (Covaris; #520079) in an Eppendorf Centrifuge 5424 at 4,800 rpm (soft) for 3 × 1 min. Five μg of sheared DNA were used

(17) Comparative Genomics Reveals Evolutionary Drivers of Sessile Life and Left-right Shell Asymmetry in BivalvesGenomics, Proteomics & BioinformaticsDecember 1, 2022Yang Zhang, Fan Mao, Shu Xiao, Haiyan Yu, Zhiming Xiang, Fei Xu, Jun Li, Lili Wang, Yuanyan Xiong, Mengqiu Chen, et al.with Phred quality < 5. PacBio sequencing Genomic DNA was sheared by a g-TUBE device (Catalog No. 520079, Covaris, MA) with 20 kb settings. Sheared DNA was then purified and concentrated with AMPure XP beads

(18) Complete de novo assembly of Wolbachia endosymbiont of Diaphorina citri Kuwayama (Hemiptera: Liviidae) using long-read genome sequencingScientific ReportsDecember 1, 2022Surendra Neupane, Sylvia I. Bonilla, Andrew M. Manalo, Kirsten S. Pelz-Stelinskistudy). wDi gDNA (4–8 µg in 150 µl TE) was sheared down to 10 kb using Covaris g-TUBES (catalog number 520079, Covaris Inc.), using two passes at 7,000 rpm. The resulting size of the fragments was verified on the

(19) Clostridia isolated from helminth-colonized humans promote the life cycle of Trichuris speciesCell ReportsNovember 29, 2022Shushan Sargsian, Ze Chen, Soo Ching Lee, Amicha Robertson, Rafaela Saes Thur, Julia Sproch, Joseph C. Devlin, Mian Zi Tee, Yi Xian Er, Richard Copin, et al.to verify large fragment DNA. Once verified, 1.5ug of DNA was sheared using the Covaris G-TUBE (cat# 520079) and spun for 2min in each direction at 5.4rpm in the Eppendorf 5415 D centrifuge to shear the DNA to

(20) CRISPR-Cas12a induced DNA double-strand breaks are repaired by multiple pathways with different mutation profiles in Magnaporthe oryzaeNature CommunicationsNovember 22, 2022Jun Huang, David Rowe, Pratima Subedi, Wei Zhang, Tyler Suelter, Barbara Valent, David E. Cook(https://www.protocols.io/view/high-quality-dna-from-fungi-for-long-read-sequenci-k6qczdw)94. g-Tube (Covaris, catalog# 520079) was used for shearing high-molecular-weight DNA into 20 kb fragments followed by purification with

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g-TUBE (10)

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g-TUBE (10) from Covaris LLC

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